4RTL Transferase Dna date Nov 15, 2014
title Complex Of Escherichia Coli Dna Adenine Methyltransferase (D Sinefungin And With Dna Containing Distal Pap Regulon Seque
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(Tpcptpapapapgpaptpcpg)-3')
Chain: F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

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

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 21 21 21
R_factor 0.204 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
38.333 66.296 149.241 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.19 Å
ligand 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] (114 Kb) [Save to disk]
  • Biological Unit Coordinates (4rtl.pdb1.gz) 108 Kb
  • LPC: Ligand-Protein Contacts for 4RTL
  • CSU: Contacts of Structural Units for 4RTL
  • Structure Factors (189 Kb)
  • Retrieve 4RTL in mmCIF format [Save to disk]
  • Re-refined 4rtl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4RTL 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 4RTL
  • 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 4RTL, from MSDmotif at EBI
  • Fold representative 4rtl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4rtl] [4rtl_F] [4rtl_G] [4rtl_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4RTL
  • Community annotation for 4RTL at PDBWiki (http://pdbwiki.org)

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