1VSI	Endonuclease	date	Mar 04, 1997
title	Asv Integrase Core Domain With Ca(II) Cofactor
authors	G.Bujacz, J.Alexandratos, A.Wlodawer
compound		source
Molecule: Integrase Chain: A Fragment: Catalytic Core Domain, Residues 1 - 4, 52 - 209 Engineered: Yes		Organism_scientific: Rous Sarcoma Virus (Strain Schmidt- Ruppin); Organism_taxid: 11889 Strain: Schmidt-Ruppin Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_plasmid: Prc23in(52-207) Other_details: Original Viral Dna Clone\: Ju Et Al., J. Virol. 33\: 1026-1033 (1980), Original Expression Clone Terry Et Al., J. Virol. 62\: 2358-2365 (1988), Expression
symmetry	Space Group: P 43 21 2	R_factor 0.171 R_Free NULL
crystal cell	length a length b length c angle alpha angle beta angle gamma 66.150 66.150 80.960 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand	CA, EPE, OCY	enzyme
related structures	by homologous chain: 1C0M, 1VSK
Gene Ontology	Chain Function Process Component A
Primary reference	Binding of different divalent cations to the active site of avian sarcoma virus integrase and their effects on enzymatic activity., Bujacz G, Alexandratos J, Wlodawer A, Merkel G, Andrake M, Katz RA, Skalka AM, J Biol Chem 1997 Jul 18;272(29):18161-8. PMID:9218451

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (31 Kb) [Save to disk] Biological Unit Coordinates (1vsi.pdb1.gz) 51 Kb LPC: Ligand-Protein Contacts for 1VSI CSU: Contacts of Structural Units for 1VSI Likely Quarternary Molecular Structure file(s) for 1VSI Structure Factors (113 Kb) Retrieve 1VSI in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1VSI from S2C, [Save to disk] Re-refined 1vsi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1VSI 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 1VSI

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 1VSI, from MSDmotif at EBI Genome occurence of 1VSI's fold from GeneCensus Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1vsi__, region [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: [1vsi] [1vsi_A] SWISS-PROT database: [O92956] Domain organization of [POL_RSVSB] by SWISSPFAM

Other resources with information on 1VSI

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

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