Structure of PDB 1jdv Chain D Binding Site BS01

Receptor Information

>1jdv Chain D (length=227) Species: 2287 (Saccharolobus solfataricus)

NPVHILAKKGEVAERVLVVGDPGRARLLSTLLQNPKLTNENRGFLVYTGK
YNGETVSIATHGIGGPSIAIVLEELAMLGANVFIRYGTTGALVPYINLGE
YIIVTGASYNQGGLFYQYLRDNACVASTPDFELTNKLVTSFSKRNLKYYV
GNVFSSDAFYAEDEEFVKKWSSRGNIAVEMECATLFTLSKVKGWKSATVL
VVSDNLAKELEKSVMDGAKAVLDTLTS

Ligand information

• Ligand ID: SO4
• InChI: InChI=1S/H2O4S/c1-5(2,3)4/h(H2,1,2,3,4)/p-2
• InChIKey: QAOWNCQODCNURD-UHFFFAOYSA-L
• SMILES:
  OpenEye OEToolkits 1.5.0: [O-]S(=O)(=O)[O-]
  CACTVS 3.341: [O-][S]([O-])(=O)=O
  ACDLabs 10.04: [O-]S([O-])(=O)=O
• Formula: O4 S
• Name: SULFATE ION
• DrugBank: DB14546
• PDB chain: 1jdv Chain D Residue 4250

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1jdv Three-dimensional structure of a hyperthermophilic 5'-deoxy-5'-methylthioadenosine phosphorylase from Sulfolobus solfataricus.
• Resolution: 2.0 Å
• Binding residue (original residue number in PDB): G21 R25 R86 G88 T89
• Binding residue (residue number reindexed from 1): G20 R24 R85 G87 T88
• Annotation score: 1

Enzymatic activity

• Catalytic site (original residue number in PDB): H5 G21 R25 R43 E75 R86 T89 S204 D205 L207 L219
• Catalytic site (residue number reindexed from 1): H4 G20 R24 R42 E74 R85 T88 S203 D204 L206 L210
• Enzyme Commision number: 2.4.2.1: purine-nucleoside phosphorylase.
  2.4.2.28: S-methyl-5'-thioadenosine phosphorylase.

Gene Ontology

Molecular Function

• GO:0003824 catalytic activity
• GO:0016757 glycosyltransferase activity
• GO:0016763 pentosyltransferase activity
• GO:0017061 S-methyl-5-thioadenosine phosphorylase activity

Biological Process

• GO:0009116 nucleoside metabolic process
• GO:0009164 nucleoside catabolic process

Cellular Component

• GO:0005829 cytosol

External links

• PDB: RCSB:1jdv, PDBe:1jdv, PDBj:1jdv
• PDBsum: 1jdv
• PubMed: 11489901
• UniProt: P50389|PNPH_SACS2 Purine nucleoside phosphorylase (Gene Name=SSO2706)