Structure of PDB 6ov8 Chain A Binding Site BS02

Receptor Information

>6ov8 Chain A (length=429) Species: 83333 (Escherichia coli K-12)

NAMTEAMKITLSTQPADARWGEKATYSINNDGITLHLNGADDLGLIQRAA
RKIDGLGIKHVQLSGEGWDADRCWAFWQGYKAPKGTRKVVWPDLDDAQRQ
ELDNRLMIIDWVRDTINAPAEELGPSQLAQRAVDLISNVAGDRVTYRITK
GEDLREQGYMGLHTVGRGSERSPVLLALDYNPTGDKEAPVYACLVGKGIT
FDSGGYSIKQTAFMDSMKSDMGGAATVTGALAFAITRGLNKRVKLFLCCA
DNLISGNAFKLGDIITYRNGKKVEVMNTDAEGRLVLADGLIDASAQKPEM
IIDAATLTGAAKTALGNDYHALFSFDDALAGRLLASAAQENEPFWRLPLA
EFHRSQLPSNFAELNNTGSAAYPAGASTAAGFLSHFVENYQQGWLHIDCS
ATYRKAPVEQWSAGATGLGVRTIANLLTA

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: 6ov8 Chain A Residue 502

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6ov8 Comparison of metal-bound and unbound structures of aminopeptidase B proteins from Escherichia coli and Yersinia pestis.
• Resolution: 2.61 Å
• Binding residue (original residue number in PDB): D200 K207 D277 E279
• Binding residue (residue number reindexed from 1): D202 K209 D279 E281
• Annotation score: 4

Enzymatic activity

• Enzyme Commision number: 3.4.11.23: PepB aminopeptidase.

Gene Ontology

Molecular Function

• GO:0004177 aminopeptidase activity
• GO:0005515 protein binding
• GO:0008233 peptidase activity
• GO:0030145 manganese ion binding
• GO:0042802 identical protein binding
• GO:0046872 metal ion binding
• GO:0070006 metalloaminopeptidase activity

Biological Process

• GO:0006508 proteolysis
• GO:0019538 protein metabolic process
• GO:0043171 peptide catabolic process

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol

External links

• PDB: RCSB:6ov8, PDBe:6ov8, PDBj:6ov8
• PDBsum: 6ov8
• PubMed: 32306515
• UniProt: P37095|PEPB_ECOLI Peptidase B (Gene Name=pepB)