OCA Atlas for 5CDO

5CDO

date

authors

compound

source

symmetry

R_factor

R_Free

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma

method

X-Ray Diffraction

resolution

ligand

50M, 53L, 53M, GOL, MN, NA, PTR, SO4

enzyme

Gene
Ontology

Chain	Function	Process	Component
R, T, A, C
U, B, S, D

Primary reference

Crystallization and initial crystallographic analysis of covalent DNA-cleavage complexes of Staphyloccocus aureus DNA gyrase with QPT-1, moxifloxacin and etoposide., Srikannathasan V, Wohlkonig A, Shillings A, Singh O, Chan PF, Huang J, Gwynn MN, Fosberry AP, Homes P, Hibbs M, Theobald AJ, Spitzfaden C, Bax BD, Acta Crystallogr F Struct Biol Commun. 2015 Oct 1;71(Pt 10):1242-6. doi:, 10.1107/S2053230X15015290. Epub 2015 Sep 23. PMID:26457513

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1347 Kb) [Save to disk]

Biological Unit Coordinates (5cdo.pdb1.gz) 675 Kb

Biological Unit Coordinates (5cdo.pdb2.gz) 666 Kb

LPC: Ligand-Protein Contacts for 5CDO

CSU: Contacts of Structural Units for 5CDO

Structure Factors (627 Kb)

Retrieve 5CDO in mmCIF format [Save to disk]

Re-refined 5cdo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5CDO 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.

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: [5cdo] [5cdo_A] [5cdo_B] [5cdo_C] [5cdo_D] [5cdo_E] [5cdo_F] [5cdo_R] [5cdo_S] [5cdo_T] [5cdo_U] [5cdo_V] [5cdo_W]

SWISS-PROT database:

Domains found in 5CDO: [TOP2c] [TOP4c ] by SMART

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