Structure of PDB 1vg0 Chain A Binding Site BS01

Receptor Information
>1vg0 Chain A (length=481) Species: 10116 (Rattus norvegicus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DNLPSDFDVIVIGTGLPESIIAAACSRSGQRVLHVDSRSYYGGNWASFSF
SGLLSWLKEYQMWQEQILENEEAIPLSSKDKTIQHVEVFCYASQRITYSQ
IIKEGRRFNIDLVSKLLYSRGLLIDLLIKSNVSRYAEFKNITRILAFREG
TVEQVPCSRADVFNSKQLTMVEKRMLMKFLTFCVEYEEHPDEYRAYEGTT
FSEYLKTQKLTPNLQYFVLHSIAMETTSCTVDGLKATKKFLQCLGRYGNT
PFLFPLYGQGELPQCFCRMCAVFGGIYCLRHSVQCLVVDKESRKCKAVID
QFGQRIISKHFIIEDSYLSENTCSRVQYRQISRAVLITDGSVLRTDADQQ
VSILTVPAEEPGSFAVRVIELCSSTMTCMKGTYLVHLTCMSSKTAREDLE
RVVQKLFTPYTEIEKPRLLWALYFNMRDSSDISRDCYNDLPSNVYVCSGP
DSGLGNDNAVKQAETLFQQICPNEDFCPAPP
Ligand information
Ligand IDGER
InChIInChI=1S/C20H34/c1-7-18(4)12-9-14-20(6)16-10-15-19(5)13-8-11-17(2)3/h7,11,14-15H,8-10,12-13,16H2,1-6H3/b18-7+,19-15+,20-14+
InChIKeyHSOYJGBJQAKCNA-CAIKYXSQSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04C(=C/CCC(=C/C)/C)(\CC/C=C(/CC/C=C(\C)C)C)C
OpenEye OEToolkits 1.5.0C\C=C(/C)\CC\C=C(/C)\CC\C=C(/C)\CCC=C(C)C
CACTVS 3.341
OpenEye OEToolkits 1.5.0		CC=C(C)CCC=C(C)CCC=C(C)CCC=C(C)C
CACTVS 3.341C\C=C(/C)CC\C=C(/C)CC\C=C(/C)CCC=C(C)C
FormulaC20 H34
NameGERAN-8-YL GERAN
ChEMBL
DrugBank
ZINCZINC000014880577
PDB chain1vg0 Chain A Residue 952 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB1vg0 Structure of the Rab7:REP-1 complex: insights into the mechanism of Rab prenylation and choroideremia disease
Resolution2.2 Å
Binding residue
(original residue number in PDB)		P272 S274 R275 M293 F333
Binding residue
(residue number reindexed from 1)		P156 S158 R159 M177 F217
Annotation score1
Binding affinityMOAD: Kd=0.8nM
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0005092 GDP-dissociation inhibitor activity
GO:0005096 GTPase activator activity
GO:0005515 protein binding
GO:0031267 small GTPase binding
GO:0044877 protein-containing complex binding
Biological Process
GO:0001568 blood vessel development
GO:0006612 protein targeting to membrane
GO:0006886 intracellular protein transport
GO:0007264 small GTPase-mediated signal transduction
GO:0016192 vesicle-mediated transport
GO:0018344 protein geranylgeranylation
Cellular Component
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005968 Rab-protein geranylgeranyltransferase complex

View graph for
Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:1vg0, PDBe:1vg0, PDBj:1vg0
PDBsum1vg0
PubMed15186776
UniProtP37727|RAE1_RAT Rab proteins geranylgeranyltransferase component A 1 (Gene Name=Chm)

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