Structure of PDB 6gp3 Chain A Binding Site BS01

Receptor Information

>6gp3 Chain A (length=318) Species: 265311 (Mesoplasma florum L1)

GHMASIKNQYYNESVSPIEYAQQGFKGKMRSVNWNVVNDEKDLEVWNRIT
QNFWLPEKIPVSNDLTSWRTLTPEWQELITRTFTGLTLLDTIQATVGDVA
QVPNSLTDHEQVIYTNFAFMVAVHARSYGSIFSTLCSSEQIEEAHEWVIN
TETLQERAKALIPYYVNDDPLKSKVAAALMPGFLLYGGFYLPFYLSARGK
LPNTSDIIRLILRDKVIHNYYSGYKYQKKVAKLSPEKQAEMKEFVFKLLY
ELIDLEKAYLKELYEDFGLADDAIRFSVYNAGKFLQNLGYDSPFTEEETR
IEPEIFTQLSARADDWEF

Ligand information

• Ligand ID: CA
• InChI: InChI=1S/Ca/q+2
• InChIKey: BHPQYMZQTOCNFJ-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Ca++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Ca+2]
• Formula: Ca
• Name: CALCIUM ION
• DrugBank: DB14577
• PDB chain: 6gp3 Chain A Residue 401

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6gp3 Metal-free ribonucleotide reduction powered by a DOPA radical in Mycoplasma pathogens.
• Resolution: 1.23 Å
• Binding residue (original residue number in PDB): G266 D269 D270
• Binding residue (residue number reindexed from 1): G268 D271 D272
• 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:0016491 oxidoreductase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0009263 deoxyribonucleotide biosynthetic process

Cellular Component

• GO:0005971 ribonucleoside-diphosphate reductase complex
• GO:0016020 membrane

External links

• PDB: RCSB:6gp3, PDBe:6gp3, PDBj:6gp3
• PDBsum: 6gp3
• PubMed: 30429545
• UniProt: Q6F0T5