Structure of PDB 8v06 Chain B Binding Site BS01

Receptor Information

>8v06 Chain B (length=416) Species: 10090 (Mus musculus)

QRPAPCYDPCEAVLVESIPEGLEFPNATTSNPSTSQAWLGLLAGAHSSLD
IASFYWTLTNNDTHTQEPSAQQGEEVLQQLQALAPRGVKVRIAVSKPNGP
LADLQSLLQSGAQVRMVDMQKLTHGVLHTKFWVVDQTHFYLGSANMDWRS
LTQVKELGVVMYNCSCLARDLTKIFEAYWFLGQAGSSIPSTWPRSFDTRY
NQETPMEICLNGTPALAYLASAPPPLCPSGRTPDLKALLNVVDSARSFIY
IAVMNYLPTMEFSPRRFWPAIDDGLRRAAYERGVKVRLLISCWGHSDPSM
RSFLLSLAALHDNHTHSDIQVKLFVVPTDESQARIPYARVNHNKYMVTER
ASYIGTSNWSGSYFTETAGTSLLVTQNGHGGLRSQLEAVFLRDWESPYSH
DLDTSANSVGNACRLL

Ligand information

• Ligand ID: BMA
• 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-RWOPYEJCSA-N
• SMILES:
  CACTVS 3.341: OC[C@H]1O[C@@H](O)[C@@H](O)[C@@H](O)[C@@H]1O
  OpenEye OEToolkits 1.5.0: C(C1C(C(C(C(O1)O)O)O)O)O
  CACTVS 3.341: OC[CH]1O[CH](O)[CH](O)[CH](O)[CH]1O
  OpenEye OEToolkits 1.5.0: C([C@@H]1[C@H]([C@@H]([C@@H]([C@@H](O1)O)O)O)O)O
  ACDLabs 10.04: OC1C(O)C(OC(O)C1O)CO
• Formula: C6 H12 O6
• Name: beta-D-mannopyranose;
  beta-D-mannose;
  D-mannose;
  mannose
• ZINC: ZINC000003830679
• PDB chain: 8v06 Chain G Residue 3

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8v06 Crystal structures of exonucleases PLD3 and PLD4
• Resolution: 2.73 Å
• Binding residue (original residue number in PDB): S101 P103
• Binding residue (residue number reindexed from 1): S30 P32
• Annotation score: 4

Enzymatic activity

• Enzyme Commision number: 3.1.16.1: spleen exonuclease.

Gene Ontology

Molecular Function

• GO:0003824 catalytic activity

External links

• PDB: RCSB:8v06, PDBe:8v06, PDBj:8v06
• PDBsum: 8v06
• PubMed: 38537643
• UniProt: O35405|PLD3_MOUSE 5'-3' exonuclease PLD3 (Gene Name=Pld3)