Structure of PDB 5jn5 Chain B Binding Site BS01

Receptor Information
>5jn5 Chain B (length=556) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VKIVTVKTQAYQDQKPGTSGLRKRVKVFQSSANYAENFIQSIISTVEPAQ
RQEATLVVGGDGRFYMKEAIQLIARIAAANGIGRLVIGQNGILSTPAVSC
IIRKIKAIGGIILTASHNPGGPNGDFGIKFNISNGGPAPEAITDKIFQIS
KTIEEYAVCPDLKVDLGVLGKQQFDLENKFKPFTVEIVDSVEAYATMLRS
IFDFSALKELLSGPNRLKIRIDAMHGVVGPYVKKILCEELGAPANSAVNC
VPLEDFGGHHPYPNLTYAADLVETMKSGEHDFGAAFDGDGDRNMILGKHG
FFVNPSDSVAVIAANIFSIPYFQQTGVRGFARSMPTSGALDRVASATKIA
LYETPTGWKFFGNLMDASKLSLCGEESFGTGSDHIREKDGLWAVLAWLSI
LATRKQSVEDILKDHWQKYGRNFFTRYDYEEVEAEGANKMMKDLEALMFD
RSFVGKQFSANDKVYTVEKADNFEYSDPVDGSISRNQGLRLIFTDGSRIV
FRLSGATIRLYIDSYEKDVAKINQDPQVMLAPLISIALKVSQLQERTGRT
APTVIT
Ligand information
Ligand IDCA
InChIInChI=1S/Ca/q+2
InChIKeyBHPQYMZQTOCNFJ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Ca++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Ca+2]
FormulaCa
NameCALCIUM ION
ChEMBL
DrugBankDB14577
ZINC
PDB chain5jn5 Chain B Residue 604 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5jn5 Asp263 missense variants perturb the active site of human phosphoglucomutase 1.
Resolution1.75 Å
Binding residue
(original residue number in PDB)		S117 D288 D290 D292
Binding residue
(residue number reindexed from 1)		S116 D287 D289 D291
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) R23 S117 H118 K130 D288 D290 D292 R293 G380 K389
Catalytic site (residue number reindexed from 1) R22 S116 H117 K129 D287 D289 D291 R292 G379 K388
Enzyme Commision number 5.4.2.2: phosphoglucomutase (alpha-D-glucose-1,6-bisphosphate-dependent).
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0004614 phosphoglucomutase activity
GO:0005515 protein binding
GO:0016853 isomerase activity
GO:0016868 intramolecular phosphotransferase activity
GO:0046872 metal ion binding
Biological Process
GO:0005975 carbohydrate metabolic process
GO:0006006 glucose metabolic process
GO:0006094 gluconeogenesis
GO:0006096 glycolytic process
GO:0033499 galactose catabolic process via UDP-galactose
Cellular Component
GO:0005576 extracellular region
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0070062 extracellular exosome
GO:1904724 tertiary granule lumen
GO:1904813 ficolin-1-rich granule lumen

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Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5jn5, PDBe:5jn5, PDBj:5jn5
PDBsum5jn5
PubMed28117557
UniProtP36871|PGM1_HUMAN Phosphoglucomutase-1 (Gene Name=PGM1)

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