Structure of PDB 4cym Chain B Binding Site BS01

Receptor Information
>4cym Chain B (length=175) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EHLFKVLVIGELGVGKTSIIKRYVHQLFSQHYRATIGVDFALKVLNWDSR
TLVRLQLWDIAGLERFGNMTRVYYKEAVGAFVVFDISRSSTFEAVLKWKS
DLDSKVHLPNGSPIPAVLLANKCDQNKDSSQSPSQVDQFCKEHGFAGWFE
TSAKDNINIEEAARFLVEKILVNHQ
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 chain4cym Chain B Residue 1199 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB4cym Varp is Recruited on to Endosomes by Direct Interaction with Retromer, Where Together They Function in Export to the Cell Surface.
Resolution2.8 Å
Binding residue
(original residue number in PDB)		T39 T57
Binding residue
(residue number reindexed from 1)		T17 T35
Annotation score1
Enzymatic activity
Enzyme Commision number 3.6.5.2: small monomeric GTPase.
Gene Ontology
Molecular Function
GO:0003924 GTPase activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0030742 GTP-dependent protein binding
GO:0035612 AP-2 adaptor complex binding
GO:0035650 AP-1 adaptor complex binding
GO:0035651 AP-3 adaptor complex binding
GO:0036461 BLOC-2 complex binding
Biological Process
GO:0006886 intracellular protein transport
GO:0007005 mitochondrion organization
GO:0016192 vesicle-mediated transport
GO:0019882 antigen processing and presentation
GO:0032438 melanosome organization
GO:0035646 endosome to melanosome transport
GO:0072657 protein localization to membrane
GO:0090382 phagosome maturation
GO:1903232 melanosome assembly
Cellular Component
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005741 mitochondrial outer membrane
GO:0005769 early endosome
GO:0005783 endoplasmic reticulum
GO:0005794 Golgi apparatus
GO:0005802 trans-Golgi network
GO:0005829 cytosol
GO:0012505 endomembrane system
GO:0016020 membrane
GO:0030670 phagocytic vesicle membrane
GO:0031410 cytoplasmic vesicle
GO:0031905 early endosome lumen
GO:0031982 vesicle
GO:0033162 melanosome membrane
GO:0042470 melanosome
GO:0043231 intracellular membrane-bounded organelle
GO:0044233 mitochondria-associated endoplasmic reticulum membrane contact site
GO:0045335 phagocytic vesicle

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:4cym, PDBe:4cym, PDBj:4cym
PDBsum4cym
PubMed24856514
UniProtQ13637|RAB32_HUMAN Ras-related protein Rab-32 (Gene Name=RAB32)

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