Structure of PDB 2z7b Chain A Binding Site BS01

Receptor Information

>2z7b Chain A (length=237) Species: 266835 (Mesorhizobium japonicum MAFF 303099)

SFTMRRKVFEELVTATKILLNEGIMDTFGHISARDPEDPASFFLAQKLAP
SLITVDDIQRFNLDGETSDNRPSYLERYIHSEIYKTRPDVQCVLHTHSPA
VLPYCFVDTPLRPVTHMGAFIGESVPVYEIRDKHGDETDLFGGSPDVCAD
IAESLGSQTVVLMARHGVVNVGKSVREVVFRAFYLEQEAAALTAGLKIGN
VKYLSPGEIKTAGKLVGAQIDRGWNHWSQRLRQAGLA

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: 2z7b Chain A Residue 235

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2z7b Gene Identification and Structural Characterization of the Pyridoxal 5'-Phosphate Degradative Protein 3-Hydroxy-2-methylpyridine-4,5-dicarboxylate Decarboxylase from Mesorhizobium loti MAFF303099
• Resolution: 1.9 Å
• Binding residue (original residue number in PDB): E73 H92 H94 H163
• Binding residue (residue number reindexed from 1): E76 H95 H97 H166
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 4.1.1.51: 3-hydroxy-2-methylpyridine-4,5-dicarboxylate 4-decarboxylase.

Gene Ontology

Molecular Function

• GO:0016829 lyase activity
• GO:0016830 carbon-carbon lyase activity
• GO:0016832 aldehyde-lyase activity
• GO:0030145 manganese ion binding
• GO:0046872 metal ion binding
• GO:0047431 3-hydroxy-2-methylpyridine-4,5-dicarboxylate 4-decarboxylase activity

Biological Process

• GO:0019323 pentose catabolic process
• GO:0042820 vitamin B6 catabolic process

Cellular Component

• GO:0005829 cytosol

External links

• PDB: RCSB:2z7b, PDBe:2z7b, PDBj:2z7b
• PDBsum: 2z7b
• PubMed: 17973403
• UniProt: Q988D0|HMPD_RHILO 3-hydroxy-2-methylpyridine-4,5-dicarboxylate 4-decarboxylase (Gene Name=mlr6791)