Structure of PDB 7ld5 Chain B Binding Site BS04

Receptor Information
>7ld5 Chain B (length=587) Species: 1772 (Mycolicibacterium smegmatis) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DGVYESTAVIDNGSFGTRTIRFETGRLAQQAAGSAVAYLDDETMLLSATT
ASKNPKDHFDFFPLTVDVEERMYAAGRIPGSFFRREGRPSTDAILTCRLI
DRPLRPSFVDGLRNEIQVVVTVMSLDPKDLYDVLAINAASMSTQLAGLPF
SGPVGGARIALIDGTWVAFPTVEQLERAVFDMVVAGRIVGDGDSADVAIM
MVEAEATENVVELVAGGAQAPTEAVVAEGLEAAKPFIKALCAAQQELADR
AAKPAGEYPVFPDYEADVYDAVASVATEALAEALTIAGKTERNDRTDEIK
VEVLERLAEPYAGREKEIGAAFRSLTKKLVRQRILTDHFRIDGRGITDIR
ALSAEVAVIPRAHGSALFERGETQILGVTTLDMIKMAQQIDSLGPENTKR
YMHHYNFPPYSTGETGRVGSPKRREIGHGALAERALVPVLPSIEEFPYAI
RQVSEALGSNGSTSMGSVCASTLALLNAGVPLKAPVAGIAMGLVSDDVDV
DGKVEKRYVALTDILGAEDAFGDMDFKVAGTKDFVTALQLDTKLDGIPSQ
VLAGALSQAKDARLTILDVMAEAIDRPDEMSPYAPRI
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 chain7ld5 Chain B Residue 802 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB7ld5 Structure and mechanism of Mycobacterium smegmatis polynucleotide phosphorylase.
Resolution3.07 Å
Binding residue
(original residue number in PDB)		D532 Q546
Binding residue
(residue number reindexed from 1)		D525 Q539
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.8: polyribonucleotide nucleotidyltransferase.
Gene Ontology
Molecular Function
GO:0000175 3'-5'-RNA exonuclease activity
GO:0000287 magnesium ion binding
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0004654 polyribonucleotide nucleotidyltransferase activity
GO:0016779 nucleotidyltransferase activity
GO:0046872 metal ion binding
Biological Process
GO:0006396 RNA processing
GO:0006401 RNA catabolic process
GO:0006402 mRNA catabolic 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:7ld5, PDBe:7ld5, PDBj:7ld5
PDBsum7ld5
PubMed34088850
UniProtA0QVQ5|PNP_MYCS2 Polyribonucleotide nucleotidyltransferase (Gene Name=pnp)

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