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(-) Description

Title :  CRYSTAL STRUCTURE AT 3.4 A RESOLUTION OF FULLY GLYCOSYLATED HIV-1 CLADE G X1193.C1 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 - 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, RESIDUES 510-663
    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 GNTI-
    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 GNTI-
    Expression System Common: HUMAN
    Expression System Plasmid: PVRC8400
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Fragment: 35O22 ANTIBODY FAB LIGHT CHAIN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 4 - 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, RESIDUES 32-506
    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 FV LIGHT 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  (5, 167)

Asymmetric Unit (5, 167)
No.NameCountTypeFull Name
1BMA20Ligand/IonBETA-D-MANNOSE
2CIT3Ligand/IonCITRIC ACID
3EDO2Ligand/Ion1,2-ETHANEDIOL
4MAN91Ligand/IonALPHA-D-MANNOSE
5NAG51Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (5, 501)
No.NameCountTypeFull Name
1BMA60Ligand/IonBETA-D-MANNOSE
2CIT9Ligand/IonCITRIC ACID
3EDO6Ligand/Ion1,2-ETHANEDIOL
4MAN273Ligand/IonALPHA-D-MANNOSE
5NAG153Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (33, 33)

Asymmetric Unit (33, 33)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG B:585 , GLN B:588 , ASP B:589 , LYS G:492BINDING SITE FOR RESIDUE CIT B 1666
02AC2SOFTWAREARG B:633 , THR D:72F , SER D:72GBINDING SITE FOR RESIDUE EDO D 1225
03AC3SOFTWAREGLU G:275 , ALA G:281 , LYS G:282 , ASP G:477 , ARG G:480 , LYS U:52 , ASP U:99BINDING SITE FOR RESIDUE CIT G 1511
04AC4SOFTWAREASP G:57 , HIS G:216BINDING SITE FOR RESIDUE EDO G 1512
05AC5SOFTWAREHIS G:105 , TRP G:427 , VAL G:430 , ASP G:474 , ARG G:476 , ARG U:53BINDING SITE FOR RESIDUE CIT G 1513
06AC6SOFTWAREMAN G:4135 , MAN G:4138BINDING SITE FOR RESIDUE MAN G 4140B
07AC7SOFTWAREASN B:611 , SER B:613 , CYS D:216 , ASP D:217 , LYS E:186 , PRO E:208Binding site for Poly-Saccharide residues NAG B6111 through NAG B6112 bound to ASN B 611
08AC8SOFTWAREASN B:616 , GLU B:621 , BMA B:6253 , GLY E:57Binding site for Poly-Saccharide residues NAG B6161 through NAG B6162 bound to ASN B 616
09AC9SOFTWAREGLU B:621 , ASN B:625 , LEU B:626 , GLU B:630 , GLU B:634 , NAG B:6161 , NAG B:6162 , GLN D:1 , LEU D:96 , PRO E:56Binding site for Poly-Saccharide residues NAG B6251 through BMA B6253 bound to ASN B 625
10BC1SOFTWAREARG B:633 , ASN B:637Binding site for Poly-Saccharide residues NAG B6371 through NAG B6372 bound to ASN B 637
11BC2SOFTWARESER B:528 , ASN D:30 , PHE D:31 , HIS D:33 , TRP D:50 , SER D:52 , TYR D:53 , ASP D:56 , ARG D:98 , ASP D:99 , GLY D:100 , SER D:100A , HOH D:2001 , 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
12BC3SOFTWAREASN G:133 , GLN G:153 , LYS G:155 , ARG G:178Binding site for Mono-Saccharide NAG G1331 bound to ASN G 133
13BC4SOFTWAREASN G:142 , MAN G:3869BBinding site for Mono-Saccharide NAG G1421 bound to ASN G 142
14BC5SOFTWAREVAL G:134 , ASN G:156 , TYR G:173 , GLU L:26Binding site for Poly-Saccharide residues NAG G1561 through MAN G1569 bound to ASN G 156
15BC6SOFTWARETHR G:128 , ASN G:160 , LYS G:171 , LYS G:187B , MAN G:1889ABinding site for Poly-Saccharide residues NAG G1601 through MAN G1609 bound to ASN G 160
16BC7SOFTWAREASN G:188 , MAN G:1609Binding site for Poly-Saccharide residues NAG G1881 through MAN G1889 bound to ASN G 188
17BC8SOFTWAREARG G:192 , ASN G:197 , ARG G:308Binding site for Poly-Saccharide residues NAG G1971 through BMA G1973 bound to ASN G 197
18BC9SOFTWAREASN G:234 , MAN G:2766 , MAN G:2769Binding site for Poly-Saccharide residues NAG G2341 through MAN G2346 bound to ASN G 234
19CC1SOFTWAREARG G:229 , LYS G:231 , ASN G:241 , MAN G:2937Binding site for Poly-Saccharide residues NAG G2411 through MAN G2417 bound to ASN G 241
20CC2SOFTWARESER G:65 , PRO G:206 , LYS G:207 , VAL G:208 , THR G:209 , ASP G:211 , PRO G:212 , VAL G:254 , ASN G:262 , ARG G:304 , ARG G:379 , CYS G:445 , ARG G:446 , SER G:447 , NAG G:4421 , NAG G:4422Binding site for Poly-Saccharide residues NAG G2621 through MAN G2629 bound to ASN G 262
21CC3SOFTWAREASN G:276 , MAN G:2344 , MAN G:2346 , TYR V:28 , GLY V:29 , SER V:30 , ARG V:66 , TRP V:67Binding site for Poly-Saccharide residues NAG G2761 through MAN G2769 bound to ASN G 276
22CC4SOFTWAREALA G:291 , ASN G:293 , GLU G:337 , ARG G:446 , MAN G:2417 , MAN G:3444 , MAN G:4139ABinding site for Poly-Saccharide residues NAG G2931 through MAN G2939A bound to ASN G 293
23CC5SOFTWAREASN G:301 , ILE G:323Binding site for Poly-Saccharide residues NAG G3011 through MAN G3018 bound to ASN G 301
24CC6SOFTWAREHIS G:330 , ASN G:332 , ASN G:413 , THR G:415 , NAG G:4131 , MAN G:4424 , ARG H:100 , ILE H:100A , TYR H:100B , GLY H:100C , VAL H:100D , VAL H:100E , 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
25CC7SOFTWARETHR G:290 , GLU G:337 , ASP G:340 , MET G:341 , ASN G:344 , MAN G:2937 , BMA G:3553Binding site for Poly-Saccharide residues NAG G3441 through MAN G3449A bound to ASN G 344
26CC8SOFTWAREASN G:355 , MAN G:3449A , NAG G:4642ABinding site for Poly-Saccharide residues NAG G3551 through BMA G3553 bound to ASN G 355
27CC9SOFTWAREASN G:142 , ASP G:149 , TYR G:150 , ASN G:386 , NAG G:1421 , GLY U:65Binding site for Poly-Saccharide residues NAG G3861 through MAN G3869A bound to ASN G 386
28DC1SOFTWAREGLY G:389 , ASN G:392 , SER G:394 , THR G:415Binding site for Mono-Saccharide NAG G3921 bound to ASN G 392
29DC2SOFTWARETHR G:295 , ASN G:332 , ASN G:413 , MAN G:2936 , NAG G:3321 , MAN G:4140B , NAG G:4422Binding site for Poly-Saccharide residues NAG G4131 through MAN G4139A bound to ASN G 413
30DC3SOFTWAREASN G:442 , MAN G:2628 , MAN G:2629B , MAN G:3329 , MAN G:4138Binding site for Poly-Saccharide residues NAG G4421 through MAN G4429 bound to ASN G 442
31DC4SOFTWAREASN G:464A , NAG G:3551Binding site for Poly-Saccharide residues NAG G4641A through NAG G4642A bound to ASN G 464A
32DC5SOFTWAREASN H:23 , LEU H:77Binding site for Poly-Saccharide residues NAG H 231 through MAN H 238 bound to ASN H 23
33DC6SOFTWAREILE V:20 , SER V:65 , ARG V:66 , ASN V:72Binding site for Poly-Saccharide residues NAG V 721 through MAN V 728 bound to ASN V 72

(-) SS Bonds  (25, 25)

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
18G:459 -U:60
19H:22 -H:92
20H:138 -H:194
21L:23 -L:88
22L:135 -L:194
23U:22 -U:92
24U:32 -U:98
25V:23 -V:88

(-) Cis Peptide Bonds  (15, 15)

Asymmetric Unit
No.Residues
1Phe D:146 -Pro D:147
2Glu D:148 -Pro D:149
3Cys E:27C-Cys E:28
4Ala E:127 -Asn E:128
5Tyr E:140 -Pro E:141
6Lys E:186 -Ser E:187
7Thr G:138D-Asn G:138E
8Gly G:312 -Pro G:313
9Thr G:464 -Asn G:464A
10Phe H:144 -Pro H:145
11Glu H:146 -Pro H:147
12Gly H:188 -Thr H:189
13Gln L:109 -Pro L:110
14Tyr L:141 -Pro L:142
15Ser V:7 -Pro V:8

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5FYJ)

(-) 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:154
                                                                                                                                                                                           
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhh.........hhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeee........hhhhhhh..hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5fyj B  512 AVGMGAVLLGFLGAAGSTMGAASITLTVQVRQLLSGIVQQQSNLLRAPEAQQHLLQLTVWGIKQLQARVLAVERYLQDQQLLGIWGCSGRLICCTNVPWNASWSNKSYSEIWDNLTWVEWEREISNYTQHIYNLLQESQNQQEKNEQDLLALDK  665
                                   521       531       541       551       561       571       581       591       601       611       621       631       641       651       661    


Chain D from PDB  Type:PROTEIN  Length:243
                                                                                                                                                                                                                                                                                    
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee......eeeeeeeeehhhhh.eeeeee.......eeeee......eee.........eee...ee.....eeeeeeee.........eeeeeee.............ee...eeeee........eeeeeeee.........eeeeeee...................eee.............eeee............eeeeee....eeeeee............... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5fyj 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.....eeeee..........eeeeee.......eeee.............eeeee....eeeee...hhhhh.eeeeeeee..eeeee...eeeeee..............hhhhhh...eeeee..........eeeeee........eee...ee.....ee..eeeeehhhhhh....eeeeeee..eeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5fyj 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:479
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee....eee.....eeee..................ee.......ee.....eeee...hhhhhhhhhhhhhhhhhhhh....hhhhh..ee..........................eeeeeeeee......eeeeeeeee...eee........eeee.......eee...........eeee....eeeeee.......eeee..eeee.............eee.........eee..........eeeeeeeeeeeeeee..eeeeeeee.....eeeeeeeee......eeeeehhhhhhhhhhhhhhhhhhh.....ee............eeeee..eeeee..hhhhh..............eeeeeeeee.ee........eee.......eeeeeeeeeeeeee............eeee....hhhhhhhhhh.eeeeee..eeeeee........... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5fyj G   31 AGDLWVTVYYGVPVWEDADTTLFCASDAKAYSTESHNVWATHACVPTDPNPQEIPLKNVTENFNMWKNNMVEQMHEDIISLWDESLKPCVKLTPLCVTLICTNVTSNSTNSTNGVTNNSTVDYREQLKNCSFNITTEIRDKQRKEYALFYRLDIVPINDNEKNDTYRLINCNVSTIKQACPKVTFDPIPIHYCAPAGFAILKCRDKKFNGTGPCKNVSTVQCTHGIKPVISTQLLLNGSLAEGDIMIRSENITDNAKTIIVQLKTAVNITCTRPSNNTRKSIRFGPGQAFYATDEIIGDIRQAHCNISKTEWEDMKRNVSDKLKALFNNKTIIFKSSSGGDLEITTHSFNCRGEFFYCNTSGLFNTSGLFNNNSNDSSGNITLPCKIKQIVRMWQRVGQAMYAPPIAGNITCRSRITGLLLVRDGCKSNETNGTETFRPAGGDMRDNWRSELYKYKVVKIKPLGVAPTRCRRRVVGRRR  510
                                    40        50        60        70        80        90       100       110       120       130      138B||||   144|      157       167       177       187||     195       205       215       225       235       245       255       265       275       285       295       305   ||  317     | 326       336       346       357       367       377       387       397||     413       423       433       443       453       463 ||    471       481       491       501         
                                                                                                                                     138A|||||   144|                                    187A|                                                                                                                       309|       322A                              355|                                      398|                                                        464A|                                              
                                                                                                                                      138B||||    148                                     187B                                                                                                                        312                                          357                                       405                                                         464B                                              
                                                                                                                                       138C|||                                                                                                                                                                                                                                                                                                                                                                             
                                                                                                                                        138D||                                                                                                                                                                                                                                                                                                                                                                             
                                                                                                                                         138E|                                                                                                                                                                                                                                                                                                                                                                             
                                                                                                                                          138F                                                                                                                                                                                                                                                                                                                                                                             


Chain H from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeee...ee.....eeeeeee.........eeeeee......eeeeeee...eeee.hhhh.....eee....eeeeee........eeeeeeeeeeeeee..hhhhh.eeeeeeeeee...eeeee........eeeee.........eeeeeeee.....eeee.........ee...ee.....eeeeeee............eeeee.hhhh...eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5fyj 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 ...eeee.....eeeee..........eeee.......eeee.............eee.........eeeee...hhhhh....ee................eeee..........eee....hhhhhh.eeeeeeeeee.....eeeee.........eee...ee.....eeeeeeeeehhhhhh....eeeeee....eeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5fyj 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 ..eeee............eeeeeee........eeeeee......eeeeeee....eeee.hhhh..eeeeee....eeeeee.........eeeeee...........ee...ee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                5fyj 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.........eeeeee......eeee..............eee......eeee...hhhhheeeeeee.......eee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------- Transcript
                5fyj V    3 VLTQSPGTLSLSPGETAIISCRTSQYGSLAWYQQRPGQAPRLVIYSGSTRAAGIPDRFSGSRWGPDYNLTISNLESGDFGVYYCQQYEFFGQGTKVQV  106
                                    12        22       |34        44        54        64        74        84      ||98        
                                                      30|                                                        91|          
                                                       33                                                         96
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5fyk STRUCTURES OF FULLY GLYCOSYLATED HIV-1-ENV TRIMER FROM CLADE B
5fyl STRUCTURES OF FULLY GLYCOSYLATED HIV-1-ENV TRIMER FROM CLADE A