Structure of PDB 8bsi Chain a Binding Site BS04

Receptor Information
>8bsi Chain a (length=815) Species: 5741 (Giardia intestinalis) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
HFTTEQIRECMDHQDRIRNMSVIAHVDHGKSTLTDSLIAHAGGNTRFTDT
RQSGGYLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCAEGVCVQTETV
LRQALSERVIPCLMLNKVDRVIMELKLSGEDAFLMFEKTIGEVNQLIATY
QDKTLFNEKKYKFGNRTDLCVDPSRGNVAFGSGLHGWGFTVTHFARIYTK
KFGGELSTWMKNLWGNRFLNEKTGKWTGKSQGDNGEKNQRGFAIYVMDPI
LQLFDAVMTEQKKKYTKMLKQLNVTLTPDEEDMTGKRLLKAVMQKFLPAA
DALLEMIIVHLPSPKKAQQYRVDTLYTGPLDDPAAEAIRNCDPNGPLMLY
VSKMVPTVDKSRFFAFGRVFSGVVQTGQKVHIMGPEYHPGTSKKDELFIK
NIQRTILMMGSRIEQIDDVPCGNTVGLVGIDQYLVKSGTISTYEQAHSIK
PMKFSVSPVVRVAVEPANPKDLPKLLEGMKRLDKSDPCVMCICDKDENQN
IIAGAGELHLEICLKDLREDFCGGMDIRVSDPVVSYRETVTEKSTKVVMA
KSANKHNRLYFEAEPISEEVIEAIKDGEITSEQDSKVRARILTDKYGWDS
DEAKQIWSFGPVGASSGHMTNLILEATKGVQYVKESKEHIVSGFQIVCRN
GVLAGEELVGTCFKLRDATFHADAIHRGAGQLTPATRRGLYAYASPMLME
PFYLVDILAPEGCMGGIYSTMSKRRGVVISEEPREGQPLTEVKAHLPVAE
SFGFDADLRAATSGQAFPQCVFSHYALIPSSPLQTGSQAQGIMLSIRKRK
GMKEVVPDVSEYEDK
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 chain8bsi Chain a Residue 902 [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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PDB8bsi Insights into translocation mechanism and ribosome evolution from cryo-EM structures of translocation intermediates of Giardia intestinalis.
Resolution3.4 Å
Binding residue
(original residue number in PDB)		D29 G31 K32 S33 T34 K194 D196 R197 S261 L263
Binding residue
(residue number reindexed from 1)		D27 G29 K30 S31 T32 K117 D119 R120 S182 L184
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003746 translation elongation factor activity
GO:0003924 GTPase activity
GO:0005525 GTP binding
GO:0043022 ribosome binding
Biological Process
GO:0006412 translation
GO:0006414 translational elongation
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol
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:8bsi, PDBe:8bsi, PDBj:8bsi
PDBsum8bsi
PubMed36912103
UniProtA8BU59

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