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(-) Description

Title :  CRYSTAL STRUCTURE AT 3.7 A RESOLUTION OF FULLY GLYCOSYLATED HIV-1 CLADE B JR-FL SOSIP.664 PREFUSION ENV TRIMER IN COMPLEX WITH BROADLY NEUTRALIZING ANTIBODIES PGT122, 35O22 AND VRC01
 
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 :  3.11
Chains :  Asym. Unit :  B,D,E,G,H,L,U,V
Biol. Unit 1:  B,D,E,G,H,L,U,V  (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 - JR-FL, GP41 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: GP41 ENV ECTODOMAIN
    Gene: ENV
    Mutation: YES
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1
    Organism Taxid: 11676
 
Molecule 2 - 35O22
    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
    Fragment: 35O22 ANTIBODY FAB HEAVY CHAIN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 3 - 35O22
    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
    Fragment: 35O22 ANTIBODY FAB LIGHT CHAIN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 4 - JR-FL, 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
    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
    Fragment: PGT122 ANTIBODY FAB HEAVY CHAIN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 6 - PGT122
    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
    Fragment: PGT122 ANTIBODY FAB LIGHT CHAIN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 7 - VRC01
    Cell: B-CELL
    Chains: U, V
    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: VRC01 ANTIBODY FAB HEAVY CHAIN
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : BDEGHLUV
Biological Unit 1 (3x): BDEGHLUV

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 130)

Asymmetric Unit (3, 130)
No.NameCountTypeFull Name
1BMA18Ligand/IonBETA-D-MANNOSE
2MAN67Ligand/IonALPHA-D-MANNOSE
3NAG45Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (3, 390)
No.NameCountTypeFull Name
1BMA54Ligand/IonBETA-D-MANNOSE
2MAN201Ligand/IonALPHA-D-MANNOSE
3NAG135Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (25, 25)

Asymmetric Unit (25, 25)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPRO B:609 , ASN B:611 , SER B:613Binding site for Poly-Saccharide residues NAG B6111 through BMA B6113 bound to ASN B 611
02AC2SOFTWAREASN B:616 , LYS B:617Binding site for Mono-Saccharide NAG B6161 bound to ASN B 616
03AC3SOFTWAREASN B:625 , GLU B:630 , GLN D:1 , TYR D:32Binding site for Mono-Saccharide NAG B6251 bound to ASN B 625
04AC4SOFTWAREASN B:637Binding site for Mono-Saccharide NAG B6371 bound to ASN B 637
05AC5SOFTWARESER B:528 , ASN D:30 , PHE D:31 , HIS D:33 , SER D:52 , TYR D:53 , SER D:54 , 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 , GLU G:87 , ASN G:88Binding site for Poly-Saccharide residues NAG G 881 through MAN G 888 bound to ASN G 88
06AC6SOFTWARELYS G:132 , ASP G:133 , ASN G:135Binding site for Mono-Saccharide NAG G1351 bound to ASN G 135
07AC7SOFTWARELYS G:132 , ASN G:156 , GLU L:25Binding site for Poly-Saccharide residues NAG G1561 through MAN G1569 bound to ASN G 156
08AC8SOFTWAREASN G:160 , VAL G:169 , LYS G:171Binding site for Poly-Saccharide residues NAG G1601 through MAN G1609A bound to ASN G 160
09AC9SOFTWAREASN G:187Binding site for Poly-Saccharide residues NAG G1871 through MAN G1879B bound to ASN G 187
10BC1SOFTWAREGLU G:83 , ASN G:229 , ASN G:241Binding site for Poly-Saccharide residues NAG G2411 through MAN G2414 bound to ASN G 241
11BC2SOFTWAREVAL G:65 , GLU G:211 , PRO G:212 , ASN G:262 , GLY G:379 , CYS G:445 , SER G:446 , SER G:447Binding site for Poly-Saccharide residues NAG G2621 through MAN G2629 bound to ASN G 262
12BC3SOFTWAREASN G:276 , TYR V:28 , ARG V:66 , TRP V:67 , PRO V:69 , TYR V:91Binding site for Poly-Saccharide residues NAG G2761 through MAN G2769 bound to ASN G 276
13BC4SOFTWAREGLU G:293 , ASN G:295Binding site for Poly-Saccharide residues NAG G2951 through MAN G2955 bound to ASN G 295
14BC5SOFTWAREASN G:301 , ILE G:323 , GLN G:442Binding site for Poly-Saccharide residues NAG G3011 through MAN G3019A bound to ASN G 301
15BC6SOFTWAREHIS G:330 , ASN G:332 , THR G:415 , ARG H:100 , ILE H:100A , TYR H:100B , 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:339Binding site for Poly-Saccharide residues NAG G3391 through MAN G3398 bound to ASN G 339
17BC8SOFTWAREASN G:355Binding site for Poly-Saccharide residues NAG G3551 through MAN G3558 bound to ASN G 355
18BC9SOFTWAREVAL G:360 , PHE G:361 , ASN G:362 , ASN G:392 , GLN U:64 , ARG U:82ABinding site for Poly-Saccharide residues NAG G3621 through MAN G3624 bound to ASN G 362
19CC1SOFTWAREARG G:151 , MET G:373 , ASN G:386 , THR G:388Binding site for Poly-Saccharide residues NAG G3861 through MAN G3869B bound to ASN G 386
20CC2SOFTWAREASN G:392Binding site for Poly-Saccharide residues NAG G3921 through MAN G3927 bound to ASN G 392
21CC3SOFTWAREGLU G:354 , ASN G:355 , LYS G:357 , THR G:358 , ASN G:397Binding site for Poly-Saccharide residues NAG G3971 through NAG G3972 bound to ASN G 397
22CC4SOFTWARESER G:291 , ASN G:448Binding site for Poly-Saccharide residues NAG G4481 through MAN G4489A bound to ASN G 448
23CC5SOFTWAREASN G:463Binding site for Poly-Saccharide residues NAG G4631 through NAG G4632 bound to ASN G 463
24CC6SOFTWARESER H:7 , ASN H:23Binding site for Mono-Saccharide NAG H 231 bound to ASN H 23
25CC7SOFTWAREARG V:66 , ASP V:70 , ASN V:72 , THR V:74Binding site for Poly-Saccharide residues NAG V 721 through MAN V 728 bound to ASN V 72

(-) SS Bonds  (23, 23)

Asymmetric Unit
No.Residues
1B:605 -G:501
2D:22 -D:92
3D:140 -D:196
4E:23 -E:88
5E:27C-E:28
6E:89 -E:96
7E:134 -E:193
8G:54 -G:74
9G:126 -G:196
10G:131 -G:157
11G:218 -G:247
12G:228 -G:239
13G:296 -G:331
14G:378 -G:445
15G:385 -G:418
16G:459 -U:60
17H:22 -H:92
18H:138 -H:194
19L:23 -L:88
20L:135 -L:194
21U:22 -U:92
22U:32 -U:98
23V:23 -V:88

(-) Cis Peptide Bonds  (14, 14)

Asymmetric Unit
No.Residues
1Phe D:146 -Pro D:147
2Glu D:148 -Pro D:149
3Cys E:27C-Cys E:28
4Glu E:50 -Asp E:51
5Ala E:127 -Asn E:128
6Tyr E:140 -Pro E:141
7Gly G:312 -Pro G:313
8Gly G:464 -Thr G:465
9Phe H:144 -Pro H:145
10Glu H:146 -Pro H:147
11Tyr L:49 -Asn L:50
12Tyr L:141 -Pro L:142
13His L:198 -Glu L:199
14Ser V:7 -Pro V:8

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5FYK)

(-) 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:151
                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhh.hhhhhhh.....hhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeee........hhhhhhhh.hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5fyk B  514 GIGAVFLGFLGAAGSTMGAASMTLTVQARLLLSGIVQQQNNLLRAPEAQERMLQLTVWGIKQLQARVLAVERYLGDQQLLGIWGCSGKLICCTAVPWNASWSNKSLDRIWNNMTWMEWEREIDNYTSEIYTLIEESQNQQEKNEQELLELD  664
                                   523       533       543       553       563       573       583       593       603       613       623       633       643       653       663 


Chain D from PDB  Type:PROTEIN  Length:243
                                                                                                                                                                                                                                                                                    
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee...........ee..ee....hhhhh.eeee...........eee......eee........eeee...ee.....ee.eeeeee........eeeeeeee..........eeee...eee..........eeee................eeee.......eeee........eee..............eee.............eeee........ee................ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5fyk D    1 QGQLVQSGAELKKPGASVKISCKTSGYRFNFYHINWIRQTAGRGPEWMGWISPYSGDKNLAPAFQDRVIMTTDTEVPVTSFTSTGAAYMEIRNLKFDDTGTYFCAKGLLRDGSSTWLPYLWGQGTLLTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKGLEVLFQ  225
                                    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..eeeee...eeeeeee..........eeeee.........eee..............eeee...eeeeeee..hhhhh...eeeee......ee....eeeee................hhhhh..ee..eeeeee.......eeee..ee.....ee...ee.....eeeeee.eehhhhhh.....eeeeee..eeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5fyk 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:451
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee....eee.....eeeehhhhhhh...ee.hhhhhee......eeee.....eee...hhhhhhhhhhhhhhhhhhhh..ee.hhhh..eeeee.......eeeeeeeee......eeeeeeeee...eee......eeee......eeee....ee......eee....eeeeee.......eee...eeee.............eee.........eee..........eeeeeeeeeeeeeeeeeeeeeeee.......eeeeeee......eeeeeehhhhhhhhhhhhhhhhhhh....eee......hhhhhheeeee..eeeee.......eee.....eeeeeeeee.eehhhhh..eeee.....eeeeeeeeeeeeeeee..........eeee....hhhhhhhhhh.eeeeee..eeeeee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5fyk G   31 VEKLWVTVYYGVPVWKEATTTLFCASDAKAYDTEVHNVWATHACVPTDPNPQEVVLENVTEHFNMWKNNMVEQMQEDIISLWDQSLKPCVKLTPLCVTLNCKDVNMERGEIKNCSFNITTSIRDKVQKEYALFYKLDVVPIDNNNTSYRLISCDTSVITQACPKISFEPIPIHYCAPAGFAILKCNDKTFNGKGPCKNVSTVQCTHGIRPVVSTQLLLNGSLAEEEVVIRSDNFTNNAKTIIVQLKESVEINCTRPNNNTRKSIHIGPGRAFYTTGEIIGDIRQAHCNISRAKWNDTLKQIVIKLREQFENKTIVFNHSSGGDPEIVMHSFNCGGEFFYCNSTQLFNSTWNNNGNTITLPCRIKQIINMWQEIGKAMYAPPIRGQIRCSSNITGLLLTRDGCINENGTEIFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTKCKRRVVGR  508
                                    40        50        60        70        80        90       100       110       120       130    || 153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303     ||315      |324       334       344       354||     365       375       385       395  ||   417       427       437       447       457       467       477       487       497       507 
                                                                                                                                  135|                                                                                                                                                             309|      321A                               355|                                      398|                                                                                                 
                                                                                                                                   149                                                                                                                                                              312                                          357                                       411                                                                                                 


Chain H from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee.........eee.eeeee.......eeeeeee......eeeeee.....eee..hhhh.eeeeee....eeeeeee..hhhhh.eeeeeeeeeeeee..hhhhh.eeeeee.......ee...........eeee..........eeeeeeee.....eeee.....................eeeeeee.............eeeeehhhheee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5fyk 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 .....ee.....eeeee..........eeeee......eeee.............eee.........eeeee........eeeeee...............eeeee........eeeee....hhhhhh.eeeeeeeeee......eeeee........eee...ee.....eeeeeeeeehhhhhh....eeeeee....eeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5fyk 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                                                                                                                   


Chain U from PDB  Type:PROTEIN  Length:119
                                                                                                                                                        
               SCOP domains ----------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee...ee......eee.eee.........eeeeee.....eeeeeee......eee.hhhh..eeee........eeee...........eeeeeee..eeeeeee......ee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                5fyk U    1 QVQLVQSGGQMKKPGESMRISCRASGYEFIDCTLNWIRLAPGKRPEWMGWLKPRGGAVNYCRPLQGRVTMTRDVYSDTAFLELRSLTVDDTAVYFCTRGKNCDYNWDFEHWGRGTPVIV  111
                                    10        20        30        40        50  |     59        69        79   |||  86        96    |||102         
                                                                              52A                            82A||               100A|||           
                                                                                                              82B|                100B||           
                                                                                                               82C                 100C|           
                                                                                                                                    100D           


Chain V from PDB  Type:PROTEIN  Length:98
                                                                                                                                   
               SCOP domains -------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee............eeeee......eee..........................eee......eeeee...hhhhheee.eee..ee...eee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------- Transcript
                5fyk V    3 VLTQSPGTLSLSPGETAIISCRTSQYGSLAWYQQRPGQAPRLVIYSGSTRAAGIPDRFSGSRWGPDYNLTISNLESGDFGVYYCQQYEFFGQGTKVQV  106
                                    12        22       |34        44        54        64        74        84      ||98        
                                                      30|                                                        91|          
                                                       33                                                         96
   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)

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  Q75760_9HIV1 | Q75760
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 Related Entries

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

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        Q75760_9HIV1 | Q75760: 5fuu
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        Q6BC19_9HIV1 | Q6BC19: 5fuu
        Q75760_9HIV1 | Q75760: 1tjg 2b4c 2f5b 3tyg 4jm2

(-) Related Entries Specified in the PDB File

5fyj STRUCTURES OF FULLY GLYCOSYLATED HIV-1-ENV TRIMER FROM CLADE G
5fyl STRUCTURES OF FULLY GLYCOSYLATED HIV-1-ENV TRIMER FROM CLADE A