Structure of PDB 5d9m Chain B Binding Site BS01

Receptor Information

>5d9m Chain B (length=347) Species: 77095 (Segatella bryantii)

TYMEESAQSAVDNFGLGFNLGNTLDANGCGTGKPVATYETFWGQPETTQD
MMTFLMQNGFNAVRIPVTWYEHMDAEGNVDEAWMMRVKAIVEYAMNAGLY
AIVNVHHDTAAGSGAWIKADTDVYAATKEKFKKLWTQIANALADYDQHLL
FEGYNEMLDGNNSWDEPQKASGYEALNNYAQDFVDAVRATGGNNATRNLI
VNTYAAAKGENVLNNFMLPTDAVNNHLIVQVHSYDPWNFFNTKTTWDSEC
HNTLTEIFSALSKKFTTIPYIIGAYGTHGESDISVSKSSPAEKIKLAADQ
AADMVKLAKDHHSATFYWMSIFDGSDRIQPQWSLPTVVEAMQEAYNN

Ligand information

• Ligand ID: GLC
• InChI: InChI=1S/C6H12O6/c7-1-2-3(8)4(9)5(10)6(11)12-2/h2-11H,1H2/t2-,3-,4+,5-,6+/m1/s1
• InChIKey: WQZGKKKJIJFFOK-DVKNGEFBSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: C(C1C(C(C(C(O1)O)O)O)O)O
  OpenEye OEToolkits 1.5.0: C([C@@H]1[C@H]([C@@H]([C@H]([C@H](O1)O)O)O)O)O
  CACTVS 3.341: OC[CH]1O[CH](O)[CH](O)[CH](O)[CH]1O
  CACTVS 3.341: OC[C@H]1O[C@H](O)[C@H](O)[C@@H](O)[C@@H]1O
  ACDLabs 10.04: OC1C(O)C(OC(O)C1O)CO
• Formula: C6 H12 O6
• Name: alpha-D-glucopyranose;
  alpha-D-glucose;
  D-glucose;
  glucose
• ChEMBL: CHEMBL423707
• ZINC: ZINC000003861213
• PDB chain: 5d9m Chain D Residue 1

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5d9m Structure-Function Analysis of a Mixed-linkage beta-Glucanase/Xyloglucanase from the Key Ruminal Bacteroidetes Prevotella bryantii B14.
• Resolution: 1.9 Å
• Binding residue (original residue number in PDB): H112 H113 N161 E162 Y240 D288 W324
• Binding residue (residue number reindexed from 1): H106 H107 N155 E156 Y234 D282 W318
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0004553 hydrolase activity, hydrolyzing O-glycosyl compounds

Biological Process

• GO:0000272 polysaccharide catabolic process

External links

• PDB: RCSB:5d9m, PDBe:5d9m, PDBj:5d9m
• PDBsum: 5d9m
• PubMed: 26507654
• UniProt: O06842