Structure of PDB 8yud Chain C Binding Site BS01

Receptor Information

>8yud Chain C (length=386) Species: 33903 (Streptomyces avermitilis)

NYQPTPEDRFTFGLWTVGWQGRDPFGDATRRALDPVETVQRLAGLGAHGV
TFHDDDLIPFGSSDTERESHIKRFRQALDATGMAVPMATTNLFTHPVFKD
GAFTANDRDVRRYALRKTIRNIDLAAELGAKTYVAWGGREGAESGAAKDV
RVALDRMKEAFDLLGEYVTAQGYDLRFAIEPKPNEPRGDILLPTVGHALA
FIERLERPELYGVNPEVGHEQMAGLNFPHGIAQALWAGKLFHIDLNGQSG
IKYDQDLRFGAGDLRAAFWLVDLLESAGYEGPKHFDFKPPRTEDLDGVWA
SAAGCMRNYLILKERTAAFRADPEVQEALRAARLDELAQPTAGDGLTALL
ADRTAFEDFDVEAAAARGMAFEQLDQLAMDHLLGAR

Ligand information

• Ligand ID: MG
• InChI: InChI=1S/Mg/q+2
• InChIKey: JLVVSXFLKOJNIY-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mg+2]
  CACTVS 3.341: [Mg++]
• Formula: Mg
• Name: MAGNESIUM ION
• DrugBank: DB01378
• PDB chain: 8yud Chain C Residue 401

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8yud Crystal structure of Xylose isomerase from Streptomyces avermitilis
• Resolution: 2.81 Å
• Binding residue (original residue number in PDB): E181 E217 D287
• Binding residue (residue number reindexed from 1): E180 E216 D286
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 5.3.1.5: xylose isomerase.

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0009045 xylose isomerase activity
• GO:0016853 isomerase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0005975 carbohydrate metabolic process
• GO:0042732 D-xylose metabolic process

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:8yud, PDBe:8yud, PDBj:8yud
• PDBsum: 8yud
• UniProt: Q93HF3|XYLA_STRAW Xylose isomerase (Gene Name=xylA)