2VRT	Hydrolase	date	Apr 14, 2008
title	Crystal Structure Of E. Coli Rnase E Possessing M1 Rna Fragm Catalytic Domain
authors	D.J.Koslover, A.J.Callaghan, M.J.Marcaida, E.F.Garman, M.Martick W.G.Scott, B.F.Luisi
compound		source
Molecule: Ribonuclease E Chain: A, B, C, D Fragment: Catalytic Domain, Residues 1-509 Synonym: Rnase E Ec: 3.1.4.- Engineered: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 562 Strain: K12 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_plasmid: Pet16b Variant
Molecule: 5'-R(Upup)-3' Chain: E, F Engineered: Yes		Synthetic: Yes Organism_scientific: Escherichia Coli Organism_taxid: 562
Molecule: 5'-R(Upupgp)-3' Chain: G, H Engineered: Yes		Synthetic: Yes Organism_scientific: Escherichia Coli Organism_taxid: 562
symmetry	Space Group: C 1 2 1	R_factor 0.317 R_Free 0.351
crystal cell	length a length b length c angle alpha angle beta angle gamma 93.894 121.252 242.228 90.00 99.47 90.00
method	X-Ray Diffraction	resolution	3.50 Å
ligand	ZN	enzyme	Hydrolase E.C.3.1.4 BRENDA
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	The Crystal Structure of the Escherichia coli RNase E Apoprotein and a Mechanism for RNA Degradation., Koslover DJ, Callaghan AJ, Marcaida MJ, Garman EF, Martick M, Scott WG, Luisi BF, Structure. 2008 Aug;16(8):1238-44. PMID:18682225

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (555 Kb) [Save to disk] Biological Unit Coordinates (2vrt.pdb1.gz) 149 Kb Biological Unit Coordinates (2vrt.pdb2.gz) 126 Kb Biological Unit Coordinates (2vrt.pdb3.gz) 128 Kb Biological Unit Coordinates (2vrt.pdb4.gz) 154 Kb LPC: Ligand-Protein Contacts for 2VRT CSU: Contacts of Structural Units for 2VRT Likely Quarternary Molecular Structure file(s) for 2VRT Structure Factors (497 Kb) Retrieve 2VRT in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2VRT from S2C, [Save to disk] Re-refined 2vrt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2VRT 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 2VRT

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 2VRT, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2vrt] [2vrt_D] [2vrt_A] [2vrt_F] [2vrt_E] [2vrt_B] [2vrt_H] [2vrt_C] [2vrt_G] SWISS-PROT database: [P21513] Domain organization of [RNE_ECOLI] by SWISSPFAM Domain found in 2VRT: [S1 ] by SMART

Other resources with information on 2VRT

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

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