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(-) Description

Title :  CRYSTAL STRUCTURE AT 3.7 A RESOLUTION OF FULLY GLYCOSYLATED HIV-1 CLADE A BG505 SOSIP.664 PREFUSION ENV TRIMER IN COMPLEX WITH BROADLY NEUTRALIZING ANTIBODIES PGT122 AND 35O22
 
Authors :  G. B. E. Stewart-Jones, T. Zhou, P. V. Thomas, P. D. Kwong
Date :  08 Mar 16  (Deposition) - 27 Apr 16  (Release) - 12 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.10
Chains :  Asym. Unit :  B,D,E,G,H,L
Biol. Unit 1:  B,D,E,G,H,L  (3x)
Keywords :  Viral Protein, Hiv, Envelope, Glycan, Trimer (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. B. E. Stewart-Jones, C. Soto, T. Lemmin, G. Y. Chuang, A. Druz, R. Kong, P. V. Thomas, K. Wagh, T. Zhou, A. J. Behrens, T. Bylund, C. W. Choi, J. R. Davison, I. S. Georgiev, M. G. Joyce, Y. D. Kwon, M. Pancera, J. Taft, Y. Yang, B. Zhang, S. S. Shivatare, V. S. Shivatare C. C. D. Lee, C. Y. Wu, C. A. Bewley, D. R. Burton, W. C. Koff, M. Connors, M. Crispin, B. T. Korber, C. H. Wong, J. R. Mascola, P. D. Kwong
Trimeric Hiv-1-Env Structures Define Glycan Shields From Clades A, B And G
Cell(Cambridge, Mass. ) V. 165 813 2016
PubMed-ID: 27114034  |  Reference-DOI: 10.1016/J.CELL.2016.04.010

(-) Compounds

Molecule 1 - BG505 GP120 ENV ECTODOMAIN
    Cell: T-CELL
    Chains: B
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK-293T GNTI-
    Expression System Common: HUMAN
    Expression System Plasmid: PVRC8400
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Fragment: GP120 ENV ECTODOMAIN
    Gene: ENV
    Mutation: YES
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1
    Organism Taxid: 11676
 
Molecule 2 - 35O22 ANTIBODY FAB HEAVY CHAIN
    Cell: B-CELL
    Chains: D
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK-293T
    Expression System Common: HUMAN
    Expression System Plasmid: PVRC8400
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 3 - 35O22 ANTIBODY FAB LIGHT CHAIN
    Cell: B-CELL
    Chains: E
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK-293T
    Expression System Common: HUMAN
    Expression System Plasmid: PVRC8400
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 4 - BG505 GP120 ENV ECTODOMAIN
    Cell: T-CELL
    Chains: G
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK-293T GNTI-
    Expression System Common: HUMAN
    Expression System Plasmid: PVRC8400
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Fragment: GP120 ENV ECTODOMAIN
    Gene: ENV
    Mutation: YES
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1
    Organism Taxid: 11676
 
Molecule 5 - PGT122 ANTIBODY FAB HEAVY CHAIN
    Cell: B-CELL
    Chains: H
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK-293T GNTI-
    Expression System Common: HUMAN
    Expression System Plasmid: PVRC8400
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 6 - PGT122 ANTIBODY FAB LIGHT CHAIN
    Cell: B-CELL
    Chains: L
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK-293T GNTI-
    Expression System Common: HUMAN
    Expression System Plasmid: PVRC8400
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : BDEGHL
Biological Unit 1 (3x): BDEGHL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 114)

Asymmetric Unit (3, 114)
No.NameCountTypeFull Name
1BMA17Ligand/IonBETA-D-MANNOSE
2MAN57Ligand/IonALPHA-D-MANNOSE
3NAG40Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (3, 342)
No.NameCountTypeFull Name
1BMA51Ligand/IonBETA-D-MANNOSE
2MAN171Ligand/IonALPHA-D-MANNOSE
3NAG120Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (22, 22)

Asymmetric Unit (22, 22)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN B:611 , SER B:613Binding site for Mono-Saccharide NAG B6111 bound to ASN B 611
02AC2SOFTWAREASN B:618 , ASN E:52 , GLU E:53 , ARG E:54Binding site for Mono-Saccharide NAG B6181 bound to ASN B 618
03AC3SOFTWAREASN B:637Binding site for Poly-Saccharide residues NAG B6371 through BMA B6373 bound to ASN B 637
04AC4SOFTWAREGLY B:527 , SER B:528 , ASN D:30 , PHE D:31 , TYR D:32 , HIS D:33 , SER D:52 , TYR D:53 , ASP D:56 , LYS D:57 , ASN D:58 , ARG D:98 , ASP D:99 , GLY D:100 , SER D:100A , THR D:100C , HIS E:93 , ASN E:94 , ASN G:88Binding site for Poly-Saccharide residues NAG G 881 through MAN G 888 bound to ASN G 88
05AC5SOFTWAREASN G:133 , ASP G:140 , LYS G:155 , ARG G:178Binding site for Poly-Saccharide residues NAG G1331 through NAG G1332 bound to ASN G 133
06AC6SOFTWAREASN G:137 , GLY H:55 , ASP H:56 , ASN H:58 , ARG H:99 , LYS H:100H , TRP H:100J , THR H:100L , ASP L:92 , ARG L:95 , THR L:95BBinding site for Poly-Saccharide residues NAG G1371 through MAN G1378 bound to ASN G 137
07AC7SOFTWAREVAL G:134 , ASN G:156 , SER G:158 , TYR G:173 , GLU L:25 , GLU L:26Binding site for Poly-Saccharide residues NAG G1561 through MAN G1569B bound to ASN G 156
08AC8SOFTWARESER G:158 , ASN G:160Binding site for Poly-Saccharide residues NAG G1601 through MAN G1609 bound to ASN G 160
09AC9SOFTWAREARG G:192 , ILE G:194 , ASN G:197Binding site for Poly-Saccharide residues NAG G1971 through MAN G1977 bound to ASN G 197
10BC1SOFTWAREASN G:234 , SER G:274 , GLU G:275 , ILE G:277Binding site for Poly-Saccharide residues NAG G2341 through MAN G2345 bound to ASN G 234
11BC2SOFTWARELYS G:59 , LYS G:65 , ASN G:67 , ASN G:262 , GLY G:379 , VAL G:446 , SER G:447Binding site for Poly-Saccharide residues NAG G2621 through MAN G2629A bound to ASN G 262
12BC3SOFTWAREASN G:276 , THR G:278 , ASN G:279Binding site for Poly-Saccharide residues NAG G2761 through MAN G2765 bound to ASN G 276
13BC4SOFTWAREGLN G:293 , ASN G:295 , ASN G:332 , ARG G:444Binding site for Poly-Saccharide residues NAG G2951 through MAN G2957 bound to ASN G 295
14BC5SOFTWAREASN G:301 , ILE G:323 , VAL G:442Binding site for Poly-Saccharide residues NAG G3011 through MAN G3018 bound to ASN G 301
15BC6SOFTWARETHR G:297 , HIS G:330 , ASN G:332 , THR G:415 , ARG H:100 , ILE H:100A , GLY H:100C , VAL H:100D , SER L:30 , ASN L:50 , ASN L:51 , PRO L:66 , GLY L:67 , SER L:67ABinding site for Poly-Saccharide residues NAG G3321 through MAN G3329 bound to ASN G 332
16BC7SOFTWAREASN G:339 , THR G:394Binding site for Mono-Saccharide NAG G3391 bound to ASN G 339
17BC8SOFTWARELYS G:351 , ASN G:355Binding site for Mono-Saccharide NAG G3551 bound to ASN G 355
18BC9SOFTWAREASN G:363 , ASN G:386 , SER G:388Binding site for Poly-Saccharide residues NAG G3631 through BMA G3633 bound to ASN G 363
19CC1SOFTWAREASP G:141 , ASN G:386Binding site for Poly-Saccharide residues NAG G3861 through MAN G3866 bound to ASN G 386
20CC2SOFTWAREASN G:392Binding site for Poly-Saccharide residues NAG G3921 through MAN G3926 bound to ASN G 392
21CC3SOFTWAREASN G:262 , ASN G:448Binding site for Poly-Saccharide residues NAG G4481 through MAN G4489B bound to ASN G 448
22CC4SOFTWARETHR H:21 , ASN H:23 , LYS H:75 , LEU H:77Binding site for Poly-Saccharide residues NAG H 231 through MAN H 234 bound to ASN H 23

(-) SS Bonds  (21, 21)

Asymmetric Unit
No.Residues
1B:598 -B:604
2B:605 -G:501
3D:22 -D:92
4D:140 -D:196
5E:23 -E:88
6E:27C-E:28
7E:89 -E:96
8E:134 -E:193
9G:54 -G:74
10G:119 -G:205
11G:126 -G:196
12G:131 -G:157
13G:218 -G:247
14G:228 -G:239
15G:296 -G:331
16G:378 -G:445
17G:385 -G:418
18H:22 -H:92
19H:138 -H:194
20L:23 -L:88
21L:135 -L:194

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Gly B:600 -Lys B:601
2Phe D:146 -Pro D:147
3Glu D:148 -Pro D:149
4Cys E:27C-Cys E:28
5Ala E:127 -Asn E:128
6Tyr E:140 -Pro E:141
7Gly G:312 -Pro G:313
8Phe H:144 -Pro H:145
9Glu H:146 -Pro H:147
10Gly H:188 -Thr H:189
11Asp L:60 -Arg L:61
12Tyr L:141 -Pro L:142

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5FYL)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5FYL)

(-) Exons   (0, 0)

(no "Exon" information available for 5FYL)

(-) 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 B from PDB  Type:PROTEIN  Length:126
                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..............................hhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeee.........hhhhhh..hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                5fyl B  518 VFLGFLGAAGSTMGAASMTLTVQARNLLSGTVWGIKQLQARVLAVERYLRDQQLLGIWGCSGKLICCTNVPWNSSWSNRNLSEIWDNMTWLQWDKEISNYTQIIYGLLEESQNQQEKNEQDLLALD  664
                                   527       537       547|      578       588       598       608       618       628       638       648       658      
                                                       547|                                                                                               
                                                        569                                                                                               


Chain D from PDB  Type:PROTEIN  Length:242
                                                                                                                                                                                                                                                                                   
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eee.....ee..ee....hhhhh.eeeeee.....eeeeeee......eee.hhhh..eeeee...eeee..eee.eeeeee...hhhhheeeeeeee..........eeee...eeeee.........eee............eee.eeeeee..............................eeee..eee.............eeehhhheee.........hhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5fyl D    1 QGQLVQSGAELKKPGASVKISCKTSGYRFNFYHINWIRQTAGRGPEWMGWISPYSGDKNLAPAFQDRVIMTTDTEVPVTSFTSTGAAYMEIRNLKFDDTGTYFCAKGLLRDGSSTWLPYLWGQGTLLTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKGLEVLF  224
                                    10        20        30        40        50  |     59        69   ||||72G|       81 |||    88        98  |||||102       112       122       132       142       152       162       172       182       192       202       212       222  
                                                                              52A                  72A|||||||        82A||               100A|||||                                                                                                                            
                                                                                                    72B||||||         82B|                100B||||                                                                                                                            
                                                                                                     72C|||||          82C                 100C|||                                                                                                                            
                                                                                                      72D||||                               100D||                                                                                                                            
                                                                                                       72E|||                                100E|                                                                                                                            
                                                                                                        72F||                                 100F                                                                                                                            
                                                                                                         72G|                                                                                                                                                                 
                                                                                                          72H                                                                                                                                                                 


Chain E from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                      
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee..eeee.....eeeeee..........eeeeee.......eeeee...ee........eeee...eeeeee...hhhhh.eeeeeee......ee...eeeee........ee...............eeeeeeeee.....eeee..........eee..........eeeeeeee.............eeee....eee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5fyl E    2 SVLTQSASVSGSLGQSVTISCTGPNSVCCSHKSISWYQWPPGRAPTLIIYEDNERAPGISPRFSGYKSYWSAYLTISDLRPEDETTYYCCSYTHNSGCVFGTGTKVSVLGQSKANPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTE  210
                                   |12        22     |||29        39        49        59        69        79        89      | 98       107       117       127       137       147       157       167       177       187       197       207   
                                   9|              27A||                                                                  95A        106A                                                                                                        
                                   11               27B|                                                                                                                                                                                         
                                                     27C                                                                                                                                                                                         


Chain G from PDB  Type:PROTEIN  Length:453
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee....eee.....eeeehhhhhh............ee........ee....eeee.hhhhhhhhhhhhhhhhhhhhh.....hhhhh..eeeee............eeeeeeeee......eeeeeeeee...eee.....eeeehhhhhheeee............eee....eeeeee.......eeee..eeee.............eee.........eee..........eeeeeeeeeeeeeeeeeeeeeeeee.....eeeeeeeee......eeeeehhhhhhhhhhhhhhhhhhhh...................eeee....eeee...............eeeeeeeee.ee.......eeee.....eeeeeeeeeeeeeeee...........eee....hhhhhhhhhhhh.eeee..eeeeee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5fyl G   31 AENLWVTVYYGVPVWKDAETTLFCASDAKAYETEKHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQINSNKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNNTRKSIRIGPGQAFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFANSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISNNDSITLPCRIKQIINMWQRIGQAMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTRCKRRV  505
                                    40        50        60        70        80        90       100       110       120       130       140||     158       168       178      |189       199       209       219       229       239       249       259       269       279       289       299       309|      321|      330       340       350       360       370       380       390       412       422       432       442       452       462       472       482       492       502   
                                                                                                                                        141|                                185|                                                                                                                       309|      321A                                                                          398|                                                                                              
                                                                                                                                         150                                 187                                                                                                                        312                                                                                     411                                                                                              


Chain H from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eee...ee.....eeeeee.........eeeeeee......eeeeeehhhhh......hhh.eeee......eeeeee...hhhhheeeeeeeee..eee........eee..eeee....eeeee...................eeeeeeeeeee.....eeee.hhh.................eeeeeeeeee..........eeee.hhhh......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5fyl H    1 QVHLQESGPGLVKPSETLSLTCNVSGTLVRDNYWSWIRQPLGKQPEWIGYVHDSGDTNYNPSLKSRVHLSLDKSKNLVSLRLTGVTAADSAIYYCATTKHGRRIYGVVAFKEWFTYFYMDVWGKGTSVTVSSASTKGPSVFPLAPSSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEP  211
                                    10        20        30        40        50        60        70        80  |||   87        97   |||100G||||||100Q|      109       119      |133       143       153       163       173       183       193       203        
                                                                                                            82A||               100A|||||100J||||||||                       126|                                                                                
                                                                                                             82B|                100B|||||100K|||||||                        131                                                                                
                                                                                                              82C                 100C|||||100L||||||                                                                                                           
                                                                                                                                   100D|||||100M|||||                                                                                                           
                                                                                                                                    100E|||| 100N||||                                                                                                           
                                                                                                                                     100F|||  100O|||                                                                                                           
                                                                                                                                      100G||   100P||                                                                                                           
                                                                                                                                       100H|    100Q|                                                                                                           
                                                                                                                                        100I     100R                                                                                                           


Chain L from PDB  Type:PROTEIN  Length:210
                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eee......eeeeee.......eeeeeeee.....eeeee.............eee.........eeeeee..hhhhh.eeeeeeee............eee............eee..hhhhhhh..ee.eeeee.......eeeeee..eee.........eee...eeeeee..eehhhhhhhh..eeeeee....eeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5fyl L    6 APTFVSVAPGQTARITCGEESLGSRSVIWYQQRPGQAPSLIIYNNNDRPSGIPDRFSGSPGSTFGTTATLTITSVEAGDEADYYCHIWDSRRPTNWVFGEGTTLIVLSQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHKSYSCQVTHEGSTVEKTVAPT  210
                               ||   16        26        36        46        56        66 |||    73        83        93  |||  100       110       120       130       140       150       160       170       180       190       200       210
                               9|                                                      67A||                          95A||                                                                                                                   
                               11                                                       67B|                           95B|                                                                                                                   
                                                                                         67C                            95C
   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 5FYL)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5FYL)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5FYL)

(-) Gene Ontology  (14, 14)

Asymmetric Unit(hide GO term definitions)

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Asymmetric Unit
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  Cis Peptide Bonds
    Ala E:127 - Asn E:128   [ RasMol ]  
    Asp L:60 - Arg L:61   [ RasMol ]  
    Cys E:27C - Cys E:28   [ RasMol ]  
    Glu D:148 - Pro D:149   [ RasMol ]  
    Glu H:146 - Pro H:147   [ RasMol ]  
    Gly B:600 - Lys B:601   [ RasMol ]  
    Gly G:312 - Pro G:313   [ RasMol ]  
    Gly H:188 - Thr H:189   [ RasMol ]  
    Phe D:146 - Pro D:147   [ RasMol ]  
    Phe H:144 - Pro H:145   [ RasMol ]  
    Tyr E:140 - Pro E:141   [ RasMol ]  
    Tyr L:141 - Pro L:142   [ RasMol ]  
 
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  5fyl
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 Related Entries

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

UniProtKB/Swiss-Prot
        Q2N0S6_9HIV1 | Q2N0S6: 5v7j 5v8l 5v8m 5viy 5vj6 5w6d
UniProtKB/TrEMBL
        Q2N0S6_9HIV1 | Q2N0S6: 3j5m 4nco 4zmj 5aco 5c7k 5cez 5cjx 5d9q 5i8h 5js9 5jsa 5t3s 5t3x 5t3z 5thr 5u1f 5utf 5uty

(-) Related Entries Specified in the PDB File

5fyj STRUCTURES OF FULLY GLYCOSYLATED HIV-1-ENV TRIMER FROM CLADE G
5fyk STRUCTURES OF FULLY GLYCOSYLATED HIV-1-ENV TRIMER FROM CLADE B