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(-) Description

Title :  CRYSTAL STRUCTURE OF THE BG505 SOSIP GP140 HIV-1 ENV TRIMER IN COMPLEX WITH THE BROADLY NEUTRALIZING FAB PGT122
 
Authors :  J. -P. Julien, R. L. Stanfield, D. Lyumkis, A. B. Ward, I. A. Wilson
Date :  24 Oct 13  (Deposition) - 13 Nov 13  (Release) - 15 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  4.70
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Keywords :  Type-1 Membrane Fusion Glycoprotein Trimer, Hiv-1 Envelope, Gp120, Gp41, Membrane Fusion, Viral Entry, Cd4, Ccr5/Cxcr4, Broadly Neutralizing Antibodies, Viral Surface, Viral Protein-Immune System Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. P. Julien, A. Cupo, D. Sok, R. L. Stanfield, D. Lyumkis, M. C. Deller, P. J. Klasse, D. R. Burton, R. W. Sanders, J. P. Moore, A. B. Ward, I. A. Wilson
Crystal Structure Of A Soluble Cleaved Hiv-1 Envelope Trimer.
Science V. 342 1477 2013
PubMed-ID: 24179159  |  Reference-DOI: 10.1126/SCIENCE.1245625

(-) Compounds

Molecule 1 - BG505 SOSIP GP120
    Chains: A, E, I
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK
    Expression System Common: HUMAN
    Expression System Taxid: 9606
    Fragment: UNP RESIDUES 30-504
    Gene: ENV
    Mutation: YES
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1
    Organism Taxid: 11676
 
Molecule 2 - BG505 SOSIP GP41
    Chains: B, F, J
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK
    Expression System Common: HUMAN
    Expression System Taxid: 9606
    Fragment: SEE REMARK 999
    Gene: ENV
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1
    Organism Taxid: 11676
 
Molecule 3 - PGT122 LIGHT CHAIN
    Chains: C, G, K
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK
    Expression System Common: HUMAN
    Expression System Taxid: 9606
    Fragment: FAB
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 4 - PGT122 HEAVY CHAIN
    Chains: D, H, L
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK
    Expression System Common: HUMAN
    Expression System Taxid: 9606
    Fragment: FAB
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric/Biological Unit : ABCDEFGHIJKL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 378)

Asymmetric/Biological Unit (4, 378)
No.NameCountTypeFull Name
1BMA15Ligand/IonBETA-D-MANNOSE
2MAN72Ligand/IonALPHA-D-MANNOSE
3NAG60Ligand/IonN-ACETYL-D-GLUCOSAMINE
4UNK231Mod. Amino Acid

(-) Sites  (48, 48)

Asymmetric Unit (48, 48)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:87 , ASN A:88BINDING SITE FOR MONO-SACCHARIDE NAG A1088 BOUND TO ASN A 88
02AC2SOFTWAREASN A:137 , ILE A:138 , THR A:139 , TYR D:50 , SER D:54 , GLY D:55 , ASP D:56 , THR D:57 , ASN D:58BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 137 RESIDUES 1131 TO 1137
03AC3SOFTWARETHR A:132 , ASN A:156 , LYS A:171 , TYR A:173 , GLY A:320BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 156 RESIDUES 1151 TO 1157
04AC4SOFTWAREGLN A:130 , ASN A:160 , LYS A:169BINDING SITE FOR MONO-SACCHARIDE NAG A1160 BOUND TO ASN A 160
05AC5SOFTWAREASN A:197BINDING SITE FOR MONO-SACCHARIDE NAG A1197 BOUND TO ASN A 197
06AC6SOFTWAREASN A:234BINDING SITE FOR MONO-SACCHARIDE NAG A1234 BOUND TO ASN A 234
07AC7SOFTWARESER A:209 , GLU A:211 , PRO A:212 , LYS A:252 , VAL A:254 , ASN A:262 , VAL A:446 , NAG A:1448BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 262 RESIDUES 1261 TO 1267
08AC8SOFTWAREASN A:276 , THR A:278 , ASN A:279BINDING SITE FOR MONO-SACCHARIDE NAG A1276 BOUND TO ASN A 276
09AC9SOFTWAREGLN A:293 , ASN A:295 , ASN A:332 , SER A:334 , NAG A:1331BINDING SITE FOR MONO-SACCHARIDE NAG A1295 BOUND TO ASN A 295
10BC1SOFTWAREASN A:301 , THR A:303 , ILE A:323 , PHE C:67CBINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 301 RESIDUES 1301 TO 1307
11BC2SOFTWAREASN A:295 , ASN A:332 , SER A:413 , THR A:415 , NAG A:1295 , MAN C:1340 , GLY D:100C , VAL D:100D , VAL D:100EBINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 332 RESIDUES 1331 TO 1339
12BC3SOFTWAREARG A:350 , ASN A:355BINDING SITE FOR MONO-SACCHARIDE NAG A1355 BOUND TO ASN A 355
13BC4SOFTWAREASN A:363 , ASN A:386 , SER A:388 , NAG A:1392BINDING SITE FOR MONO-SACCHARIDE NAG A1386 BOUND TO ASN A 386
14BC5SOFTWARESER A:388 , ASN A:392 , NAG A:1386BINDING SITE FOR MONO-SACCHARIDE NAG A1392 BOUND TO ASN A 392
15BC6SOFTWAREPRO A:291 , ASN A:448 , NAG A:1261BINDING SITE FOR MONO-SACCHARIDE NAG A1448 BOUND TO ASN A 448
16BC7SOFTWAREMAN A:1337 , ASN C:50 , ARG D:99 , ARG D:100 , ILE D:100A , TYR D:100MBINDING SITE FOR CHAIN C OF POLYSACCHARIDE RESIDUES 1340 TO 1341
17BC8SOFTWAREGLU E:87 , ASN E:88BINDING SITE FOR MONO-SACCHARIDE NAG E1088 BOUND TO ASN E 88
18BC9SOFTWAREASN E:137 , ILE E:138 , THR E:139 , TYR H:50 , SER H:54 , ASP H:56 , THR H:57 , ASN H:58BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 137 RESIDUES 1131 TO 1137
19CC1SOFTWARETHR E:132 , ASN E:156 , LYS E:171 , TYR E:173 , GLY E:320 , ILE E:322BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 156 RESIDUES 1151 TO 1157
20CC2SOFTWAREGLN E:130 , ASN E:160 , LYS E:169BINDING SITE FOR MONO-SACCHARIDE NAG E1160 BOUND TO ASN E 160
21CC3SOFTWAREASN E:197BINDING SITE FOR MONO-SACCHARIDE NAG E1197 BOUND TO ASN E 197
22CC4SOFTWAREASN E:234BINDING SITE FOR MONO-SACCHARIDE NAG E1234 BOUND TO ASN E 234
23CC5SOFTWARESER E:209 , GLU E:211 , PRO E:212 , LYS E:252 , VAL E:254 , ASN E:262 , VAL E:446 , NAG E:1448BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 262 RESIDUES 1261 TO 1267
24CC6SOFTWAREASN E:276 , THR E:278 , ASN E:279BINDING SITE FOR MONO-SACCHARIDE NAG E1276 BOUND TO ASN E 276
25CC7SOFTWAREGLN E:293 , ASN E:295 , ASN E:332 , SER E:334 , NAG E:1331BINDING SITE FOR MONO-SACCHARIDE NAG E1295 BOUND TO ASN E 295
26CC8SOFTWAREASN E:301 , THR E:303 , ILE E:323BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 301 RESIDUES 1301 TO 1307
27CC9SOFTWAREASN E:295 , ASN E:332 , SER E:413 , THR E:415 , NAG E:1295 , MAN G:1340 , GLY H:100CBINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 332 RESIDUES 1331 TO 1339
28DC1SOFTWAREARG E:350 , ASN E:355BINDING SITE FOR MONO-SACCHARIDE NAG E1355 BOUND TO ASN E 355
29DC2SOFTWAREASN E:363 , ASN E:386 , SER E:388 , NAG E:1392BINDING SITE FOR MONO-SACCHARIDE NAG E1386 BOUND TO ASN E 386
30DC3SOFTWARESER E:388 , ASN E:392 , NAG E:1386BINDING SITE FOR MONO-SACCHARIDE NAG E1392 BOUND TO ASN E 392
31DC4SOFTWAREPRO E:291 , ASN E:448 , NAG E:1261BINDING SITE FOR MONO-SACCHARIDE NAG E1448 BOUND TO ASN E 448
32DC5SOFTWAREMAN E:1337 , ASN G:50 , ILE H:100A , TYR H:100MBINDING SITE FOR CHAIN G OF POLYSACCHARIDE RESIDUES 1340 TO 1341
33DC6SOFTWAREGLU I:87 , ASN I:88BINDING SITE FOR MONO-SACCHARIDE NAG I1088 BOUND TO ASN I 88
34DC7SOFTWAREASN I:137 , ILE I:138 , THR I:139 , SER L:54 , ASN L:58BINDING SITE FOR CHAIN I OF SUGAR BOUND TO ASN I 137 RESIDUES 1131 TO 1137
35DC8SOFTWARETHR I:132 , ASN I:156 , TYR I:173 , GLY I:320 , ILE I:322BINDING SITE FOR CHAIN I OF SUGAR BOUND TO ASN I 156 RESIDUES 1151 TO 1157
36DC9SOFTWAREGLN I:130 , ASN I:160 , LYS I:169BINDING SITE FOR MONO-SACCHARIDE NAG I1160 BOUND TO ASN I 160
37EC1SOFTWAREASN I:197BINDING SITE FOR MONO-SACCHARIDE NAG I1197 BOUND TO ASN I 197
38EC2SOFTWAREASN I:234BINDING SITE FOR MONO-SACCHARIDE NAG I1234 BOUND TO ASN I 234
39EC3SOFTWARESER I:209 , GLU I:211 , PRO I:212 , LYS I:252 , VAL I:254 , ASN I:262 , VAL I:446 , NAG I:1448BINDING SITE FOR CHAIN I OF SUGAR BOUND TO ASN I 262 RESIDUES 1261 TO 1267
40EC4SOFTWAREASN I:276 , THR I:278 , ASN I:279BINDING SITE FOR MONO-SACCHARIDE NAG I1276 BOUND TO ASN I 276
41EC5SOFTWAREGLN I:293 , ASN I:295 , ASN I:332 , SER I:334 , SER I:413 , NAG I:1331BINDING SITE FOR MONO-SACCHARIDE NAG I1295 BOUND TO ASN I 295
42EC6SOFTWAREASN I:301 , THR I:303 , ILE I:323BINDING SITE FOR CHAIN I OF SUGAR BOUND TO ASN I 301 RESIDUES 1301 TO 1307
43EC7SOFTWAREASN I:295 , ASN I:332 , SER I:413 , THR I:415 , NAG I:1295 , MAN K:1340 , GLY L:100C , VAL L:100DBINDING SITE FOR CHAIN I OF SUGAR BOUND TO ASN I 332 RESIDUES 1331 TO 1339
44EC8SOFTWAREASN I:355BINDING SITE FOR MONO-SACCHARIDE NAG I1355 BOUND TO ASN I 355
45EC9SOFTWAREASN I:363 , ASN I:386 , SER I:388 , NAG I:1392BINDING SITE FOR MONO-SACCHARIDE NAG I1386 BOUND TO ASN I 386
46FC1SOFTWARESER I:388 , ASN I:392 , NAG I:1386BINDING SITE FOR MONO-SACCHARIDE NAG I1392 BOUND TO ASN I 392
47FC2SOFTWAREPRO I:291 , ASN I:448 , NAG I:1261BINDING SITE FOR MONO-SACCHARIDE NAG I1448 BOUND TO ASN I 448
48FC3SOFTWAREMAN I:1337 , ASN K:50 , ARG L:99 , ARG L:100 , ILE L:100A , TYR L:100MBINDING SITE FOR DI-SACCHARIDE MAN K1340 AND MAN K1341

(-) SS Bonds  (39, 39)

Asymmetric/Biological Unit
No.Residues
1A:54 -A:74
2A:119 -A:205
3A:126 -A:196
4A:131 -A:157
5A:218 -A:247
6A:228 -A:239
7A:296 -A:331
8A:378 -A:445
9A:385 -A:418
10C:23 -C:88
11C:135 -C:194
12D:22 -D:92
13D:138 -D:194
14E:54 -E:74
15E:119 -E:205
16E:126 -E:196
17E:131 -E:157
18E:218 -E:247
19E:228 -E:239
20E:296 -E:331
21E:378 -E:445
22E:385 -E:418
23G:23 -G:88
24G:135 -G:194
25H:22 -H:92
26H:138 -H:194
27I:54 -I:74
28I:119 -I:205
29I:126 -I:196
30I:131 -I:157
31I:218 -I:247
32I:228 -I:239
33I:296 -I:331
34I:378 -I:445
35I:385 -I:418
36K:23 -K:88
37K:135 -K:194
38L:22 -L:92
39L:138 -L:194

(-) Cis Peptide Bonds  (12, 12)

Asymmetric/Biological Unit
No.Residues
1Thr A:123 -Pro A:124
2Tyr C:141 -Pro C:142
3Phe D:144 -Pro D:145
4Glu D:146 -Pro D:147
5Thr E:123 -Pro E:124
6Tyr G:141 -Pro G:142
7Phe H:144 -Pro H:145
8Glu H:146 -Pro H:147
9Thr I:123 -Pro I:124
10Tyr K:141 -Pro K:142
11Phe L:144 -Pro L:145
12Glu L:146 -Pro L:147

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NCO)

(-) Sequences/Alignments

Asymmetric/Biological 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:420
                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eee.....eee........hhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhh............eee.............eeeeeeeee......eeeeeeeee...........ee.............eee....eeeeee.............eeee.........................eeee.........eeee....eeeeeeeeee...eee.......eee..........eeeeeehhhhhhhhhhhhhhhhh......eee.......hhhhhh..ee....eeee........ee.........eeeeeeee.eee......eee......eeeeeeeee..eeeeee.......eeeeee....hhhhhhhhhhhheeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4nco A   44 VWKDAETTLFCASDAKAYETEKHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNNTRKSIRIGPGQAFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFANSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISNTSVNDSITLPCRIKQIINMWQRIGQAMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEP  493
                                    53        63        73        83        93       103       113       123       133      |151       161       171      |193       203       213       223       233       243       253       263       273       283       293       303     ||314       324       334       344       354       364       374       384       394      |413       423       433       443       453       463       473       483       493
                                                                                                                          140|                          178|                                                                                                                   309|                                                                                       401|                                                                                  
                                                                                                                           149                           191                                                                                                                    311                                                                                        411                                                                                  


Chain B from PDB  Type:PROTEIN  Length:77
                                                                                                              
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                4nco B    1 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx  140
                            ||||||||10||||||||20||||||||30|||||||103|||||||113|||||||123|||||||133|||||||
                            1-UNK|||10-UNK|||19-UNK|||28-UNK|||37-UNK||109-UNK||118-UNK||127-UNK||136-UNK
                             2-UNK|||11-UNK|||20-UNK|||29-UNK||101-UNK||110-UNK||119-UNK||128-UNK||137-UNK
                              3-UNK|| 12-UNK|| 21-UNK|| 30-UNK||102-UNK||111-UNK||120-UNK||129-UNK||138-UNK
                               4-UNK|  13-UNK|  22-UNK|  31-UNK| 103-UNK| 112-UNK| 121-UNK| 130-UNK| 139-UNK
                                5-UNK   14-UNK   23-UNK   32-UNK  104-UNK  113-UNK  122-UNK  131-UNK  140-UNK
                                 6-UNK   15-UNK   24-UNK   33-UNK  105-UNK  114-UNK  123-UNK  132-UNK    
                                  7-UNK   16-UNK   25-UNK   34-UNK  106-UNK  115-UNK  124-UNK  133-UNK   
                                   8-UNK   17-UNK   26-UNK   35-UNK  107-UNK  116-UNK  125-UNK  134-UNK  
                                    9-UNK   18-UNK   27-UNK   36-UNK  108-UNK  117-UNK  126-UNK  135-UNK 


Chain C from PDB  Type:PROTEIN  Length:202
                                                                                                                                                                                                                                           
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.....eeeee.......eeeeeeee......eeee.............eee.........eeeee...hhhhheeeeeeeee............eeeee........eeeee..hhhhhhh..eeeeeeee.......eeeeee..ee....eee.......eeeeeeehhhhhhhh..eeeeeee..eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4nco C    8 TFVSVAPGQTARITCGEESLGSRSVIWYQQRPGQAPSLIIYNNNDRPSGIPDRFSGSPGSTFGTTATLTITSVEAGDEADYYCHIWDSRRPTNWVFGEGTTLIVLSQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKYAASSYLSLTPEQWKSHKSYSCQVTHEGSTVEKTVAP  209
                             ||     18        28        38        48        58       67A||      75        85        95|||    102       112       122       132       142       152       162    || 177       187       197       207  
                             9|                                                      67A||                          95A||                                                                     167|                                    
                             11                                                       67B|                           95B|                                                                      173                                    
                                                                                       67C                            95C                                                                                                             


Chain D from PDB  Type:PROTEIN  Length:226
                                                                                                                                                                                                                                                                   
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee.....eeeeeeee..hhhhheeeeeee......eeeeee......ee.hhhh..eeeeee....eeeeee...hhhhheeeeeeeeeeeee..hhhhhhhheeeeeeeee...eeeee........eeeee......eeeeeeeeeee.....eeee.hhh.....ee...ee.....eeeeeeeeee.......eeeeeehhhheeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4nco D    1 QVHLQESGPGLVKPSETLSLTCNVSGTLVRDNYWSWIRQPLGKQPEWIGYVHDSGDTNYNPSLKSRVHLSLDKSKNLVSLRLTGVTAADSAIYYCATTKHGRRIYGVVAFKEWFTYFYMDVWGKGTSVTVSSASTKGPSVFPLAPSSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSGTQTYICNVNHKPSNTKVDKRVEP  211
                                    10        20        30        40        50        60        70        80  |||   87        97   |||100G||||||100Q|      109       119      |133       143       153       163       173       183 ||    195       205      
                                                                                                            82A||               100A|||||100J||||||||                       126|                                                   185|                       
                                                                                                             82B|                100B|||||100K|||||||                        131                                                    188                       
                                                                                                              82C                 100C|||||100L||||||                                                                                                         
                                                                                                                                   100D|||||100M|||||                                                                                                         
                                                                                                                                    100E|||| 100N||||                                                                                                         
                                                                                                                                     100F|||  100O|||                                                                                                         
                                                                                                                                      100G||   100P||                                                                                                         
                                                                                                                                       100H|    100Q|                                                                                                         
                                                                                                                                        100I     100R                                                                                                         


Chain E from PDB  Type:PROTEIN  Length:420
                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eee.....eee........hhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhh............eee.............eeeeeeeee......eeeeeeeee...........ee.............eee....eeeeee.............eeee.........................eeee.........eeee....eeeeeeeeee...eee.......eee..........eeeeeehhhhhhhhhhhhhhhhh......eee.......hhhhhh..ee....eeee........ee.........eeeeeeee.eee......eee......eeeeeeeee..eeeeee.......eeeeee....hhhhhhhhhhhheeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4nco E   44 VWKDAETTLFCASDAKAYETEKHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNNTRKSIRIGPGQAFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFANSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISNTSVNDSITLPCRIKQIINMWQRIGQAMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEP  493
                                    53        63        73        83        93       103       113       123       133      |151       161       171      |193       203       213       223       233       243       253       263       273       283       293       303     ||314       324       334       344       354       364       374       384       394      |413       423       433       443       453       463       473       483       493
                                                                                                                          140|                          178|                                                                                                                   309|                                                                                       401|                                                                                  
                                                                                                                           149                           191                                                                                                                    311                                                                                        411                                                                                  


Chain F from PDB  Type:PROTEIN  Length:77
                                                                                                              
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                4nco F    1 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx  140
                            ||||||||10||||||||20||||||||30|||||||103|||||||113|||||||123|||||||133|||||||
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Chain G from PDB  Type:PROTEIN  Length:202
                                                                                                                                                                                                                                           
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.....eeeee.......eeeeeeee......eeee.............eee.........eeeee...hhhhheeeeeeeee............eeeee........eeeee..hhhhhhh..eeeeeeee.......eeeeee..ee....eee.......eeeeeeehhhhhhhh..eeeeeee..eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4nco G    8 TFVSVAPGQTARITCGEESLGSRSVIWYQQRPGQAPSLIIYNNNDRPSGIPDRFSGSPGSTFGTTATLTITSVEAGDEADYYCHIWDSRRPTNWVFGEGTTLIVLSQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKYAASSYLSLTPEQWKSHKSYSCQVTHEGSTVEKTVAP  209
                             ||     18        28        38        48        58       67A||      75        85        95|||    102       112       122       132       142       152       162    || 177       187       197       207  
                             9|                                                      67A||                          95A||                                                                     167|                                    
                             11                                                       67B|                           95B|                                                                      173                                    
                                                                                       67C                            95C                                                                                                             


Chain H from PDB  Type:PROTEIN  Length:226
                                                                                                                                                                                                                                                                   
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee.....eeeeeeee..hhhhheeeeeee......eeeeee......ee.hhhh..eeeeee....eeeeee...hhhhheeeeeeeeeeeee..hhhhhhhheeeeeeeee...eeeee........eeeee......eeeeeeeeeee.....eeee.hhh.....ee...ee.....eeeeeeeeee.......eeeeeehhhheeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4nco H    1 QVHLQESGPGLVKPSETLSLTCNVSGTLVRDNYWSWIRQPLGKQPEWIGYVHDSGDTNYNPSLKSRVHLSLDKSKNLVSLRLTGVTAADSAIYYCATTKHGRRIYGVVAFKEWFTYFYMDVWGKGTSVTVSSASTKGPSVFPLAPSSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSGTQTYICNVNHKPSNTKVDKRVEP  211
                                    10        20        30        40        50        60        70        80  |||   87        97   |||100G||||||100Q|      109       119      |133       143       153       163       173       183 ||    195       205      
                                                                                                            82A||               100A|||||100J||||||||                       126|                                                   185|                       
                                                                                                             82B|                100B|||||100K|||||||                        131                                                    188                       
                                                                                                              82C                 100C|||||100L||||||                                                                                                         
                                                                                                                                   100D|||||100M|||||                                                                                                         
                                                                                                                                    100E|||| 100N||||                                                                                                         
                                                                                                                                     100F|||  100O|||                                                                                                         
                                                                                                                                      100G||   100P||                                                                                                         
                                                                                                                                       100H|    100Q|                                                                                                         
                                                                                                                                        100I     100R                                                                                                         


Chain I from PDB  Type:PROTEIN  Length:420
                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eee.....eee........hhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhh............eee.............eeeeeeeee......eeeeeeeee...........ee.............eee....eeeeee.............eeee.........................eeee.........eeee....eeeeeeeeee...eee.......eee..........eeeeeehhhhhhhhhhhhhhhhh......eee.......hhhhhh..ee....eeee........ee.........eeeeeeee.eee......eee......eeeeeeeee..eeeeee.......eeeeee....hhhhhhhhhhhheeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4nco I   44 VWKDAETTLFCASDAKAYETEKHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNNTRKSIRIGPGQAFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFANSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISNTSVNDSITLPCRIKQIINMWQRIGQAMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEP  493
                                    53        63        73        83        93       103       113       123       133      |151       161       171      |193       203       213       223       233       243       253       263       273       283       293       303     ||314       324       334       344       354       364       374       384       394      |413       423       433       443       453       463       473       483       493
                                                                                                                          140|                          178|                                                                                                                   309|                                                                                       401|                                                                                  
                                                                                                                           149                           191                                                                                                                    311                                                                                        411                                                                                  


Chain J from PDB  Type:PROTEIN  Length:77
                                                                                                              
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                4nco J    1 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx  140
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Chain K from PDB  Type:PROTEIN  Length:202
                                                                                                                                                                                                                                           
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.....eeeee.......eeeeeeee......eeee.............eee.........eeeee...hhhhheeeeeeeee............eeeee........eeeee..hhhhhhh..eeeeeeee.......eeeeee..ee....eee.......eeeeeeehhhhhhhh..eeeeeee..eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4nco K    8 TFVSVAPGQTARITCGEESLGSRSVIWYQQRPGQAPSLIIYNNNDRPSGIPDRFSGSPGSTFGTTATLTITSVEAGDEADYYCHIWDSRRPTNWVFGEGTTLIVLSQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKYAASSYLSLTPEQWKSHKSYSCQVTHEGSTVEKTVAP  209
                             ||     18        28        38        48        58       67A||      75        85        95|||    102       112       122       132       142       152       162    || 177       187       197       207  
                             9|                                                      67A||                          95A||                                                                     167|                                    
                             11                                                       67B|                           95B|                                                                      173                                    
                                                                                       67C                            95C                                                                                                             


Chain L from PDB  Type:PROTEIN  Length:226
                                                                                                                                                                                                                                                                   
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee.....eeeeeeee..hhhhheeeeeee......eeeeee......ee.hhhh..eeeeee....eeeeee...hhhhheeeeeeeeeeeee..hhhhhhhheeeeeeeee...eeeee........eeeee......eeeeeeeeeee.....eeee.hhh.....ee...ee.....eeeeeeeeee.......eeeeeehhhheeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4nco L    1 QVHLQESGPGLVKPSETLSLTCNVSGTLVRDNYWSWIRQPLGKQPEWIGYVHDSGDTNYNPSLKSRVHLSLDKSKNLVSLRLTGVTAADSAIYYCATTKHGRRIYGVVAFKEWFTYFYMDVWGKGTSVTVSSASTKGPSVFPLAPSSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSGTQTYICNVNHKPSNTKVDKRVEP  211
                                    10        20        30        40        50        60        70        80  |||   87        97   |||100G||||||100Q|      109       119      |133       143       153       163       173       183 ||    195       205      
                                                                                                            82A||               100A|||||100J||||||||                       126|                                                   185|                       
                                                                                                             82B|                100B|||||100K|||||||                        131                                                    188                       
                                                                                                              82C                 100C|||||100L||||||                                                                                                         
                                                                                                                                   100D|||||100M|||||                                                                                                         
                                                                                                                                    100E|||| 100N||||                                                                                                         
                                                                                                                                     100F|||  100O|||                                                                                                         
                                                                                                                                      100G||   100P||                                                                                                         
                                                                                                                                       100H|    100Q|                                                                                                         
                                                                                                                                        100I     100R
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

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 Related Entries

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        Q2N0S6_9HIV1 | Q2N0S6: 5v7j 5v8l 5v8m 5viy 5vj6 5w6d
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        Q2N0S6_9HIV1 | Q2N0S6: 3j5m 4zmj 5aco 5c7k 5cez 5cjx 5d9q 5fyl 5i8h 5js9 5jsa 5t3s 5t3x 5t3z 5thr 5u1f 5utf 5uty

(-) Related Entries Specified in the PDB File

3j5m CRYO-EM STRUCTURE OF THE BG505 SOSIP.664 HIV-1 ENV TRIMER WITH 3 PGV04 FABS
4jy4 PGT121 FAB
4jy5 PGT122 FAB
4jy6 PGT123 FAB