Structure of PDB 7odt Chain t Binding Site BS02

Receptor Information
>7odt Chain t (length=316) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KRYFVDYRRVLVCGGNGGAGASCFHSEPRKEFGGPDGGDGGNGGHVILRV
DQQVKSLSSVLSRYQGFSGEDGGSKNCFGRSGAVLYIRVPVGTLVKEGGR
VVADLSCVGDEYIAALGGAGGKGNRFFLANNNRAPVTCTPGQPGQQRVLH
LELKTVAHAGMVGFPNAGKSSLLRAISNKPHVGIVHYEGHLQIAVADIPG
GLGSAFLRHIERCRFLLFVVDLSQPEPWTQVDDLKYELEMYEKGLSARPH
AIVANKIDLPEAQANLSQLRDHLGQEVIVLSALTGENLEQLLLHLKVLYD
AYAEAELGQGRQPLRW
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 chain7odt Chain t 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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PDB7odt Stepwise maturation of the peptidyl transferase region of human mitoribosomes.
Resolution3.1 Å
Binding residue
(original residue number in PDB)		P233 N234 G236 K237 S238 S239 N345 K346 D348 S371 A372 L373
Binding residue
(residue number reindexed from 1)		P165 N166 G168 K169 S170 S171 N255 K256 D258 S281 A282 L283
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0003924 GTPase activity
GO:0005525 GTP binding
GO:0046872 metal ion binding
Biological Process
GO:0006417 regulation of translation
GO:0042254 ribosome biogenesis
GO:0044065 regulation of respiratory system process
GO:0070129 regulation of mitochondrial translation
Cellular Component
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005759 mitochondrial matrix
GO:0005761 mitochondrial ribosome

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7odt, PDBe:7odt, PDBj:7odt
PDBsum7odt
PubMed34135320
UniProtQ9H4K7|MTG2_HUMAN Mitochondrial ribosome-associated GTPase 2 (Gene Name=MTG2)

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