PDB entry 2ipk
View 2ipk on RCSB PDB site
Description: Crystal Structure of the MHC Class II Molecule HLA-DR1 in Complex with the Fluorogenic Peptide, AcPKXVKQNTLKLAT (X=3-[5-(dimethylamino)-1,3-dioxo-1,3-dihydro-2H-isoindol-2-yl]-L-alanine) and the Superantigen, SEC3 Variant 3B2
Class: immune system
Keywords: HLA, DR1, MHC, Major Histocompatibility Complex, Fluorogenic Probe, SEC3, 4-(N,N-dimethylamino)phthalimidoalanyl, DAPA
Deposited on
2006-10-12, released
2007-03-13
The last revision prior to the SCOP 1.73 freeze date was dated
2007-04-03, with a file datestamp of
2007-06-28.
Experiment type: XRAY
Resolution: 2.3 Å
R-factor: 0.203
AEROSPACI score: 0.37
(click here for full SPACI score report)
Chains and heterogens:
- Chain 'A':
Compound: hla class II histocompatibility antigen, dr alpha chain
Species: HOMO SAPIENS
Gene: HLA-DRA
Database cross-references and differences (RAF-indexed):
Domains in SCOP 1.73: d2ipka1, d2ipka2 - Chain 'B':
Compound: HLA class II histocompatibility antigen, DRB1-1 beta chain
Species: HOMO SAPIENS
Gene: HLA-DRB1
Database cross-references and differences (RAF-indexed):
Domains in SCOP 1.73: d2ipkb1, d2ipkb2 - Chain 'C':
Compound: HA related Fluorogenic Peptide, AcPKXVKQNTLKLAT (X=3-[5-(dimethylamino)-1,3-dioxo-1,3-dihydro-2H-isoindol-2-yl]-L-alanine)
Species: synthetic, synthetic
- Chain 'D':
Compound: Enterotoxin type C-3
Species: Staphylococcus aureus
Gene: entC3
Database cross-references and differences (RAF-indexed):
- Uniprot P0A0L3 (1-239)
- engineered (43)
- engineered (45-47)
Domains in SCOP 1.73: d2ipkd1, d2ipkd2 - Heterogens: HOH
PDB Chain Sequences:
- Chain 'A':
Sequence, based on SEQRES records: (download)
>2ipkA (A:)
mikeehviiqaefylnpdqsgefmfdfdgdeifhvdmakketvwrleefgrfasfeaqga
laniavdkanleimtkrsnytpitnvppevtvltnspvelrepnvlicfidkftppvvnv
twlrngkpvttgvsetvflpredhlfrkfhylpflpstedvydcrvehwgldepllkhwe
fda
Sequence, based on observed residues (ATOM records): (download)
>2ipkA (A:)
eehviiqaefylnpdqsgefmfdfdgdeifhvdmakketvwrleefgrfasfeaqgalan
iavdkanleimtkrsnytpitnvppevtvltnspvelrepnvlicfidkftppvvnvtwl
rngkpvttgvsetvflpredhlfrkfhylpflpstedvydcrvehwgldepllkhwefd
- Chain 'B':
Sequence; same for both SEQRES and ATOM records: (download)
>2ipkB (B:)
gdtrprflwqlkfechffngtervrllerciynqeesvrfdsdvgeyravtelgrpdaey
wnsqkdlleqrraavdtycrhnygvgesftvqrrvepkvtvypsktqplqhhnllvcsvs
gfypgsievrwfrngqeekagvvstgliqngdwtfqtlvmletvprsgevytcqvehpsv
tspltvewra
- Chain 'C':
No sequence available.
- Chain 'D':
Sequence, based on SEQRES records: (download)
>2ipkD (D:)
mesqpdpmpddlhksseftgtmgnmkylyddhyvsatkvksvdsffkwdliynisdkklk
nydkvktellnedlakkykdevvdvygsnyyvncyfsskdnvgkvtggktcmyggitkhe
gnhfdngnlqnvlvrvyenkrntisfevqtdkksvtaqeldikarnflinkknlyefnss
pyetgyikfienngntfwydmmpapgdkfdqskylmmyndnktvdsksvkievhlttkng
Sequence, based on observed residues (ATOM records): (download)
>2ipkD (D:)
esqpdpmpddlhksseftgtmgnmkylyddhyvsatkvksvdsffkwdliynisdkklkn
ydkvktellnedlakkykdevvdvygsnyyvncyfsskggktcmyggitkhegnhfdngn
lqnvlvrvyenkrntisfevqtdkksvtaqeldikarnflinkknlyefnsspyetgyik
fienngntfwydmmpapgdkfdqskylmmyndnktvdsksvkievhlttkng