1IU3 Replication Inhibitor Dna date Feb 26, 2002
title Crystal Structure Of The E.Coli Seqa Protein Complexed With Hemimethylated Dna
authors N.Fujikawa, H.Kurumizaka, O.Nureki, Y.Tanaka, M.Yamazoe, S.Hiraga, S.Yokoyama, Riken Structural Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: 5'-D(Apapgpgpaptpcpcpapa)-3'
Chain: A, D
Engineered: Yes
Synthetic: Yes

Molecule: 5'-D(Tptpgpgpaptpcpcptpt)-3'
Chain: B, E
Engineered: Yes

Synthetic: Yes

Molecule: Seqa Protein
Chain: C, F
Fragment: Dna Binding Domain, Residues 71-181
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Seqa
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Dh5a
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-6p1
symmetry Space Group: P 6 2 2
R_factor 0.238 R_Free 0.286
crystal
cell
length a length b length c angle alpha angle beta angle gamma
152.595 152.595 119.355 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.00 Å
related structures by homologous chain: 1LRR
Gene
Ontology
ChainFunctionProcessComponent
F, C


Primary referenceStructural and biochemical analyses of hemimethylated DNA binding by the SeqA protein., Fujikawa N, Kurumizaka H, Nureki O, Tanaka Y, Yamazoe M, Hiraga S, Yokoyama S, Nucleic Acids Res 2004 Jan 2;32(1):82-92 Print 2004. PMID:14704346
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (62 Kb) [Save to disk]
  • Biological Unit Coordinates (1iu3.pdb1.gz) 56 Kb
  • CSU: Contacts of Structural Units for 1IU3
  • Likely Quarternary Molecular Structure file(s) for 1IU3
  • Structure Factors (189 Kb)
  • Retrieve 1IU3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1IU3 from S2C, [Save to disk]
  • Re-refined 1iu3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1IU3 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 1IU3
  • 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 1IU3, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1iu3c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1iu3f_, region F [Jmol] [rasmolscript] [script source]
  • Fold representative 1iu3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1iu3_D] [1iu3_E] [1iu3_B] [1iu3_F] [1iu3_A] [1iu3_C] [1iu3]
  • SWISS-PROT database: [P0AFY8]
  • Domain organization of [SEQA_ECOLI] by SWISSPFAM
  • Other resources with information on 1IU3
  • Community annotation for 1IU3 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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