Structure of PDB 6gkk Chain A Binding Site BS01

Receptor Information
>6gkk Chain A (length=182) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NPEHYIKHPLQNRWALWFFKNDKSKTWQANLRLISKFDTVEDFWALYNHI
QLSSNLMPGCDYSLFKDGIEPMWEDEKNKRGGRWLITLNKQQRRSDLDRF
WLETLLCLIGESFDDYSDDVCGAVVNVRAKGDKIAIWTTECENRDAVTHI
GRVYKERLGLPPKIVIGYQSHADTATKNRFVV
Ligand information
Ligand IDWZO
InChIInChI=1S/C12H20N5O13P3S/c1-16-4-17(9-6(16)10(19)15-12(13)14-9)11-8(26-2)7(18)5(28-11)3-27-32(23,24)30-33(25,34)29-31(20,21)22/h4-5,7-8,11,18H,3H2,1-2H3,(H6-,13,14,15,19,20,21,22,23,24,25,34)/p+1/t5-,7-,8-,11-,33-/m1/s1
InChIKeyNSORGZXNYGWJBQ-ZRDSBRMSSA-O
SMILES
SoftwareSMILES
CACTVS 3.385CO[CH]1[CH](O)[CH](CO[P](O)(=O)O[P](S)(=O)O[P](O)(O)=O)O[CH]1n2c[n+](C)c3C(=O)NC(=Nc23)N
CACTVS 3.385CO[C@@H]1[C@H](O)[C@@H](CO[P](O)(=O)O[P@@](S)(=O)O[P](O)(O)=O)O[C@H]1n2c[n+](C)c3C(=O)NC(=Nc23)N
OpenEye OEToolkits 2.0.6C[n+]1cn(c2c1C(=O)NC(=N2)N)C3C(C(C(O3)COP(=O)(O)OP(=O)(OP(=O)(O)O)S)O)OC
OpenEye OEToolkits 2.0.6C[n+]1cn(c2c1C(=O)NC(=N2)N)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)O[P@@](=O)(OP(=O)(O)O)S)O)OC
FormulaC12 H21 N5 O13 P3 S
Name[(2~{R},3~{R},4~{R},5~{R})-5-(2-azanyl-7-methyl-6-oxidanylidene-1~{H}-purin-7-ium-9-yl)-4-methoxy-3-oxidanyl-oxolan-2-yl]methyl [phosphonooxy(sulfanyl)phosphoryl] hydrogen phosphate
ChEMBL
DrugBank
ZINC
PDB chain6gkk Chain A Residue 301 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6gkk Translation initiation factor 4E in complex with beta-phosphorothioate trinucleotide mRNA 5' cap diastereomer 1 (m7GppSpApG D1)
Resolution1.858 Å
Binding residue
(original residue number in PDB)
W56 M101 W102 E103 R157 K162
Binding residue
(residue number reindexed from 1)
W27 M72 W73 E74 R128 K133
Annotation score1
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003743 translation initiation factor activity
Biological Process
GO:0006413 translational initiation
Cellular Component
GO:0005737 cytoplasm

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:6gkk, PDBe:6gkk, PDBj:6gkk
PDBsum6gkk
PubMed
UniProtP63073|IF4E_MOUSE Eukaryotic translation initiation factor 4E (Gene Name=Eif4e)

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