Structure of PDB 7o9k Chain t Binding Site BS02

Receptor Information
>7o9k Chain t (length=381) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KPHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERAR
GITINAAHVEYSTAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAAN
DGPMPQTREHLLLARQIGVEHVVVYVNKADEMVELVELEIRELLTEFGYK
GEETPVIVGSALCALEGRDPELGLKSVQKLLDAVDTYIPVPARDLEKPFL
LPVEAVYSVPGRGTVVTGTLERGILKKGDECELLGHSKNIRTVVTGIEMF
HKSLERAEAGDNLGALVRGLKREDLRRGLVMVKPGSIKPHQKVEAQVYIL
SKEEGGRHKPFVSHFMPVMFSLTWDMACRIILPPEKELAMPGEDLKFNLI
LRQPMILEKGQRFTLRDGNRTIGTGLVTNTL
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 chain7o9k Chain t Residue 501 [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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PDB7o9k Structural basis for late maturation steps of the human mitoribosomal large subunit.
Resolution3.1 Å
Binding residue
(original residue number in PDB)		V66 D67 G69 K70 T71 T72 K182 S219 A220 L221
Binding residue
(residue number reindexed from 1)		V12 D13 G15 K16 T17 T18 K128 S160 A161 L162
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003746 translation elongation factor activity
GO:0003924 GTPase activity
GO:0005515 protein binding
GO:0005525 GTP binding
Biological Process
GO:0006412 translation
GO:0006414 translational elongation
GO:0045471 response to ethanol
GO:0070125 mitochondrial translational elongation
Cellular Component
GO:0005739 mitochondrion
GO:0005741 mitochondrial outer membrane
GO:0016020 membrane
GO:0042645 mitochondrial nucleoid
GO:0045202 synapse
GO:0070062 extracellular exosome

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:7o9k, PDBe:7o9k, PDBj:7o9k
PDBsum7o9k
PubMed34135318
UniProtP49411|EFTU_HUMAN Elongation factor Tu, mitochondrial (Gene Name=TUFM)

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