1PVR Recombination Dna date Jun 28, 2003
title Basis For A Switch In Substrate Specificity: Crystal Structure Of Selected Variant Of Cre Site-Specific Recombinase, Lnsgg Bound To The Loxp (Wildtype) Recognition Site
authors E.P.Baldwin, S.S.Martin, J.Abel, K.A.Gelato, H.Kim, P.G.Schultz, S.W.Santoro
compound source
Molecule: 34-Mer
Chain: C
Engineered: Yes
Other_details: Top Strand Of Loxp Wildtype Dna Substrate
Synthetic: Yes

Molecule: 34-Mer
Chain: D
Engineered: Yes
Other_details: Bottom Strand Of Loxp Wildtype Dna Substrate;

Synthetic: Yes

Molecule: Recombinase Cre
Chain: A, B
Engineered: Yes
Mutation: Yes
Other_details: Selected Cre Site-Specific Recombinase Mutant (I174l,T258n, R259s, E262g, E266g)

Organism_scientific: Enterobacteria Phage P1
Organism_taxid: 10678
Gene: Cre
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21-De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28b(+)
symmetry Space Group: C 2 2 21
R_factor 0.212 R_Free 0.287
crystal
cell
length a length b length c angle alpha angle beta angle gamma
107.390 121.570 179.950 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.65 Å
related structures by homologous chain: 1DRG, 5CRX
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceA specificity switch in selected cre recombinase variants is mediated by macromolecular plasticity and water., Baldwin EP, Martin SS, Abel J, Gelato KA, Kim H, Schultz PG, Santoro SW, Chem Biol 2003 Nov;10(11):1085-94. PMID:14652076
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (141 Kb) [Save to disk]
  • Biological Unit Coordinates (1pvr.pdb1.gz) 267 Kb
  • CSU: Contacts of Structural Units for 1PVR
  • Likely Quarternary Molecular Structure file(s) for 1PVR
  • Structure Factors (265 Kb)
  • Retrieve 1PVR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PVR from S2C, [Save to disk]
  • Re-refined 1pvr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PVR 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 1PVR
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1PVR, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pvra2, region A:130-341 [Jmol] [rasmolscript] [script source]
        - Domain d1pvra1, region A:18-129 [Jmol] [rasmolscript] [script source]
        - Domain d1pvrb2, region B:130-341 [Jmol] [rasmolscript] [script source]
        - Domain d1pvrb1, region B:19-129 [Jmol] [rasmolscript] [script source]
  • Fold representative 1pvr from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1pvr] [1pvr_A] [1pvr_C] [1pvr_D] [1pvr_B]
  • SWISS-PROT database: [P06956]
  • Domain organization of [RECR_BPP1] by SWISSPFAM
  • Other resources with information on 1PVR
  • Community annotation for 1PVR at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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