3VYF Hydrolase Hydrolase Inhibitor date Sep 24, 2012
title Human Renin In Complex With Inhibitor 9
authors M.Takahashi, H.Hanzawa
compound source
Molecule: Renin
Chain: A, B
Synonym: Angiotensinogenase
Ec: 3.4.23.15
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ren
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: 293f
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcdna3.1
symmetry Space Group: P 21 3
R_factor 0.218 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
141.427 141.427 141.427 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand NAG, VYF enzyme Hydrolase E.C.3.4.23.15 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceDesign and discovery of new (3S,5R)-5-[4-(2-chlorophenyl)-2,2-dimethyl-5-oxopiperazin-1-yl]piperidine-3-carbo xamides as potent renin inhibitors., Mori Y, Ogawa Y, Mochizuki A, Nakamura Y, Sugita C, Miyazaki S, Tamaki K, Matsui Y, Takahashi M, Nagayama T, Nagai Y, Inoue S, Nishi T, Bioorg Med Chem Lett. 2012 Dec 15;22(24):7677-82. doi:, 10.1016/j.bmcl.2012.09.103. Epub 2012 Oct 17. PMID:23122821
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (114 Kb) [Save to disk]
  • Biological Unit Coordinates (3vyf.pdb1.gz) 56 Kb
  • Biological Unit Coordinates (3vyf.pdb2.gz) 56 Kb
  • Biological Unit Coordinates (3vyf.pdb3.gz) 320 Kb
  • LPC: Ligand-Protein Contacts for 3VYF
  • CSU: Contacts of Structural Units for 3VYF
  • Structure Factors (936 Kb)
  • Retrieve 3VYF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3VYF from S2C, [Save to disk]
  • Re-refined 3vyf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3VYF in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3VYF
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3VYF, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3vyf_B] [3vyf] [3vyf_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3VYF
  • Community annotation for 3VYF at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science