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5ftp

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sulfur SAD phasing of Cdc23Nterm: data collection with a tailored X- ray beam size at 2.69 A wavelength (4.6 keV)

Structural highlights

5ftp is a 2 chain structure with sequence from Schizosaccharomyces pombe. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 3.1Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

APC8_SCHPO Component of the anaphase-promoting complex/cyclosome (APC/C), a cell cycle-regulated E3 ubiquitin-protein ligase complex that controls progression through mitosis and the G1 phase of the cell cycle. The APC/C is thought to confer substrate specificity and, in the presence of ubiquitin-conjugating E2 enzymes, it catalyzes the formation of protein-ubiquitin conjugates that are subsequently degraded by the 26S proteasome. Has a role in promoting metaphase to anaphase transition via the ubiquitination of specific mitotic substrates.^[1]

Publication Abstract from PubMed

The capability to reach wavelengths of up to 3.1 A 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 lambda = 2.69 A (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 microm in diameter allowed crystal twinning to be overcome. The crystals diffracted to 3.1 A resolution, with unit-cell parameters a = b = 61.2, c = 151.5 A, and belonged to space group P43. The refined structure to 3.1 A 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.

Data collection with a tailored X-ray beam size at 2.69 A wavelength (4.6 keV): sulfur SAD phasing of Cdc23(Nterm).,Cianci M, Groves MR, Barford D, Schneider TR Acta Crystallogr D Struct Biol. 2016 Mar 1;72(Pt 3):403-12. doi:, 10.1107/S2059798315010268. Epub 2016 Mar 1. PMID:26960127^[2]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Yamashita YM, Nakaseko Y, Kumada K, Nakagawa T, Yanagida M. Fission yeast APC/cyclosome subunits, Cut20/Apc4 and Cut23/Apc8, in regulating metaphase-anaphase progression and cellular stress responses. Genes Cells. 1999 Aug;4(8):445-63. PMID:10526233
↑ Cianci M, Groves MR, Barford D, Schneider TR. Data collection with a tailored X-ray beam size at 2.69 A wavelength (4.6 keV): sulfur SAD phasing of Cdc23(Nterm). Acta Crystallogr D Struct Biol. 2016 Mar 1;72(Pt 3):403-12. doi:, 10.1107/S2059798315010268. Epub 2016 Mar 1. PMID:26960127 doi:http://dx.doi.org/10.1107/S2059798315010268

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5ftp"

@@ Line 3: / Line 3: @@
 <StructureSection load='5ftp' size='340' side='right'caption='[[5ftp]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5ftp]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FTP OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5FTP FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5ftp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe Schizosaccharomyces pombe]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FTP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5FTP FirstGlance]. <br>
-</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5ftp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ftp OCA], [http://pdbe.org/5ftp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ftp RCSB], [http://www.ebi.ac.uk/pdbsum/5ftp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ftp ProSAT]</span></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.1&#8491;</td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5ftp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ftp OCA], [https://pdbe.org/5ftp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ftp RCSB], [https://www.ebi.ac.uk/pdbsum/5ftp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ftp ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/APC8_SCHPO APC8_SCHPO]] Component of the anaphase-promoting complex/cyclosome (APC/C), a cell cycle-regulated E3 ubiquitin-protein ligase complex that controls progression through mitosis and the G1 phase of the cell cycle. The APC/C is thought to confer substrate specificity and, in the presence of ubiquitin-conjugating E2 enzymes, it catalyzes the formation of protein-ubiquitin conjugates that are subsequently degraded by the 26S proteasome. Has a role in promoting metaphase to anaphase transition via the ubiquitination of specific mitotic substrates.<ref>PMID:10526233</ref>
+[https://www.uniprot.org/uniprot/APC8_SCHPO APC8_SCHPO] Component of the anaphase-promoting complex/cyclosome (APC/C), a cell cycle-regulated E3 ubiquitin-protein ligase complex that controls progression through mitosis and the G1 phase of the cell cycle. The APC/C is thought to confer substrate specificity and, in the presence of ubiquitin-conjugating E2 enzymes, it catalyzes the formation of protein-ubiquitin conjugates that are subsequently degraded by the 26S proteasome. Has a role in promoting metaphase to anaphase transition via the ubiquitination of specific mitotic substrates.<ref>PMID:10526233</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 22: / Line 23: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Barford, D]]
+[[Category: Schizosaccharomyces pombe]]
-[[Category: Cianci, M]]
+[[Category: Barford D]]
-[[Category: Groves, M R]]
+[[Category: Cianci M]]
-[[Category: Schneider, T R]]
+[[Category: Groves MR]]
-[[Category: Cell cycle]]
+[[Category: Schneider TR]]
-[[Category: Long wavelength]]
-[[Category: Low resolution]]
-[[Category: Sad phasing]]
-[[Category: Soft x-ray]]
-[[Category: Sulfur]]

5ftp

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Current revision

sulfur SAD phasing of Cdc23Nterm: data collection with a tailored X- ray beam size at 2.69 A wavelength (4.6 keV)

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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