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- SASDBA9: E. coli CcdB2-CcdA2-CcdB2 toxin/antitoxin heterohexamer complex -

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Open data


ID or keywords:

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Basic information

Entry
Database: SASBDB / ID: SASDBA9
SampleE. coli CcdB2-CcdA2-CcdB2 toxin/antitoxin heterohexamer complex
  • Toxin CcdB (protein), Escherichia coli (strain K12)
  • Antitoxin CcdA (protein), Escherichia coli (strain K12)
  • Toxin CcdB (protein), Escherichia coli (strain K12)
Function / homology
Function and homology information


DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) inhibitor activity / toxin sequestering activity / negative regulation of DNA-templated DNA replication / protein-containing complex disassembly / toxin-antitoxin complex / plasmid maintenance / transcription repressor complex / negative regulation of DNA-templated transcription / DNA binding
Similarity search - Function
Post-segregation antitoxin CcdA / Post-segregation antitoxin CcdA / Toxin CcdB / CcdB protein / Plasmid maintenance toxin/Cell growth inhibitor
Similarity search - Domain/homology
Antitoxin CcdA / Toxin CcdB
Similarity search - Component
Biological speciesEscherichia coli (strain K12) (bacteria)
CitationDate: 2017 Apr 7
Title: Molecular mechanism governing ratio-dependent transcription regulation in the ccdAB operon
Authors: Vandervelde A / Drobnak I / Hadži S / Sterckx Y / Welte T / De Greve H / Charlier D / Efremov R / Loris R
Contact author
  • Alexandra Vandervelde (VUB, Vrije Universiteit Brussel, Pleinlaan 2 1050 Brussel)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Models

Model #908
Type: atomic / Software: Crysol / Radius of dummy atoms: 1.90 A / Chi-square value: 2.480
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: E. coli CcdB2-CcdA2-CcdB2 toxin/antitoxin heterohexamer complex
Entity id: 507 / 508 / 509
BufferName: 10 mM Tris 50 mM NaCl / pH: 7.3
Entity #507Type: protein / Description: Toxin CcdB / Formula weight: 11.706 / Num. of mol.: 2 / Source: Escherichia coli (strain K12) / References: UniProt: P62554
Sequence:
MQFKVYTYKR ESRYRLFVDV QSDIIDTPGR RMVIPLASAR LLSDKVSREL YPVVHIGDES WRMMTTDMAS VPVSVIGEEV ADLSHRENDI KNAINLMFWG I
Entity #508Type: protein / Description: Antitoxin CcdA / Formula weight: 8.372 / Num. of mol.: 2 / Source: Escherichia coli (strain K12) / References: UniProt: P62552
Sequence:
MKQRITVTVD SDSYQLLKAY DVNISGLVST TMQNEARRLR AERWKAENQE GMAEVARFIE MNGSFADENR DW
Entity #509Type: protein / Description: Toxin CcdB / Formula weight: 11.706 / Num. of mol.: 2 / Source: Escherichia coli (strain K12) / References: UniProt: P62554
Sequence:
MQFKVYTYKR ESRYRLFVDV QSDIIDTPGR RMVIPLASAR LLSDKVSREL YPVVHIGDES WRMMTTDMAS VPVSVIGEEV ADLSHRENDI KNAINLMFWG I

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Experimental information

BeamInstrument name: SOLEIL SWING / City: Saint-Aubin / 国: France / Type of source: X-ray synchrotronSynchrotron / Wavelength: 0.103 Å / Dist. spec. to detc.: 1.8 mm
DetectorName: AVIEX / Type: CCD
Scan
Title: CcdB2-CcdA2-CcdB2 heterohexamer / Measurement date: Jul 24, 2013 / Storage temperature: 10 °C / Cell temperature: 15 °C / Exposure time: 0.75 sec. / Number of frames: 13 / Unit: 1/A /
MinMax
Q0.0113 0.5002
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 476 /
MinMax
Q0.0124513 0.281061
P(R) point1 476
R0 120.1
Result
Type of curve: merged
ExperimentalStandardPorod
MW60.1 kDa67.2 kDa54.13 kDa
Volume--92.02 nm3

P(R)P(R) errorGuinierGuinier error
Forward scattering, I00.01258 3.0E-5 0.0125 3.0E-5
Radius of gyration, Rg3.49 nm0.01 3.41 nm0.09

MinMax
D-12.01
Guinier point4 47

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