3WOM	Hydrolase	date	Dec 29, 2013
title	Crystal Structure Of The Dap Bii Dipeptide Complex II
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		Organism_scientific: Pseudoxanthomonas Mexicana Organism_taxid: 128785 Strain: Wo24 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 43 21 2	R_factor 0.183 R_Free 0.225
crystal cell	length a length b length c angle alpha angle beta angle gamma 122.220 122.220 219.760 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.86 Å
ligand	GOL, TYR, VAL, ZN	enzyme	Hydrolase E.C.3.4.14 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	S46 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] (239 Kb) [Save to disk] Biological Unit Coordinates (3wom.pdb1.gz) 233 Kb LPC: Ligand-Protein Contacts for 3WOM CSU: Contacts of Structural Units for 3WOM Structure Factors (2598 Kb) Retrieve 3WOM in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3WOM from S2C, [Save to disk] Re-refined 3wom structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3WOM 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 3WOM

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 3WOM, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3wom] [3wom_A] [3wom_B] SWISS-PROT database: Domain organization of by SWISSPFAM

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