Structure of PDB 5d08 Chain B Binding Site BS02

Receptor Information
>5d08 Chain B (length=375) Species: 224308 (Bacillus subtilis subsp. subtilis str. 168) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NVYQLKEELIEYAKSIGVDKIGFTTADTFDSLKDRLILQESLGYLSGFEE
PDIEKRVTPKLLLPKAKSIVAIALAYPSRMKDAPRSTRTERRGIFCRASW
GKDYHDVLREKLDLLEDFLKSKHEDIRTKSMVDTGELSDRAVAERAGIGF
SAKNCMITTPEYGSYVYLAEMITNIPFEPDVPIEDMCGSCTKCLDACPTG
ALVNPGQLNAQRCISFLTQTKGFLPDEFRTKIGNRLYGCDTCQTVCPLNK
GKDFHLHPEMEPDPEIAKPLLKPLLAISNREFKEKFGHVSGSWRGKKPIQ
RNAILALAHFKDASALPELTELMHKDPRPVIRGTAAWAIGKIGDPAYAEE
LEKALEKEKDEEAKLEIEKGIELLK
Ligand information
Ligand IDSF4
InChIInChI=1S/4Fe.4S
InChIKeyLJBDFODJNLIPKO-UHFFFAOYSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7[S]12[Fe]3[S]4[Fe]1[S]5[Fe]2[S]3[Fe]45
CACTVS 3.385S1[Fe]S[Fe]1.S2[Fe]S[Fe]2
FormulaFe4 S4
NameIRON/SULFUR CLUSTER
ChEMBL
DrugBank
ZINC
PDB chain5d08 Chain B Residue 502 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5d08 Molecular basis of cobalamin-dependent RNA modification.
Resolution1.747 Å
Binding residue
(original residue number in PDB)
C198 P199 L203 C214 I215 C240 C243
Binding residue
(residue number reindexed from 1)
C197 P198 L202 C213 I214 C239 C242
Annotation score1
Enzymatic activity
Enzyme Commision number 1.17.99.6: epoxyqueuosine reductase.
Gene Ontology
Molecular Function
GO:0016491 oxidoreductase activity
GO:0046872 metal ion binding
GO:0051536 iron-sulfur cluster binding
GO:0051539 4 iron, 4 sulfur cluster binding
GO:0052693 epoxyqueuosine reductase activity
Biological Process
GO:0006400 tRNA modification
GO:0008033 tRNA processing
GO:0008616 queuosine biosynthetic process
Cellular Component
GO:0005737 cytoplasm

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:5d08, PDBe:5d08, PDBj:5d08
PDBsum5d08
PubMed27638883
UniProtP97030|QUEG_BACSU Epoxyqueuosine reductase (Gene Name=queG)

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