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(-) Description

Title :  CRYSTAL STRUCTURE OF ADCC-POTENT RHESUS MACAQUE ANTIBODY JR4 IN COMPLEX WITH HIV-1 CLADE A/E GP120 AND M48
 
Authors :  N. Gohain, W. D. Tolbert, M. Pazgier
Date :  26 Sep 14  (Deposition) - 15 Jul 15  (Release) - 19 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.21
Chains :  Asym. Unit :  A,B,C,D,G,H,L,M
Biol. Unit 1:  G,H,L,M  (1x)
Biol. Unit 2:  A,B,C,D  (1x)
Keywords :  Hiv-1 Gp120, Viral Protein, Viral Protein-Immune System Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Gohain, W. D. Tolbert, P. Acharya, L. Yu, T. Liu, P. Zhao, C. Orlandi, M. L. Visciano, R. Kamin-Lewis, M. M. Sajadi, L. Martin, J. E. Robinson P. D. Kwong, A. L. Devico, K. Ray, G. K. Lewis, M. Pazgier
Cocrystal Structures Of Antibody N60-I3 And Antibody Jr4 In Complex With Gp120 Define More Cluster A Epitopes Involved In Effective Antibody-Dependent Effector Function Against Hiv-1.
J. Virol. V. 89 8840 2015
PubMed-ID: 26085162  |  Reference-DOI: 10.1128/JVI.01232-15

(-) Compounds

Molecule 1 - HIV-1 CLADE A/E 93TH057 (H375S) GP120
    Chains: G, A
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Strain: HEK 293 GNT1- CELLS
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Gene: HIV-1 ENV
    Mutation: YES
    Organism Common: HIV-1
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1
    Organism Taxid: 11676
 
Molecule 2 - FAB HEAVY CHAIN OF ADCC ANTI-HIV-1 ANTIBODY JR4
    Chains: H, B
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Strain: HEK 293 CELLS
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Gene: FAB HEAVY CHAIN OF ADCC-POTENT ANTI-HIV-1 ANTIBODY JR4
    Organism Common: RHESUS MACAQUE
    Organism Scientific: MACACA MULATTA
    Organism Taxid: 9544
 
Molecule 3 - FAB LIGHT CHAIN OF ADCC ANTI-HIV-1 ANTIBODY JR4
    Chains: L, C
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Strain: HEK 293 CELLS
    Expression System Taxid: 9606
    Gene: FAB LIGHT CHAIN OF ADCC-POTENT ANTI-HIV-1 ANTIBODY JR4
    Organism Common: RHESUS MACAQUE
    Organism Scientific: MACACA MULATTA
    Organism Taxid: 9544
 
Molecule 4 - T-CELL SURFACE GLYCOPROTEIN CD4 MIMETIC M48
    Chains: M, D
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Other Details: M48 IS AN ENGINEERED CD4 MIMETIC
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDGHLM
Biological Unit 1 (1x):     GHLM
Biological Unit 2 (1x): ABCD    

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 24)

Asymmetric Unit (4, 24)
No.NameCountTypeFull Name
1DPR2Mod. Amino AcidD-PROLINE
2MPT2Mod. Amino AcidBETA-MERCAPTOPROPIONIC ACID
3NAG18Ligand/IonN-ACETYL-D-GLUCOSAMINE
4NH22Mod. Amino AcidAMINO GROUP
Biological Unit 1 (4, 12)
No.NameCountTypeFull Name
1DPR1Mod. Amino AcidD-PROLINE
2MPT1Mod. Amino AcidBETA-MERCAPTOPROPIONIC ACID
3NAG9Ligand/IonN-ACETYL-D-GLUCOSAMINE
4NH21Mod. Amino AcidAMINO GROUP
Biological Unit 2 (4, 12)
No.NameCountTypeFull Name
1DPR1Mod. Amino AcidD-PROLINE
2MPT1Mod. Amino AcidBETA-MERCAPTOPROPIONIC ACID
3NAG9Ligand/IonN-ACETYL-D-GLUCOSAMINE
4NH21Mod. Amino AcidAMINO GROUP

(-) Sites  (20, 20)

Asymmetric Unit (20, 20)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN G:474 , CYS M:19 , ALA M:20 , THR M:22 , PHE M:23BINDING SITE FOR RESIDUE DPR M 21
02AC2SOFTWAREGLY A:473 , CYS D:19 , ALA D:20 , THR D:22 , PHE D:23BINDING SITE FOR RESIDUE DPR D 21
03AC3SOFTWAREASN G:234 , THR G:236 , SER G:274BINDING SITE FOR RESIDUE NAG G 501
04AC4SOFTWAREASN G:229 , ASN G:241BINDING SITE FOR RESIDUE NAG G 502
05AC5SOFTWAREPRO G:212 , LYS G:252 , ASN G:262 , PHE G:376 , ASN G:377 , ARG G:379 , CYS G:445 , VAL G:446 , SER G:447BINDING SITE FOR RESIDUE NAG G 503
06AC6SOFTWAREASN G:276 , THR G:278BINDING SITE FOR RESIDUE NAG G 504
07AC7SOFTWAREGLU G:269 , ILE G:270 , ASN G:289 , LYS G:290 , GLN G:344BINDING SITE FOR RESIDUE NAG G 505
08AC8SOFTWAREGLU G:293 , ASN G:295 , THR G:297 , GLU G:332 , LYS G:442BINDING SITE FOR RESIDUE NAG G 506
09AC9SOFTWAREASN G:334 , THR G:336 , LYS G:337 , THR G:413BINDING SITE FOR RESIDUE NAG G 507
10BC1SOFTWARETHR G:372 , ASN G:386 , THR G:388BINDING SITE FOR RESIDUE NAG G 508
11BC2SOFTWAREASN G:392BINDING SITE FOR RESIDUE NAG G 509
12BC3SOFTWAREASN A:234 , THR A:236 , SER A:274BINDING SITE FOR RESIDUE NAG A 501
13BC4SOFTWAREHIS A:85 , ASN A:229 , LYS A:231 , ASN A:241 , GLU A:267BINDING SITE FOR RESIDUE NAG A 502
14BC5SOFTWARELYS A:252 , VAL A:254 , ASN A:262 , ARG A:379 , CYS A:445 , VAL A:446 , SER A:447BINDING SITE FOR RESIDUE NAG A 503
15BC6SOFTWAREASN A:276 , THR A:278 , ASN A:279BINDING SITE FOR RESIDUE NAG A 504
16BC7SOFTWAREGLU A:268 , GLU A:269 , ILE A:270 , ASN A:289 , GLN A:344BINDING SITE FOR RESIDUE NAG A 505
17BC8SOFTWAREGLU A:293 , ASN A:295 , THR A:297 , LYS A:442BINDING SITE FOR RESIDUE NAG A 506
18BC9SOFTWAREASN A:334 , THR A:336 , ASN A:411BINDING SITE FOR RESIDUE NAG A 507
19CC1SOFTWARETHR A:372 , ASN A:386 , THR A:388BINDING SITE FOR RESIDUE NAG A 508
20CC2SOFTWAREGLN A:389 , ASN A:392 , GLY A:409 , CYS A:410BINDING SITE FOR RESIDUE NAG A 509

(-) SS Bonds  (28, 28)

Asymmetric Unit
No.Residues
1A:54 -A:74
2A:119 -A:205
3A:218 -A:247
4A:228 -A:239
5A:296 -A:331
6A:378 -A:445
7A:385 -A:418
8A:395 -A:410
9B:22 -B:92
10B:140 -B:196
11C:23 -C:88
12C:134 -C:193
13D:6 -D:24
14D:10 -D:26
15G:54 -G:74
16G:119 -G:205
17G:218 -G:247
18G:228 -G:239
19G:296 -G:331
20G:378 -G:445
21G:385 -G:418
22G:395 -G:410
23H:22 -H:92
24H:140 -H:196
25L:23 -L:88
26L:134 -L:193
27M:6 -M:24
28M:10 -M:26

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Gly H:54 -Gly H:55
2Phe H:146 -Pro H:147
3Glu H:148 -Pro H:149
4Pro L:40 -Gly L:41
5Leu L:106A-Gly L:107
6Tyr L:140 -Pro L:141
7Gly B:54 -Gly B:55
8Phe B:146 -Pro B:147
9Glu B:148 -Pro B:149
10Pro C:40 -Gly C:41
11Leu C:106A-Gly C:107
12Tyr C:140 -Pro C:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4RFN)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4RFN)

(-) Exons   (0, 0)

(no "Exon" information available for 4RFN)

(-) 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:337
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee.....eeee.......hhhhhh.....ee.......eee....eeee....hhhhhhhhhhhhhhhhhh...ee....................eee....eeeeee.......eeee..eeee.............eee.........eee..........eeeeeeeeeeeeeee......eeeeeeehhhhhhhhhhhhhhhhhh.....eee............eeeee..eeeee................eeeeeee...eee......eee........eeeeeeeeeeeeee......eeeee...hhhhhhhhhhh.eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4rfn A   44 VWKDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSENLTNNAKTIIVHLNKSVEINCTRPSNDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEITMHSFNCRGEFFYCNTTQLFNNTCIKGCNGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRDGNTSNETFRPGGGNIKDNWRSELYKYKVVQIE  492
                                    53        63        73        83        93       103       113       123||     207       217       227       237       247       257       267       277       287       297   ||  330       340       350    || 361       371       381       391    || 412       422       432       442       452     ||465       475       485       
                                                                                                          124|                                                                                                   301|                           355|                                    396|                                               458|                              
                                                                                                           199                                                                                                    325                            357                                     408                                                462                              


Chain B from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eee...ee.....eeeeee....hhhh.eeeeeee......eeeeeee.....eee.......eeeeee....eeeeee...hhhhheeeeeeeee........eeeee...eeeee........eeee........eeeeeeeee.................eee...ee.....eeeeeeee..........eeeeee.hhhh.eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4rfn B    1 EVQLVESGPGLVKPLETLSLTCAVPGGSIRRNYWSWIRQPPGKGLEWIGHSYGSGGSTNYNPSLESRVTLSVDTSKNLFSLKLTSVTAADTAVYYCARTVWYYTSGTHYFDHWGQGVLVTVSSASTKGPSVFPLAPSESTAALGCLVKDYFPEPVTVSWNSGSLTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYVCNVNHKPSNTKVDKRVE  212
                                    10        20        30        40        50  |     59        69        79   |||  86        96    ||100F       110       120     ||135       145       155       165       175       185       195       205       
                                                                              52A                            82A||               100A|||||                       126|                                                                                
                                                                                                              82B|                100B||||                        132                                                                                
                                                                                                               82C                 100C|||                                                                                                           
                                                                                                                                    100D||                                                                                                           
                                                                                                                                     100E|                                                                                                           
                                                                                                                                      100F                                                                                                           


Chain C from PDB  Type:PROTEIN  Length:210
                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...............eee..............eeeee......eeee.............eeeeee..eeeeee...hhhhh.eeeeeee......eee...ee...........eeee...hhhhhh..eee..eeeeee.....eeeeee..ee....eee...ee.....eeeeeeeeeehhhhhh...eeeeeee..eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4rfn C    3 VLTQPPSVSAAPGQKVTISCSGSSSNIGRSYVSWYQQVPGAAPKLLIYDTNKRPSGVSDRFSGSKSGSSASLAITGLQTGDEADYYCGAWDGSLNVHIFGSGTKLTVLGQPKASPLVTLFPPSSEELQANKATLVCLISDFYPGVVKVAWKADGNSVNTGVETTTPSKQSNNKYAASSYLSLTSDQWKSHKSYSCQVTHEGSTVEKTVAP  208
                                  ||13        23    ||  31        41        51        61        71        81        91    ||  99       108       118       128       138       148       158       168       178       188       198       208
                                  9|              27A|                                                                  95A|        106A                                                                                                      
                                  11               27B                                                                   95B                                                                                                                  


Chain D from PDB  Type:PROTEIN  Length:28
                                                             
               SCOP domains ---------------------------- SCOP domains
               CATH domains ---------------------------- CATH domains
               Pfam domains ---------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh...eeeee..eeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------- SAPs(SNPs)
                    PROSITE ---------------------------- PROSITE
                 Transcript ---------------------------- Transcript
                4rfn D    1 xNLHFCQLRCKSLGLLGRCAxTFCACVx   28
                            |       10        20|      |
                            1-MPT              21-DPR 28-NH2


Chain G from PDB  Type:PROTEIN  Length:337
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee.....eeee.......hhhhhhhhhhhee..............eeee....hhhhhhhhhhhhhhhhhh.........................eee....eeeeee.......eeee..eeee.............eee.........eee..........eeeeeeeeeeeeeee.......eeeeehhhhhhhhhhhhhhhhhhh....eeee......hhhhhheeeee..eeeeehhhhh............eeeee.....ee......ee.........eeeeeeeeeeeeee.....eeeeee....hhhhhhhhhh.eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4rfn G   44 VWKDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSENLTNNAKTIIVHLNKSVEINCTRPSNDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEITMHSFNCRGEFFYCNTTQLFNNTCIKGCNGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRDGNTSNETFRPGGGNIKDNWRSELYKYKVVQIE  492
                                    53        63        73        83        93       103       113       123||     207       217       227       237       247       257       267       277       287       297   ||  330       340       350    || 361       371       381       391    || 412       422       432       442       452     ||465       475       485       
                                                                                                          124|                                                                                                   301|                           355|                                    396|                                               458|                              
                                                                                                           199                                                                                                    325                            357                                     408                                                462                              


Chain H from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eee...ee....eeeeeee.........eeeeeee......eeeeeee.....eee...hhh.eeeeee....eeeeeee.......eeeeeeeee........eeeee...eeeee........eeee........eeeeeeeee.................eee...ee.....eeeeeeee.hhhhh.....eeeeee....eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4rfn H    1 EVQLVESGPGLVKPLETLSLTCAVPGGSIRRNYWSWIRQPPGKGLEWIGHSYGSGGSTNYNPSLESRVTLSVDTSKNLFSLKLTSVTAADTAVYYCARTVWYYTSGTHYFDHWGQGVLVTVSSASTKGPSVFPLAPSESTAALGCLVKDYFPEPVTVSWNSGSLTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYVCNVNHKPSNTKVDKRVE  212
                                    10        20        30        40        50  |     59        69        79   |||  86        96    ||100F       110       120     ||135       145       155       165       175       185       195       205       
                                                                              52A                            82A||               100A|||||                       126|                                                                                
                                                                                                              82B|                100B||||                        132                                                                                
                                                                                                               82C                 100C|||                                                                                                           
                                                                                                                                    100D||                                                                                                           
                                                                                                                                     100E|                                                                                                           
                                                                                                                                      100F                                                                                                           


Chain L from PDB  Type:PROTEIN  Length:210
                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeee.....eeeeee...........eeeee......eeee.............eeeeee..eeeeee...hhhhh.eeeeeeee....eeee...eeeee........eeeee.....hhhhh..eeeeeeeee.....eeeeee..eee...eee...ee.....eeeeeeee.hhhhhhh.....eeee....eeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4rfn L    3 VLTQPPSVSAAPGQKVTISCSGSSSNIGRSYVSWYQQVPGAAPKLLIYDTNKRPSGVSDRFSGSKSGSSASLAITGLQTGDEADYYCGAWDGSLNVHIFGSGTKLTVLGQPKASPLVTLFPPSSEELQANKATLVCLISDFYPGVVKVAWKADGNSVNTGVETTTPSKQSNNKYAASSYLSLTSDQWKSHKSYSCQVTHEGSTVEKTVAP  208
                                  ||13        23    ||  31        41        51        61        71        81        91    ||  99       108       118       128       138       148       158       168       178       188       198       208
                                  9|              27A|                                                                  95A|        106A                                                                                                      
                                  11               27B                                                                   95B                                                                                                                  


Chain M from PDB  Type:PROTEIN  Length:28
                                                             
               SCOP domains ---------------------------- SCOP domains
               CATH domains ---------------------------- CATH domains
               Pfam domains ---------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh...eeeee..eeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------- SAPs(SNPs)
                    PROSITE ---------------------------- PROSITE
                 Transcript ---------------------------- Transcript
                4rfn M    1 xNLHFCQLRCKSLGLLGRCAxTFCACVx   28
                            |       10        20|      |
                            1-MPT              21-DPR 28-NH2
   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 4RFN)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4RFN)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4RFN)

(-) Gene Ontology  (14, 14)

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  Cis Peptide Bonds
    Glu B:148 - Pro B:149   [ RasMol ]  
    Glu H:148 - Pro H:149   [ RasMol ]  
    Gly B:54 - Gly B:55   [ RasMol ]  
    Gly H:54 - Gly H:55   [ RasMol ]  
    Leu C:106A - Gly C:107   [ RasMol ]  
    Leu L:106A - Gly L:107   [ RasMol ]  
    Phe B:146 - Pro B:147   [ RasMol ]  
    Phe H:146 - Pro H:147   [ RasMol ]  
    Pro C:40 - Gly C:41   [ RasMol ]  
    Pro L:40 - Gly L:41   [ RasMol ]  
    Tyr C:140 - Pro C:141   [ RasMol ]  
    Tyr L:140 - Pro L:141   [ RasMol ]  
 
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  4rfn
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  Q0ED31_9HIV1 | Q0ED31
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  Q0ED31_9HIV1 | Q0ED31
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 Related Entries

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

UniProtKB/TrEMBL
        Q0ED31_9HIV1 | Q0ED31: 3ngb 3se8 3se9 3tgt 3u7y 4dko 4dkp 4dkq 4dkr 4dku 4dkv 4dvs 4dvt 4dvv 4dvw 4dvx 4h8w 4i54 4jb9 4jdt 4jkp 4jpv 4jpw 4lsp 4lsq 4lsr 4lsu 4olu 4olv 4olw 4olx 4oly 4olz 4om0 4om1 4p9h 4rfo 4rz8 4xnz 4xvt 4ydj 4ydk 4ydl 4yfl

(-) Related Entries Specified in the PDB File

4h8w HIV-1 CLADE A/E 93TH057 (H375S) GP120 IN COMPLEX WITH ANOTHER ADCC-POTENT ANTIBODY
4jzw M48U1 CD4 MIMETIC PEPTIDE/GP120 STRUCTURE
4rfe JR4 FAB
4rfo