4RTQ Transferase Dna date Nov 15, 2014
title Complex Of Escherichia Coli Dna Adenine Methyltransferase (D Adohcy And A 5-Bp Non-Canonical Site (Gttta )
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(Apcptptpapapapcptptpapa)-3'
Chain: F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Tptptpapapgptptptpapapg)-3'
Chain: G
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 21 21 21
R_factor 0.161 R_Free 0.196
crystal
cell
length a length b length c angle alpha angle beta angle gamma
44.009 62.918 136.642 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand EDO, SAH 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] (114 Kb) [Save to disk]
  • Biological Unit Coordinates (4rtq.pdb1.gz) 108 Kb
  • LPC: Ligand-Protein Contacts for 4RTQ
  • CSU: Contacts of Structural Units for 4RTQ
  • Structure Factors (258 Kb)
  • Retrieve 4RTQ in mmCIF format [Save to disk]
  • Re-refined 4rtq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4RTQ 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 4RTQ
  • 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 4RTQ, from MSDmotif at EBI
  • Fold representative 4rtq from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4rtq_F] [4rtq_A] [4rtq_G] [4rtq]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4RTQ
  • Community annotation for 4RTQ at PDBWiki (http://pdbwiki.org)

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