Structure of PDB 6oad Chain I Binding Site BS05

Receptor Information

>6oad Chain I (length=425) Species: 511145 (Escherichia coli str. K-12 substr. MG1655)

EAMKITLSTQPADARWGEKATYSINNDGITLHLNGADDLGLIQRAARKID
GLGIKHVQLSGEGWDADRCWAFWQGYKAPKGTRKVVWPDLDDAQRQELDN
RLMIIDWVRDTINAPAEELGPSQLAQRAVDLISNVAGDRVTYRITKGEDL
REQGYMGLHTVGRGSERSPVLLALDYNPTGDKEAPVYACLVGKGITFDSG
GYSIKQTAFMDSMKSDMGGAATVTGALAFAITRGLNKRVKLFLCCADNLI
SGNAFKLGDIITYRNGKKVEVMNTDAEGRLVLADGLIDASAQKPEMIIDA
ATLTGAAKTALGNDYHALFSFDDALAGRLLASAAQENEPFWRLPLAEFHR
SQLPSNFAELNNTGSAAYPAGASTAAGFLSHFVENYQQGWLHIDCSATYR
KAPVEQWSAGATGLGVRTIANLLTA

Ligand information

• Ligand ID: BCT
• InChI: InChI=1S/CH2O3/c2-1(3)4/h(H2,2,3,4)/p-1
• InChIKey: BVKZGUZCCUSVTD-UHFFFAOYSA-M
• SMILES:
  OpenEye OEToolkits 1.5.0: C(=O)(O)[O-]
  CACTVS 3.341: OC([O-])=O
  ACDLabs 10.04: [O-]C(=O)O
• Formula: C H O3
• Name: BICARBONATE ION
• PDB chain: 6oad Chain I Residue 506

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6oad Comparison of metal-bound and unbound structures of aminopeptidase B proteins from Escherichia coli and Yersinia pestis.
• Resolution: 2.05 Å
• Binding residue (original residue number in PDB): A278 G280 R281 L305
• Binding residue (residue number reindexed from 1): A276 G278 R279 L303
• 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:6oad, PDBe:6oad, PDBj:6oad
• PDBsum: 6oad
• PubMed: 32306515
• UniProt: P37095|PEPB_ECOLI Peptidase B (Gene Name=pepB)