Structure of PDB 5olk Chain B Binding Site BS03

Receptor Information

>5olk Chain B (length=392) Species: 398720 (Leeuwenhoekiella blandensis MED217)

KKIIKRDYSTAPFVLEKITNAIANAMAALGHGSEQDAKLISMQVYESLLN
NKEQESEYIPTVEQVQDMVEDKLMSSEFHDVAKAYIIYRNKRALERKTNI
FEKRINLKPYEYPELNEYVAAIRHSYWIHTEFNFTSDIQDFKTGLSEVER
SAIKNTMLAISQIEVAVKTFWGDVHHRLPKPEIAAVGATFAESEVRHHDA
YSHLLEILGLNEEFKELKKKPVIMKRVHYLETSLKHAKSDDDREYTESIL
LFALFIEHVSLFSQFLIIMAFNKHKNMLKGISNAVEATSKEEQIHGDFGV
DIINIIKKENPEWFDEEHNNLIKEMCLNSFEAESKVVDWIFEKGELDFLP
KAVINEFLKNRFNKSLEAIGLEKLFDIDEALLQETEWFDDEI

Ligand information

• Ligand ID: MN
• InChI: InChI=1S/Mn/q+2
• InChIKey: WAEMQWOKJMHJLA-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mn+2]
  CACTVS 3.341: [Mn++]
• Formula: Mn
• Name: MANGANESE (II) ION
• DrugBank: DB06757
• PDB chain: 5olk Chain B Residue 1004

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5olk Novel ATP-cone-driven allosteric regulation of ribonucleotide reductase via the radical-generating subunit.
• Resolution: 2.45 Å
• Binding residue (original residue number in PDB): E170 E200 H203 E298
• Binding residue (residue number reindexed from 1): E164 E194 H197 E292
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 1.17.4.1: ribonucleoside-diphosphate reductase.

Gene Ontology

Molecular Function

• GO:0004748 ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor
• GO:0005524 ATP binding
• GO:0016491 oxidoreductase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0009263 deoxyribonucleotide biosynthetic process

External links

• PDB: RCSB:5olk, PDBe:5olk, PDBj:5olk
• PDBsum: 5olk
• PubMed: 29388911
• UniProt: A3XHF9