Structure of PDB 1j2b Chain B Binding Site BS04

Receptor Information
>1j2b Chain B (length=576) Species: 53953 (Pyrococcus horikoshii) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MLKFEIKARDGAGRIGKLEVNGKKIETPAIMPVVNPKQMVVEPKELEKMG
FEIIITNSYIIYKDEELRRKALELGIHRMLDYNGIIEVDSGSFQLMKYGS
IEVSNREIIEFQHRIGVDIGTFLDIPTPPDAPREQAVKELEITLSRAREA
EEIKEIPMNATIQGSTYTDLRRYAARRLSSMNFEIHPIGGVVPLLESYRF
RDVVDIVISSKMALRPDRPVHLFGAGHPIVFALAVAMGVDLFDSASYALY
AKDDRYMTPEGTKRLDELDYFPCSCPVCSKYTPQELREMPKEERTRLLAL
HNLWVIKEEIKRVKQAIKEGELWRLVDERARSHPKLYSAYKRLLEHYTFL
EEFEPITKKSALFKISNESLRWPVVRRAKERAKSINERFGELVEHPIFGR
VSRYLSLTYPFAQSEAEDDFKIEKPTKEDAIKYVMAIAEYQFGEGASRAF
DDAKVELSKTGMPRQVKVNGKRLATVRADDGLLTLGIEGAKRLHRVLPYP
RMRVVVNKEAEPFARKGKDVFAKFVIFADPGIRPYDEVLVVNENDELLAT
GQALLSGREMIVFQYGRAVKVRKGVE
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain1j2b Chain B Residue 1601 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB1j2b Alternative Tertiary Structure of tRNA for Recognition by a Posttranscriptional Modification Enzyme
Resolution3.3 Å
Binding residue
(original residue number in PDB)		A528 I567
Binding residue
(residue number reindexed from 1)		A522 I561
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) D249 C279 C281 C284 H307
Catalytic site (residue number reindexed from 1) D243 C273 C275 C278 H301
Enzyme Commision number 2.4.2.48: tRNA-guanine(15) transglycosylase.
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0008270 zinc ion binding
GO:0016757 glycosyltransferase activity
GO:0016763 pentosyltransferase activity
GO:0046872 metal ion binding
Biological Process
GO:0002099 tRNA wobble guanine modification
GO:0006400 tRNA modification
GO:0008033 tRNA processing
GO:0008616 queuosine biosynthetic process
Cellular Component
GO:0005737 cytoplasm

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:1j2b, PDBe:1j2b, PDBj:1j2b
PDBsum1j2b
PubMed12732145
UniProtO58843|ATGT_PYRHO tRNA-guanine(15) transglycosylase (Gene Name=tgtA)

[Back to BioLiP]