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
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


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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