5XOU Dna Binding Protein date May 31, 2017
title Crystal Structure Of T. Thermophilus Argonaute Protein Compl A Bulge 7t8 On The Guide Strand
authors G.Sheng, J.Wang, H.Zhao, Y.Wang
compound source
Molecule: Ttago (D546n)
Chain: A, B
Synonym: Uncharacterized Protein
Engineered: Yes
Mutation: Yes
Organism_scientific: Thermus Thermophilus (Strain Hb27 At 163 Dsm 7039);
Organism_taxid: 262724
Strain: Hb27 Atcc Baa-163 Dsm 7039
Gene: Tt_p0026
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Dna (5'-D(Ptpgpapgpgptpaptpgpgptptpg
Chain: C, E
Engineered: Yes

Synthetic: Yes
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: Dna (5'-D(Apcpapapcpcptpapcptpapcpcp 3');
Chain: D, F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274
symmetry Space Group: P 21 21 21
R_factor 0.235 R_Free 0.276
length a length b length c angle alpha angle beta angle gamma
112.747 114.982 160.441 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.63 Å
ligand MG enzyme
A, B

Primary referenceStructure/cleavage-based insights into helical perturbations at bulge sites within T. thermophilus Argonaute silencing complexes., Sheng G, Gogakos T, Wang J, Zhao H, Serganov A, Juranek S, Tuschl T, Patel DJ, Wang Y, Nucleic Acids Res. 2017 Sep 6;45(15):9149-9163. doi: 10.1093/nar/gkx547. PMID:28911094
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (432 Kb) [Save to disk]
  • Biological Unit Coordinates (5xou.pdb1.gz) 422 Kb
  • LPC: Ligand-Protein Contacts for 5XOU
  • CSU: Contacts of Structural Units for 5XOU
  • Structure Factors (1613 Kb)
  • Retrieve 5XOU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5XOU from S2C, [Save to disk]
  • View 5XOU 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 5XOU
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5xou from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5xou_F] [5xou_A] [5xou_B] [5xou_D] [5xou_E] [5xou_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5XOU
  • Community annotation for 5XOU at PDBWiki (http://pdbwiki.org)

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