4KIS Recombination Dna date May 02, 2013
title Crystal Structure Of A Lsr-Dna Complex
authors K.Rutherford, P.Yuan, K.Perry, G.D.Van Duyne
compound source
Molecule: Putative Integrase [Bacteriophage A118]
Chain: A, B, C, D
Fragment: C-Terminal Domain
Engineered: Yes
Organism_scientific: Listeria Innocua
Organism_taxid: 272626
Strain: Clip 11262
Gene: Int
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Petduet

Molecule: Dna (26-Mer)
Chain: E, G, I, K
Fragment: Attp Left Half Site Top Strand
Engineered: Yes
Other_details: Attp Half-Site

Synthetic: Yes

Molecule: Dna (26-Mer)
Chain: F, H, J, L
Fragment: Attp Left Half Site Bottom Strand
Engineered: Yes
Other_details: Attp Half-Site

Synthetic: Yes
symmetry Space Group: I 2 3
R_factor 0.236 R_Free 0.256
crystal
cell
length a length b length c angle alpha angle beta angle gamma
290.750 290.750 290.750 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.20 Å
ligand CA, ZN enzyme
Primary referenceAttachment site recognition and regulation of directionality by the serine integrases., Rutherford K, Yuan P, Perry K, Sharp R, Van Duyne GD, Nucleic Acids Res. 2013 Sep 1;41(17):8341-56. doi: 10.1093/nar/gkt580. Epub 2013 , Jul 2. PMID:23821671
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (271 Kb) [Save to disk]
  • Biological Unit Coordinates (4kis.pdb1.gz) 71 Kb
  • Biological Unit Coordinates (4kis.pdb2.gz) 69 Kb
  • Biological Unit Coordinates (4kis.pdb3.gz) 70 Kb
  • Biological Unit Coordinates (4kis.pdb4.gz) 64 Kb
  • LPC: Ligand-Protein Contacts for 4KIS
  • CSU: Contacts of Structural Units for 4KIS
  • Structure Factors (639 Kb)
  • Retrieve 4KIS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4KIS from S2C, [Save to disk]
  • Re-refined 4kis structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4KIS 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 4KIS
  • 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 4KIS, from MSDmotif at EBI
  • Fold representative 4kis from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4kis_G] [4kis_A] [4kis_C] [4kis_L] [4kis_D] [4kis_J] [4kis_K] [4kis_B] [4kis_H] [4kis_I] [4kis] [4kis_F] [4kis_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4KIS
  • Community annotation for 4KIS at PDBWiki (http://pdbwiki.org)

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