4RTJ Transferase Dna date Nov 15, 2014
title A Non-Cognate Complex Of Escherichia Coli Dna Adenine Methyltransferase (Dam) With Dna And Sinefungin
authors J.R.Horton, X.Cheng
compound source
Molecule: Dna Adenine Methylase
Chain: A
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 1110693
Strain: K-12 Substr. Mds42
Gene: Dam, Ecmds42_2833
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Hms174(De3)
Expression_system_vector_type: Plasmid

Molecule: Dna (5'-D(Tpcptpapgpaptpcptpapgpa)-3'
Chain: F, G
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 21 21 21
R_factor 0.214 R_Free 0.236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
36.367 63.114 145.043 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.99 Å
ligand EDO, SFG enzyme
Gene ECMDS42
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression., Horton JR, Zhang X, Blumenthal RM, Cheng X, Nucleic Acids Res. 2015 Apr 6. pii: gkv251. PMID:25845600
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (115 Kb) [Save to disk]
  • Biological Unit Coordinates (4rtj.pdb1.gz) 109 Kb
  • LPC: Ligand-Protein Contacts for 4RTJ
  • CSU: Contacts of Structural Units for 4RTJ
  • Structure Factors (223 Kb)
  • Retrieve 4RTJ in mmCIF format [Save to disk]
  • Re-refined 4rtj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4RTJ 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 4RTJ
  • 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 4RTJ, from MSDmotif at EBI
  • Fold representative 4rtj from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4rtj_F] [4rtj_A] [4rtj] [4rtj_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4RTJ
  • Community annotation for 4RTJ at PDBWiki (http://pdbwiki.org)

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