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- PDB-5uvn: Structure of E. coli MCE protein PqiB, periplasmic domain -

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Basic information

Entry
Database: PDB / ID: 5uvn
TitleStructure of E. coli MCE protein PqiB, periplasmic domain
DescriptorParaquat-inducible protein B
KeywordsTRANSPORT PROTEIN / MCE protein / bacterial lipid transport
Specimen sourceEscherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /
MethodElectron microscopy (3.96 A resolution / Single particle)
AuthorsBhabha, G. / Ekiert, D.C.
CitationCell, 2017, 169, 273-285.e17

Cell, 2017, 169, 273-285.e17 StrPapers
Architectures of Lipid Transport Systems for the Bacterial Outer Membrane.
Damian C Ekiert / Gira Bhabha / Georgia L Isom / Garrett Greenan / Sergey Ovchinnikov / Ian R Henderson / Jeffery S Cox / Ronald D Vale

DateDeposition: Feb 20, 2017 / Release: Apr 12, 2017 / Last modification: Apr 19, 2017

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Assembly

Deposited unit
A: Paraquat-inducible protein B
B: Paraquat-inducible protein B
C: Paraquat-inducible protein B
D: Paraquat-inducible protein B
E: Paraquat-inducible protein B
F: Paraquat-inducible protein B


Theoretical massNumber of molelcules
Total (without water)293,1426
Polyers293,1426
Non-polymers00
Water0
#1


TypeNameSymmetry operationNumber
identity operation1_5551
Buried area (A2)24640
ΔGint (kcal/M)-166
Surface area (A2)119970
MethodPISA

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Components

#1: Polypeptide(L)
Paraquat-inducible protein B


Mass: 48857.043 Da / Num. of mol.: 6
Source: (gene. exp.) Escherichia coli / bacteria / エシェリキア・コリ, 大腸菌 /
References: UniProt: P43671
Sequence detailsThe actual sample sequence is MHHHHHHENLYFQSHQGPEVTLITANAEGIEGGKTTIKSRSVDVGVVESATLADD LTHVEIKARLNSGMEKLLHKDTVFWVVKPQIGREGISGLGTLLSGVYIELQPGAK GSKMDKYDLLDSPPLAPPDAKGIRVILDSKKAGQLSPGDPVLFRGYRVGSVETST FDTQKRNISYQLFINAPYDRLVTNNVRFWKDSGIAVDLTSAGMRVEMGSLTTLLS GGVSFDVPEGLDLGQPVAPKTAFVLYDDQKSIQDSLYTDHIDYLMFFKDSVRGLQ PGAPVEFRGIRLGTVSKVPFFAPNMRQTFNDDYRIPVLIRIEPERLKMQLGENAD VVEHLGELLKRGLRGSLKTGNLVTGALYVDLDFYPNTPAITGIREFNGYQIIPTV SGGLAQIQQRLMEALDKINKLPLNPMIEQATSTLSESQRTMKNLQTTLDSMNKIL ASQSMQQLPTDMQSTLRELNRSMQGFQPGSAAYNKMVADMQRLDQVLRELQPVLK TLNEKSNALVFEAKDKKDPEPKRAKQ

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentReconstruction method: SINGLE PARTICLE

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Sample preparation

ComponentName: homo hexamer of PqiB / Type: COMPLEX
Buffer solutionDetails: 20 mM Tris pH 8.0 and 150 mM NaCl
Specimen supportGrid material: COPPER / Grid mesh size: 400 /inch. / Grid type: Quantifoil 1.2/1.3
VitrificationInstrument: FEI VITROBOT MARK III / Cryogen name: ETHANE

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Electron microscopy imaging

MicroscopyMicroscope model: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD

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Processing

SoftwareName: PHENIX / Version: 1.10.1_2155: / Classification: refinement
ComputingStructure refinement: PHENIX (1.10.1_2155: phenix.real_space_refine)
3D reconstructionResolution: 3.96 A / Resolution method: FSC 0.143 CUT-OFF / Number of particles: 36591
Atomic model buildingRef protocol: OTHER / Ref space: REAL
Least-squares processHighest resolution: 3.96 A

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