1LVB	Viral Protein	date	May 28, 2002
title	Catalytically Inactive Tobacco Etch Virus Protease Complexed Substrate
authors	J.Phan, A.Zdanov, A.G.Evdokimov, J.E.Tropea, H.K.Peters Iii, R.B. M.Li, A.Wlodawer, D.S.Waugh
compound		source
Molecule: Catalytic Domain Of The Nuclear Inclusion Protein Chain: A, B Engineered: Yes Mutation: Yes		Organism_scientific: Tobacco Etch Virus Organism_taxid: 12227 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Prk529
Molecule: Oligopeptide Substrate For The Protease Chain: C, D Engineered: Yes
symmetry	Space Group: P 42 21 2	R_factor 0.236 R_Free 0.263
crystal cell	length a length b length c angle alpha angle beta angle gamma 125.317 125.317 127.933 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand	GOL, MSE	enzyme
note	1LVB is a representative structure
related structures	by homologous chain: 1LVM, 1Q31
Gene Ontology	Chain Function Process Component A, B
Primary reference	Structural basis for the substrate specificity of tobacco etch virus protease., Phan J, Zdanov A, Evdokimov AG, Tropea JE, Peters HK 3rd, Kapust RB, Li M, Wlodawer A, Waugh DS, J Biol Chem 2002 Dec 27;277(52):50564-72. Epub 2002 Oct 10. PMID:12377789

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (84 Kb) [Save to disk] Biological Unit Coordinates (1lvb.pdb1.gz) 39 Kb Biological Unit Coordinates (1lvb.pdb2.gz) 39 Kb Biological Unit Coordinates (1lvb.pdb3.gz) 297 Kb Biological Unit Coordinates (1lvb.pdb4.gz) 149 Kb Biological Unit Coordinates (1lvb.pdb5.gz) 76 Kb LPC: Ligand-Protein Contacts for 1LVB CSU: Contacts of Structural Units for 1LVB Likely Quarternary Molecular Structure file(s) for 1LVB Structure Factors (727 Kb) Retrieve 1LVB in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1LVB from S2C, [Save to disk] Re-refined 1lvb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1LVB 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 1LVB

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 1LVB, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1lvba_, region A [Jmol] [rasmolscript] [script source]     - Domain d1lvbb_, region B [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1lvb_B] [1lvb_A] [1lvb_D] [1lvb_C] [1lvb] SWISS-PROT database: [P04517] Domain organization of [POLG_TEV] by SWISSPFAM

Other resources with information on 1LVB

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

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