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- SASDBS6: Apo form of full length ObgE from E.coli (ObgE_FL) -

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Basic information

Entry
Database: SASBDB / ID: SASDBS6
SampleApo form of full length ObgE from E.coli (ObgE_FL)
  • 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 / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement / GDP binding / rRNA binding ...guanyl ribonucleotide binding / dormancy process / negative regulation of ribosome biogenesis / guanosine tetraphosphate binding / ribosomal large subunit binding / ribosome assembly / chromosome segregation / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement / GDP binding / rRNA binding / GTPase activity / GTP binding / magnesium ion binding / DNA binding / cytosol
Similarity search - Function
GTP1/OBG, conserved site / GTP1/OBG family signature. / OBG-type GTPase / GTP1/OBG domain / GTP-binding protein Obg/CgtA / GTP1/OBG domain superfamily / 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. / OBG-type GTPase / GTP1/OBG domain / GTP-binding protein Obg/CgtA / GTP1/OBG domain superfamily / 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

Downloads & links

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Models

Model #725
Type: dummy / Software: DAMMIN (r6293) / Radius of dummy atoms: 3.50 A / Symmetry: P1 / Chi-square value: 13.099
Search similar-shape structures of this assembly by Omokage search (details)
Model #743
Type: atomic / Software: RANCH/FULCHER/GAJOE / Radius of dummy atoms: 1.90 A / Symmetry: P1 / Chi-square value: 11.336
Search similar-shape structures of this assembly by Omokage search (details)
Model #744
Type: atomic / Software: RANCH/FULCHER/GAJOE / Radius of dummy atoms: 1.90 A / Symmetry: P1 / Chi-square value: 11.336
Search similar-shape structures of this assembly by Omokage search (details)
Model #745
Type: atomic / Software: RANCH/FULCHER/GAJOE / Radius of dummy atoms: 1.90 A / Symmetry: P1 / Chi-square value: 11.336
Search similar-shape structures of this assembly by Omokage search (details)
Model #746
Type: atomic / Software: RANCH/FULCHER/GAJOE / Radius of dummy atoms: 1.90 A / Symmetry: P1 / Chi-square value: 11.336
Search similar-shape structures of this assembly by Omokage search (details)
Model #747
Type: atomic / Software: RANCH/FULCHER/GAJOE / Radius of dummy atoms: 1.90 A / Symmetry: P1 / Chi-square value: 11.336
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: Apo form of full length ObgE from E.coli (ObgE_FL) / Specimen concentration: 10 mg/ml
BufferName: 20 mM Hepes , 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT
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 synchrotronSynchrotron / Wavelength: 0.103 Å / Dist. spec. to detc.: 1.987 mm
DetectorName: AVIEX / Type: CCD
Scan
Title: Apo form of full length ObgE from E.coli (ObgE_FL) / 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 5.0 / Number of points: 981 /
MinMax
Q0.0158189 0.514514
P(R) point1 981
R0 181
Result
Type of curve: other
Comments: The sample protein includes a C-terminal Strep-tag; frames corresponding to the peak in HPLC-SAXS run were averaged using DATAVER v0.2 (r3709)
ExperimentalPorod
MW55.4 kDa60 kDa
Volume-102 nm3

P(R)P(R) errorGuinierGuinier error
Forward scattering, I00.03904 0.0003 0.0383 2.7E-5
Radius of gyration, Rg3.96 nm0.1 3.7 nm0.1

MinMax
D-18.1
Guinier point18 46

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