PDB entry 5tht

View 5tht on RCSB PDB site
Description: Crystal Structure of G303A HDAC8 in complex with M344
Class: hydrolase
Keywords: Zinc Histone Deacetylase, HYDROLASE
Deposited on 2016-09-30, released 2016-12-21
The last revision prior to the SCOPe 2.08 freeze date was dated 2019-12-25, with a file datestamp of 2019-12-20.
Experiment type: XRAY
Resolution: 2.41 Å
R-factor: N/A
AEROSPACI score: 0.23 (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):
    • Uniprot Q9BY41 (Start-376)
      • engineered mutation (302)
      • expression tag (377-378)
    Domains in SCOPe 2.08: d5thta1, d5thta2
  • Chain 'B':
    Compound: Histone deacetylase 8
    Species: Homo sapiens [TaxId:9606]
    Gene: HDAC8, HDACL1, CDA07
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q9BY41 (Start-376)
      • engineered mutation (302)
      • expression tag (377)
    Domains in SCOPe 2.08: d5thtb1, d5thtb2
  • Chain 'C':
    Compound: Histone deacetylase 8
    Species: Homo sapiens [TaxId:9606]
    Gene: HDAC8, HDACL1, CDA07
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q9BY41 (Start-376)
      • engineered mutation (302)
    Domains in SCOPe 2.08: d5thtc_
  • Chain 'D':
    Compound: Histone deacetylase 8
    Species: Homo sapiens [TaxId:9606]
    Gene: HDAC8, HDACL1, CDA07
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q9BY41 (Start-376)
      • engineered mutation (302)
    Domains in SCOPe 2.08: d5thtd_
  • Heterogens: B3N, ZN, K, EDO, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >5thtA (A:)
meepeepadsgqslvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpk
vasmeematfhtdaylqhlqkvsqegdddhpdsieyglgydcpategifdyaaaiggati
taaqclidgmckvainwsggwhhakkdeasgfcylndavlgilrlrrkferilyvdldlh
hgdgvedafsftskvmtvslhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdeky
yqicesvlkevyqafnpkavvlqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatli
lgaggynlantarcwtyltgvilgktlsseipdhefftaygpdyvleitpscrpdrneph
riqqilnyikgnlkhvviegrgshhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >5thtA (A:)
lvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpkvasmeematfhtd
aylqhlqkvsqhpdsieyglgydcpategifdyaaaiggatitaaqclidgmckvainws
ggwhhakkdeasgfcylndavlgilrlrrkferilyvdldlhhgdgvedafsftskvmtv
slhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdekyyqicesvlkevyqafnpk
avvlqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatlilgaggynlantarcwtyl
tgvilgktlsseipdhefftaygpdyvleitpscrpdrnephriqqilnyikgnlkhvvi
e

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5thtB (B:)
meepeepadsgqslvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpk
vasmeematfhtdaylqhlqkvsqegdddhpdsieyglgydcpategifdyaaaiggati
taaqclidgmckvainwsggwhhakkdeasgfcylndavlgilrlrrkferilyvdldlh
hgdgvedafsftskvmtvslhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdeky
yqicesvlkevyqafnpkavvlqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatli
lgaggynlantarcwtyltgvilgktlsseipdhefftaygpdyvleitpscrpdrneph
riqqilnyikgnlkhvviegrgshhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >5thtB (B:)
vpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpkvasmeematfhtda
ylqhlqkvsqdhpdsieyglgydcpategifdyaaaiggatitaaqclidgmckvainws
ggwhhakkdeasgfcylndavlgilrlrrkferilyvdldlhhgdgvedafsftskvmtv
slhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdekyyqicesvlkevyqafnpk
avvlqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatlilgaggynlantarcwtyl
tgvilgktlsseipdhefftaygpdyvleitpscrpdrnephriqqilnyikgnlkhvvi

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >5thtC (C:)
meepeepadsgqslvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpk
vasmeematfhtdaylqhlqkvsqegdddhpdsieyglgydcpategifdyaaaiggati
taaqclidgmckvainwsggwhhakkdeasgfcylndavlgilrlrrkferilyvdldlh
hgdgvedafsftskvmtvslhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdeky
yqicesvlkevyqafnpkavvlqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatli
lgaggynlantarcwtyltgvilgktlsseipdhefftaygpdyvleitpscrpdrneph
riqqilnyikgnlkhvviegrgshhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >5thtC (C:)
lvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpkvasmeematfhtd
aylqhlqkvsqeeygldcpategifdyaaaiggatitaaqclidgmckvainwsggwhha
kkdeasgfcylndavlgilrlrrkferilyvdldlhhgdgvedafsftskvmtvslhkfs
pgffpgtgdvsdvglgkgryysvnvpiqdgiqdekyyqicesvlkevyqafnpkavvlql
gadtiagdpmcsfnmtpvgigkclkyilqwqlatlilgaggynlantarcwtyltgvilg
ktlsseipdhefftaygpdyvleitpscrpdrnephriqqilnyikgnlkhvv

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >5thtD (D:)
meepeepadsgqslvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpk
vasmeematfhtdaylqhlqkvsqegdddhpdsieyglgydcpategifdyaaaiggati
taaqclidgmckvainwsggwhhakkdeasgfcylndavlgilrlrrkferilyvdldlh
hgdgvedafsftskvmtvslhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdeky
yqicesvlkevyqafnpkavvlqlgadtiagdpmcsfnmtpvgigkclkyilqwqlatli
lgaggynlantarcwtyltgvilgktlsseipdhefftaygpdyvleitpscrpdrneph
riqqilnyikgnlkhvviegrgshhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >5thtD (D:)
lvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpkvasmeematfhtd
aylqhlqkvsqcpategifdyaaaiggatitaaqclidgmckvainwsggwhhakkdeas
gfcylndavlgilrlrrkferilyvdldlhhgdgvedafsftskvmtvslhkfspgffpg
tgdvsdvglgkgryysvnvpiqdgiqdekyyqicesvlkevyqafnpkavvlqlgadtia
gdpmcsfnmtpvgigkclkyilqwqlatlilgaggynlantarcwtyltgvilgktlsse
ipdhefftaygpdyvleitpscrpdrnephriqqilnyikgnlkhvv