PDB entry 2v5w

View 2v5w on RCSB PDB site
Description: Crystal structure of HDAC8-substrate complex
Class: hydrolase/hydrolase substrate
Keywords: histone deacetylase, chromatin regulator, p53, hdac, hdac8, nucleus, repressor, hydrolase, nuclear protein, peptidic substrate, transcription regulation, chromatin, transcription, deacetylation, hydrolase-hydrolase substrate complex
Deposited on 2007-07-10, released 2007-09-04
The last revision prior to the SCOPe 2.07 freeze date was dated 2016-12-21, with a file datestamp of 2016-12-16.
Experiment type: XRAY
Resolution: 2 Å
R-factor: N/A
AEROSPACI score: 0.31 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Histone deacetylase 8
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q9BY41 (Start-376)
      • engineered mutation (305)
    • PDB 2V5W
    Domains in SCOPe 2.07: d2v5wa_
  • Chain 'B':
    Compound: Histone deacetylase 8
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q9BY41
      • engineered mutation (305)
    • PDB 2V5W
    Domains in SCOPe 2.07: d2v5wb_
  • Chain 'G':
    Compound: glycyl-glycyl-glycine
    Species: synthetic construct, synthetic [TaxId:32630]
    Database cross-references and differences (RAF-indexed):
    • PDB 2V5W (0-2)
  • Chain 'I':
    Compound: peptidic substrate
    Species: synthetic construct, synthetic [TaxId:32630]
    Database cross-references and differences (RAF-indexed):
    • PDB 2V5W (Start-3)
  • Chain 'L':
    Compound: peptidic substrate
    Species: synthetic construct, synthetic [TaxId:32630]
    Database cross-references and differences (RAF-indexed):
    • PDB 2V5W (Start-3)
  • Heterogens: K, ZN, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >2v5wA (A:)
meepeepadsgqslvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpk
vasmeematfhtdaylqhlqkvsqegdddhpdsieyglgydcpategifdyaaaiggati
taaqclidgmckvainwsggwhhakkdeasgfcylndavlgilrlrrkferilyvdldlh
hgdgvedafsftskvmtvslhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdeky
yqicesvlkevyqafnpkavvlqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatli
lggggfnlantarcwtyltgvilgktlsseipdhefftaygpdyvleitpscrpdrneph
riqqilnyikgnlkhvviegrshhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >2v5wA (A:)
vpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpkvasmeematfhtda
ylqhlqkvsqegdddhpdsieyglgydcpategifdyaaaiggatitaaqclidgmckva
inwsggwhhakkdeasgfcylndavlgilrlrrkferilyvdldlhhgdgvedafsftsk
vmtvslhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdekyyqicesvlkevyqa
fnpkavvlqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatlilggggfnlantarc
wtyltgvilgktlsseipdhefftaygpdyvleitpscrpdrnephriqqilnyikgnlk
hvv

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >2v5wB (B:)
meepeepadsgqslvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpk
vasmeematfhtdaylqhlqkvsqegdddhpdsieyglgydcpategifdyaaaiggati
taaqclidgmckvainwsggwhhakkdeasgfcylndavlgilrlrrkferilyvdldlh
hgdgvedafsftskvmtvslhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdeky
yqicesvlkevyqafnpkavvlqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatli
lggggfnlantarcwtyltgvilgktlsseipdhefftaygpdyvleitpscrpdrneph
riqqilnyikgnlkhvviegrshhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >2v5wB (B:)
sgqslvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpkvasmeemat
fhtdaylqhlqkvsqegdddhpdsieyglgydcpategifdyaaaiggatitaaqclidg
mckvainwsggwhhakkdeasgfcylndavlgilrlrrkferilyvdldlhhgdgvedaf
sftskvmtvslhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdekyyqicesvlk
evyqafnpkavvlqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatlilggggfnla
ntarcwtyltgvilgktlsseipdhefftaygpdyvleitpscrpdrnephriqqilnyi
kgnlkhv

  • Chain 'G':
    No sequence available.

  • Chain 'I':
    No sequence available.

  • Chain 'L':
    No sequence available.