Structure of PDB 1mky Chain A Binding Site BS01

Receptor Information
>1mky Chain A (length=407) Species: 2336 (Thermotoga maritima) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ATVLIVGRPNVGKSTLFNKLVKDPVQDTVEWYGKTFKLVDTCGVFDNPQD
IISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTIL
VANKAENLREFEREVKPELYSLGFGEPIPVSAEHNINLDTMLETIIKKLE
EKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPVDD
EVFIDGRKYVFVDTAGLEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQ
RMAGLMERRGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLI
FTSADKGWNIDRMIDAMNLAYASYTTKVPSSAINSALQKVLAFTNLPRGL
KIFFGVQVDIKPPTFLFFVNSIEKVKNPQKIFLRKLIRDYVFPFEGSPIF
LKFKRSR
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 chain1mky Chain A 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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PDB1mky Domain Arrangement of Der, a Switch Protein Containing Two GTPase Domains
Resolution1.9 Å
Binding residue
(original residue number in PDB)		N190 G192 K193 S194 T195 N300 K301 D303 L304 S335 A336 D337
Binding residue
(residue number reindexed from 1)		N175 G177 K178 S179 T180 N268 K269 D271 L272 S303 A304 D305
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0005525 GTP binding
GO:0043022 ribosome binding
Biological Process
GO:0042254 ribosome biogenesis

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Molecular Function
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Biological Process
External links
PDB RCSB:1mky, PDBe:1mky, PDBj:1mky
PDBsum1mky
PubMed12467572
UniProtQ9X1F8|DER_THEMA GTPase Der (Gene Name=der)

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