Structure of PDB 5ynz Chain A Binding Site BS01

Receptor Information

>5ynz Chain A (length=363) Species: 9606 (Homo sapiens)

KLVRLPGLIDVHVHLREPGGTHKEDFASGTAAALAGGITMVCAMPNTRPP
IIDAPALALAQKLAEAGARCDFALFLGASSENAGTLGTVAGSAAGLALYL
NETFSELRLDSVVQWMEHFETWPSHLPIVAHAEQQTVAAVLMVAQLTQRS
VHICHVARKEEILLIKAAKARGLPVTCEVAPHHLFLSHDDLERLGPGKGE
VRPELGSRQDVEALWENMAVIDCFASDHAPHTLEEKCGSRPPPGFPGLET
MLPLLLTAVSEGRLSLDDLLQRLHHNPRRIFHLPPQEDTYVEVDLEHEWT
IPSHMPFSKAHWTPFEGQKVKGTVRRVVLRGEVAYIDGQVLVPPGYGQDV
RKWPQGAVPQLPP

Ligand information

• Ligand ID: ZN
• InChI: InChI=1S/Zn/q+2
• InChIKey: PTFCDOFLOPIGGS-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Zn++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Zn+2]
• Formula: Zn
• Name: ZINC ION
• ChEMBL: CHEMBL1236970
• DrugBank: DB14532
• PDB chain: 5ynz Chain A Residue 1901

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5ynz Crystal structures of monometallic dihydropyrimidinase and the human dihydroorotase domain K1556A mutant reveal no lysine carbamylation within the active site
• Resolution: 2.774 Å
• Binding residue (original residue number in PDB): H1471 H1473 D1686
• Binding residue (residue number reindexed from 1): H12 H14 D227
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 2.1.3.2: aspartate carbamoyltransferase.
  3.5.1.2: glutaminase.
  3.5.2.3: dihydroorotase.
  6.3.4.16: carbamoyl-phosphate synthase (ammonia).
  6.3.5.5: carbamoyl-phosphate synthase (glutamine-hydrolyzing).

Gene Ontology

Molecular Function

• GO:0016787 hydrolase activity
• GO:0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
• GO:0016812 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides

External links

• PDB: RCSB:5ynz, PDBe:5ynz, PDBj:5ynz
• PDBsum: 5ynz
• PubMed: 30268498
• UniProt: P27708|PYR1_HUMAN Multifunctional protein CAD (Gene Name=CAD)