Structure of PDB 5gjn Chain A Binding Site BS02

Receptor Information

>5gjn Chain A (length=369) Species: 971 (Selenomonas ruminantium)

MKNFRLSEKEVKTLAKRIPTPFLVASLDKVEENYQFMRRHLPRAGVFYAM
KANPTPEILSLLAGLGSHFDVASAGEMEILHELGVDGSQMIYANPVKDAR
GLKAAADYNVRRFTFDDPSEIDKMAKAVPGADVLVRIAVRTKFGAPVEEA
LDLLKAAQDAGLHAMGICFHVGSQSLSTAAYEEALLVARRLFDEAEEMGM
HLTDLDIGGGFPVPDALNVDLAAMMEAINKQIDRLFPDTAVWTEPGRYMC
GTAVNLVTSVIGTKTRGEQPWYILDEGIYGCFSGIMYDHWTYPLHCFGKG
NKKPSTFGGPSCDGIDVLYRDFMAPELKIGDKVLVTEMGSYTSVSATRFN
GFYLAPTIIFEDQPEYAAR

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: 5gjn Chain A Residue 404

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5gjn Crystal Structure and Pyridoxal 5-Phosphate Binding Property of Lysine Decarboxylase from Selenomonas ruminantium
• Resolution: 2.0 Å
• Binding residue (original residue number in PDB): G219 Y259
• Binding residue (residue number reindexed from 1): G210 Y248
• Annotation score: 1

Enzymatic activity

• Catalytic site (original residue number in PDB): K51 H179 E255
• Catalytic site (residue number reindexed from 1): K51 H170 E244
• Enzyme Commision number: 4.1.1.17: ornithine decarboxylase.
  4.1.1.18: lysine decarboxylase.

Gene Ontology

Molecular Function

• GO:0003824 catalytic activity
• GO:0004586 ornithine decarboxylase activity
• GO:0008923 lysine decarboxylase activity
• GO:0016831 carboxy-lyase activity

Biological Process

• GO:0006596 polyamine biosynthetic process
• GO:0008295 spermidine biosynthetic process
• GO:0009446 putrescine biosynthetic process
• GO:0033387 putrescine biosynthetic process from ornithine

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:5gjn, PDBe:5gjn, PDBj:5gjn
• PDBsum: 5gjn
• PubMed: 27861532
• UniProt: O50657|DCLO_SELRU Lysine/ornithine decarboxylase (Gene Name=ldc)