5T5K Dna Binding Protein Dna date Aug 31, 2016
title Structure Of Histone-Based Chromatin In Archaea
authors S.Bhattacharyya, F.Mattiroli, P.N.Dyer, K.Sandman, J.N.Reeve, K.L
compound source
Molecule: Dna-Binding Protein Hmf-2
Chain: A, B, C, D, E, F
Synonym: Archaeal Histone B
Engineered: Yes
Organism_scientific: Methanothermus Fervidus
Organism_taxid: 2180
Gene: Hmfb
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (90-Mer)
Chain: I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (90-Mer)
Chain: J
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 65
R_factor 0.214 R_Free 0.262
crystal
cell
length a length b length c angle alpha angle beta angle gamma
99.454 99.454 171.730 90.00 90.00 120.00
method X-Ray Diffractionresolution 4.00 Å
ligand CAC enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceStructure of histone-based chromatin in Archaea., Mattiroli F, Bhattacharyya S, Dyer PN, White AE, Sandman K, Burkhart BW, Byrne KR, Lee T, Ahn NG, Santangelo TJ, Reeve JN, Luger K, Science. 2017 Aug 11;357(6351):609-612. doi: 10.1126/science.aaj1849. PMID:28798133
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (294 Kb) [Save to disk]
  • Biological Unit Coordinates (5t5k.pdb1.gz) 288 Kb
  • LPC: Ligand-Protein Contacts for 5T5K
  • CSU: Contacts of Structural Units for 5T5K
  • Structure Factors (468 Kb)
  • Retrieve 5T5K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5T5K from S2C, [Save to disk]
  • View 5T5K 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 5T5K
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5t5k_A] [5t5k_J] [5t5k_C] [5t5k_F] [5t5k_E] [5t5k_D] [5t5k_B] [5t5k_I]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5T5K
  • Community annotation for 5T5K at PDBWiki (http://pdbwiki.org)

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