Structure of PDB 2qz3 Chain B Binding Site BS04

Receptor Information

>2qz3 Chain B (length=184) Species: 1423 (Bacillus subtilis)

STDYWQNWTDGGGIVNAVNGSGGNYSVNWSNTGNFVVGKGWTTGSPFRTI
NYNAGVWAPNGNGYLTLYGWTRSPLIEYYVVDSWGTYRPTGTYKGTVKSD
GGTYDIYTTTRYNAPSIDGDRTTFTQYWSVRQSKRPTGSNATITFSNHVN
AWKSHGMNLGSNWAYQVMATAGYQSSGSSNVTVW

Ligand information

• Ligand ID: XYP
• InChI: InChI=1S/C5H10O5/c6-2-1-10-5(9)4(8)3(2)7/h2-9H,1H2/t2-,3+,4-,5-/m1/s1
• InChIKey: SRBFZHDQGSBBOR-KKQCNMDGSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: C1C(C(C(C(O1)O)O)O)O
  CACTVS 3.341: O[C@@H]1CO[C@@H](O)[C@H](O)[C@H]1O
  OpenEye OEToolkits 1.5.0: C1[C@H]([C@@H]([C@H]([C@@H](O1)O)O)O)O
  CACTVS 3.341: O[CH]1CO[CH](O)[CH](O)[CH]1O
  ACDLabs 10.04: OC1C(O)COC(O)C1O
• Formula: C5 H10 O5
• Name: beta-D-xylopyranose;
  beta-D-xylose;
  D-xylose;
  xylose
• ZINC: ZINC000001529215
• PDB chain: 2qz3 Chain F Residue 1

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2qz3 Crystallographic analysis shows substrate binding at the -3 to +1 active-site subsites and at the surface of glycoside hydrolase family 11 endo-1,4-beta-xylanases.
• Resolution: 1.8 Å
• Binding residue (original residue number in PDB): G56 V57
• Binding residue (residue number reindexed from 1): G55 V56
• Annotation score: 4

Enzymatic activity

• Catalytic site (original residue number in PDB): N35 Y69 E78 Y80 A172
• Catalytic site (residue number reindexed from 1): N34 Y68 E77 Y79 A171
• Enzyme Commision number: 3.2.1.8: endo-1,4-beta-xylanase.

Gene Ontology

Molecular Function

• GO:0004553 hydrolase activity, hydrolyzing O-glycosyl compounds
• GO:0016798 hydrolase activity, acting on glycosyl bonds
• GO:0031176 endo-1,4-beta-xylanase activity

Biological Process

• GO:0005975 carbohydrate metabolic process
• GO:0045493 xylan catabolic process

External links

• PDB: RCSB:2qz3, PDBe:2qz3, PDBj:2qz3
• PDBsum: 2qz3
• PubMed: 17983355
• UniProt: P18429|XYNA_BACSU Endo-1,4-beta-xylanase A (Gene Name=xynA)