Structure of PDB 1yc5 Chain A Binding Site BS01

Receptor Information

>1yc5 Chain A (length=234) Species: 2336 (Thermotoga maritima)

MKMKEFLDLLNESRLTVTLTGAGISTPSGIPDFQNVFDIDFFYSHPEEFY
RFAKEGIFPMLQAKPNLAHVLLAKLEEKGLIEAVITQNIDRLHQRAGSKK
VIELHGNVEEYYCVRCEKKYTVEDVIKKLESSDVPLCDDCNSLIRPNIVF
FGENLPQDALREAIGLSSRASLMIVLGSSLVVYPAAELPLITVRSGGKLV
IVNLGETPFDDIATLKYNMDVVEFARRVMEEGGI

Ligand information

>1yc5 Chain B (length=13) Species: 9606 (Homo sapiens)

KGQSTSRHKKLMF

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1yc5 Mechanism of sirtuin inhibition by nicotinamide: altering the NAD(+) cosubstrate specificity of a Sir2 enzyme.
• Resolution: 1.4 Å
• Binding residue (original residue number in PDB): H116 V160 F162 G163 E164 N165 L166 V192 V193 Y194 P195
• Binding residue (residue number reindexed from 1): H105 V149 F151 G152 E153 N154 L155 V181 V182 Y183 P184

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:1yc5, PDBe:1yc5, PDBj:1yc5
• PDBsum: 1yc5
• PubMed: 15780941
• UniProt: Q9WYW0|NPD_THEMA NAD-dependent protein deacetylase (Gene Name=cobB)