Structure of PDB 5ktl Chain B Binding Site BS01

Receptor Information

>5ktl Chain B (length=295) Species: 240292 (Trichormus variabilis ATCC 29413)

SVGDFGTVLTAMITPFKADGSVNYAVAAELAAHLVDNGTDTLVVCGTTGE
SPTLSWDEEYNLFVEVLQTVAGKAKVIAGCGSNSTKEAIAATQKAAKIGV
HGTLQVVPYYNKPPQAGLYQHFQAIAQACPDLPLLLYNVPGRTGQNLSPE
TVVRLAEIDNIIGVKEASGNLDQAGEIRRSTPKEFQIYAGDDSLTLPLLA
IGAKGVVSVASHLVGNQLQQMIQAFNSGQVTVASDIHLRLLPLFKALFIT
TNPIPIKQALKLQGWEVGSTRPPLSDADAEVSQKLEAVMKHLNLI

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: 5ktl Chain B Residue 302

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5ktl Structure and Function of Cyanobacterial DHDPS and DHDPR.
• Resolution: 1.92 Å
• Binding residue (original residue number in PDB): S50 L53 E58
• Binding residue (residue number reindexed from 1): S51 L54 E59
• Annotation score: 1

Enzymatic activity

• Catalytic site (original residue number in PDB): T46 Y109 Y136 R141 K164 V206
• Catalytic site (residue number reindexed from 1): T47 Y110 Y137 R142 K165 V207
• Enzyme Commision number: 4.3.3.7: 4-hydroxy-tetrahydrodipicolinate synthase.

Gene Ontology

Molecular Function

• GO:0008840 4-hydroxy-tetrahydrodipicolinate synthase activity
• GO:0016829 lyase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0009085 lysine biosynthetic process
• GO:0009089 lysine biosynthetic process via diaminopimelate
• GO:0019877 diaminopimelate biosynthetic process
• GO:0044281 small molecule metabolic process

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol

External links

• PDB: RCSB:5ktl, PDBe:5ktl, PDBj:5ktl
• PDBsum: 5ktl
• PubMed: 27845445
• UniProt: Q3M723