SASDBV6: GppNHp bound form of C-terminal deletion mutant of ObgE from E.co...

Basic information

• Entry: Database: SASBDB / ID: SASDBV6

Sample

GppNHp bound form of C-terminal deletion mutant of ObgE from E.coli (ObgE_340 with GppNHp)

• GTPase ObgE/CgtA (protein), ObgE_340, Escherichia coli (strain K12)

Function / homology

Function:

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

Domain/homology:

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

Component:

GTPase ObgE/CgtA

• Biological species: Escherichia coli (strain K12) (bacteria)

Contact author

• Alexander V. Shkumatov (VUB, Vrije Universiteit Brussel, Pleinlaan 2 1050 Brussel)

Models

• Model #748: ; Type: dummy / Software: DAMMIn (r7897M) / Radius of dummy atoms: 2.75 A / Symmetry: P1 / Chi-square value: 6.779; Search similar-shape structures of this assembly by Omokage search (details)

Sample

• Sample: Name: GppNHp bound form of C-terminal deletion mutant of ObgE from E.coli (ObgE_340 with GppNHp); Specimen concentration: 7 mg/ml
• Buffer: Name: 20 mM Hepes, 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT, 400 µM GppNHp; pH: 7.5

Entity #421

Name: ObgE_340 / Type: protein / Description: GTPase ObgE/CgtA / Formula weight: 38.899 / Num. of mol.: 1 / Source: Escherichia coli (strain K12) / References: UniProt: P42641
Sequence:

MGSSHHHHHH SSGLVPRGSH 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 FIIENPVA

Experimental information

• Beam: Instrument name: SOLEIL SWING / City: Saint-Aubin / 国: France / Type of source: X-ray synchrotron / Wavelength: 0.103 Å / Dist. spec. to detc.: 1.79 mm
• Detector: Name: AVIEX / Type: CCD

Scan

Title: GppNHp bound form of C-terminal deletion mutant of / Measurement date: Mar 12, 2015 / Storage temperature: 10 °C / Cell temperature: 10 °C / Exposure time: 2.8 sec. / Number of frames: 255 / Unit: 1/A /

	Min	Max
Q	0.0062	0.6142

Distance distribution function P(R)

Sofotware P(R): GNOM 4.6 / Number of points: 469 /

	Min	Max
Q	0.01218	0.541
P(R) point	11	479
R	0	114

Result

Type of curve: merged
Comments: The sample protein includes an N-terminal poly-histidine tag; frames corresponding to the peak in HPLC-SAXS run were averaged using DATAVER v0.2 (r3709)

	Experimental	Porod
MW	44.8 kDa	42 kDa
Volume	-	72 nm3

	P(R)	P(R) error	Guinier	Guinier error
Forward scattering, I0	0.03857	1.2E-5	0.038495	2.1E-5
Radius of gyration, Rg	3.18 nm	0.002	3.11 nm	0.04

	Min	Max	Error
D	-	11.4	1
Guinier point	18	46	-