Structure of PDB 3d81 Chain A Binding Site BS01

Receptor Information

>3d81 Chain A (length=235) Species: 2336 (Thermotoga maritima)

MKMKEFLDLLNESRLTVTLTGAGISTPSGIPDFQNVFDIDFFYSHPEEFY
RFAKEGIFPMLQAKPNLAHVLLAKLEEKGLIEAVITQNIDRLHQRAGSKK
VIELHGNVEEYYCVRCEKKYTVEDVIKKLESSDVPLCDDCNSLIRPNIVF
FGENLPQDALREAIGLSSRASLMIVLGSSLVVYPAAELPLITVRSGGKLV
IVNLGETPFDDIATLKYNMDVVEFARRVMEEGGIS

Ligand information

>3d81 Chain C (length=8)

SRHKKLMF

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3d81 Structural insights into intermediate steps in the Sir2 deacetylation reaction.
• Resolution: 2.5 Å
• Binding residue (original residue number in PDB): G21 A22 G23 T26 D32 F33 Q98 H116 I159 V160 F161 F162 G163 E164 N165 L166 G188 S189 S190 V192 V193 Y194 N214 L215 D231 V232
• Binding residue (residue number reindexed from 1): G21 A22 G23 T26 D32 F33 Q87 H105 I148 V149 F150 F151 G152 E153 N154 L155 G177 S178 S179 V181 V182 Y183 N203 L204 D220 V221

Enzymatic activity

• Catalytic site (original residue number in PDB): P31 D32 F33 N99 D101 H116
• Catalytic site (residue number reindexed from 1): P31 D32 F33 N88 D90 H105
• Enzyme Commision number: 2.3.1.286: protein acetyllysine N-acetyltransferase.

Gene Ontology

Molecular Function

• GO:0008270 zinc ion binding
• GO:0016740 transferase activity
• GO:0017136 NAD-dependent histone deacetylase activity
• GO:0034979 NAD-dependent protein lysine deacetylase activity
• GO:0046872 metal ion binding
• GO:0051287 NAD binding
• GO:0070403 NAD+ binding

Biological Process

• GO:0006338 chromatin remodeling
• GO:0006476 protein deacetylation

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:3d81, PDBe:3d81, PDBj:3d81
• PDBsum: 3d81
• PubMed: 18786399
• UniProt: Q9WYW0|NPD_THEMA NAD-dependent protein deacetylase (Gene Name=cobB)