Structure of PDB 3ieu Chain A Binding Site BS01

Receptor Information
>3ieu Chain A (length=293) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DKSYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTE
GAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTP
DDEMVLNKLREGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVP
ISAETGLNVDTIAAIVRKHLPEATHHFPEDYITDRSQRFMASEIIREKLM
RFLGAELPYSVTVEIERFVSNERGGYDINGLILVEREGQKKMVIGNKGAK
IKTIGIEARKDMQEMFEAPVHLELWVKVKSGWADDERALRSLG
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 chain3ieu Chain A Residue 302 [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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PDB3ieu Structure of ERA in complex with the 3' end of 16S rRNA: implications for ribosome biogenesis
Resolution2.8 Å
Binding residue
(original residue number in PDB)		N18 G20 K21 S22 T23 N124 K125 D127 S155 A156 E157
Binding residue
(residue number reindexed from 1)		N15 G17 K18 S19 T20 N121 K122 D124 S152 A153 E154
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003924 GTPase activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0019843 rRNA binding
GO:0043024 ribosomal small subunit binding
GO:0070181 small ribosomal subunit rRNA binding
GO:0097216 guanosine tetraphosphate binding
Biological Process
GO:0000028 ribosomal small subunit assembly
GO:0006468 protein phosphorylation
GO:0042254 ribosome biogenesis
GO:0042274 ribosomal small subunit biogenesis
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0009898 cytoplasmic side of plasma membrane

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:3ieu, PDBe:3ieu, PDBj:3ieu
PDBsum3ieu
PubMed19706445
UniProtP06616|ERA_ECOLI GTPase Era (Gene Name=era)

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