PDB entry 3he6
View 3he6 on RCSB PDB site
Description: Crystal structure of mouse CD1d-alpha-galactosylceramide with mouse Valpha14-Vbeta8.2 NKT TCR
Class: immune system
Keywords: mouse CD1d, mouse NKT T-cell receptors, Cell membrane, Disulfide bond, Endosome, Glycoprotein, Immune response, Immunoglobulin domain, Innate immunity, Lysosome, Membrane, Transmembrane, MHC I, IMMUNE SYSTEM
Deposited on
2009-05-07, released
2009-07-28
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: 2.9 Å
R-factor: N/A
AEROSPACI score: 0.21
(click here for full SPACI score report)
Chains and heterogens:
- Chain 'A':
Compound: Antigen-presenting glycoprotein CD1d1
Species: Mus musculus [TaxId:10090]
Gene: Cd1d1, Cd1.1
Database cross-references and differences (RAF-indexed):
- Uniprot P11609 (Start-278)
- conflict (200)
- expression tag (279)
- expression tag (281-298)
Domains in SCOPe 2.08: d3he6a1, d3he6a2, d3he6a3 - Chain 'B':
Compound: Beta-2-microglobulin
Species: Mus musculus [TaxId:10090]
Gene: B2M
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d3he6b_ - Chain 'C':
Compound: Valpha14(mouse variable domain, human constant domain)
Species: Mus musculus [TaxId:10090]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d3he6c1, d3he6c2 - Chain 'D':
Compound: Vbeta8.2(mouse variable domain, human constant domain)
Species: Mus musculus [TaxId:10090]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d3he6d1, d3he6d2 - Heterogens: NAG, AGH, HOH
PDB Chain Sequences:
- Chain 'A':
Sequence, based on SEQRES records: (download)
>3he6A (A:)
seaqqknytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsn
qqweklqhmfqvyrvsftrdiqelvkmmspkedypieiqlsagcemypgnasesflhvaf
qgkyvvrfwgtswqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagk
sdlekqekpvawlssvpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpn
adetwylqatldveageeaglacrvkhsslggqdiilywgslhhildaqkmvwnhrhhhh
hh
Sequence, based on observed residues (ATOM records): (download)
>3he6A (A:)
ytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsnqqweklq
hmfqvyrvsftrdiqelvkmmsypieiqlsagcemypgasesflhvafqgkyvvrfwgts
wqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagksdlekqekpvaw
lssvpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpnadetwylqatld
veageeaglacrvkhsslggqdiilywglhhildaqkmvwnhrhhh
- Chain 'B':
Sequence; same for both SEQRES and ATOM records: (download)
>3he6B (B:)
iqktpqiqvysrhppengkpnilncyvtqfhpphieiqmlkngkkipkvemsdmsfskdw
sfyilahteftptetdtyacrvkhasmaepktvywdrdm
- Chain 'C':
Sequence, based on SEQRES records: (download)
>3he6C (C:)
tqveqspqslvvrqgensvlqcnysvtpdnhlrwfkqdtgkglvsltvlvdqkdktsngr
ysatldkdakhstlhitatllddtatyicvvgdrgsalgrlhfgagtqlivipdiqnpdp
avyqlrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsn
ksdfacanafnnsiipedtffpspess
Sequence, based on observed residues (ATOM records): (download)
>3he6C (C:)
tqveqspqslvvrqgensvlqcnysvtpdnhlrwfkqdtgkglvsltvlvdqkdktsngr
ysatldkdakhstlhitatllddtatyicvvgdrgsalgrlhfgagtqlivipdiqnpdp
avyqlrdsksksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsnks
dfacanafnnsiipedtffpspe
- Chain 'D':
Sequence, based on SEQRES records: (download)
>3he6D (D:)
eaavtqsprnkvavtggkvtlscnqtnnhnnmywyrqdtghglrlihysygagstekgdi
pdgykasrpsqenfslilelatpsqtsvyfcasgdaggnyaeqffgpgtrltvledlknv
fppevavfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeq
palndsryalssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsaeaw
grad
Sequence, based on observed residues (ATOM records): (download)
>3he6D (D:)
avtqsprnkvavtggkvtlscnqtnnhnnmywyrqdtghglrlihysygagstekgdipd
gykasrpsqenfslilelatpsqtsvyfcasgdaqffgpgtrltvledlknvfppevavf
epseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeqpalndsry
alssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsaeawgrad