1J1V	Replication Dna	date	Dec 18, 2002
title	Crystal Structure Of Dnaa Domainiv Complexed With Dnaabox Dn
authors	N.Fujikawa, H.Kurumizaka, O.Nureki, T.Terada, M.Shirouzu, T.Katay S.Yokoyama, Riken Structural Genomicsproteomics Initiative
compound		source
Molecule: 5'-D(Tpgptptpaptpcpcpapcpapgpg)-3' Chain: B Synonym: Dnaabox Dna Engineered: Yes		Synthetic: Yes
Molecule: 5'-D(Cpcptpgptpgpgpaptpapapcpa)-3' Chain: C Synonym: Dnaabox Dna Engineered: Yes		Synthetic: Yes
Molecule: Chromosomal Replication Initiator Protein Dnaa Chain: A Fragment: Dna Binding Domain, Dnaa Domainiv Engineered: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 562 Gene: Dnaa Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15b Other_details: Cell-Free Protein Synthesis System
symmetry	Space Group: P 41 21 2	R_factor 0.229 R_Free 0.249
crystal cell	length a length b length c angle alpha angle beta angle gamma 50.385 50.385 158.830 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.10 Å
ligand	MSE	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	Structural basis of replication origin recognition by the DnaA protein., Fujikawa N, Kurumizaka H, Nureki O, Terada T, Shirouzu M, Katayama T, Yokoyama S, Nucleic Acids Res 2003 Apr 15;31(8):2077-86. PMID:12682358

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk] Biological Unit Coordinates (1j1v.pdb1.gz) 28 Kb LPC: Ligand-Protein Contacts for 1J1V CSU: Contacts of Structural Units for 1J1V Likely Quarternary Molecular Structure file(s) for 1J1V Structure Factors (146 Kb) Retrieve 1J1V in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1J1V from S2C, [Save to disk] Re-refined 1j1v structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1J1V 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 1J1V

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 3D motif for 1J1V, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1j1va_, region A [Jmol] [rasmolscript] [script source] 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: [1j1v_C] [1j1v_A] [1j1v] [1j1v_B] SWISS-PROT database: [P03004] Domain organization of [DNAA_ECOLI] by SWISSPFAM Domain found in 1J1V: [Bac_DnaA_C ] by SMART

Other resources with information on 1J1V

Community annotation for 1J1V at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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