1YBW	Hydrolase	date	Dec 21, 2004
title	Protease Domain Of Hgfa With No Inhibitor
authors	S.Shia, J.Stamos, D.Kirchhofer, B.Fan, J.Wu, R.T.Corpuz, L.Santell R.A.Lazarus, C.Eigenbrot
compound		source
Molecule: Hepatocyte Growth Factor Activator Precursor Chain: A, B Synonym: Hgf Activator, Hgfa Ec: 3.4.21.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hgfac Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector_type: Virus Expression_system_plasmid: Pacgp67a
symmetry	Space Group: P 1 21 1	R_factor 0.213 R_Free 0.256
crystal cell	length a length b length c angle alpha angle beta angle gamma 52.430 76.430 72.150 90.00 107.77 90.00
method	X-Ray Diffraction	resolution	2.70 Å
ligand	NAG	enzyme	Hydrolase E.C.3.4.21 BRENDA
related structures	by homologous chain: 1YC0
Gene Ontology	Chain Function Process Component A, B
Primary reference	Conformational lability in serine protease active sites: structures of hepatocyte growth factor activator (HGFA) alone and with the inhibitory domain from HGFA inhibitor-1B., Shia S, Stamos J, Kirchhofer D, Fan B, Wu J, Corpuz RT, Santell L, Lazarus RA, Eigenbrot C, J Mol Biol. 2005 Mar 11;346(5):1335-49. Epub 2005 Jan 28. PMID:15713485

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (84 Kb) [Save to disk] Biological Unit Coordinates (1ybw.pdb1.gz) 40 Kb Biological Unit Coordinates (1ybw.pdb2.gz) 40 Kb LPC: Ligand-Protein Contacts for 1YBW CSU: Contacts of Structural Units for 1YBW Likely Quarternary Molecular Structure file(s) for 1YBW Structure Factors (117 Kb) Retrieve 1YBW in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YBW from S2C, [Save to disk] Re-refined 1ybw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1YBW 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 1YBW

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 1YBW, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1ybw_B] [1ybw_A] [1ybw] SWISS-PROT database: [Q04756] Domain organization of [HGFA_HUMAN] by SWISSPFAM Domain found in 1YBW: [Tryp_SPc ] by SMART

Other resources with information on 1YBW

Community annotation for 1YBW at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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