Structure of PDB 5cms Chain B

Receptor sequence
>5cmsB (length=173) Species: 562 (Escherichia coli) [Search protein sequence]
KTRIHVVQGDITKLAVDVIVNAANPSLMGGGGVDGAIHRAAGPALLDACL
KVRQQQGDCPTGHAVITLAGDLPAKAVVHTVGPVWRGGEQNEDQLLQDAY
LNSLRLVAANSYTSVAFPAISTGVAGYPRAAAAEIAVKTVSEFITRHALP
EQVYFVCYDEENAHLYERLLTQQ
3D structure
PDB5cms Structural insights into the mechanism of Escherichia coli YmdB: A 2'-O-acetyl-ADP-ribose deacetylase
ChainB
Resolution2.98 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.1.1.106: O-acetyl-ADP-ribose deacetylase.
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 APR B D11 I12 A24 N25 G33 V34 V85 S122 T123 G124 V125 Y159 D10 I11 A23 N24 G32 V33 V84 S121 T122 G123 V124 Y158
Gene Ontology
Molecular Function
GO:0001883 purine nucleoside binding
GO:0008428 ribonuclease inhibitor activity
GO:0016787 hydrolase activity
GO:0019213 deacetylase activity
GO:0019899 enzyme binding
GO:0060698 endoribonuclease inhibitor activity
GO:0061463 O-acetyl-ADP-ribose deacetylase activity
Biological Process
GO:0042278 purine nucleoside metabolic process
GO:0046677 response to antibiotic
GO:0060701 negative regulation of ribonuclease activity
GO:1900231 regulation of single-species biofilm formation on inanimate substrate

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Molecular Function
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Biological Process
External links
PDB RCSB:5cms, PDBe:5cms, PDBj:5cms
PDBsum5cms
PubMed26481419
UniProtP0A8D6|YMDB_ECOLI O-acetyl-ADP-ribose deacetylase (Gene Name=ymdB)

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