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(-) Description

Title :  STRUCTURE OF THE HIV-1 GP41 MEMBRANE-PROXIMAL ECTODOMAIN REGION IN A PUTATIVE PREFUSION CONFORMATION
 
Authors :  J. Liu, M. Lu
Date :  13 Feb 09  (Deposition) - 12 May 09  (Release) - 12 May 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D,E,F  (1x)
Keywords :  Gp41, Mper, Hiv-1, Membrane Fusion, Aids, Apoptosis, Cell Membrane, Coiled Coil, Envelope Protein, Fusion Protein, Host-Virus Interaction, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Liu, Y. Deng, A. Dey, J. Moore, M. Lu
Structure Of The Hiv-1 Gp41 Membrane-Proximal Ectodomain Region In A Putative Prefusion Conformation.
Biochemistry V. 48 2915 2009
PubMed-ID: 19226163  |  Reference-DOI: 10.1021/BI802303B
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FUSION COMPLEX OF HIV-1 ENVELOPE GLYCOPROTEIN AND SACCHAROMYCES CEREVISIAE GENERAL CONTROL PROTEIN GCN4
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: C-TERMINAL MPER OF HIV-1 GP41, LEUCINE-ZIPPER DOMAIN OF GCN4
    Mutation: YES
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1, SACCHAROMYCES CEREVISIAE
    Organism Taxid: 11676, 4932

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): ABC   
Biological Unit 2 (1x):    DEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 13)

Asymmetric Unit (2, 13)
No.NameCountTypeFull Name
1MPD8Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
2PO45Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 10)
No.NameCountTypeFull Name
1MPD6Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
2PO44Ligand/IonPHOSPHATE ION
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1MPD2Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
2PO41Ligand/IonPHOSPHATE ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:32BINDING SITE FOR RESIDUE PO4 A 43
02AC2SOFTWAREARG A:39 , LYS A:42BINDING SITE FOR RESIDUE PO4 A 44
03AC3SOFTWAREASN A:10BINDING SITE FOR RESIDUE MPD A 45
04AC4SOFTWAREPHE A:12 , THR A:15 , ASN A:16 , ASN B:16 , PHE C:12 , THR C:15 , ASN C:16 , TRP C:19BINDING SITE FOR RESIDUE MPD A 46
05AC5SOFTWARELYS A:27 , LYS A:31 , LYS E:27BINDING SITE FOR RESIDUE MPD A 47
06AC6SOFTWAREGLU A:1BINDING SITE FOR RESIDUE MPD A 48
07AC7SOFTWAREARG B:39BINDING SITE FOR RESIDUE PO4 B 43
08AC8SOFTWARELYS A:22 , LYS B:27 , LYS E:22 , LYS F:27BINDING SITE FOR RESIDUE MPD B 44
09AC9SOFTWAREARG C:39 , LYS C:42BINDING SITE FOR RESIDUE PO4 C 43
10BC1SOFTWARETRP D:11BINDING SITE FOR RESIDUE MPD C 44
11BC2SOFTWARETRP A:9 , SER C:7 , TRP C:11BINDING SITE FOR RESIDUE PO4 D 43
12BC3SOFTWAREPHE D:12 , THR D:15 , ASN D:16 , TRP D:19 , PHE E:12 , ASN E:16 , TRP E:19 , TRP F:11 , THR F:15 , ASN F:16 , TRP F:19BINDING SITE FOR RESIDUE MPD E 43
13BC4SOFTWARETRP C:17 , TRP D:11 , ASN E:13BINDING SITE FOR RESIDUE MPD E 44

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3G9R)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3G9R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (2, 12)

Asymmetric Unit (2, 12)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_GCN4_YEAST_005 *D125AGCN4_YEAST  ---  ---A/B/C/D/E/FN10A
2UniProtVAR_ENV_HV1BR_007 *I689LENV_HV1BR  ---  ---A/B/C/D/E/FI23L
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (2, 6)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_GCN4_YEAST_005 *D125AGCN4_YEAST  ---  ---A/B/CN10A
2UniProtVAR_ENV_HV1BR_007 *I689LENV_HV1BR  ---  ---A/B/CI23L
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (2, 6)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_GCN4_YEAST_005 *D125AGCN4_YEAST  ---  ---D/E/FN10A
2UniProtVAR_ENV_HV1BR_007 *I689LENV_HV1BR  ---  ---D/E/FI23L
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 6)

Asymmetric Unit (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BZIPPS50217 Basic-leucine zipper (bZIP) domain profile.GCN4_YEAST231-276
 
 
 
 
 		  6A:22-42
B:22-42
C:22-42
D:22-42
E:22-42
F:22-42
Biological Unit 1 (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BZIPPS50217 Basic-leucine zipper (bZIP) domain profile.GCN4_YEAST231-276
 
 
 
 
 		  3A:22-42
B:22-42
C:22-42
-
-
-
Biological Unit 2 (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BZIPPS50217 Basic-leucine zipper (bZIP) domain profile.GCN4_YEAST231-276
 
 
 
 
 		  3-
-
-
D:22-42
E:22-42
F:22-42

(-) Exons   (0, 0)

(no "Exon" information available for 3G9R)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:42
 aligned with ENV_HV1BR | P03377 from UniProtKB/Swiss-Prot  Length:861

    Alignment length:188
                                   676       686       696       706       716       726       736       746       756       766       776       786       796       806       816       826       836       846        
            ENV_HV1BR   667 ELDKWASLWNWFNITNWLWYIKIFIMIVGGLVGLRIVFAVLSIVNRVRQGYSPLSFQTHLPTPRGPDRPEGIEEEGGERDRDRSIRLVNGSLALIWDDLRSLCLFSYHRLRDLLLIVTRIVELLGRRGWEALKYWWNLLQYWSQELKNSAVSLLNATAIAVAEGTDRVIEVVQGACRAIRHIPRRIRQ 854
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhh-------------------------------------------------------------------------hhhhh--------------hhhhhhh----------------------hhh-------------------------------------hhhh Sec.struct. author
                 SAPs(SNPs) ---------A------------L--------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r A   1 ELDKWASLWNWFNITNWLWYIKI-------------------------------------------------------------------------EELKS--------------KIKRIEN----------------------EIK-------------------------------------RIKK  42
                                    10        20  |      -         -         -         -         -         -         -      | 27|        -     |  33 |       -         -    | |  -         -         -         -    |   
                                                 23                                                                        24  28             29    35                     36 |                                    39   
                                                                                                                                                                             38                                         


Chain A from PDB  Type:PROTEIN  Length:42
 aligned with GCN4_YEAST | P03069 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:189
                                    97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267         
           GCN4_YEAST    88 ELDDAVVESFFSSSTDSTPMFEYENLEDNSKEWTSLFDNDIPVTTDDVSLADKAIESTEEVSLVPSNLEVSTTSFLPTPVLEDAKLTQTRKVKKPNSVVKKSHHVGKDDESRLDHLGVVAYNRKQRSIPLSPIVPESSDPAALKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKK 276
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhh----------------------------hhhhhhh------------------------------hhhhhhhh--------------------------hhh---------------------------------------------------------------hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------A-----------------------------------------------------------------------------------------------------------------------------------L------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------BZIP  PDB: A:22-42 UniProt: 231-276            PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r A   1 ELD----------------------------KWASLWN------------------------------WFNITNWL--------------------------WYI---------------------------------------------------------------KIEELKSKIKRIENEIKRIKK  42
                              |      -         -         - |     | -         -         -        12     |   -         -         -  | |    -         -         -         -         -         -        23        33         
                              3                            4    10                             11     18                         19 |                                                              22                    
                                                                                                                                   21                                                                                    


Chain A from PDB  Type:PROTEIN  Length:42
 aligned with Q4QX39_9HIV1 | Q4QX39 from UniProtKB/TrEMBL  Length:856

    Alignment length:134
                                   664       674       684       694       704       714       724       734       744       754       764       774       784    
         Q4QX39_9HIV1   655 ELDKWASLWNWFNITNWLWYIKIFIMIVGGIIGLRIIFAVLSIVNRVRQGYSPLSFQTPIHQQREPDRPERIEEEGGEQGRDRSVRLVSGFLALAWDDLRSLCLFSYHRLRDFALIATRTVELLGRSSLKGLRR 788
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhh------------------------------hhhhhhhh---------hhhhh-----------------------------------------------------hhhhhh Sec.struct. author
                 SAPs(SNPs) ---------A------------L--------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r A   1 ELDKWASLWNWFNITNWLWYIKI------------------------------EELKSKIK---------RIENE-----------------------------------------------------IKRIKK  42
                                    10        20  |      -         -         -   |    30|        -|   |    -         -         -         -         -        38    
                                                 23                             24     31        32  36                                                    37     


Chain B from PDB  Type:PROTEIN  Length:40
 aligned with ENV_HV1BR | P03377 from UniProtKB/Swiss-Prot  Length:861

    Alignment length:186
                                   678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848      
            ENV_HV1BR   669 DKWASLWNWFNITNWLWYIKIFIMIVGGLVGLRIVFAVLSIVNRVRQGYSPLSFQTHLPTPRGPDRPEGIEEEGGERDRDRSIRLVNGSLALIWDDLRSLCLFSYHRLRDLLLIVTRIVELLGRRGWEALKYWWNLLQYWSQELKNSAVSLLNATAIAVAEGTDRVIEVVQGACRAIRHIPRRIRQ 854
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh-------------------------------------------------------------------------hhhhh--------------hhhhhhh----------------------hhh-------------------------------------hhhh Sec.struct. author
                 SAPs(SNPs) -------A------------L--------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3g9r B   3 DKWASLWNWFNITNWLWYIKI-------------------------------------------------------------------------EELKS--------------KIKRIEN----------------------EIK-------------------------------------RIKK  42
                                    12        22|        -         -         -         -         -         -         -    |   |-         -   |    35         -         -  | |    -         -         -         -  |   
                                               23                                                                        24  28             29    35                     36 |                                    39   
                                                                                                                                                                           38                                         


Chain B from PDB  Type:PROTEIN  Length:40
 aligned with GCN4_YEAST | P03069 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:159
                                   127       137       147       157       167       177       187       197       207       217       227       237       247       257       267         
           GCN4_YEAST   118 KEWTSLFDNDIPVTTDDVSLADKAIESTEEVSLVPSNLEVSTTSFLPTPVLEDAKLTQTRKVKKPNSVVKKSHHVGKDDESRLDHLGVVAYNRKQRSIPLSPIVPESSDPAALKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKK 276
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh------------------------------hhhhhhhh--------------------------hhh---------------------------------------------------------------hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------A-----------------------------------------------------------------------------------------------------------------------------------L------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------BZIP  PDB: B:22-42 UniProt: 231-276            PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r B   3 DKWASLWN------------------------------WFNITNWL--------------------------WYI---------------------------------------------------------------KIEELKSKIKRIENEIKRIKK  42
                                   | -         -         -        12     |   -         -         -  | |    -         -         -         -         -         -        23        33         
                                  10                             11     18                         19 |                                                              22                    
                                                                                                     21                                                                                    


Chain B from PDB  Type:PROTEIN  Length:40
 aligned with Q4QX39_9HIV1 | Q4QX39 from UniProtKB/TrEMBL  Length:856

    Alignment length:132
                                   666       676       686       696       706       716       726       736       746       756       766       776       786  
         Q4QX39_9HIV1   657 DKWASLWNWFNITNWLWYIKIFIMIVGGIIGLRIIFAVLSIVNRVRQGYSPLSFQTPIHQQREPDRPERIEEEGGEQGRDRSVRLVSGFLALAWDDLRSLCLFSYHRLRDFALIATRTVELLGRSSLKGLRR 788
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh------------------------------hhhhhhhh---------hhhhh-----------------------------------------------------hhhhhh Sec.struct. author
                 SAPs(SNPs) -------A------------L--------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3g9r B   3 DKWASLWNWFNITNWLWYIKI------------------------------EELKSKIK---------RIENE-----------------------------------------------------IKRIKK  42
                                    12        22|        -         -         - |      |-        33  |      -         -         -         -         -      | 40  
                                               23                             24     31        32  36                                                    37     


Chain C from PDB  Type:PROTEIN  Length:40
 aligned with ENV_HV1BR | P03377 from UniProtKB/Swiss-Prot  Length:861

    Alignment length:186
                                   678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848      
            ENV_HV1BR   669 DKWASLWNWFNITNWLWYIKIFIMIVGGLVGLRIVFAVLSIVNRVRQGYSPLSFQTHLPTPRGPDRPEGIEEEGGERDRDRSIRLVNGSLALIWDDLRSLCLFSYHRLRDLLLIVTRIVELLGRRGWEALKYWWNLLQYWSQELKNSAVSLLNATAIAVAEGTDRVIEVVQGACRAIRHIPRRIRQ 854
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh-------------------------------------------------------------------------hhhhh--------------hhhhhhh----------------------hhh-------------------------------------hhh. Sec.struct. author
                 SAPs(SNPs) -------A------------L--------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3g9r C   3 DKWASLWNWFNITNWLWYIKI-------------------------------------------------------------------------EELKS--------------KIKRIEN----------------------EIK-------------------------------------RIKK  42
                                    12        22|        -         -         -         -         -         -         -    |   |-         -   |    35         -         -  | |    -         -         -         -  |   
                                               23                                                                        24  28             29    35                     36 |                                    39   
                                                                                                                                                                           38                                         


Chain C from PDB  Type:PROTEIN  Length:40
 aligned with GCN4_YEAST | P03069 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:159
                                   127       137       147       157       167       177       187       197       207       217       227       237       247       257       267         
           GCN4_YEAST   118 KEWTSLFDNDIPVTTDDVSLADKAIESTEEVSLVPSNLEVSTTSFLPTPVLEDAKLTQTRKVKKPNSVVKKSHHVGKDDESRLDHLGVVAYNRKQRSIPLSPIVPESSDPAALKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKK 276
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh------------------------------hhhhhhhh--------------------------hhh---------------------------------------------------------------hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------A-----------------------------------------------------------------------------------------------------------------------------------L------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------BZIP  PDB: C:22-42 UniProt: 231-276            PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r C   3 DKWASLWN------------------------------WFNITNWL--------------------------WYI---------------------------------------------------------------KIEELKSKIKRIENEIKRIKK  42
                                   | -         -         -        12     |   -         -         -  | |    -         -         -         -         -         -        23        33         
                                  10                             11     18                         19 |                                                              22                    
                                                                                                     21                                                                                    


Chain C from PDB  Type:PROTEIN  Length:40
 aligned with Q4QX39_9HIV1 | Q4QX39 from UniProtKB/TrEMBL  Length:856

    Alignment length:132
                                   666       676       686       696       706       716       726       736       746       756       766       776       786  
         Q4QX39_9HIV1   657 DKWASLWNWFNITNWLWYIKIFIMIVGGIIGLRIIFAVLSIVNRVRQGYSPLSFQTPIHQQREPDRPERIEEEGGEQGRDRSVRLVSGFLALAWDDLRSLCLFSYHRLRDFALIATRTVELLGRSSLKGLRR 788
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh------------------------------hhhhhhhh---------hhhhh-----------------------------------------------------hhhhh. Sec.struct. author
                 SAPs(SNPs) -------A------------L--------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3g9r C   3 DKWASLWNWFNITNWLWYIKI------------------------------EELKSKIK---------RIENE-----------------------------------------------------IKRIKK  42
                                    12        22|        -         -         - |      |-        33  |      -         -         -         -         -      | 40  
                                               23                             24     31        32  36                                                    37     


Chain D from PDB  Type:PROTEIN  Length:41
 aligned with ENV_HV1BR | P03377 from UniProtKB/Swiss-Prot  Length:861

    Alignment length:187
                                   677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       
            ENV_HV1BR   668 LDKWASLWNWFNITNWLWYIKIFIMIVGGLVGLRIVFAVLSIVNRVRQGYSPLSFQTHLPTPRGPDRPEGIEEEGGERDRDRSIRLVNGSLALIWDDLRSLCLFSYHRLRDLLLIVTRIVELLGRRGWEALKYWWNLLQYWSQELKNSAVSLLNATAIAVAEGTDRVIEVVQGACRAIRHIPRRIRQ 854
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh-------------------------------------------------------------------------hhhhh--------------hhhhhhh----------------------hhh-------------------------------------hhhh Sec.struct. author
                 SAPs(SNPs) --------A------------L--------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r D   2 LDKWASLWNWFNITNWLWYIKI-------------------------------------------------------------------------EELKS--------------KIKRIEN----------------------EIK-------------------------------------RIKK  42
                                    11        21 |       -         -         -         -         -         -         -     |  28         -    |   34|        -         -   | |   -         -         -         -   |   
                                                23                                                                        24  28             29    35                     36 |                                    39   
                                                                                                                                                                            38                                         


Chain D from PDB  Type:PROTEIN  Length:41
 aligned with GCN4_YEAST | P03069 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:164
                                   122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272    
           GCN4_YEAST   113 LEDNSKEWTSLFDNDIPVTTDDVSLADKAIESTEEVSLVPSNLEVSTTSFLPTPVLEDAKLTQTRKVKKPNSVVKKSHHVGKDDESRLDHLGVVAYNRKQRSIPLSPIVPESSDPAALKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKK 276
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .h----hhhhhhh------------------------------hhhhhhhh--------------------------hhh---------------------------------------------------------------hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------A-----------------------------------------------------------------------------------------------------------------------------------L------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------BZIP  PDB: D:22-42 UniProt: 231-276            PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r D   2 LD----KWASLWN------------------------------WFNITNWL--------------------------WYI---------------------------------------------------------------KIEELKSKIKRIENEIKRIKK  42
                             |    |  7  |      -         -         -   |    17|        -         -       |21         -         -         -         -         -         -   |    28        38    
                             3    4    10                             11     18                         19 |                                                              22                    
                                                                                                          21                                                                                    


Chain D from PDB  Type:PROTEIN  Length:41
 aligned with Q4QX39_9HIV1 | Q4QX39 from UniProtKB/TrEMBL  Length:856

    Alignment length:133
                                   665       675       685       695       705       715       725       735       745       755       765       775       785   
         Q4QX39_9HIV1   656 LDKWASLWNWFNITNWLWYIKIFIMIVGGIIGLRIIFAVLSIVNRVRQGYSPLSFQTPIHQQREPDRPERIEEEGGEQGRDRSVRLVSGFLALAWDDLRSLCLFSYHRLRDFALIATRTVELLGRSSLKGLRR 788
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh------------------------------hhhhhhhh---------hhhhh-----------------------------------------------------hhhhhh Sec.struct. author
                 SAPs(SNPs) --------A------------L--------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r D   2 LDKWASLWNWFNITNWLWYIKI------------------------------EELKSKIK---------RIENE-----------------------------------------------------IKRIKK  42
                                    11        21 |       -         -         -  |     31        32   |     -         -         -         -         -       |39   
                                                23                             24     31        32  36                                                    37     


Chain E from PDB  Type:PROTEIN  Length:40
 aligned with ENV_HV1BR | P03377 from UniProtKB/Swiss-Prot  Length:861

    Alignment length:186
                                   678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848      
            ENV_HV1BR   669 DKWASLWNWFNITNWLWYIKIFIMIVGGLVGLRIVFAVLSIVNRVRQGYSPLSFQTHLPTPRGPDRPEGIEEEGGERDRDRSIRLVNGSLALIWDDLRSLCLFSYHRLRDLLLIVTRIVELLGRRGWEALKYWWNLLQYWSQELKNSAVSLLNATAIAVAEGTDRVIEVVQGACRAIRHIPRRIRQ 854
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh-------------------------------------------------------------------------hhhhh--------------hhhhhhh----------------------hhh-------------------------------------hhhh Sec.struct. author
                 SAPs(SNPs) -------A------------L--------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3g9r E   3 DKWASLWNWFNITNWLWYIKI-------------------------------------------------------------------------EELKS--------------KIKRIEN----------------------EIK-------------------------------------RIKK  42
                                    12        22|        -         -         -         -         -         -         -    |   |-         -   |    35         -         -  | |    -         -         -         -  |   
                                               23                                                                        24  28             29    35                     36 |                                    39   
                                                                                                                                                                           38                                         


Chain E from PDB  Type:PROTEIN  Length:40
 aligned with GCN4_YEAST | P03069 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:159
                                   127       137       147       157       167       177       187       197       207       217       227       237       247       257       267         
           GCN4_YEAST   118 KEWTSLFDNDIPVTTDDVSLADKAIESTEEVSLVPSNLEVSTTSFLPTPVLEDAKLTQTRKVKKPNSVVKKSHHVGKDDESRLDHLGVVAYNRKQRSIPLSPIVPESSDPAALKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKK 276
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh------------------------------hhhhhhhh--------------------------hhh---------------------------------------------------------------hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------A-----------------------------------------------------------------------------------------------------------------------------------L------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------BZIP  PDB: E:22-42 UniProt: 231-276            PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r E   3 DKWASLWN------------------------------WFNITNWL--------------------------WYI---------------------------------------------------------------KIEELKSKIKRIENEIKRIKK  42
                                   | -         -         -        12     |   -         -         -  | |    -         -         -         -         -         -        23        33         
                                  10                             11     18                         19 |                                                              22                    
                                                                                                     21                                                                                    


Chain E from PDB  Type:PROTEIN  Length:40
 aligned with Q4QX39_9HIV1 | Q4QX39 from UniProtKB/TrEMBL  Length:856

    Alignment length:132
                                   666       676       686       696       706       716       726       736       746       756       766       776       786  
         Q4QX39_9HIV1   657 DKWASLWNWFNITNWLWYIKIFIMIVGGIIGLRIIFAVLSIVNRVRQGYSPLSFQTPIHQQREPDRPERIEEEGGEQGRDRSVRLVSGFLALAWDDLRSLCLFSYHRLRDFALIATRTVELLGRSSLKGLRR 788
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh------------------------------hhhhhhhh---------hhhhh-----------------------------------------------------hhhhhh Sec.struct. author
                 SAPs(SNPs) -------A------------L--------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3g9r E   3 DKWASLWNWFNITNWLWYIKI------------------------------EELKSKIK---------RIENE-----------------------------------------------------IKRIKK  42
                                    12        22|        -         -         - |      |-        33  |      -         -         -         -         -      | 40  
                                               23                             24     31        32  36                                                    37     


Chain F from PDB  Type:PROTEIN  Length:41
 aligned with ENV_HV1BR | P03377 from UniProtKB/Swiss-Prot  Length:861

    Alignment length:187
                                   677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       
            ENV_HV1BR   668 LDKWASLWNWFNITNWLWYIKIFIMIVGGLVGLRIVFAVLSIVNRVRQGYSPLSFQTHLPTPRGPDRPEGIEEEGGERDRDRSIRLVNGSLALIWDDLRSLCLFSYHRLRDLLLIVTRIVELLGRRGWEALKYWWNLLQYWSQELKNSAVSLLNATAIAVAEGTDRVIEVVQGACRAIRHIPRRIRQ 854
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh-------------------------------------------------------------------------hhhhh--------------hhhhhhh----------------------hhh-------------------------------------hhhh Sec.struct. author
                 SAPs(SNPs) --------A------------L--------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r F   2 LDKWASLWNWFNITNWLWYIKI-------------------------------------------------------------------------EELKS--------------KIKRIEN----------------------EIK-------------------------------------RIKK  42
                                    11        21 |       -         -         -         -         -         -         -     |  28         -    |   34|        -         -   | |   -         -         -         -   |   
                                                23                                                                        24  28             29    35                     36 |                                    39   
                                                                                                                                                                            38                                         


Chain F from PDB  Type:PROTEIN  Length:41
 aligned with GCN4_YEAST | P03069 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:164
                                   122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272    
           GCN4_YEAST   113 LEDNSKEWTSLFDNDIPVTTDDVSLADKAIESTEEVSLVPSNLEVSTTSFLPTPVLEDAKLTQTRKVKKPNSVVKKSHHVGKDDESRLDHLGVVAYNRKQRSIPLSPIVPESSDPAALKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKK 276
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .h----hhhhhhh------------------------------hhhhhhhh--------------------------hhh---------------------------------------------------------------hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------A-----------------------------------------------------------------------------------------------------------------------------------L------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------BZIP  PDB: F:22-42 UniProt: 231-276            PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r F   2 LD----KWASLWN------------------------------WFNITNWL--------------------------WYI---------------------------------------------------------------KIEELKSKIKRIENEIKRIKK  42
                             |    |  7  |      -         -         -   |    17|        -         -       |21         -         -         -         -         -         -   |    28        38    
                             3    4    10                             11     18                         19 |                                                              22                    
                                                                                                          21                                                                                    


Chain F from PDB  Type:PROTEIN  Length:41
 aligned with Q4QX39_9HIV1 | Q4QX39 from UniProtKB/TrEMBL  Length:856

    Alignment length:133
                                   665       675       685       695       705       715       725       735       745       755       765       775       785   
         Q4QX39_9HIV1   656 LDKWASLWNWFNITNWLWYIKIFIMIVGGIIGLRIIFAVLSIVNRVRQGYSPLSFQTPIHQQREPDRPERIEEEGGEQGRDRSVRLVSGFLALAWDDLRSLCLFSYHRLRDFALIATRTVELLGRSSLKGLRR 788
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh------------------------------hhhhhhhh---------hhhhh-----------------------------------------------------hhhhhh Sec.struct. author
                 SAPs(SNPs) --------A------------L--------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3g9r F   2 LDKWASLWNWFNITNWLWYIKI------------------------------EELKSKIK---------RIENE-----------------------------------------------------IKRIKK  42
                                    11        21 |       -         -         -  |     31        32   |     -         -         -         -         -       |39   
                                                23                             24     31        32  36                                                    37
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3G9R)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3G9R)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3G9R)

(-) Gene Ontology  (46, 60)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (ENV_HV1BR | P03377)
molecular function
    GO:0005198    structural molecule activity    The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
biological process
    GO:0075512    clathrin-dependent endocytosis of virus by host cell    Any clathrin-mediated endocytosis that is involved in the uptake of a virus into a host cell. Begins by invagination of a specific region of the host cell plasma membrane around the bound virus to form a clathrin-coated pit, which then pinches off to form a clathrin-coated endocytic vesicle containing the virus.
    GO:0075509    endocytosis involved in viral entry into host cell    Any endocytosis that is involved in the uptake of a virus into a host cell.
    GO:0030683    evasion or tolerance by virus of host immune response    Any process, either active or passive, by which a virus avoids the effects of the host organism's immune response. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0039654    fusion of virus membrane with host endosome membrane    Fusion of a virus membrane with a host endosome membrane. Occurs after internalization of the virus through the endosomal pathway, and results in release of the virus contents into the cell.
    GO:0019064    fusion of virus membrane with host plasma membrane    Fusion of a viral membrane with the host cell membrane during viral entry. Results in release of the virion contents into the cytoplasm.
    GO:0039663    membrane fusion involved in viral entry into host cell    Merging of the virion membrane and a host membrane (host plasma membrane or host organelle membrane) that is involved in the uptake of a virus into a host cell.
    GO:0002223    stimulatory C-type lectin receptor signaling pathway    Any series of molecular signals generated as a consequence of binding to a C-type lectin receptor capable of cellular activation.
    GO:0046718    viral entry into host cell    The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
    GO:0019082    viral protein processing    Any protein maturation process achieved by the cleavage of a peptide bond or bonds within a viral protein.
    GO:0019062    virion attachment to host cell    The process by which a virion protein binds to molecules on the host cellular surface or host cell surface projection.
cellular component
    GO:0044174    host cell endosome    A membrane-bounded organelle that carries materials newly ingested by endocytosis. It passes many of the materials to host cell lysosomes for degradation.
    GO:0044175    host cell endosome membrane    The lipid bilayer surrounding a host cell endosome.
    GO:0033644    host cell membrane    Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0020002    host cell plasma membrane    The plasma membrane surrounding a host cell.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0019031    viral envelope    The lipid bilayer of a virion that surrounds the protein capsid. May also contain glycoproteins.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.
    GO:0055036    virion membrane    The lipid bilayer surrounding a virion.

Chain A,B,C,D,E,F   (GCN4_YEAST | P03069)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0000978    RNA polymerase II core promoter proximal region sequence-specific DNA binding    Interacting selectively and non-covalently with a sequence of DNA that is in cis with and relatively close to a core promoter for RNA polymerase II.
    GO:0000981    RNA polymerase II transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription by RNA polymerase II. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
    GO:0003682    chromatin binding    Interacting selectively and non-covalently with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0043565    sequence-specific DNA binding    Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
    GO:0001135    transcription factor activity, RNA polymerase II transcription factor recruiting    The function of binding to an RNA polymerase II (RNAP II) transcription factor and recruiting it to the transcription machinery complex in order to modulate transcription by RNAP II.
    GO:0001084    transcription factor activity, TFIID-class binding    Interacting selectively and non-covalently with a basal RNA polymerase II transcription factor of the TFIID class in order to modulate transcription. The transcription factor may or may not also interact selectively with DNA as well.
    GO:0003700    transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
    GO:0001190    transcriptional activator activity, RNA polymerase II transcription factor binding    Interacting selectively and non-covalently with an RNA polymerase II transcription factor, which may be a single protein or a complex, in order to increase the frequency, rate or extent of transcription from an RNA polymerase II promoter. A protein binding transcription factor may or may not also interact with the template nucleic acid (either DNA or RNA) as well.
    GO:0001191    transcriptional repressor activity, RNA polymerase II transcription factor binding    Interacting selectively and non-covalently with an RNA polymerase II transcription factor, which may be a single protein or a complex, in order to stop, prevent, or reduce the frequency, rate or extent of transcription from an RNA polymerase II promoter. A protein binding transcription factor may or may not also interact with the template nucleic acid (either DNA or RNA) as well.
biological process
    GO:0008652    cellular amino acid biosynthetic process    The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
    GO:0010691    negative regulation of ribosomal protein gene transcription from RNA polymerase II promoter in response to nutrient levels    Any process that decreases the frequency, rate or extent of the synthesis of RNA from ribosomal protein genes by RNA polymerase II, originating at an RNA polymerase II promoter, as a result of a stimulus reflecting the presence, absence, or concentration of nutrients.
    GO:0000122    negative regulation of transcription from RNA polymerase II promoter    Any process that stops, prevents, or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0001080    nitrogen catabolite activation of transcription from RNA polymerase II promoter    A transcription regulation process in which the presence of one nitrogen source leads to an increase in the frequency, rate, or extent of transcription, from an RNA polymerase II promoter, of specific genes involved in the metabolism of other nitrogen sources.
    GO:0045899    positive regulation of RNA polymerase II transcriptional preinitiation complex assembly    Any process that activates or increases the frequency, rate or extent of RNA polymerase II transcriptional preinitiation complex assembly.
    GO:1903833    positive regulation of cellular response to amino acid starvation    Any process that activates or increases the frequency, rate or extent of cellular response to amino acid starvation.
    GO:0060261    positive regulation of transcription initiation from RNA polymerase II promoter    Any process that increases the rate, frequency or extent of a process involved in starting transcription from an RNA polymerase II promoter.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006366    transcription from RNA polymerase II promoter    The synthesis of RNA from a DNA template by RNA polymerase II, originating at an RNA polymerase II promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs).
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0000790    nuclear chromatin    The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome in the nucleus.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0005667    transcription factor complex    A protein complex that is capable of associating with DNA by direct binding, or via other DNA-binding proteins or complexes, and regulating transcription.

Chain A,B,C,D,E,F   (Q4QX39_9HIV1 | Q4QX39)
molecular function
    GO:0005198    structural molecule activity    The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
biological process
    GO:0039663    membrane fusion involved in viral entry into host cell    Merging of the virion membrane and a host membrane (host plasma membrane or host organelle membrane) that is involved in the uptake of a virus into a host cell.
    GO:0046718    viral entry into host cell    The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
    GO:0019062    virion attachment to host cell    The process by which a virion protein binds to molecules on the host cellular surface or host cell surface projection.
cellular component
    GO:0044174    host cell endosome    A membrane-bounded organelle that carries materials newly ingested by endocytosis. It passes many of the materials to host cell lysosomes for degradation.
    GO:0044175    host cell endosome membrane    The lipid bilayer surrounding a host cell endosome.
    GO:0033644    host cell membrane    Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0020002    host cell plasma membrane    The plasma membrane surrounding a host cell.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0019031    viral envelope    The lipid bilayer of a virion that surrounds the protein capsid. May also contain glycoproteins.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.
    GO:0055036    virion membrane    The lipid bilayer surrounding a virion.

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  3g9r
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  ENV_HV1BR | P03377
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  Q4QX39_9HIV1 | Q4QX39
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        ENV_HV1BR | P03377: 1env 1erf 1fav 1p5a 1u6u 1u6v 2zzo 3mnw 3vgx 3vtp
        GCN4_YEAST | P03069: 1ce9 1dgc 1env 1fav 1fmh 1gcl 1gcm 1gk6 1gzl 1ihq 1ij0 1ij1 1ij2 1ij3 1kql 1ld4 1llm 1nkn 1piq 1rb4 1rb5 1rb6 1swi 1tmz 1unt 1unu 1unv 1unw 1unx 1uny 1unz 1uo0 1uo1 1uo2 1uo3 1uo4 1uo5 1w5g 1w5h 1w5i 1w5j 1w5k 1w5l 1ysa 1zii 1zij 1zik 1zil 1zim 1zta 2ahp 2b1f 2b22 2bni 2cce 2ccf 2ccn 2d3e 2dgc 2efr 2efs 2g9j 2hy6 2ipz 2k8x 2lpb 2n9b 2nrn 2o7h 2ovn 2vky 2vnl 2wg5 2wg6 2wpy 2wpz 2wq0 2wq1 2wq2 2wq3 2yny 2ynz 2yo0 2yo1 2yo2 2yo3 2z5h 2z5i 2zta 3azd 3bas 3bat 3ck4 3crp 3gjp 3i1g 3i5c 3k7z 3m48 3p8m 3zmf 4c46 4dmd 4g2k 4hu5 4hu6 4niz 4nj0 4nj1 4nj2 4owi 4tl1 5app 5apq 5aps 5apt 5apu 5apv 5apw 5apx 5apy 5apz 5iew 5iir 5iiv 5kht

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3G9R)