7B5P

AcrB in cycloalkane amphipol


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Cycloalkane-modified amphiphilic polymers provide direct extraction of membrane proteins for CryoEM analysis.

Higgins, A.J.Flynn, A.J.Marconnet, A.Musgrove, L.J.Postis, V.L.G.Lippiat, J.D.Chung, C.W.Ceska, T.Zoonens, M.Sobott, F.Muench, S.P.

(2021) Commun Biol 4: 1337-1337

  • DOI: https://doi.org/10.1038/s42003-021-02834-3
  • Primary Citation of Related Structures:  
    7B5P

  • PubMed Abstract: 

    Membrane proteins are essential for cellular growth, signalling and homeostasis, making up a large proportion of therapeutic targets. However, the necessity for a solubilising agent to extract them from the membrane creates challenges in their structural and functional study. Although amphipols have been very effective for single-particle electron cryo-microscopy (cryoEM) and mass spectrometry, they rely on initial detergent extraction before exchange into the amphipol environment. Therefore, circumventing this pre-requirement would be a big advantage. Here we use an alternative type of amphipol: a cycloalkane-modified amphiphile polymer (CyclAPol) to extract Escherichia coli AcrB directly from the membrane and demonstrate that the protein can be isolated in a one-step purification with the resultant cryoEM structure achieving 3.2 Å resolution. Together this work shows that cycloalkane amphipols provide a powerful approach for the study of membrane proteins, allowing native extraction and high-resolution structure determination by cryoEM.


  • Organizational Affiliation

    School of Biomedical Sciences, Faculty of Biological Sciences & Astbury Centre for Structural and Molecular Biology, University of Leeds, Leeds, LS2 9JT, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Efflux pump membrane transporterA [auth B],
B [auth C],
C [auth A]
1,051Escherichia coliMutation(s): 0 
Gene Names: 
acrB_1acrBacrB_2acrB_3acrB_4acrB_5acrB_6A8C65_09270A9819_02265A9X72_18695AC789_1c04620ACN002_0478ACN68_10695ACN81_24630ACU57_11680ACU90_20590AM270_01980AM464_19305AMK83_09190AML35_17310AUQ13_18190AW059_13640AWB10_19050AWG78_005565B6V57_02435BANRA_00889BANRA_00999BB545_15910BEN53_04520BHF03_18080BHF46_21335BHS81_02950BHS87_02495BIQ87_02540BIZ41_13825BJJ90_19940BK248_01725BK292_14280BK296_16050BK334_05580BK373_00965BK383_14595BMA87_04530BMT49_03610BMT91_04935BN17_02651BOH76_16460BON63_11900BON65_19130BON66_08715BON69_11225BON71_10040BON72_14720BON75_11085BON76_24190BON86_26060BON94_15210BON95_06075BON98_18530BTQ06_00925BUE81_06435BvCms12BK_04863BvCms2454_01835BvCms28BK_00632BvCmsC61A_03075BvCmsHHP019_03148BvCmsHHP056_01479BvCmsKKP061_00163BvCmsKSNP073_04604BvCmsKSNP081_04683BvCmsKSNP120_04201BvCmsKSP011_05014BvCmsKSP024_04861BvCmsKSP026_02627BvCmsKSP045_04703BvCmsKSP058_04933BvCmsKSP067_05122BvCmsKSP076_04688BvCmsNSNP036_04234BvCmsNSP006_01210BvCmsNSP007_00776BvCmsNSP047_01693BvCmsNSP072_02397BvCmsOUP014_01037BvCmsSINP011_02642BvCmsSINP022_01605BvCmsSIP019_03696BvCmsSIP044_00930BW690_06940BWI89_12175BXT93_07785BZL31_19295C2U48_07740C4K41_07725C4M78_18085C5F73_09745C5N07_13110C5P01_15940C5P44_16955C6669_02375C6B13_10325C7B02_04170C7B06_13000C7B07_14810C9114_13235C9141_12200C9160_00185C9162_13005C9201_04165C9E25_04215C9Z03_06210C9Z23_00255C9Z28_08635C9Z37_05005C9Z39_05195C9Z43_06095C9Z69_16095C9Z70_09245CA593_00820CDC27_01240CDL37_08810CF006_06195CG692_04680CI693_16095CI694_14685CIG45_11530CJU63_02500CJU64_02490CMR93_03420CO706_24730COD46_04485CR538_19130CR539_06565CRD98_02045CRJUMX01_650090CRM83_13415CT146_16100CV83915_01104CWS33_13665D0X26_07790D2184_11155D2185_12425D3C88_31425D3O91_18365D4023_06520D4628_13155D4636_06025D4638_05215D4718_02720D4V08_10150D6T60_09670D6T98_07735D6W00_12590D6X36_16210D7W70_07875D7Z75_05690D9C99_07900D9D20_11125D9D44_10685D9E13_00485D9E19_02400D9E35_07135D9E73_21575D9F17_03155D9F32_03530D9F87_10685D9G11_17580D9G29_00450D9G42_13565D9G69_10585D9G95_10390D9H36_07220D9H68_03680D9H70_06065D9H94_07380D9I18_05035D9I87_03680D9I97_02625D9J11_02570D9J44_06200D9J52_11760D9J63_03815D9K02_03900D9K54_20470D9Z28_24640DAH18_15350DAH30_15550DAH34_12755DAH37_04875DB359_14850DBQ99_19255DEN89_14865DEN97_16890DEO04_04920DEO19_17525DEO20_17510DJ487_10315DJ503_01450DK132_02395DL292_07005DL326_11785DL479_02540DL545_18765DL705_13145DLU50_07900DLU67_10935DLU82_01970DLW88_19215DLX40_09005DLY41_06715DLY44_14465DM129_08550DM267_01255DM296_06955DM382_09705DM820_06155DM973_09850DMY83_13165DN627_04140DN660_06030DN700_07110DN808_01530DNC98_06145DND79_04450DNI21_09935DNR35_00855DNW42_12745DNX19_03500DOY61_02460DOY67_09480DP258_04725DP265_04400DP277_07910DQE91_07055DQF36_01200DQF57_08040DQF72_04240DQO13_05880DQP61_17770DRW19_06780DS732_07285DT034_10130DTL43_07030DTL90_18880DTM10_06440DU333_14630DW236_16180DWB25_18810DXT69_07740DXT71_02600DXT73_02225E0I42_07045E0K84_10260E2112_11465E2114_15395E2115_11930E2119_01370E2127_09005E2128_08320E2129_12030E2134_12580E2135_12650E2148_08850E4A44_12425E4K51_12425E4K55_09900E4K60_11595E5P22_01620E5P24_11315E5P28_18315E5P37_02890E5S42_13425E5S56_04760EA184_13145EA189_17430EA218_08750EA223_15405EA231_12325EA239_15375EA250_11755EA429_15685EAI46_01035EAI52_03305EAN77_07570EAX79_06460EB476_04025EB525_RS00175EC1094V2_3386EC3426_01300EC382_09135ECONIH1_02500ECTO6_03638ED178_10910ED307_06795ED648_02095EEP23_01410EG075_08750EG796_01740EH186_13990EHD79_03845EI021_20720EI028_12150EI032_07905EI041_08500EIA08_09625EIA21_12180EJC75_24510EL75_3290EL79_3385EL80_3339ELT20_07985ELT58_12170ELV08_01140ELY05_12005EO241_14205EPT01_06710EPU41_02295EQ825_17705ERS085365_02371ERS085366_03391ERS085374_02303ERS085379_01141ERS139211_01948ERS150873_01787ExPECSC019_00381ExPECSC038_03243EXX06_12030EXX13_09300EXX23_10330EXX24_02235EXX53_07265EXX55_11505EXX71_19130EXX78_05470EXX87_11195EYD11_17095EYX82_01500EYX99_02255EYY27_15910EYY78_02330F1E13_02930F1E19_02810F7F11_07205F7F18_02645F7F29_13450F7F56_10820F9040_08845F9225_13995F9X20_11065F9Z53_11120F9Z74_08955FORC82_3586FQ022_06350FQ915_11580FQR64_17285FQU83_20500FQZ46_14155FRV13_04215FV293_05765FV438_08525FZ043_05490FZN06_02310FZN30_08470G3V64_03945G5603_08575G5608_10915G5616_17800G5632_14455G5686_06550G5688_07040GHR40_21640GII67_09125GII91_03825GKF21_12125GKF28_11295GKF34_11195GKF39_01530GKF47_11385GKF52_13635GKF74_01825GKF86_04555GKF89_04410GKG12_03295GNZ03_09590GNZ05_01310GP650_17935GP654_09140GP666_11010GP671_13130GP678_16470GP689_14290GP698_14015GP700_10545GP720_06095GP727_13610GP892_11190GP912_14175GP935_15175GP945_16670GP946_00315GP950_13345GQA06_04590GQA23_11080GQA63_01155GQA64_12425GQE22_08970GQE30_17545GQE33_07470GQE34_01120GQE42_04545GQE51_10380GQE58_13150GQE64_19110GQE87_01345GQE93_05675GQF59_01155GQL64_11830GQM10_04910GQM17_15105GQM18_02835GQM28_04965GQN16_06365GQN24_05120GQY14_07730GRW05_06170GRW12_18865GRW27_17010GRW30_01790GRW42_02940GRW80_13135GRW81_04465GUB85_11530GUB91_14860GUB95_14530GUC01_07830GUC12_14650GZS12_17565HmCms184_01943HmCmsJML079_00721HmCmsJML146_03063HmCmsJML204_02413HW43_05935MJ49_04125MS6198_04670MS8345_00466NCTC10418_05566NCTC10766_05800NCTC10865_04672NCTC10963_03279NCTC11126_00116NCTC11181_01060NCTC12650_04129NCTC13148_06601NCTC13216_02965NCTC13846_03608NCTC9007_00190NCTC9036_03767NCTC9045_04279NCTC9055_00632NCTC9058_03192NCTC9062_04550NCTC9111_03904NCTC9117_04708NCTC9119_03922NCTC9434_02883NCTC9706_01042NCTC9969_03956PGD_02849PU06_12600RG28_02520RK56_026290RX35_02133SAMEA3472043_02753SAMEA3472044_00392SAMEA3472047_02966SAMEA3472055_02089SAMEA3472056_03557SAMEA3472070_02210SAMEA3472080_01739SAMEA3472090_01741SAMEA3472108_01933SAMEA3472114_01186SAMEA3484427_03472SAMEA3484429_01960SAMEA3485101_03912SAMEA3752553_00212SAMEA3752557_00298SAMEA3752559_02826SAMEA3752620_00857SAMEA3753064_01307SAMEA3753097_00439SAMEA3753164_00290SAMEA3753290_01796SAMEA3753300_00529SK85_00486UN86_09270UN91_18355WQ89_01050WR15_04005

Membrane Entity: Yes 
UniProt
Find proteins for P31224 (Escherichia coli (strain K12))
Explore P31224 
Go to UniProtKB:  P31224
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP31224
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/R018561/1/

Revision History  (Full details and data files)

  • Version 1.0: 2021-12-08
    Type: Initial release
  • Version 1.1: 2024-07-10
    Changes: Data collection