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- SASDBB9: GDP bound form of full length ObgE from E.coli (ObgE_FL with GDP) -

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ID or keywords:

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Basic information

Entry
Database: SASBDB / ID: SASDBB9
SampleGDP bound form of full length ObgE from E.coli (ObgE_FL with GDP)
  • GTPase ObgE/CgtA (protein), ObgE_FL, Escherichia coli (strain K12)
Function / homology
Function and homology information


guanyl ribonucleotide binding / dormancy process / negative regulation of ribosome biogenesis / guanosine tetraphosphate binding / ribosomal large subunit binding / ribosome assembly / chromosome segregation / GDP binding / ribosomal large subunit assembly / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement ...guanyl ribonucleotide binding / dormancy process / negative regulation of ribosome biogenesis / guanosine tetraphosphate binding / ribosomal large subunit binding / ribosome assembly / chromosome segregation / GDP binding / ribosomal large subunit assembly / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement / rRNA binding / GTPase activity / GTP binding / magnesium ion binding / DNA binding / cytosol
Similarity search - Function
GTP1/OBG, conserved site / GTP1/OBG family signature. / GTP1/OBG domain / GTP-binding protein Obg/CgtA / GTP1/OBG domain superfamily / OBG-type GTPase / GTP1/OBG / Obg domain profile. / OBG-type guanine nucleotide-binding (G) domain / OBG-type guanine nucleotide-binding (G) domain profile. ...GTP1/OBG, conserved site / GTP1/OBG family signature. / GTP1/OBG domain / GTP-binding protein Obg/CgtA / GTP1/OBG domain superfamily / OBG-type GTPase / GTP1/OBG / Obg domain profile. / OBG-type guanine nucleotide-binding (G) domain / OBG-type guanine nucleotide-binding (G) domain profile. / 50S ribosome-binding GTPase / GTP binding domain / P-loop containing nucleoside triphosphate hydrolase
Similarity search - Domain/homology
Biological speciesEscherichia coli (strain K12) (bacteria)
CitationDate: 2017 Feb 21
Title: Structural and Biochemical Analysis of Escherichia coli ObgE, a Central Regulator of Bacterial Persistence
Authors: Gkekas S / Singh R / Shkumatov A / Messens J / Fauvart M / Verstraeten N / Michiels J
Contact author
  • Alexander V. Shkumatov (VUB, Vrije Universiteit Brussel, Pleinlaan 2 1050 Brussel)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Models

Model #1117
Type: dummy / Software: DAMMIN (2.7.2) / Radius of dummy atoms: 3.00 A / Symmetry: P1 / Chi-square value: 12.583 / P-value: 0.064400
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: GDP bound form of full length ObgE from E.coli (ObgE_FL with GDP)
Specimen concentration: 5.00-5.00
BufferName: 20 mM Hepes, 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT, 400 uM GDP
pH: 7.5
Entity #420Name: ObgE_FL / Type: protein / Description: GTPase ObgE/CgtA / Formula weight: 44.441 / Num. of mol.: 1 / Source: Escherichia coli (strain K12) / References: UniProt: P42641
Sequence: MKFVDEASIL VVAGDGGNGC VSFRREKYIP KGGPDGGDGG DGGDVWMEAD ENLNTLIDYR FEKSFRAERG QNGASRDCTG KRGKDVTIKV PVGTRVIDQG TGETMGDMTK HGQRLLVAKG GWHGLGNTRF KSSVNRTPRQ KTNGTPGDKR ELLLELMLLA DVGMLGMPNA ...Sequence:
MKFVDEASIL VVAGDGGNGC VSFRREKYIP KGGPDGGDGG DGGDVWMEAD ENLNTLIDYR FEKSFRAERG QNGASRDCTG KRGKDVTIKV PVGTRVIDQG TGETMGDMTK HGQRLLVAKG GWHGLGNTRF KSSVNRTPRQ KTNGTPGDKR ELLLELMLLA DVGMLGMPNA GKSTFIRAVS AAKPKVADYP FTTLVPSLGV VRMDNEKSFV VADIPGLIEG AAEGAGLGIR FLKHLERCRV LLHLIDIDPI DGTDPVENAR IIISELELYS QDLATKPRWL VFNKIDLLDK VEAEEKAKAI AEALGWEDKY YLISAASGLG VKDLCWDVMT FIIENPVAQA EEAKQPEKVE FMWDDYHRQQ LEEIAEEDDE DWDDDWDEDD EEGVEFIYKR SAWSHPQFEK

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Experimental information

BeamInstrument name: SOLEIL SWING / City: Saint-Aubin / 国: France / Type of source: X-ray synchrotron / Wavelength: 0.103 Å / Dist. spec. to detc.: 1.987 mm
DetectorName: AVIEX / Type: CCD
Scan
Title: GDP bound form of full length ObgE from E.coli (ObgE_FL with GDP)
Measurement date: Jun 17, 2015 / Storage temperature: 10 °C / Cell temperature: 10 °C / Exposure time: 2.8 sec. / Number of frames: 255 / Unit: 1/A /
MinMax
Q0.0061 0.5535
Distance distribution function P(R)
Sofotware P(R): GNOM 4.6 / Number of points: 348 /
MinMax
Q0.0148 0.5444
P(R) point17 364
R0 159.5
Result
Type of curve: other /
ExperimentalPorod
MW45.4 kDa55.7 kDa
Volume-94673 nm3

P(R)P(R) errorGuinierGuinier error
Forward scattering, I00.01554 1.0E-5 0.01539 1.2E-5
Radius of gyration, Rg3.646 nm0.007 3.5 nm0.006

MinMaxError
D-15.95 1.5
Guinier point9 60 -

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