3WOO Hydrolase Hormone date Dec 29, 2013
title Crystal Structure Of The Dap Bii Hexapeptide Complex I
authors Y.Sakamoto, Y.Suzuki, I.Iizuka, C.Tateoka, S.Roppongi, M.Fujimoto T.Nonaka, W.Ogasawara, N.Tanaka
compound source
Molecule: Dipeptidyl Aminopeptidase Bii
Chain: A, B
Synonym: Dap Bii
Ec: 3.4.14.-
Engineered: Yes
Mutation: Yes
Organism_scientific: Pseudoxanthomonas Mexicana
Organism_taxid: 128785
Strain: Wo24
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Angiotensin II
Chain: C, D
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: Synthetic Peptide
symmetry Space Group: P 43 21 2
R_factor 0.182 R_Free 0.224
crystal
cell
length a length b length c angle alpha angle beta angle gamma
121.700 121.700 218.970 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand GOL, ZN enzyme Hydrolase E.C.3.4.14 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceS46 peptidases are the first exopeptidases to be members of clan PA., Sakamoto Y, Suzuki Y, Iizuka I, Tateoka C, Roppongi S, Fujimoto M, Inaka K, Tanaka H, Masaki M, Ohta K, Okada H, Nonaka T, Morikawa Y, Nakamura KT, Ogasawara W, Tanaka N, Sci Rep. 2014 May 15;4:4977. doi: 10.1038/srep04977. PMID:24827749
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (240 Kb) [Save to disk]
  • Biological Unit Coordinates (3woo.pdb1.gz) 234 Kb
  • LPC: Ligand-Protein Contacts for 3WOO
  • CSU: Contacts of Structural Units for 3WOO
  • Structure Factors (2830 Kb)
  • Retrieve 3WOO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3WOO from S2C, [Save to disk]
  • Re-refined 3woo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3WOO 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 3WOO
  • 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 3WOO, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3woo_C] [3woo_B] [3woo_D] [3woo_A] [3woo]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3WOO
  • Community annotation for 3WOO at PDBWiki (http://pdbwiki.org)

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