5JGH	Dna Binding Protein	date	Apr 20, 2016
title	Crystal Structure Of The Mitochondrial Dna Packaging Protein Complex With Dna At 2.6 Angstrom Resolution
authors	A.Chakraborty, S.Lyonnais, M.Sola
compound		source
Molecule: Ars-Binding Factor 2, Mitochondrial Chain: A, D, G, J Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c); Organism_common: Baker'S Yeast Organism_taxid: 559292 Gene: Abf2, Him1, Ymr072w, Ym9916.11 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_variant: Plys Expression_system_vector_type: Plasmid Expression_system_plasmid: Pcri7a (Pet-28a Derivative)
Molecule: Dna (5'- D(Tptptpaptptpaptptptptpaptpaptptpaptpap 3'); Chain: B, E, H, K Engineered: Yes		Synthetic: Yes Organism_scientific: Saccharomyces Cerevisiae Organism_taxid: 4932 Other_details: Oligos Purchased From Biomers
Molecule: Dna (5'- D(Tptpaptpaptpapaptpaptpapapapaptpapaptp 3'); Chain: C, F, I, L Engineered: Yes		Synthetic: Yes Organism_scientific: Saccharomyces Cerevisiae Organism_taxid: 4932 Other_details: Oligos Purchased From Biomers
symmetry	Space Group: P 1 21 1	R_factor 0.227 R_Free 0.260
crystal cell	length a length b length c angle alpha angle beta angle gamma 71.989 131.991 71.994 90.00 103.21 90.00
method	X-Ray Diffraction	resolution	2.60 Å
ligand	ACT	enzyme
Primary reference	DNA structure directs positioning of the mitochondrial genome packaging protein Abf2p., Chakraborty A, Lyonnais S, Battistini F, Hospital A, Medici G, Prohens R, Orozco M, Vilardell J, Sola M, Nucleic Acids Res. 2017 Jan 25;45(2):951-967. doi: 10.1093/nar/gkw1147. Epub 2016, Nov 29. PMID:27899643

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (184 Kb) [Save to disk] Biological Unit Coordinates (5jgh.pdb1.gz) 90 Kb Biological Unit Coordinates (5jgh.pdb2.gz) 90 Kb LPC: Ligand-Protein Contacts for 5JGH CSU: Contacts of Structural Units for 5JGH Structure Factors (2536 Kb) Retrieve 5JGH in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5JGH from S2C, [Save to disk] Re-refined 5jgh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5JGH 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 5JGH

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: [5jgh_E] [5jgh] [5jgh_K] [5jgh_A] [5jgh_L] [5jgh_H] [5jgh_J] [5jgh_C] [5jgh_F] [5jgh_G] [5jgh_D] [5jgh_B] [5jgh_I] SWISS-PROT database: Domain organization of by SWISSPFAM

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