Structure of PDB 5dy5 Chain A

Receptor sequence
>5dy5A (length=300) Species: 9606 (Homo sapiens) [Search protein sequence]
GHMERLLDELTLEGVARYMQSERCRRVICLVGAGISTSAGIPDFRSPSTG
LYDNLEKYHLPYPEAIFEISYFKKHPEPFFALAKELYPGQFKPTICHYFM
RLLKDKGLLLRCYTQNIDTLERIAGLEQEDLVEAHGTFYTSHCVSASCRH
EYPLSWMKEKIFSEVTPKCEDCQSLVKPDIVFFGESLPARFFSCMQSDFL
KVDLLLVMGTSLQVQPFASLISKAPLSTPRLLINKEKAGQSGMIMGLGGG
MDFDSKKAYRDVAWLGECDQGCLALAELLGWKKELEDLVRREHASIDAQS
3D structure
PDB5dy5 Structure-Based Development of an Affinity Probe for Sirtuin 2.
ChainA
Resolution1.95 Å
3D
structure
Catalytic site residues are labeled in the structure
[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]
Enzymatic activity
Catalytic site (original residue number in PDB) P94 D95 F96 R97 N168 D170 H187
Catalytic site (residue number reindexed from 1) P42 D43 F44 R45 N116 D118 H135
Enzyme Commision number 2.3.1.-
2.3.1.286: protein acetyllysine N-acetyltransferase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 ZN A C195 C200 C221 C224 C143 C148 C169 C172
BS02 5GR A I93 F96 R97 F119 F131 A135 L138 Y139 P140 F143 D170 H187 F190 I232 V233 F234 F235 I41 F44 R45 F67 F79 A83 L86 Y87 P88 F91 D118 H135 F138 I180 V181 F182 F183 MOAD: ic50=0.163uM
PDBbind-CN: -logKd/Ki=6.79,IC50=0.163uM
BindingDB: IC50=160nM
BS03 BU3 A A85 D95 F96 R97 N168 I169 A33 D43 F44 R45 N116 I117
Gene Ontology
Molecular Function
GO:0017136 NAD-dependent histone deacetylase activity
GO:0051287 NAD binding
GO:0070403 NAD+ binding

View graph for
Molecular Function
External links
PDB RCSB:5dy5, PDBe:5dy5, PDBj:5dy5
PDBsum5dy5
PubMed26748890
UniProtQ8IXJ6|SIR2_HUMAN NAD-dependent protein deacetylase sirtuin-2 (Gene Name=SIRT2)

[Back to BioLiP]