2D8W	Hydrolase	date	Dec 08, 2005
title	Structure Of Hyper-Vil-Trypsin
authors	H.Miyatake, T.Hasegawa, A.Yamano
compound		source
Molecule: Cationic Trypsin Chain: A Synonym: Beta-Trypsin Ec: 3.4.21.4		Organism_scientific: Bos Taurus Organism_common: Cattle Organism_taxid: 9913
symmetry	Space Group: P 21 21 21	R_factor 0.222 R_Free 0.256
crystal cell	length a length b length c angle alpha angle beta angle gamma 54.323 58.197 66.620 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	CA, IOD, IYR, TYI	enzyme	Hydrolase E.C.3.4.21.4 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	New methods to prepare iodinated derivatives by vaporizing iodine labelling (VIL) and hydrogen peroxide VIL (HYPER-VIL)., Miyatake H, Hasegawa T, Yamano A, Acta Crystallogr D Biol Crystallogr. 2006 Mar;62(Pt 3):280-9. Epub 2006, Feb 22. PMID:16510975

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (40 Kb) [Save to disk] Biological Unit Coordinates (2d8w.pdb1.gz) 35 Kb LPC: Ligand-Protein Contacts for 2D8W CSU: Contacts of Structural Units for 2D8W Likely Quarternary Molecular Structure file(s) for 2D8W Structure Factors (112 Kb) Retrieve 2D8W in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2D8W from S2C, [Save to disk] Re-refined 2d8w structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2D8W 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 2D8W

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 2D8W, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2d8w] [2d8w_A] SWISS-PROT database: [P00760] Domain organization of [TRY1_BOVIN] by SWISSPFAM Domain found in 2D8W: [Tryp_SPc ] by SMART

Other resources with information on 2D8W

Community annotation for 2D8W at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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