Structure of PDB 5gaf Chain i Binding Site BS04

Receptor Information
>5gaf Chain i (length=398) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MFDNLTDRLSRTLRNISGRGRLTEDNVKDTLREVRMALLEADVALPVVRE
FINRVKEKAVGHEVNKSLTPGQEFVKIVRNELVAAMGEENQTLNLAAQPP
AVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLET
LAEQVGVDFFPSDVGQKPVDIVNAALKEAKLKFYDVLLVDTAGRLHVDEA
MMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEALPLTGVVLTKV
DGDARGGAALSIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGFD
LNDFLEQLRQMKNDDKVLVRMEAIINSMTMKERAKPEIIKGSRKRRIAAG
CGMQVQDVNRLLKQFDDMQRMMKKMKKGGPPPPPPPPPPPPPPPPPPP
Ligand information
Ligand IDGNP
InChIInChI=1S/C10H17N6O13P3/c11-10-13-7-4(8(19)14-10)12-2-16(7)9-6(18)5(17)3(28-9)1-27-32(25,26)29-31(23,24)15-30(20,21)22/h2-3,5-6,9,17-18H,1H2,(H,25,26)(H3,11,13,14,19)(H4,15,20,21,22,23,24)/t3-,5-,6-,9-/m1/s1
InChIKeyUQABYHGXWYXDTK-UUOKFMHZSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04O=P(O)(O)NP(=O)(O)OP(=O)(O)OCC3OC(n2cnc1c2N=C(N)NC1=O)C(O)C3O
OpenEye OEToolkits 1.5.0c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)O[P@@](=O)(NP(=O)(O)O)O)O)O)N=C(NC2=O)N
OpenEye OEToolkits 1.5.0c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(NP(=O)(O)O)O)O)O)N=C(NC2=O)N
CACTVS 3.341NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P@@](O)(=O)O[P@@](O)(=O)N[P](O)(O)=O)[C@@H](O)[C@H]3O
CACTVS 3.341NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)N[P](O)(O)=O)[CH](O)[CH]3O
FormulaC10 H17 N6 O13 P3
NamePHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
ChEMBLCHEMBL1233085
DrugBankDB02082
ZINCZINC000037868676
PDB chain5gaf Chain i Residue 1400 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5gaf Structures of the E. coli translating ribosome with SRP and its receptor and with the translocon
Resolution4.3 Å
Binding residue
(original residue number in PDB)		Q109 G110 G112 K113 T114 T115 Q147 K249 D251 G274 G276 E277
Binding residue
(residue number reindexed from 1)		Q109 G110 G112 K113 T114 T115 Q147 K249 D251 G274 G276 E277
Annotation score3
Enzymatic activity
Enzyme Commision number 3.6.5.4: signal-recognition-particle GTPase.
Gene Ontology
Molecular Function
GO:0003924 GTPase activity
GO:0005525 GTP binding
GO:0008312 7S RNA binding
GO:0016887 ATP hydrolysis activity
Biological Process
GO:0006614 SRP-dependent cotranslational protein targeting to membrane
Cellular Component
GO:0048500 signal recognition particle

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5gaf, PDBe:5gaf, PDBj:5gaf
PDBsum5gaf
PubMed26804923
UniProtP0AGD7|SRP54_ECOLI Signal recognition particle protein (Gene Name=ffh)

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