PDB entry 5vi6

View 5vi6 on RCSB PDB site
Description: Crystal structure of histone deacetylase 8 in complex with trapoxin A
Class: hydrolase/hydrolase inhibitor
Keywords: HDAC, epigenetics, natural product inhibitor, HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR complex
Deposited on 2017-04-14, released 2017-09-06
The last revision prior to the SCOPe 2.07 freeze date was dated 2017-09-27, with a file datestamp of 2017-09-22.
Experiment type: XRAY
Resolution: 1.24 Å
R-factor: N/A
AEROSPACI score: 0.62 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Histone deacetylase 8
    Species: Homo sapiens [TaxId:9606]
    Gene: HDAC8, HDACL1, CDA07
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5vi6a_
  • Chain 'B':
    Compound: Trapoxin A
    Species: Helicoma ambiens, synthetic [TaxId:314151]
    Database cross-references and differences (RAF-indexed):
    • PDB 5VI6 (0-3)
  • Heterogens: ZN, K, EDO, DIO, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >5vi6A (A:)
snadsgqslvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpkvasme
ematfhtdaylqhlqkvsqegdddhpdsieyglgydcpategifdyaaaiggatitaaqc
lidgmckvainwsggwhhakkdeasgfcylndavlgilrlrrkferilyvdldlhhgdgv
edafsftskvmtvslhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdekyyqice
svlkevyqafnpkavvlqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatlilgggg
ynlantarcwtyltgvilgktlsseipdhefftaygpdyvleitpscrpdrnephriqqi
lnyikgnlkhvv

    Sequence, based on observed residues (ATOM records): (download) 
    >5vi6A (A:)
lvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpkvasmeematfhtd
aylqhlqkvsqegeyglgydcpategifdyaaaiggatitaaqclidgmckvainwsggw
hhakkdeasgfcylndavlgilrlrrkferilyvdldlhhgdgvedafsftskvmtvslh
kfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdekyyqicesvlkevyqafnpkavv
lqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatlilggggynlantarcwtyltgv
ilgktlsseipdhefftaygpdyvleitpscrpdrnephriqqilnyikgnlk

  • Chain 'B':
    No sequence available.