PDB entry 3sdd
View 3sdd on RCSB PDB site
Description: Crystal structure of autoreactive-Valpha14-Vbeta6 NKT TCR in complex with CD1d-beta-lactosylceramide
Class: immune system
Keywords: CD1d, autoimmunity, self-recognition, NKT, IMMUNE SYSTEM
Deposited on
2011-06-09, released
2011-10-05
The last revision prior to the SCOPe 2.07 freeze date was dated
2011-10-05, with a file datestamp of
2011-09-30.
Experiment type: XRAY
Resolution: 3 Å
R-factor: 0.261
AEROSPACI score: 0.19
(click here for full SPACI score report)
Chains and heterogens:
- Chain 'A':
Compound: Antigen-presenting glycoprotein CD1d1
Species: Mus musculus [TaxId:10090]
Gene: Cd1.1, Cd1d1
Database cross-references and differences (RAF-indexed):
- Uniprot P11609 (Start-278)
- see remark 999 (200)
- expression tag (279-294)
Domains in SCOPe 2.07: d3sdda1, d3sdda2, d3sdda3 - Chain 'B':
Compound: Beta-2-microglobulin
Species: Mus musculus [TaxId:10090]
Gene: B2M
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.07: d3sddb_ - Chain 'C':
Compound: NKT TCR Valpha14 chain
Species: Mus musculus , Homo sapiens [TaxId:10090, 9606]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.07: d3sddc1, d3sddc2 - Chain 'D':
Compound: NKT TCR autoreactive-Vbeta6 chain
Species: Mus musculus , Homo sapiens [TaxId:10090, 9606]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.07: d3sddd1, d3sddd2 - Heterogens: NAG, 3GD, HOH
PDB Chain Sequences:
- Chain 'A':
Sequence, based on SEQRES records: (download)
>3sddA (A:)
seaqqknytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsn
qqweklqhmfqvyrvsftrdiqelvkmmspkedypieiqlsagcemypgnasesflhvaf
qgkyvvrfwgtswqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagk
sdlekqekpvawlssvpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpn
adetwylqatldveageeaglacrvkhsslggqdiilywgslhhildaqkmvwnhrhhhh
hh
Sequence, based on observed residues (ATOM records): (download)
>3sddA (A:)
knytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsnqqwek
lqhmfqvyrvsftrdiqelvkmmspkedypieiqlsagcemypgnasesflhvafqgkyv
vrfwgtswqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagksdlek
qekpvawlssvpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpnadetw
ylqatldveageeaglacrvkhsslggqdiilywgslhhildaqkmvwnh
- Chain 'B':
Sequence; same for both SEQRES and ATOM records: (download)
>3sddB (B:)
iqktpqiqvysrhppengkpnilncyvtqfhpphieiqmlkngkkipkvemsdmsfskdw
sfyilahteftptetdtyacrvkhasmaepktvywdrdm
- Chain 'C':
Sequence, based on SEQRES records: (download)
>3sddC (C:)
tqveqspqslvvrqgensvlqcnysvtpdnhlrwfkqdtgkglvsltvlvdqkdktsngr
ysatldkdakhstlhitatllddtatyicvvgdrgsalgrlhfgagtqlivipdiqnpdp
avyqlrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsn
ksdfacanafnnsiipedtffpspess
Sequence, based on observed residues (ATOM records): (download)
>3sddC (C:)
tqveqspqslvvrqgensvlqcnysvtpdnhlrwfkqdtgkglvsltvlvdqkdktsngr
ysatldkdakhstlhitatllddtatyicvvgdrgsalgrlhfgagtqlivipdiqnpdp
avyqlrdsksclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawscanafn
nsiipedtf
- Chain 'D':
Sequence, based on SEQRES records: (download)
>3sddD (D:)
hmggiitqtpkfligqegqkltlkcqqnfnhdtmywyrqdsgkglrliyysygagstekg
dlsegydasrekkssfsltvtsaqknemavflcasgslldvrevffgkgtrltvvedlkn
vfppevavfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplke
qpalndsryalssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsaea
wgrad
Sequence, based on observed residues (ATOM records): (download)
>3sddD (D:)
ggiitqtpkfligqegqkltlkcqqnfnhdtmywyrqdsgkglrliyysygagstekgdl
segydasrekkssfsltvtsaqknemavflcasgslldvrevffgkgtrltvvedlknvf
ppevavfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeqp
alndsryalssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsaea