PDB entry 3ngb
View 3ngb on RCSB PDB site
Description: Crystal structure of broadly and potently neutralizing antibody VRC01 in complex with HIV-1 gp120
Class: viral protein/immune system
Keywords: HIV, gp120, antibody, VRC01, neutralization, vaccine, envelope glycoprotein, VIRAL PROTEIN-IMMUNE SYSTEM complex
Deposited on
2010-06-11, released
2010-07-07
The last revision prior to the SCOPe 2.07 freeze date was dated
2017-08-23, with a file datestamp of
2017-08-18.
Experiment type: XRAY
Resolution: 2.68 Å
R-factor: N/A
AEROSPACI score: 0.18
(click here for full SPACI score report)
Chains and heterogens:
- Chain 'A':
Compound: envelope glycoprotein gp160
Species: Human immunodeficiency virus 1 [TaxId:11676]
Gene: Env, pol
Database cross-references and differences (RAF-indexed):
- Chain 'B':
Compound: Antigen binding fragment of heavy chain: Antibody VRC01
Species: Homo sapiens [TaxId:9606]
Gene: Heavy chain
Database cross-references and differences (RAF-indexed):
- Chain 'C':
Compound: Antigen binding fragment of light chain: Antibody VRC01
Species: Homo sapiens [TaxId:9606]
Gene: Light chain
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.07: d3ngbc1, d3ngbc2 - Chain 'D':
Compound: envelope glycoprotein gp160
Species: Human immunodeficiency virus 1 [TaxId:11676]
Gene: Env, pol
Database cross-references and differences (RAF-indexed):
- Chain 'E':
Compound: Antigen binding fragment of heavy chain: Antibody VRC01
Species: Homo sapiens [TaxId:9606]
Gene: Heavy chain
Database cross-references and differences (RAF-indexed):
- Chain 'F':
Compound: Antigen binding fragment of light chain: Antibody VRC01
Species: Homo sapiens [TaxId:9606]
Gene: Light chain
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.07: d3ngbf1, d3ngbf2 - Chain 'G':
Compound: envelope glycoprotein gp160
Species: Human immunodeficiency virus 1 [TaxId:11676]
Gene: Env, pol
Database cross-references and differences (RAF-indexed):
- Chain 'H':
Compound: Antigen binding fragment of heavy chain: Antibody VRC01
Species: Homo sapiens [TaxId:9606]
Gene: Heavy chain
Database cross-references and differences (RAF-indexed):
- Chain 'I':
Compound: envelope glycoprotein gp160
Species: Human immunodeficiency virus 1 [TaxId:11676]
Gene: Env, pol
Database cross-references and differences (RAF-indexed):
- Uniprot Q0ED31 (0-79)
- Uniprot Q0ED31 (82-184)
- linker (190)
- linker (185)
- Uniprot Q0ED31 (191-352)
- Chain 'J':
Compound: Antigen binding fragment of heavy chain: Antibody VRC01
Species: Homo sapiens [TaxId:9606]
Gene: Heavy chain
Database cross-references and differences (RAF-indexed):
- Chain 'K':
Compound: Antigen binding fragment of light chain: Antibody VRC01
Species: Homo sapiens [TaxId:9606]
Gene: Light chain
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.07: d3ngbk1, d3ngbk2 - Chain 'L':
Compound: Antigen binding fragment of light chain: Antibody VRC01
Species: Homo sapiens [TaxId:9606]
Gene: Light chain
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.07: d3ngbl1, d3ngbl2 - Heterogens: NAG, BGC, BMA, MAN, TRS, HOH
PDB Chain Sequences:
- Chain 'A':
No sequence available.
- Chain 'B':
No sequence available.
- Chain 'C':
Sequence; same for both SEQRES and ATOM records: (download)
>3ngbC (C:)
eivltqspgtlslspgetaiiscrtsqygslawyqqrpgqaprlviysgstraagipdrf
sgsrwgpdynltisnlesgdfgvyycqqyeffgqgtkvqvdikrtvaapsvfifppsdeq
lksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstltlska
dyekhkvyacevthqglrspvtksfnrgec
- Chain 'D':
No sequence available.
- Chain 'E':
No sequence available.
- Chain 'F':
Sequence, based on SEQRES records: (download)
>3ngbF (F:)
eivltqspgtlslspgetaiiscrtsqygslawyqqrpgqaprlviysgstraagipdrf
sgsrwgpdynltisnlesgdfgvyycqqyeffgqgtkvqvdikrtvaapsvfifppsdeq
lksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstltlska
dyekhkvyacevthqglrspvtksfnrgec
Sequence, based on observed residues (ATOM records): (download)
>3ngbF (F:)
vltqspgtlslspgetaiiscrtsqygslawyqqrpgqaprlviysgstraagipdrfsg
srwgpdynltisnlesgdfgvyycqqyeffgqgtkvqvdikrtvaapsvfifppsdeqlk
sgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstltlskady
ekhkvyacevthqglrspvtksfnrgec
- Chain 'G':
No sequence available.
- Chain 'H':
No sequence available.
- Chain 'I':
No sequence available.
- Chain 'J':
No sequence available.
- Chain 'K':
Sequence; same for both SEQRES and ATOM records: (download)
>3ngbK (K:)
eivltqspgtlslspgetaiiscrtsqygslawyqqrpgqaprlviysgstraagipdrf
sgsrwgpdynltisnlesgdfgvyycqqyeffgqgtkvqvdikrtvaapsvfifppsdeq
lksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstltlska
dyekhkvyacevthqglrspvtksfnrgec
- Chain 'L':
Sequence, based on SEQRES records: (download)
>3ngbL (L:)
eivltqspgtlslspgetaiiscrtsqygslawyqqrpgqaprlviysgstraagipdrf
sgsrwgpdynltisnlesgdfgvyycqqyeffgqgtkvqvdikrtvaapsvfifppsdeq
lksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstltlska
dyekhkvyacevthqglrspvtksfnrgec
Sequence, based on observed residues (ATOM records): (download)
>3ngbL (L:)
vltqspgtlslspgetaiiscrtsqygslawyqqrpgqaprlviysgstraagipdrfsg
srwgpdynltisnlesgdfgvyycqqyeffgqgtkvqvdikrtvaapsvfifppsdeqlk
sgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstltlskady
ekhkvyacevthqglrspvtksfnrgec