PDBsum entry 5ftp

Cell cycle

PDB id: 5ftp

Contents

Protein chains

230 a.a.

242 a.a.

Waters ×7

PDB id:

5ftp

Name:

Cell cycle

Title:

Sulfur sad phasing of cdc23nterm: data collection with a tailored x- ray beam size at 2.69 a wavelength (4.6 kev)

Structure:

Anaphase-promoting complex subunit 8. Chain: a, b. Fragment: n-term, unp residues 19-301. Synonym: 20s cyclosome/apc complex protein apc8,cell untimely torn protein 23,20s cyclosome/apc complex protein apc8, cell untimely torn protein 23. Engineered: yes

Source:

Schizosaccharomyces pombe. Organism_taxid: 4896. Expressed in: escherichia coli. Expression_system_taxid: 562. Other_details: source details are the same as 3zn3

Resolution:

3.10Å R-factor: 0.190 R-free: 0.260

Authors:

M.Cianci,M.R.Groves,D.Barford,T.R.Schneider

Key ref:

M.Cianci et al. (2016). Data collection with a tailored X-ray beam size at 2.69 Å wavelength (4.6 keV): sulfur SAD phasing of Cdc23(Nterm). Acta Crystallogr D Struct Biol, 72, 403-412. PubMed id: 26960127 DOI: 10.1107/S2059798315010268

Date:

14-Jan-16 Release date: 16-Mar-16

Protein chain

O94556  (APC8_SCHPO) -  Anaphase-promoting complex subunit 8 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 565 a.a.

Struc: 230 a.a.*

Protein chain

O94556  (APC8_SCHPO) -  Anaphase-promoting complex subunit 8 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 565 a.a.

Struc: 242 a.a.*

* PDB and UniProt seqs differ at 8 residue positions (black crosses)

DOI no: 10.1107/S2059798315010268

Acta Crystallogr D Struct Biol 72:403-412 (2016)

PubMed id: 26960127

Data collection with a tailored X-ray beam size at 2.69 Å wavelength (4.6 keV): sulfur SAD phasing of Cdc23(Nterm).

M.Cianci, M.R.Groves, D.Barford, T.R.Schneider.

ABSTRACT

The capability to reach wavelengths of up to 3.1 Å at the newly established EMBL P13 beamline at PETRA III, the new third-generation synchrotron at DESY in Hamburg, provides the opportunity to explore very long wavelengths to harness the sulfur anomalous signal for phase determination. Data collection at λ = 2.69 Å (4.6 keV) allowed the crystal structure determination by sulfur SAD phasing of Cdc23(Nterm), a subunit of the multimeric anaphase-promoting complex (APC/C). At this energy, Cdc23(Nterm) has an expected Bijvoet ratio 〈|Fanom|〉/〈F〉 of 2.2%, with 282 residues, including six cysteines and five methionine residues, and two molecules in the asymmetric unit (65.4 kDa; 12 Cys and ten Met residues). Selectively illuminating two separate portions of the same crystal with an X-ray beam of 50 µm in diameter allowed crystal twinning to be overcome. The crystals diffracted to 3.1 Å resolution, with unit-cell parameters a = b = 61.2, c = 151.5 Å, and belonged to space group P43. The refined structure to 3.1 Å resolution has an R factor of 18.7% and an Rfree of 25.9%. This paper reports the structure solution, related methods and a discussion of the instrumentation.