Structure of PDB 7a5g Chain X6 Binding Site BS02

Receptor Information
>7a5g Chain X6 (length=316) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TNENDPAKHGDQHEGQHYNISPQDLETVFPHGLPPRFVMQVKTFSEACLM
VRKPALELLHYLKNTSFAYPAIRYLLYGEKGTGKTLSLCHVIHFCAKQDW
LILHIPDAHLWVKNCRDLRFDQPLEASTWLKNFKTTNSPLGEVVEQGITR
VRNATDAVGIVLKELKRQSSLGMFHLLVAVDGINALWGRTTLKREDKSPI
APEELALVHNLRKMMKNDWHGGAIVSALSQTGSLFKPRKAYLPQELLGKE
GFDALDPFIPILVSNYNPKEFESCIQYYLENNWLQHEKAPTEEGKKELLF
LSNANPSLLERHCAYL
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 chain7a5g Chain X6 Residue 500 [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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PDB7a5g Elongational stalling activates mitoribosome-associated quality control.
Resolution4.33 Å
Binding residue
(original residue number in PDB)		L99 M100 K130 G133 K134 T135 L136 P388 E392
Binding residue
(residue number reindexed from 1)		L49 M50 K80 G83 K84 T85 L86 P306 E310
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0005525 GTP binding
Biological Process
GO:0006915 apoptotic process
GO:0032543 mitochondrial translation
GO:0097190 apoptotic signaling pathway
Cellular Component
GO:0005654 nucleoplasm
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005761 mitochondrial ribosome
GO:0005763 mitochondrial small ribosomal subunit
GO:0005840 ribosome
GO:0015935 small ribosomal subunit
GO:1990904 ribonucleoprotein complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7a5g, PDBe:7a5g, PDBj:7a5g
PDBsum7a5g
PubMed33243891
UniProtP51398|RT29_HUMAN Small ribosomal subunit protein mS29 (Gene Name=DAP3)

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