Structure of PDB 1ze1 Chain A Binding Site BS01

Receptor Information

>1ze1 Chain A (length=308) Species: 2336 (Thermotoga maritima)

MKHGILVAYKPKGPTSHDVVDEVRKKLKTRKVGHGGTLDPFACGVLIIGV
NQGTRILEFYKDLKKVYWVKMRLGLITETFDITGEVVEERECNVTEEEIR
EAIFSFVGEYDQVPPAYSAKKYKGERLYKLAREGKIINLPPKRVKIFKIW
DVNIEGRDVSFRVEVSPGTYIRSLCMDIGYKLGCGATAVELVRESVGPHT
IEESLNVFEAAPEEIENRIIPLEKCLEWLPRVVVHQESTKMILNGSQIHL
EMLKEWDGFKKGEVVRVFNEEGRLLALAEAERNSSFLETLRKHERQRRVL
TLRKVFQT

Ligand information

• Ligand ID: MG
• InChI: InChI=1S/Mg/q+2
• InChIKey: JLVVSXFLKOJNIY-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mg+2]
  CACTVS 3.341: [Mg++]
• Formula: Mg
• Name: MAGNESIUM ION
• DrugBank: DB01378
• PDB chain: 1ze1 Chain A Residue 310

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1ze1 Conformational change of pseudouridine 55 synthase upon its association with RNA substrate
• Resolution: 2.9 Å
• Binding residue (original residue number in PDB): H17 H34
• Binding residue (residue number reindexed from 1): H17 H34
• Annotation score: 1

Enzymatic activity

• Catalytic site (original residue number in PDB): D39 Y67 D81 R172
• Catalytic site (residue number reindexed from 1): D39 Y67 D81 R172
• Enzyme Commision number: 5.4.99.25: tRNA pseudouridine(55) synthase.

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0009982 pseudouridine synthase activity
• GO:0016853 isomerase activity
• GO:0140098 catalytic activity, acting on RNA
• GO:0160148 tRNA pseudouridine(55) synthase activity

Biological Process

• GO:0001522 pseudouridine synthesis
• GO:0006396 RNA processing
• GO:0006400 tRNA modification
• GO:0008033 tRNA processing
• GO:0009451 RNA modification
• GO:0031119 tRNA pseudouridine synthesis
• GO:1990481 mRNA pseudouridine synthesis

External links

• PDB: RCSB:1ze1, PDBe:1ze1, PDBj:1ze1
• PDBsum: 1ze1
• PubMed: 14990747
• UniProt: Q9WZW0|TRUB_THEMA tRNA pseudouridine synthase B (Gene Name=truB)