Structure of PDB 1vd5 Chain A Binding Site BS02

Receptor Information

>1vd5 Chain A (length=377) Species: 84635 (Bacillus sp. GL1)

MWQQAIGDALGITARNLKKFGDRFPHVSDGSNKYVLNDNTDWTDGFWSGI
LWLCYEYTGDEQYREGAVRTVASFRERLDRFENLDHHDIGFLYSLSAKAQ
WIVEKDESARKLALDAADVLMRRWRADAGIIQAWGPKGDPENGGRIIIDC
LLNLPLLLWAGEQTGDPEYRRVAEAHALKSRRFLVRGDDSSYHTFYFDPE
NGNAIRGGTHQGNTDGSTWTRGQAWGIYGFALNSRYLGNADLLETAKRMA
RHFLARVPEDGVVYWDFEVPQEPSSYRDSSASAITACGLLEIASQLDESD
PERQRFIDAAKTTVTALRDGYAERDDGEAEGFIRRGSYHVRGGISPDDYT
IWGDYYYLEALLRLERGVTGYWYERGR

Ligand information

• Ligand ID: GLY
• InChI: InChI=1S/C2H5NO2/c3-1-2(4)5/h1,3H2,(H,4,5)
• InChIKey: DHMQDGOQFOQNFH-UHFFFAOYSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: C(C(=O)O)N
  CACTVS 3.341: NCC(O)=O
  ACDLabs 10.04: O=C(O)CN
• Formula: C2 H5 N O2
• Name: GLYCINE
• ChEMBL: CHEMBL773
• DrugBank: DB00145
• ZINC: ZINC000004658552
• PDB chain: 1vd5 Chain A Residue 402

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1vd5 Crystal Structure of Unsaturated Glucuronyl Hydrolase, Responsible for the Degradation of Glycosaminoglycan, from Bacillus sp. GL1 at 1.8 A Resolution
• Resolution: 1.8 Å
• Binding residue (original residue number in PDB): G320 R334 R335
• Binding residue (residue number reindexed from 1): G320 R334 R335
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 3.2.1.179: gellan tetrasaccharide unsaturated glucuronosyl hydrolase.

Gene Ontology

Molecular Function

• GO:0003824 catalytic activity
• GO:0016798 hydrolase activity, acting on glycosyl bonds
• GO:0052757 chondroitin hydrolase activity

Biological Process

• GO:0000272 polysaccharide catabolic process
• GO:0005975 carbohydrate metabolic process

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:1vd5, PDBe:1vd5, PDBj:1vd5
• PDBsum: 1vd5
• PubMed: 15148314
• UniProt: Q9RC92|UGL_BACGL Unsaturated glucuronyl hydrolase (Gene Name=ugl)