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- SASDGR5: The Vibrio cholerae DciA/DnaB helicase complex in the presence of... -

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Basic information

Entry
Database: SASBDB / ID: SASDGR5
SampleThe Vibrio cholerae DciA/DnaB helicase complex in the presence of bound ATP (VcDnaB.DciA.ATP)
  • DnaB helicase complexed with ATP (protein), DnaB.ATP, Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
  • DciA (protein), DciA, Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
Function / homology
Function and homology information


primosome complex / DNA replication, synthesis of primer / DNA helicase activity / DNA helicase / hydrolase activity / DNA binding / ATP binding
Similarity search - Function
Protein of unknown function DUF721/UPF0232 / Dna[CI] antecedent, DciA / DNA helicase, DnaB type / DNA helicase, DnaB-like, N-terminal / DnaB-like helicase N terminal domain / DNA helicase, DnaB-like, N-terminal domain superfamily / DNA helicase DnaB, N-terminal/DNA primase DnaG, C-terminal / DnaB-like helicase C terminal domain / DNA helicase, DnaB-like, C-terminal / Superfamily 4 helicase domain profile. ...Protein of unknown function DUF721/UPF0232 / Dna[CI] antecedent, DciA / DNA helicase, DnaB type / DNA helicase, DnaB-like, N-terminal / DnaB-like helicase N terminal domain / DNA helicase, DnaB-like, N-terminal domain superfamily / DNA helicase DnaB, N-terminal/DNA primase DnaG, C-terminal / DnaB-like helicase C terminal domain / DNA helicase, DnaB-like, C-terminal / Superfamily 4 helicase domain profile. / ATPases associated with a variety of cellular activities / AAA+ ATPase domain / P-loop containing nucleoside triphosphate hydrolase
Similarity search - Domain/homology
Replicative DNA helicase / DUF721 domain-containing protein
Similarity search - Component
Biological speciesVibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) (bacteria)
Contact author
  • Dominique DURAND (I2BC-CNRS, Paris, France)

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Structure visualization

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Models

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Sample

SampleName: The Vibrio cholerae DciA/DnaB helicase complex in the presence of bound ATP (VcDnaB.DciA.ATP)
Specimen concentration: 27.8 mg/ml / Entity id: 1899 / 1900
BufferName: 20 mM Tris-HCl, 100 mM NaCl, 1 mM ATP / pH: 8.8
Entity #1899Name: DnaB.ATP / Type: protein / Description: DnaB helicase complexed with ATP / Formula weight: 52.781 / Num. of mol.: 6
Source: Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
References: UniProt: A0A0H3AIB6
Sequence: MADPRTDNRN RKTSDAQVDA IKVPPHSLEA EQSVIGGLLL DNERWDTVSE HVVTQDFYSR PHRLIFDGVK SILEAGKPLD LITLSEYLEQ REQLEDVGGF AYLADLAKNT PSAANINAYA EIVAQRALVR NLIGVANEIA DAGYDPQGRN AEDLLDLAES KVFAIAEART ...Sequence:
MADPRTDNRN RKTSDAQVDA IKVPPHSLEA EQSVIGGLLL DNERWDTVSE HVVTQDFYSR PHRLIFDGVK SILEAGKPLD LITLSEYLEQ REQLEDVGGF AYLADLAKNT PSAANINAYA EIVAQRALVR NLIGVANEIA DAGYDPQGRN AEDLLDLAES KVFAIAEART SENEGPKNVD SILERTLERI ELLYKTPQDG VTGVNTGFTD LNKKTAGLQG SDLIIVAARP SMGKTTFAMN LCENAAMEQD KPVLIFSLEM PAEQIMMRML ASLSRVDQTK IRTGQLDDED WARISSTMGI LMEKKNMYID DSSGLTPTEV RSRARRIARE HGGLSLIMVD YLQLMRVPAL TDNRTLEIAE ISRSLKALAK ELNVPVVALS QLNRSLEQRA DKRPVNSDLR ESGSIEQDAD LIMFIYRDEV YHPDSALKGT AEIIIGKQRN GPIGSVRLTF QGQYSRFDNY AGPAFDDEHH HHHH
Entity #1900Name: DciA / Type: protein / Description: DciA / Formula weight: 18.365
Source: Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
References: UniProt: Q9KPH3
Sequence:
MHHHHHHRDH RPTATDELIQ ASKLKQIQEH AKAILLINRQ LQDILPKGLK TQVRAANVRG GNLVLEAASA ALKMKVDYER LHILTQLRQN GFGHLISIEV RVNPELYRQS KITSEDARAA NPRPPLSEHA AHVLLAIADQ ASDKVKKRLQ SLARLAKANQ KDD

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Experimental information

BeamInstrument name: SOLEIL SWING / City: Saint-Aubin / 国: France / Type of source: X-ray synchrotronSynchrotron / Wavelength: 0.1033 Å / Dist. spec. to detc.: 1.8 mm
DetectorName: Eiger 4M / Pixsize x: 75 mm
Scan
Title: The Vibrio cholerae DciA/DnaB helicase complex in the presence of bound ATP (VcDnaB.DciA.ATP)
Measurement date: Oct 4, 2018 / Storage temperature: 10 °C / Cell temperature: 15 °C / Exposure time: 2.99 sec. / Number of frames: 700 / Unit: 1/A /
MinMax
Q0.0051 0.4002
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 301 /
MinMax
Q0.00760165 0.159594
P(R) point1 301
R0 155.8
Result
Type of curve: sec
Comments: The scattered intensities were displayed on an absolute scale (cm-1) using the scattering of water. Frames were examined individually using the US-SOMO HPLC module and 6 identical frames ...Comments: The scattered intensities were displayed on an absolute scale (cm-1) using the scattering of water. Frames were examined individually using the US-SOMO HPLC module and 6 identical frames obtained at the beginning of the elution peak were averaged and further processed. The complex is constituted of one hexamer of DnaB and three monomers of DciA.
ExperimentalPorod
MW381 kDa-
Volume-670 nm3

P(R)P(R) errorGuinierGuinier error
Forward scattering, I00.329 0.001 0.329 0.001
Radius of gyration, Rg4.97 nm0.02 4.99 nm0.05

MinMaxError
D-15.58 1
Guinier point6 31 -

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