Structure of PDB 1d0m Chain A Binding Site BS01

Receptor Information

>1d0m Chain A (length=312) Species: 562 (Escherichia coli)

MVEPQHNVMQMGGDFANNPNAQQFIDKMVNKHGFDRQQLQEILSQAKRLD
SVLRLMDNQGPNGAWLRYRKKFITPDNVQNGVVFWNQYEDALNRAWQVYG
VPPEIIVGIIGVETRWGRVMGKTRILDALATLSFNYPRRAEYFSGELETF
LLMARDEQDDPLNLKGSFAGAMGYGQFMPSSYKQYAVDFSGDGHINLWDP
VDAIGSVANYFKAHGWVKGDQVAVMANGQAPGLPNGFKTKYSISQLAAAG
LTPQQPLGNHQQASLLRLDVGTGYQYWYGLPNFYTITRYNHSTHYAMAVW
QLGQAVALARVQ

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: 1d0m Chain A Residue 400

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1d0m Crystallographic studies of the interactions of Escherichia coli lytic transglycosylase Slt35 with peptidoglycan.
• Resolution: 2.47 Å
• Binding residue (original residue number in PDB): D237 S239 D241 H243 D251
• Binding residue (residue number reindexed from 1): D188 S190 D192 H194 D202
• Annotation score: 4

Enzymatic activity

• Enzyme Commision number: 4.2.2.n1: peptidoglycan lytic exotransglycosylase.

Gene Ontology

Molecular Function

• GO:0005509 calcium ion binding
• GO:0005515 protein binding
• GO:0008932 lytic endotransglycosylase activity
• GO:0008933 lytic transglycosylase activity
• GO:0016829 lyase activity
• GO:0031402 sodium ion binding

Biological Process

• GO:0009253 peptidoglycan catabolic process
• GO:0071555 cell wall organization

Cellular Component

• GO:0009279 cell outer membrane
• GO:0030288 outer membrane-bounded periplasmic space

External links

• PDB: RCSB:1d0m, PDBe:1d0m, PDBj:1d0m
• PDBsum: 1d0m
• PubMed: 10684641
• UniProt: P41052|MLTB_ECOLI Membrane-bound lytic murein transglycosylase B (Gene Name=mltB)