3DJP	Hydrolase	date	Jun 24, 2008
title	Bovine Seminal Ribonuclease- Uridine 3' Phosphate Complex
authors	K.Dossi, D.D.Leonidas, S.E.Zographos, N.G.Oikonomakos
compound		source
Molecule: Seminal Ribonuclease Chain: A, B Synonym: Seminal Rnase, S-Rnase, Ribonuclease Bs-1 Ec: 3.1.27.5		Organism_scientific: Bos Taurus Organism_common: Bovine Organism_taxid: 9913
symmetry	Space Group: P 21 21 21	R_factor 0.188 R_Free 0.230
crystal cell	length a length b length c angle alpha angle beta angle gamma 48.192 59.218 82.663 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.60 Å
ligand	UA3	enzyme	Hydrolase E.C.3.1.27.5 BRENDA
Gene Ontology	Chain Function Process Component A, B ribonuclease A activity
Primary reference	Mapping the ribonucleolytic active site of bovine seminal ribonuclease. The binding of pyrimidinyl phosphonucleotide inhibitors., Dossi K, Tsirkone VG, Hayes JM, Matousek J, Pouckova P, Soucek J, Zadinova M, Zographos SE, Leonidas DD, Eur J Med Chem. 2009 Nov;44(11):4496-508. Epub 2009 Jul 29. PMID:19643512

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk] Biological Unit Coordinates (3djp.pdb1.gz) 44 Kb LPC: Ligand-Protein Contacts for 3DJP CSU: Contacts of Structural Units for 3DJP Likely Quarternary Molecular Structure file(s) for 3DJP Structure Factors (800 Kb) Retrieve 3DJP in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3DJP from S2C, [Save to disk] Re-refined 3djp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3DJP 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 3DJP

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 3DJP, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3djp_B] [3djp] [3djp_A] SWISS-PROT database: [P00669] Domain organization of [RNS_BOVIN] by SWISSPFAM Domain found in 3DJP: [RNAse_Pc ] by SMART

Other resources with information on 3DJP

Community annotation for 3DJP at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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