7TTC

BamABCDE bound to substrate EspP


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Cryo-EM structures reveal multiple stages of bacterial outer membrane protein folding.

Doyle, M.T.Jimah, J.R.Dowdy, T.Ohlemacher, S.I.Larion, M.Hinshaw, J.E.Bernstein, H.D.

(2022) Cell 185: 1143

  • DOI: https://doi.org/10.1016/j.cell.2022.02.016
  • Primary Citation of Related Structures:  
    7TSZ, 7TT0, 7TT1, 7TT2, 7TT3, 7TT4, 7TT5, 7TT6, 7TT7, 7TTC

  • PubMed Abstract: 

    Transmembrane β barrel proteins are folded into the outer membrane (OM) of Gram-negative bacteria by the β barrel assembly machinery (BAM) via a poorly understood process that occurs without known external energy sources. Here, we used single-particle cryo-EM to visualize the folding dynamics of a model β barrel protein (EspP) by BAM. We found that BAM binds the highly conserved "β signal" motif of EspP to correctly orient β strands in the OM during folding. We also found that the folding of EspP proceeds via "hybrid-barrel" intermediates in which membrane integrated β sheets are attached to the essential BAM subunit, BamA. The structures show an unprecedented deflection of the membrane surrounding the EspP intermediates and suggest that β sheets progressively fold toward BamA to form a β barrel. Along with in vivo experiments that tracked β barrel folding while the OM tension was modified, our results support a model in which BAM harnesses OM elasticity to accelerate β barrel folding.


  • Organizational Affiliation

    Genetics and Biochemistry Branch, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Outer membrane protein assembly factor BamBA [auth B]373Escherichia coliMutation(s): 0 
Gene Names: bamByfgLb2512JW2496
Membrane Entity: Yes 
UniProt
Find proteins for P77774 (Escherichia coli (strain K12))
Explore P77774 
Go to UniProtKB:  P77774
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP77774
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Outer membrane protein assembly factor BamAB [auth A]800Escherichia coliMutation(s): 0 
Gene Names: 
bamAyaeTA5U30_000296A6583_16645A6592_02945A8499_001882A8C65_17810A8W81_000025A8X68_000025A9819_00835A9X72_20365AAG43_001505ABE90_006985ABT96_000025ACN002_0182ACN68_08270ACN81_28495ACU57_18535ACW72_001733ADS93_001956AM270_18200AM340_01130AM464_17685AMK64_000516AML23_20635AO169_000701APX88_24870AT335_002559AT845_002198AUQ29_01520AW059_09880AW086_02640AW118_17900AWP47_05630AZZ83_003988B2D52_000440B5N24_001028B6L15_001192B6R12_000956B6R15_000220B6R17_000025B6R27_000717B6R48_000717B6R87_000718B7C15_000579BANRA_00651BANRA_01136BANRA_02264BANRA_03348BB545_20940BE930_13645BE963_14875BER14_07740BF271_001557BF481_003681BFL24_00980BG944_001864BH692_11645BHF52_16775BHS81_00690BHS87_00845BIQ87_00835BIZ41_19035BJI68_15680BJJ90_21320BK292_13710BK373_09635BK375_04605BKD45_001078BM922_001344BMR21_15875BMT49_02215BMT50_03970BMT91_01325BN17_46001BO068_002867BOH76_17675BON63_15405BON65_09470BON66_02910BON70_27195BON72_09420BON73_05360BON76_15510BON83_24810BON87_26650BON92_02795BON93_03895BON94_19435BON95_12990BON96_17170BON98_18140BOY03_001155BR158_000492BTQ06_06530BUE81_01665BUE82_19935BvCms2454_04098BvCmsC61A_04373BvCmsHHP056_04085BvCmsKKP005_03200BvCmsKKP057_02480BvCmsKKP061_01626BvCmsKSP067_02017BvCmsNSNP036_02496BvCmsSIP024_03985BvCmsSIP082_04451BVL39_02145BWI89_14010BXT93_00750C2121_002944C2M16_10840C2U48_09565C3F40_12200C4952_002853C5715_17305C5F72_21580C5N07_08620C5Y87_12615C6B13_04285C6B22_09400C6L19_002522C6N50_002416C7B02_09115C9114_06985C9160_13545C9E67_25165C9Z43_09565C9Z68_04825CA593_02825CBT22_000299CCS08_22545CCV12_001992CCZ91_001641CD42_002689CDC27_24730CDL36_07950CDL57_02195CF32_003760CG831_000812CIG67_16620CLG78_001120CN875_001371CO706_23095COD50_18665CS116_000025CT143_22180CV83915_01397CWS33_09660CXJ73_002511CY655_00940D0X26_09375D1912_21110D2183_03850D3G36_16715D3O91_03230D3Y67_16445D4U49_05910D4V09_06970D5H22_05945D6T60_04010D9D31_08925D9D77_16570D9E34_01065D9E49_02105D9F92_13935D9H13_16285D9J11_16865D9J61_11550D9K17_15735DAH18_22205DAH23_11155DAH34_04145DAH37_16290DAH50_07015DB282_21960DD762_01135DEN86_04025DEN89_20325DEN95_12205DEO15_08380DIV22_06310DL654_15755DLW88_03710DLX40_11020DM968_04600DN627_10205DNQ45_10075DNX30_02230DP258_09315DRW19_04885DS732_05815DS966_12865DTL43_05880DTL90_09775DTM10_02825DTM45_12675DU321_03690DXT69_01430DXT71_01950DXT73_18965E0I42_19020E0N24_06830E0P28_15490E2112_01200E2119_15620E2123_15040E2127_15050E2128_01390E2129_02820E2135_11675E4K51_05750E4K54_08000E5P52_06800E5S34_18420E5S35_00130E5S38_07550E5S43_01760E5S47_12360E5S52_09495E5S61_20105E5S62_13815EA239_13380EA435_20340EAI46_03605EAN77_17385EAX79_05520EC1094V2_3674EC3234A_2c01590EC95NR1_04363ECs0179ED648_00125EGC08_05740EH88_001876EHD79_10695EHH55_16945EI021_19885EI041_03120EIA08_06365EIA13_13590EIZ93_07885EKI52_10395EL79_3697EL80_3644ELT17_01290ELT21_15085ELT29_02955ELT31_08735ELT33_15830ELT48_12220ELT49_18515ELT58_11855ELT72_19860ELU83_06320ELU85_21230ELU95_07310ELV08_10240ELV10_05925ELV13_13185ELV15_10235ELV22_16495ELV28_04145ELX56_19515ELX68_15925ELX69_11295ELX70_19445ELX76_14590ELX79_12450ELX83_20565ELX96_04985ELY05_11510ELY23_06725ELY24_11330ELY32_08495ELY41_06580ELY48_16875ELY50_16100EO241_11840EPS76_09925EQO00_21045ERS085358_03248ERS085366_02728ERS085386_01534ERS085406_00578ERS139208_01237Esc0902E_01770ETECE1373_03878ETECE36_04781ETECE925_03841EVY14_15655EWK56_14925EXX79_00130EYX55_12715EYY34_22845F2N31_00125F3N40_16060F7F11_02035F9386_00130F9400_16030F9407_10195F9B07_03480F9S76_22105F9V07_07545F9V24_09540F9X20_009325F9X20_09395FC554_18175FDM60_08780FE587_16410FEJ01_15100FFF58_06145FKO60_12300FMP09_04885FNJ67_21425FOI11_012800FOI11_22880FPI65_00965FPS82_06080FQE77_12285FQF29_01490FV293_02855FVB16_04485FWK02_04400FY127_02905FZC17_23605FZN26_20765FZN31_19945G3565_18205G3813_000507G4A38_19380G5603_21720G5632_13895G6P89_20320G6Z99_21860G7635_002428G9448_10075GAJ26_21420GBE29_06495GF147_13240GF646_01340GF699_14310GFY34_15765GFY48_19125GFZ60_03455GIB53_10160GJ11_00925GKE84_08560GKF52_14765GKF86_01230GKF89_14740GKG12_02080GKZ24_00130GLW94_14850GNO40_01290GNZ05_09785GOP20_16705GP650_06555GP662_15415GP711_09570GP946_16470GQE42_12760GQE87_01075GQF58_20385GQF59_21055GQM04_14355GQM10_19940GQR15_00125GQW76_10525GQW80_13555GRC73_19630GRQ19_00125GRW05_07735GRW80_16610GRW81_09850GTP88_05365GUB08_19200GUB92_12195GUC01_17920GUI33_00125GW978_09700GXU05_001394GXV26_001250H0O72_10145H4P47_19600H4P50_20595H4P51_20445H5C78_04235HCF72_000025HH411_000472HHH44_003655HI055_000768HIE29_003111HIE44_000363HIF90_000025HIR12_003073HIT56_004097HJM92_002768HJN04_003141HJO75_000268HJQ60_000684HJS37_001619HJS41_003075HJU54_003394HKA49_001644HL425_05545HL563_02695HL601_07740HLU10_20000HLU56_21470HLV18_20665HLZ20_18085HLZ50_06920HmCms169_00369HmCms184_03902HmCmsJML074_02992HMJ82_00130HMS79_10015HMT08_17625HMU06_10015HMU48_04715HMV41_18210HMV95_04545HMW38_10535HNC30_00130HNC36_16200HNC52_16470HNC59_20385HNC66_11645HNC75_04035HNC99_17465HND12_10395HNO08_14350HNV65_08935HNV94_05360HPE39_04400HV109_19340HVV39_17670HVV53_21540HVW04_10185HVW11_05940HVW22_02345HVW43_11715HVY77_20925HVZ33_19710HVZ71_20360HX136_20560HZ71_000489HZ72_000275I6H01_17735I6H02_18690JE86ST02C_01710JE86ST05C_01740MJ49_06155MS7163_00195NCTC10082_01374NCTC10089_04067NCTC10090_02151NCTC10429_04185NCTC10865_05056NCTC11022_04904NCTC11112_03444NCTC11181_01353NCTC12950_04415NCTC13127_05445NCTC13148_05206NCTC13216_02723NCTC4450_07390NCTC8008_03664NCTC8009_07311NCTC8621_04193NCTC8959_04852NCTC8960_01553NCTC9048_04425NCTC9050_02018NCTC9073_03384NCTC9111_04256NCTC9434_02619NCTC9703_03426NCTC9706_01328NCTC9775_02319NCTC9777_00463NCTC9969_04257ND22_002541PGD_03818PU06_23000RG28_03870SAMEA3472043_02535SAMEA3472044_04148SAMEA3472056_00964SAMEA3472064_04397SAMEA3472080_03761SAMEA3472120_03174SAMEA3472147_00389SAMEA3484427_01384SAMEA3484429_01097SAMEA3485101_01115SAMEA3485110_03703SAMEA3751407_04805SAMEA3752312_01935SAMEA3752386_04693SAMEA3752557_00883SAMEA3753064_03379SAMEA3753290_00402SAMEA3753300_01854SM09_00918THOESC010_36610TUM18780_35950UN91_10540WP2S18E08_37660WP4S18E07_36860WP4S18E08_36510WQ89_09595WR15_02370

Membrane Entity: Yes 
UniProt
Find proteins for P0A940 (Escherichia coli (strain K12))
Explore P0A940 
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Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A940
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Outer membrane protein assembly factor BamEC [auth E]94Escherichia coliMutation(s): 0 
Gene Names: 
Membrane Entity: Yes 
UniProt
Find proteins for P0A937 (Escherichia coli (strain K12))
Explore P0A937 
Go to UniProtKB:  P0A937
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A937
Sequence Annotations
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Outer membrane protein assembly factor BamD226Escherichia coliMutation(s): 0 
Gene Names: bamDEAMG_00990
Membrane Entity: Yes 
UniProt
Find proteins for P0AC02 (Escherichia coli (strain K12))
Explore P0AC02 
Go to UniProtKB:  P0AC02
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0AC02
Sequence Annotations
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Outer membrane protein assembly factor BamCE [auth C]320Escherichia coliMutation(s): 0 
Gene Names: 
bamCnlpBA6592_19755A8C65_04235A8W81_002200A8X68_004535A9X72_07035AAG43_000963ABT96_004580ACN002_2512ACN68_11560ACN81_26800ACU57_04515ACW72_004516AM270_06735AM464_03885AMK64_004175AML23_07690AO169_004464APX88_06575AT335_000411AT845_001008AUQ29_15820AW086_17130AW118_06195AWP47_27020B2D52_004705B5N24_004745B6L15_004627B6R12_002797B6R15_001739B6R17_003253B6R27_002526B6R48_002788B6R87_002569B9T59_21405BANRA_01021BANRA_03560BANRA_04601BB545_17690BE963_28130BER14_02350BF271_000600BF481_001132BG821_002569BHF52_09620BHS81_15170BIQ87_14450BIZ41_13405BJI68_01535BK272_07480BK292_09100BK373_06140BK375_00595BKD45_004383BMC34_001196BMC79_004175BMR21_01425BMT91_12040BO068_001811BOH76_02570BON65_15590BON66_22990BON70_19385BON72_10980BON73_16825BON76_02345BON83_11105BON86_12870BON87_06150BON92_23095BON93_11745BON94_05640BON95_12010BON96_16290BTQ06_24710BUE81_00175BUE82_06175BvCms2454_00576BvCmsC61A_03920BvCmsHHP019_02257BvCmsHHP056_03727BvCmsKKP005_05022BvCmsKKP057_02213BvCmsKKP061_00365BvCmsKSNP073_01370BvCmsKSP011_03652BvCmsKSP067_01143BvCmsNSNP036_03233BvCmsSIP082_02181BVL39_14450BWI89_00815BXT93_09065BZL69_23975C2121_003940C4952_000194C5542_000116C5F72_07725C5N07_10515C5Y87_17305C6B22_04570C6N50_000623C9160_05285C9Z62_03680C9Z68_02140CA593_14465CBT22_004760CCS08_18120CCZ91_004547CD42_000570CDC27_13110CDL36_08690CDL37_24220CF32_001012CG692_24660CG831_000231CIG67_19480CLG78_004479CO706_10250COD50_09400CQP61_08535CS116_004421CWS33_10415CXJ73_000266CY655_15855D0X26_11920D3822_05395D3O91_03970D3Y67_12985D4V09_11230D5H22_07755D6T60_00595D9D31_00585D9D43_09275D9D77_11380D9E34_00585D9H13_02835D9H94_18900D9J11_04670DAH34_02675DAH37_19960DAH50_04635DB282_12805DD762_13530DEN86_22815DEN89_10395DEO15_01760DIV22_31745DL654_08500DLX40_07815DM968_15395DN627_17995DNQ45_02690DP258_07610DRW19_07685DS732_18480DTL43_01510DTL90_08635DTM10_01015DTM45_09650DU321_10720DXT71_21935E0I42_02740E0N24_06335E2112_00485E2119_05135E2123_03705E2127_04515E2128_16640E2129_06730E2135_00555E4K51_07145E4K54_09390E5P52_09820E5S34_12860E5S38_13070E5S47_00585E5S52_12530E5S61_11100E5S62_08550EAN77_04825EBP16_10430EC1094V2_1211EC3234A_44c00830EC95NR1_01696ED648_19505EGC08_02915EH88_000114EHD79_10200EHH55_03705EI021_07715EIZ93_19650EKI52_22355EL79_1185EL80_1190ELT17_16720ELT21_03525ELT29_06610ELT58_05595ELU85_09985ELV08_03665ELV15_17835ELV28_11920ELX69_02635ELX76_09875ELX96_00040ELY05_02505ELY32_00570ELY41_04440ELY48_09690EO241_29005ERS085358_03192ERS085366_00345ERS085386_00039ERS139208_00589ETECE1373_01350ETECE36_02095ETECE925_01347ExPECSC038_04470EXX13_08605EXX79_12495EYX55_00585EYY34_10895F2N31_04780F3N40_17940F6U69_05120F9386_06110F9407_01990F9B07_19285F9S83_10130F9V07_13505F9V24_02690FC554_01940FDM60_09380FE587_10155FGG80_09005FJQ51_23260FKO60_11800FOI11_000570FOI11_19480FPS82_08960FV293_04230FVB16_11325FY127_07270FZN30_01400G3813_001234G4A38_06330G5632_01995G9448_21585GF646_05030GF699_07070GFY34_13710GFZ60_03165GIB53_06795GKF86_10520GKG12_07390GNO40_02645GNZ05_14470GP650_11215GP946_09630GP979_00725GQE42_04985GQE64_06570GQE87_07245GQF58_03875GQF59_03850GQM04_18635GQM09_02405GQM10_11480GQR15_07015GQW68_23860GRQ19_13570GRW05_01010GRW57_15710GRW81_02785GW978_16940H0O72_12075H4P47_06810H4P50_06340H4P51_06385H5C78_16415HCF72_001812HH795_002546HHG09_001243HHH44_002689HIE44_000224HIF90_002766HIN64_004060HIT56_001086HJO75_001595HJQ60_001062HJS37_000213HJS41_002178HJU54_002647HL563_06480HLU56_17545HmCms184_03495HmCmsJML074_00064HMS79_11270HMT08_04955HMT08_28750HMU48_07410HMV95_10630HNC30_03420HNC30_26600HNC36_05035HNC38_17555HNC52_03340HNC52_27645HNC59_20140HNC66_18255HNC75_00525HNC75_28500HNC99_16815HND24_11145HNV65_05630HNY50_09775HNY54_11535HV109_06365HVV53_09290HVZ33_06850HX136_06685HZ72_000133I6H00_25635I6H01_06370I6H02_07670JE86ST02C_29570JE86ST05C_29610MJ49_18500NCTC10090_04434NCTC10764_00647NCTC10865_01743NCTC11022_02534NCTC11126_06126NCTC11181_03634NCTC11341_00816NCTC12950_01648NCTC13148_02274NCTC13216_00543NCTC4450_03337NCTC7927_01568NCTC8008_00803NCTC8621_01448NCTC8960_04114NCTC9036_01478NCTC9044_00198NCTC9045_01669NCTC9048_01461NCTC9050_04702NCTC9077_01815NCTC9111_01883NCTC9117_01960NCTC9702_01656NCTC9703_01031NCTC9706_04674NCTC9969_01610PGD_00767RG28_09510SAMEA3472043_00977SAMEA3472044_02057SAMEA3472056_00816SAMEA3472064_02059SAMEA3472080_01551SAMEA3472147_00102SAMEA3484427_00337SAMEA3484429_00446SAMEA3485101_04932SAMEA3485110_01223SAMEA3752312_00108SAMEA3752557_01026SAMEA3753300_00970SM09_02636THOESC010_12830TUM18780_12260UN91_14105WP4S18E07_13160WP4S18E08_12820WQ89_05460WR15_19465

Membrane Entity: Yes 
UniProt
Find proteins for P0A903 (Escherichia coli (strain K12))
Explore P0A903 
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A903
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Serine protease EspPF [auth P]277Escherichia coliMutation(s): 0 
Gene Names: espPL7020ECO57PM78
EC: 3.4.21
Membrane Entity: Yes 
UniProt
Find proteins for O32591 (Escherichia coli)
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UniProt GroupO32591
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
K33 (Subject of Investigation/LOI)
Query on K33

Download Ideal Coordinates CCD File 
G [auth A]2,3-dideoxy-6-O-[2-deoxy-4-O-phosphono-2-(tetradecanoylamino)-alpha-L-gulopyranosyl]-1-O-phosphono-beta-D-threo-hexopyranose
C26 H51 N O15 P2
RLOUQIAPEYIPKB-RYYOIEMHSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)United States1ZIADK052037
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)United States1ZIADK060100

Revision History  (Full details and data files)

  • Version 1.0: 2022-03-30
    Type: Initial release
  • Version 1.1: 2022-04-13
    Changes: Database references
  • Version 1.2: 2024-11-06
    Changes: Data collection, Structure summary