2PVI	Hydrolase Dna	date	Nov 01, 1998
title	Pvuii Endonuclease Complexed To An Iodinated Cognate Dna
authors	J.Horton, X.Cheng
compound		source
Molecule: Dna (5'-D(Tpgpapcpcpapgp(C38)Ptpgpgpt Chain: C, D Engineered: Yes		Synthetic: Yes
Molecule: Type II Restriction Enzyme Pvuii Chain: A, B Synonym: Endonuclease Pvuii, R.Pvuii Ec: 3.1.21.4 Engineered: Yes		Organism_scientific: Proteus Vulgaris Organism_taxid: 585 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Pr653 Expression_system_plasmid: Ppr594
symmetry	Space Group: P 21 21 21	R_factor 0.188 R_Free 0.255
crystal cell	length a length b length c angle alpha angle beta angle gamma 95.800 86.300 48.500 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.76 Å
ligand	C38	enzyme	Hydrolase E.C.3.1.21.4 BRENDA
related structures	by homologous chain: 1EYU, 3PVI
Gene Ontology	Chain Function Process Component A, B nuclease activity endonuclease activity
Primary reference	How is modification of the DNA substrate recognized by the PvuII restriction endonuclease?, Horton JR, Bonventre J, Cheng X, Biol Chem 1998 Apr-May;379(4-5):451-8. PMID:9628337

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (70 Kb) [Save to disk] Biological Unit Coordinates (2pvi.pdb1.gz) 65 Kb LPC: Ligand-Protein Contacts for 2PVI CSU: Contacts of Structural Units for 2PVI Likely Quarternary Molecular Structure file(s) for 2PVI Structure Factors (384 Kb) Retrieve 2PVI in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2PVI from S2C, [Save to disk] Re-refined 2pvi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2PVI 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 2PVI

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 2PVI, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d2pvia_, region A [Jmol] [rasmolscript] [script source]     - Domain d2pvib_, 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: [2pvi_C] [2pvi_A] [2pvi_B] [2pvi_D] [2pvi] SWISS-PROT database: [P23657] Domain organization of [T2P2_PROVU] by SWISSPFAM

Other resources with information on 2PVI

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

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