6FM4 Isomerase date Jan 30, 2018
title The Crystal Structure Of S. Aureus Gyrase Complex With Id-13
authors R.Ombrato, B.Garofalo, G.Mangano, F.Mancini
compound source
Molecule: Dna Gyrase Subunit B,Dna Gyrase Subunit B,Dna Gyr Subunit A;
Chain: B, D
Engineered: Yes
Mutation: Yes
Other_details: C-Terminus Gyrb (640) Fused To N-Terminus Gy Domain 544-579 Deleted And Replaced With Two Residues Tg.;
Organism_scientific: Staphylococcus Aureus (Strain N315)
Organism_taxid: 158879
Gene: Gyrb, Sa0005, Gyra, Sa0006
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'- 5uad(Pgpcpcpgptpapgpgpgpcpcpcptpapcpgpgp
Chain: E
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'- 5uad(Pgpcpcpgptpapgpgpgpcpcpcptpapcpgpgp
Chain: F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 61
R_factor 0.225 R_Free 0.300
length a length b length c angle alpha angle beta angle gamma
92.951 92.951 407.030 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.70 Å
ligand 5UA, DU5, MN enzyme Isomerase E.C. BRENDA
D, B

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (239 Kb) [Save to disk]
  • Biological Unit Coordinates (6fm4.pdb1.gz) 232 Kb
  • LPC: Ligand-Protein Contacts for 6FM4
  • CSU: Contacts of Structural Units for 6FM4
  • Structure Factors (1619 Kb)
  • Retrieve 6FM4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6FM4 from S2C, [Save to disk]
  • View 6FM4 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 6FM4
  • 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 6fm4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6fm4_D] [6fm4_B] [6fm4_F] [6fm4_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6FM4
  • Community annotation for 6FM4 at PDBWiki (http://pdbwiki.org)

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