5P4O	Hydrolase	date	Jun 28, 2016
title	Automated Refinement Of Diffraction Data Obtained From An Endothiapepsin Crystal Treated With Fragment 213
authors	J.Schiebel, A.Heine, G.Klebe
compound		source
Molecule: Endothiapepsin Chain: A Ec: 3.4.23.22		Organism_scientific: Cryphonectria Parasitica Organism_taxid: 5116
symmetry	Space Group: P 1 21 1	R_factor 0.125 R_Free 0.133
crystal cell	length a length b length c angle alpha angle beta angle gamma 45.259 73.094 52.609 90.00 109.27 90.00
method	X-Ray Diffraction	resolution	1.06 Å
ligand		enzyme	Hydrolase E.C.3.4.23.22 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	High-Throughput Crystallography: Reliable and Efficient Identification of Fragment Hits., Schiebel J, Krimmer SG, Rower K, Knorlein A, Wang X, Park AY, Stieler M, Ehrmann FR, Fu K, Radeva N, Krug M, Huschmann FU, Glockner S, Weiss MS, Mueller U, Klebe G, Heine A, Structure. 2016 Aug 2;24(8):1398-409. doi: 10.1016/j.str.2016.06.010. Epub 2016, Jul 21. PMID:27452405

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (152 Kb) [Save to disk] Biological Unit Coordinates (5p4o.pdb1.gz) 144 Kb CSU: Contacts of Structural Units for 5P4O Structure Factors (1291 Kb) Retrieve 5P4O in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5P4O from S2C, [Save to disk] Re-refined 5p4o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5P4O 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 5P4O

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

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5p4o_A] [5p4o] SWISS-PROT database: Domain organization of by SWISSPFAM

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Community annotation for 5P4O at PDBWiki (http://pdbwiki.org)

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