Structure of PDB 2b7b Chain A Binding Site BS01

Receptor Information
>2b7b Chain A (length=440) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GKEKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGK
GSFKYAWVLDKLKAERERGITIDIALWKFETPKYQVTVIDAPGHRDFIKN
MITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVA
VNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE
ATTNAPWYKGWEKETKAGVVKGKTLLEAIDAIEQPSRPTDKPLRLPLQDV
YKIGGIGTVPVGRVETGVIKPGMVVTFAPAGVTTEVKSVEMHHEQLEQGV
PGDNVGFNVKNVSVKEIRRGNVCGDAKNDPPKGCASFNATVIVLNHPGQI
SAGYSPVLDCHTAHIACRFDELLEKNDRRSGKKLEDHPKFLKSGDAALVK
FVPSKPMCVEAFSEYPPLGRFAVRDMRQTVAVGVIKSVDK
Ligand information
Ligand IDGDP
InChIInChI=1S/C10H15N5O11P2/c11-10-13-7-4(8(18)14-10)12-2-15(7)9-6(17)5(16)3(25-9)1-24-28(22,23)26-27(19,20)21/h2-3,5-6,9,16-17H,1H2,(H,22,23)(H2,19,20,21)(H3,11,13,14,18)/t3-,5-,6-,9-/m1/s1
InChIKeyQGWNDRXFNXRZMB-UUOKFMHZSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
CACTVS 3.385NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
CACTVS 3.385NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 12.01O=P(O)(O)OP(=O)(O)OCC3OC(n2cnc1c2N=C(N)NC1=O)C(O)C3O
OpenEye OEToolkits 1.7.6c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
FormulaC10 H15 N5 O11 P2
NameGUANOSINE-5'-DIPHOSPHATE
ChEMBLCHEMBL384759
DrugBankDB04315
ZINCZINC000008215481
PDB chain2b7b Chain A Residue 0 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB2b7b Mg2+ and a key lysine modulate exchange activity of eukaryotic translation elongation factor 1B alpha
Resolution2.6 Å
Binding residue
(original residue number in PDB)		V16 D17 G19 K20 S21 T22 N153 K154 D156 S192 W194
Binding residue
(residue number reindexed from 1)		V15 D16 G18 K19 S20 T21 N152 K153 D155 S191 W193
Annotation score4
Enzymatic activity
Catalytic site (original residue number in PDB) D17 K20 S21 T72 H95
Catalytic site (residue number reindexed from 1) D16 K19 S20 T71 H94
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003746 translation elongation factor activity
GO:0003779 actin binding
GO:0003924 GTPase activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0019003 GDP binding
GO:0019901 protein kinase binding
GO:0043022 ribosome binding
GO:0051015 actin filament binding
GO:1904408 melatonin binding
Biological Process
GO:0001933 negative regulation of protein phosphorylation
GO:0006409 tRNA export from nucleus
GO:0006412 translation
GO:0006414 translational elongation
GO:0006417 regulation of translation
GO:0006469 negative regulation of protein kinase activity
GO:0034198 cellular response to amino acid starvation
GO:0051017 actin filament bundle assembly
Cellular Component
GO:0000329 fungal-type vacuole membrane
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005829 cytosol
GO:0005840 ribosome
GO:0005853 eukaryotic translation elongation factor 1 complex
GO:0005856 cytoskeleton

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Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:2b7b, PDBe:2b7b, PDBj:2b7b
PDBsum2b7b
PubMed16675455
UniProtP02994|EF1A_YEAST Elongation factor 1-alpha (Gene Name=TEF1)

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