Structure of PDB 5tr2 Chain B Binding Site BS01

Receptor Information
>5tr2 Chain B (length=552) 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
IFDFSALKELLSRLKIRIDAMHGVVGPYVKKILCEELGAPANSAVNCVPL
EDFGGHHPGPNYAADLVETMKSGEHDFGAAFDGDGDRNMILGKHGFFVNP
SDSVAVIAANIFSIPYFQQTGVRGFARSMPTSGALDRVASATKIALYETP
TGWKFFGNLMDASKLSLCGEESFGTGSDHIREKDGLWAVLAWLSILATRK
QSVEDILKDHWQKYGRNFFTRYDYEEVEAEGANKMMKDLEALMFDRSFVG
KQFSANDKVYTVEKADNFEYSDPVDGSISRNQGLRLIFTDGSRIVFRLSA
GATIRLYIDSYEKDVAKINQDPQVMLAPLISIALKVSQLQERTGRTAPTV
IT
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 chain5tr2 Chain B Residue 602 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5tr2 Asp263 missense variants perturb the active site of human phosphoglucomutase 1.
Resolution2.5 Å
Binding residue
(original residue number in PDB)		S117 D288 D290 D292
Binding residue
(residue number reindexed from 1)		S116 D282 D284 D286
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 D282 D284 D286 R287 G374 K383
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
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5tr2, PDBe:5tr2, PDBj:5tr2
PDBsum5tr2
PubMed28117557
UniProtP36871|PGM1_HUMAN Phosphoglucomutase-1 (Gene Name=PGM1)

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