Structure of PDB 5olp Chain B Binding Site BS01

Receptor Information

>5olp Chain B (length=432) Species: 226186 (Bacteroides thetaiotaomicron VPI-5482)

QYKTVKVKAPFPMQPIKVFIYPDRDFKITDFGAVPGGEVDNTKAIAAAID
ACNKAGGGRVVVPAGIWLTGPVHFKSNINLCLEEDAVLSFTDNPEDYLPA
VMTSWEGLECYNYSPLLYAFECENVAISGKGTLQPKMGTWKVWFKRPAPH
LQALKELYTKASTNVPVIERQMAIGENHLRPHLIHFNRCKNVMLDGFKIR
ESPFWTIHLYMCDGGIVRNLDVRAHGHNNDGIDFEMSRNFLVEDCSFDQG
DDAVVIKAGRNQDAWRLNTPCENIVIRNCRILKGHTLLGIGSEISGGIRN
IYMHDCTAPNSVMRLFFVKTNHRRGGFIENIYMKNVASGTAQRVLEIDTE
VLYQWKDLVPTYEKRITRIDGIYMDKVTCESADAVYELKGNAELPVKNVR
IKDVKVGSVKKFVKKVSNVENVVEKNVTYSQK

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: 5olp Chain B Residue 501

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5olp Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides.
• Resolution: 2.0 Å
• Binding residue (original residue number in PDB): R279 R342
• Binding residue (residue number reindexed from 1): R260 R323
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 3.2.1.22: alpha-galactosidase.
  3.2.1.n1: blood group B branched chain alpha-1,3-galactosidase.

Gene Ontology

Molecular Function

• GO:0003824 catalytic activity
• GO:0004557 alpha-galactosidase activity
• GO:0004650 polygalacturonase activity
• GO:0016798 hydrolase activity, acting on glycosyl bonds
• GO:0016829 lyase activity

Biological Process

• GO:0005975 carbohydrate metabolic process

External links

• PDB: RCSB:5olp, PDBe:5olp, PDBj:5olp
• PDBsum: 5olp
• PubMed: 29255254
• UniProt: Q8A066