1Q3U Replication Dna date Aug 01, 2003
title Crystal Structure Of A Wild-Type Cre Recombinase-Loxp Synapse: Pre-Cleavage Complex
authors E.Ennifar, J.E.W.Meyer, F.Buchholz, A.F.Stewart, D.Suck
compound source
Molecule: Loxp Dna
Chain: C, G
Engineered: Yes
Other_details: First Strand Of Loxp Site
Synthetic: Yes

Molecule: Loxp Dna
Chain: D, H
Engineered: Yes
Other_details: Second Strand Of Loxp Site

Synthetic: Yes

Molecule: Cre Recombinase
Chain: A, B, E, F
Synonym: Gst-Loxp-Cre Recombinase Fusion Protein Retrofitting Vector Pretroes;
Engineered: Yes

Organism_scientific: Enterobacteria Phage P1
Organism_taxid: 10678
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgem
symmetry Space Group: P 21 21 21
R_factor 0.223 R_Free 0.244
length a length b length c angle alpha angle beta angle gamma
107.991 161.064 196.003 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand IOD, MG, UMP enzyme
related structures by homologous chain: 1Q3V, 1XNS
F, A, E, B

Primary referenceCrystal structure of a wild-type Cre recombinase-loxP synapse reveals a novel spacer conformation suggesting an alternative mechanism for DNA cleavage activation., Ennifar E, Meyer JE, Buchholz F, Stewart AF, Suck D, Nucleic Acids Res 2003 Sep 15;31(18):5449-60. PMID:12954782
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (275 Kb) [Save to disk]
  • Biological Unit Coordinates (1q3u.pdb1.gz) 269 Kb
  • LPC: Ligand-Protein Contacts for 1Q3U
  • CSU: Contacts of Structural Units for 1Q3U
  • Likely Quarternary Molecular Structure file(s) for 1Q3U
  • Structure Factors (643 Kb)
  • Retrieve 1Q3U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Q3U from S2C, [Save to disk]
  • Re-refined 1q3u structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1Q3U 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 1Q3U
  • 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 1Q3U, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1q3ua1, region A:10-129 [Jmol] [rasmolscript] [script source]
        - Domain d1q3ua2, region A:130-341 [Jmol] [rasmolscript] [script source]
        - Domain d1q3ub2, region B:130-341 [Jmol] [rasmolscript] [script source]
        - Domain d1q3ub1, region B:20-129 [Jmol] [rasmolscript] [script source]
        - Domain d1q3ue2, region E:130-341 [Jmol] [rasmolscript] [script source]
        - Domain d1q3ue1, region E:21-129 [Jmol] [rasmolscript] [script source]
        - Domain d1q3uf2, region F:130-341 [Jmol] [rasmolscript] [script source]
        - Domain d1q3uf1, region F:20-129 [Jmol] [rasmolscript] [script source]
  • Fold representative 1q3u 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: [1q3u_H] [1q3u_B] [1q3u_G] [1q3u_F] [1q3u_A] [1q3u_D] [1q3u_C] [1q3u_E] [1q3u]
  • SWISS-PROT database: [P06956]
  • Domain organization of [RECR_BPP1] by SWISSPFAM
  • Other resources with information on 1Q3U
  • Community annotation for 1Q3U 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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