6N1P Isomerase Dna date Nov 10, 2018
title Dihedral Oligomeric Complex Of Gyra N-Terminal Fragment With Solved By Cryoem In C2 Symmetry
authors K.M.Soczek, T.Grant, P.B.Rosenthal, A.Mondragon
compound source
Molecule: Dna Gyrase Subunit A
Chain: A, B, C, D, E, F, G, H
Fragment: Unp Residues 20-506
Ec: 5.99.1.3
Engineered: Yes
Organism_scientific: Streptococcus Pneumoniae G54
Organism_taxid: 512566
Gene: Gyra_1, Gyra, Ers409327_01712
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmcsg7

Molecule: Dna (44-Mer)
Chain: I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Cloning Vector Pbr322
Organism_taxid: 47470

Molecule: Dna (44-Mer)
Chain: J
Engineered: Yes

Synthetic: Yes
Organism_scientific: Cloning Vector Pbr322
Organism_taxid: 47470
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 6.35 Å
ligand
enzyme Isomerase E.C.5.99.1.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B, H, C, D, G


Primary referenceCryoEM structures of open dimers of Gyrase A in complex with DNA illuminate mechanism of strand passage., Soczek KM, Grant T, Rosenthal PB, Mondragon A, Elife. 2018 Nov 20;7. pii: 41215. doi: 10.7554/eLife.41215. PMID:30457554
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (668 Kb) [Save to disk]
  • Biological Unit Coordinates (6n1p.pdb1.gz) 661 Kb
  • CSU: Contacts of Structural Units for 6N1P
  • Retrieve 6N1P in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6N1P from S2C, [Save to disk]
  • View 6N1P 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 6N1P
  • 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 6n1p from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6n1p_C] [6n1p_B] [6n1p_G] [6n1p_A] [6n1p_D] [6n1p_J] [6n1p_E] [6n1p_F] [6n1p_I] [6n1p_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6N1P
  • Community annotation for 6N1P at PDBWiki (http://pdbwiki.org)

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