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, IMMUNE SYSTEM
Deposited on 2006-10-12, released 2007-03-13
The last revision prior to the SCOPe 2.08 freeze date was dated 2017-10-18, with a file datestamp of 2017-10-13.
Experiment type: XRAY
Resolution: 2.3 Å
R-factor: N/A
AEROSPACI score: 0.25 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: hla class II histocompatibility antigen, dr alpha chain
    Species: Homo sapiens [TaxId:9606]
    Gene: HLA-DRA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2ipka1, d2ipka2
  • Chain 'B':
    Compound: HLA class II histocompatibility antigen, DRB1-1 beta chain
    Species: Homo sapiens [TaxId:9606]
    Gene: HLA-DRB1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: 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: Influenza A virus, synthetic [TaxId:11320]
    Database cross-references and differences (RAF-indexed):
    • PDB 2IPK (Start-12)
  • Chain 'D':
    Compound: Enterotoxin type C-3
    Species: Staphylococcus aureus [TaxId:158878]
    Gene: entC3
    Database cross-references and differences (RAF-indexed):
    • Uniprot P0A0L3 (1-239)
      • engineered (43)
      • engineered (45-47)
    Domains in SCOPe 2.08: 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