Structure of PDB 1szd Chain A

Receptor sequence

>1szdA (length=291) Species: 4932 (Saccharomyces cerevisiae)

MASMSVSTASTEMSVRKIAAHMKSNPNAKVIFMVGAGISTSCGIPDFRSP
GTGLYHNLARLKLPYPEAVFDVDFFQSDPLPFYTLAKELYPGNFRPSKFH
YLLKLFQDKDVLKRVYTQNIDTLERQAGVKDDLIIEAHGSFAHCHCIGCG
KVYPPQVFKSKLAEHPIKDFVKCDVCGELVKPAIVFFGEDLPDSFSETWL
NDSEWLREKITTQQPLVIVVGTSLAVYPFASLPEEIPRKVKRVLCNLETV
GDFKANKRPTDLIVHQYSDEFAEQLVEELGWQEDFEKILTA

3D structure

• PDB: 1szd Structural basis for nicotinamide cleavage and ADP-ribose transfer by NAD(+)-dependent Sir2 histone/protein deacetylases.
• Chain: A
• Resolution: 1.5 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): P42 D43 F44 R45 N116 D118 H135
• Catalytic site (residue number reindexed from 1): P45 D46 F47 R48 N119 D121 H138
• Enzyme Commision number: 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	peptide	A	E64 H135 V182 F184 G185 E186 D187 D190 S193 A227 V228 Y229 P230	E67 H138 V185 F187 G188 E189 D190 D193 S196 A225 V226 Y227 P228
BS02	ZN	A	C143 C146 C170 C173	C146 C149 C173 C176
BS03	APR	A	G32 A33 G34 F44 R45 E64 Q115 F184 G223 T224 S225 V228 N248 L249 Y269 S270	G35 A36 G37 F47 R48 E67 Q118 F187 G221 T222 S223 V226 N246 L247 Y267 S268	MOAD: Kd=29.16uM PDBbind-CN: -logKd/Ki=4.54,Kd=29.16uM

Gene Ontology

Molecular Function

• GO:0017136 NAD-dependent histone deacetylase activity
• GO:0051287 NAD binding
• GO:0070403 NAD+ binding

External links

• PDB: RCSB:1szd, PDBe:1szd, PDBj:1szd
• PDBsum: 1szd
• PubMed: 15150415
• UniProt: P53686|HST2_YEAST NAD-dependent protein deacetylase HST2 (Gene Name=HST2)