3UGM Transcription Dna date Nov 02, 2011
title Structure Of Tal Effector Pthxo1 Bound To Its Dna Target
authors A.N.S.Mak, P.Bradley, R.A.Cernadas, A.J.Bogdanove, B.L.Stoddard
compound source
Molecule: Tal Effector Avrbs3ptha
Chain: A
Fragment: Unp Residues 21-1043
Engineered: Yes
Organism_scientific: Xanthomonas Oryzae
Organism_taxid: 360094
Strain: Pxo99a
Gene: Pthxo1, Pxo_00227
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna-1
Chain: B
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Dna

Molecule: Dna-2
Chain: C
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Dna
symmetry Space Group: P 21 21 21
R_factor 0.266 R_Free 0.294
length a length b length c angle alpha angle beta angle gamma
95.578 248.481 54.646 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
note 3UGM (Molecule of the Month:pdb180)
Gene PXO
Primary referenceThe Crystal Structure of TAL Effector PthXo1 Bound to Its DNA Target., Mak AN, Bradley P, Cernadas RA, Bogdanove AJ, Stoddard BL, Science. 2012 Jan 5. PMID:22223736
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (167 Kb) [Save to disk]
  • Biological Unit Coordinates (3ugm.pdb1.gz) 159 Kb
  • CSU: Contacts of Structural Units for 3UGM
  • Structure Factors (1239 Kb)
  • Retrieve 3UGM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3UGM from S2C, [Save to disk]
  • Re-refined 3ugm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3UGM 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 3UGM
  • 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 3UGM, from MSDmotif at EBI
  • Fold representative 3ugm from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ugm_B] [3ugm_A] [3ugm_C] [3ugm]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3UGM
  • Community annotation for 3UGM at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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