PDB entry 3vwj
View 3vwj on RCSB PDB site
Description: Ternary crystal structure of the human NKT TCR-CD1d-C20:2 complex
Class: immune system
Keywords: cd1d, nkt t cell receptor, alpha-galactosylceramide, protein receptor complex, cell membrane, disulfide bond, endosome, glycoprotein, host-virus interaction, immune response, immunoglobulin domain, innate immunity, lysosome, membrane, transmembrane, disease mutation, glycation, MHC I, pyrrolidone carboxylic acid, secreted, immune system
Deposited on
2012-08-24, released
2012-10-03
The last revision prior to the SCOPe 2.08 freeze date was dated
2020-07-29, with a file datestamp of
2020-07-04.
Experiment type: XRAY
Resolution: 3.09 Å
R-factor: N/A
AEROSPACI score: 0.17
(click here for full SPACI score report)
Chains and heterogens:
- Chain 'A':
Compound: Antigen-presenting glycoprotein CD1d
Species: Homo sapiens [TaxId:9606]
Gene: CD1D
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d3vwja1, d3vwja2, d3vwja3 - Chain 'B':
Compound: Beta-2-microglobulin
Species: Homo sapiens [TaxId:9606]
Gene: B2M, CDABP0092, HDCMA22P
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d3vwjb_ - Chain 'C':
Compound: NKT15 T cell receptor alpha-chain
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d3vwjc1, d3vwjc2 - Chain 'D':
Compound: NKT15 T cell receptor beta-chain
Species: Homo sapiens [TaxId:9606]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d3vwjd1, d3vwjd2 - Heterogens: NAG, DB3, MG, HOH
PDB Chain Sequences:
- Chain 'A':
Sequence, based on SEQRES records: (download)
>3vwjA (A:)
spgvpqrlfplrclqissfansswtrtdglawlgelqthswsndsdtvrslkpwsqgtfs
dqqwetlqhifrvyrssftrdvkefakmlrlsyplelqvsagcevhpgnasnnffhvafq
gkdilsfqgtsweptqeaplwvnlaiqvlnqdkwtretvqwllngtcpqfvsgllesgks
elkkqvkpkawlsrgpspgpgrlllvchvsgfypkpvwvkwmrgeqeqqgtqpgdilpna
detwylratldvvageaaglscrvkhsslegqdivlywhhhhhh
Sequence, based on observed residues (ATOM records): (download)
>3vwjA (A:)
fplrclqissfansswtrtdglawlgelqthswsndsdtvrslkpwsqgtfsdqqwetlq
hifrvyrssftrdvkefakmlrlsyplelqvsagcevsnnffhvafqgkdilsfqgtswe
ptqeaplwvnlaiqvlnqdkwtretvqwllngtcpqfvsgllesgkselkkqvkpkawls
rgpspgrlllvchvsgfypkpvwvkwmeqqgtqpgdilpnadetwylratldvscrvkhs
slegqdivlywh
- Chain 'B':
Sequence, based on SEQRES records: (download)
>3vwjB (B:)
iqrtpkiqvysrhpaengksnflncyvsgfhpsdievdllkngeriekvehsdlsfskdw
sfyllyyteftptekdeyacrvnhvtlsqpkivkwdrdm
Sequence, based on observed residues (ATOM records): (download)
>3vwjB (B:)
iqrtpkiqvysrhpaengksnflncyvsgfhpsdievdllkngeriekvehsdlsfskdw
sfyllyyteftptekdeyacrvnhvtlsqpkivkwdr
- Chain 'C':
Sequence, based on SEQRES records: (download)
>3vwjC (C:)
mknqveqspqsliilegknctlqcnytvspfsnlrwykqdtgrgpvsltimtfsentksn
grytatldadtkqsslhitasqlsdsasyicvvsdrgstlgrlyfgrgtqltvwpdiqnp
dpavyqlrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavaw
snksdfacanafnnsiipedtffpspess
Sequence, based on observed residues (ATOM records): (download)
>3vwjC (C:)
nqveqspqsliilegknctlqcnytvspfsnlrwykqdtgrgpvsltimtfsentksngr
ytatldadtkqsslhitasqlsdsasyicvvsdrgstlgrlyfgrgtqltvwpdinpdpa
vyqlrdssvclftdfdsqtnvsqsksdvyitdkcvldmrsmdfksnsavawsdfacanaf
nnsiipedtffps
- Chain 'D':
Sequence, based on SEQRES records: (download)
>3vwjD (D:)
meadiyqtprylvigtgkkitlecsqtmghdkmywyqqdpgmelhlihysygvnstekgd
lssestvsrirtehfpltlesarpshtsqylcassglrdrglyeqyfgpgtrltvtedlk
nvfppevavfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplk
eqpalndsryalssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsae
awgrad
Sequence, based on observed residues (ATOM records): (download)
>3vwjD (D:)
diyqtprylvigtgkkitlecsqtmghdkmywyqqdpgmelhlihysygvnstekgdlss
estvsrirtehfpltlesarpshtsqylcassglrdrglyeqyfgpgtrltvtedlknvf
ppevavfepseaeishtqkatlvclatgfypdhvelswwvnkevhsgvctdpqplkeqpa
lndsryalssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsaeawgr
a