SASDC25: RNase E 603-850/ATP-dependent RNA helicase (RhlB)/enolase ternary...

Basic information

• Entry: Database: SASBDB / ID: SASDC25

Sample

RNase E 603-850/ATP-dependent RNA helicase (RhlB)/enolase ternary complex

• RNase E 603-850 (protein), RNase E 603-850, Escherichia coli
• ATP-dependent RNA helicase RhlB (protein), RhlB, Escherichia coli
• Enolase (protein), Enolase, Escherichia coli

Function / homology

Function:

: / phosphopyruvate hydratase / phosphopyruvate hydratase complex / phosphopyruvate hydratase activity / RNA catabolic process / glycolytic process / RNA helicase activity / RNA helicase / magnesium ion binding / cell surface / RNA binding / extracellular region / ATP binding / cytoplasm

Domain/homology:

ATP-dependent RNA helicase RhlB type / Enolase / Enolase, conserved site / Enolase, C-terminal TIM barrel domain / Enolase, N-terminal / Enolase, C-terminal TIM barrel domain / Enolase, N-terminal domain / Enolase signature. / Enolase, C-terminal TIM barrel domain / Enolase, N-terminal domain / DEAD-box subfamily ATP-dependent helicases signature. / ATP-dependent RNA helicase DEAD-box, conserved site / RNA helicase, DEAD-box type, Q motif / DEAD-box RNA helicase Q motif profile. / Enolase-like, N-terminal / Enolase-like, C-terminal domain superfamily / DEAD/DEAH box helicase / DEAD/DEAH box helicase domain / Helicase conserved C-terminal domain / helicase superfamily c-terminal domain / Superfamilies 1 and 2 helicase C-terminal domain profile. / Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. / DEAD-like helicases superfamily / Helicase, C-terminal / Helicase superfamily 1/2, ATP-binding domain / P-loop containing nucleoside triphosphate hydrolase

Component:

Enolase / RNase E / ATP-dependent RNA helicase RhlB

• Biological species: Escherichia coli (E. coli)
• Citation: Date: 2017 Nov 9; Title: Analysis of the natively unstructured RNA/protein-recognition core in the Escherichia coli RNA degradosome and its interactions with regulatory RNA/Hfq complexes; Authors: Bruce H / Du D / Matak-Vinkovic D / Bandyra K / Broadhurst R / Martin E / Sobott F / Shkumatov A

Contact author

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

Models

• Model #1314: ; Type: dummy / Software: (2.3) / Radius of dummy atoms: 1.90 A / Symmetry: P1; Comment: Best fitting model out of 10 independent reconstructions; Chi-square value: 4.97 / P-value: 0.000001; Search similar-shape structures of this assembly by Omokage search (details)

Sample

• Sample: Name: RNase E 603-850/ATP-dependent RNA helicase (RhlB)/enolase ternary complex; Specimen concentration: 9.1 mg/ml / Entity id: 697 / 698 / 699
• Buffer: Name: 50 mM Tris HCl, 100 mM NaCl, 100 mM KCl, 10 mM MgCl2, 10 mM DTT and 5 % glycerol (v/v); pH: 7.5

Entity #697

Name: RNase E 603-850 / Type: protein / Description: RNase E 603-850 / Formula weight: 30.127 / Num. of mol.: 1 / Source: Escherichia coli / References: UniProt: Q46977
Sequence:

ERQQDRRKPR QNNRRDRNER RDTRSERTEG SDNREENRRN RRQAQQQTAE TRESRQQAEV TEKARTADEQ QAPRRERSRR RNDDKRQAQQ EAKALNVEEQ SVQETEQEER VRPVQPRRKQ RQLNQKVRYE QSVAEEAVVA PVVEETVAAE PIVQEAPAPR TELVKVPLPV VAQTAPEQQE ENNADNRDNG GMPRRSRRSP RHLRVSGQRR RRYRDERYPT QSPMPLTVAC ASPELASGKV WIRYPIVRHH HHHH

Entity #698

Name: RhlB / Type: protein / Description: ATP-dependent RNA helicase RhlB / Formula weight: 47.125 / Num. of mol.: 1 / Source: Escherichia coli / References: UniProt: W8ZZD4
Sequence:

MSKTHLTEQK FSDFALHPKV VEALEKKGFH NCTPIQALAL PLTLAGRDVA GQAQTGTGKT MAFLTSTFHY LLSHPAIADR KVNQPRALIM APTRELAVQI HADAEPLAEA TGLKLGLAYG GDGYDKQLKV LESGVDILIG TTGRLIDYAK QNHINLGAIQ VVVLDEADRM YDLGFIKDIR WLFRRMPPAN QRLNMLFSAT LSYRVRELAF EQMNNAEYIE VEPEQKTGHR IKEELFYPSN EEKMRLLQTL IEEEWPDRAI IFANTKHRCE EIWGHLAADG HRVGLLTGDV AQKKRLRILD EFTRGDLDIL VATDVAARGL HIPAVTHVFN YDLPDDCEDY VHRIGRTGRA GASGHSISLA CEEYALNLPA IETYIGHSIP VSKYNPDALM TDLPKPLRLT RPRTGNGPRR TGAPRNRRRS G

Entity #699

Name: Enolase / Type: protein / Description: Enolase / Formula weight: 45.654 / Num. of mol.: 2 / Source: Escherichia coli / References: UniProt: A1AEW7
Sequence:

MSKIVKIIGR EIIDSRGNPT VEAEVHLEGG FVGMAAAPSG ASTGSREALE LRDGDKSRFL GKGVTKAVAA VNGPIAQALI GKDAKDQAGI DKIMIDLDGT ENKSKFGANA ILAVSLANAK AAAAAKGMPL YEHIAELNGT PGKYSMPVPM MNIINGGEHA DNNVDIQEFM IQPVGAKTVK EAIRMGSEVF HHLAKVLKAK GMNTAVGDEG GYAPNLGSNA EALAVIAEAV KAAGYELGKD ITLAMDCAAS EFYKDGKYVL AGEGNKAFTS EEFTHFLEEL TKQYPIVSIE DGLDESDWDG FAYQTKVLGD KIQLVGDDLF VTNTKILKEG IEKGIANSIL IKFNQIGSLT ETLAAIKMAK DAGYTAVISH RSGETEDATI ADLAVGTAAG QIKTGSMSRS DRVAKYNQLI RIEEALGEKA PYNGRKEIKG QA

Experimental information

• Beam: Instrument name: SOLEIL SWING / City: Saint-Aubin / 国: France / Type of source: X-ray synchrotronSynchrotron / Wavelength: 0.1022 Å / Dist. spec. to detc.: 1.79 mm
• Detector: Name: AVIEX / Type: CCD

Scan

Title: RNase E 603-850/ATP-dependent RNA helicase (RhlB)/enolase ternary complex
Measurement date: Jul 16, 2014 / Storage temperature: 15 °C / Cell temperature: 15 °C / Exposure time: 1.5 sec. / Number of frames: 250 / Unit: 1/A /

	Min	Max
Q	0.0062	0.6127

Distance distribution function P(R)

Sofotware P(R): GNOM 5.0 / Number of points: 873 /

	Min	Max
Q	0.0101946	0.502773
P(R) point	1	873
R	0	305

Result

Type of curve: other /

	Experimental	Porod
MW	208.5 kDa	165 kDa
Volume	-	280 nm3

	P(R)	P(R) error	Guinier	Guinier error
Forward scattering, I0	0.19	0.01	0.185772	0.01
Radius of gyration, Rg	6.971 nm	0.019	6.39 nm	0.128

	Min	Max	Error
D	-	30.5	1
Guinier point	4	19	-