Structure of PDB 7dcy Chain A Binding Site BS01

Receptor Information
>7dcy Chain A (length=644) Species: 243273 (Mycoplasmoides genitalium G37) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
LQGILTLGNKNSGFIRSLDDDKTVYYVHYSNLTGALDGDLVEFCKLDKPQ
FGDKFDAAVITILKRARILYAGNFLVDQNEFALEYKIVADNPRFYLTMIV
NPDSIPNNLASNTKIAFQIDEYDPDNNLCKVSVQQVLGNNDDPLINIKAI
MLDNSIVFETNDVVEQHANKLSFDTEEQHKAYRQDLTDLAFVTVDPTTSK
DLDDAIYVKTIPTGFVLYVAIADVAHYVNRNSEIDIEAKHKTSSIYLPGH
YVVPMLPEQLSNQLCSLNPAQKRYVVVCEISFDNQGRIKTNKLYPATIIS
KNRFSYDQVNKWLNNKSELNCDETVINSLKAAFTLSDLIQAQRQKRGTID
LSHKETEIVVDEHYFPIKINFLVHDKAETMIENLMVVANETVAWVLTNNK
IALPYRVHPRPSKKKLQSLIETVGELNITKPQFNLDTVTSSQIASWLNEN
KDNPSYEIFVILLLRTLGKAFYSVNPLMHFSIGSNHYTHFTSPIRRYIDL
TIHRLLWMHLFTPDQFTDNERDQLKQELEKIADTVNDTEIKIINCERNAN
DYLTTLLLSKQIGKTFSGFISAITSFGIFMRMDENNFDGLIKITTIPDDF
FIFEKEKMVLKGRKTNKVYKIGDRLEAKLSEIDFIQKRAILTLI
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain7dcy Chain A Residue 801 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB7dcy Molecular mechanism of RNase R substrate sensitivity for RNA ribose methylation.
Resolution1.972 Å
Binding residue
(original residue number in PDB)		D276 D285
Binding residue
(residue number reindexed from 1)		D195 D204
Annotation score4
Enzymatic activity
Catalytic site (original residue number in PDB) D276 D282 D284 D285 Y387 R576
Catalytic site (residue number reindexed from 1) D195 D201 D203 D204 Y306 R495
Enzyme Commision number 3.1.13.1: exoribonuclease II.
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0004518 nuclease activity
GO:0004527 exonuclease activity
GO:0004540 RNA nuclease activity
GO:0008859 exoribonuclease II activity
Biological Process
GO:0006402 mRNA catabolic process
GO:0016070 RNA metabolic process
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7dcy, PDBe:7dcy, PDBj:7dcy
PDBsum7dcy
PubMed33788943
UniProtP47350|RNR_MYCGE Ribonuclease R (Gene Name=rnr)

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