Structure of PDB 3ebl Chain C Binding Site BS01

Receptor Information
>3ebl Chain C (length=301) Species: 39947 (Oryza sativa Japonica Group) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VPLHTWVLISNFKLSYNILRRADGTFERDLGEYLDRRVPANARPLEGVSS
FDHIIDQSVGLEVRIYRAFPVIIFFHGGSFVHSSASSTIYDSLCRRFVKL
SKGVVVSVNYRRAPEHRYPCAYDDGWTALKWVMSQPFMRARVFLSGDSSG
GNIAHHVAVRAADEGVKVCGNILLNAMFGGTERTESERRLDGKYFVTLQD
RDWYWKAYLPEDADRDHPACNPFGPNGRRLGGLPFAKSLIIVSGLDLTCD
RQLAYADALREDGHHVKVVQCENATVGFYLLPNTVHYHEVMEEISDFLNA
N
Ligand information
Ligand IDGA4
InChIInChI=1S/C19H24O5/c1-9-7-18-8-10(9)3-4-11(18)19-6-5-12(20)17(2,16(23)24-19)14(19)13(18)15(21)22/h10-14,20H,1,3-8H2,2H3,(H,21,22)/t10-,11-,12+,13-,14-,17-,18+,19-/m1/s1
InChIKeyRSQSQJNRHICNNH-NFMPGMCNSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0C[C@@]12[C@H](CC[C@@]3([C@@H]1[C@@H]([C@]45[C@H]3CC[C@H](C4)C(=C)C5)C(=O)O)OC2=O)O
OpenEye OEToolkits 1.5.0CC12C(CCC3(C1C(C45C3CCC(C4)C(=C)C5)C(=O)O)OC2=O)O
CACTVS 3.341C[C@]12[C@@H](O)CC[C@@]3(OC1=O)[C@@H]4CC[C@@H]5C[C@]4(CC5=C)[C@H]([C@H]23)C(O)=O
CACTVS 3.341C[C]12[CH](O)CC[C]3(OC1=O)[CH]4CC[CH]5C[C]4(CC5=C)[CH]([CH]23)C(O)=O
ACDLabs 10.04O=C(O)C4C21CC(\C(=C)C1)CCC2C35OC(=O)C(C)(C34)C(O)CC5
FormulaC19 H24 O5
NameGIBBERELLIN A4
ChEMBL
DrugBankDB07815
ZINCZINC000004102247
PDB chain3ebl Chain C Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB3ebl Structural basis for gibberellin recognition by its receptor GID1.
Resolution1.9 Å
Binding residue
(original residue number in PDB)		F27 G122 S123 I133 Y134 S198 R251 Y254 V326 G327
Binding residue
(residue number reindexed from 1)		F12 G78 S79 I89 Y90 S148 R201 Y204 V276 G277
Annotation score4
Binding affinityMOAD: Kd=0.5uM
Enzymatic activity
Enzyme Commision number 3.-.-.-
Gene Ontology
Molecular Function
GO:0010331 gibberellin binding
GO:0016787 hydrolase activity
Biological Process
GO:0009739 response to gibberellin
GO:0009740 gibberellic acid mediated signaling pathway
GO:0009939 positive regulation of gibberellic acid mediated signaling pathway
GO:0010325 raffinose family oligosaccharide biosynthetic process
GO:0048444 floral organ morphogenesis
Cellular Component
GO:0005634 nucleus
GO:0005737 cytoplasm

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:3ebl, PDBe:3ebl, PDBj:3ebl
PDBsum3ebl
PubMed19037316
UniProtQ6L545|GID1_ORYSJ Gibberellin receptor GID1 (Gene Name=GID1)

[Back to BioLiP]