7VHP

Structural insights into the membrane microdomain organization by SPFH family proteins


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.27 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural insights into the membrane microdomain organization by SPFH family proteins.

Ma, C.Wang, C.Luo, D.Yan, L.Yang, W.Li, N.Gao, N.

(2022) Cell Res 32: 176-189

  • DOI: 10.1038/s41422-021-00598-3
  • Primary Citation of Related Structures:  
    7VHP, 7VHQ

  • PubMed Abstract: 
  • The lateral segregation of membrane constituents into functional microdomains, conceptually known as lipid raft, is a universal organization principle for cellular membranes in both prokaryotes and eukaryotes. The widespread Stomatin, Prohibitin, Flotillin, and HflK/C (SPFH) family proteins are enriched in functional membrane microdomains at various subcellular locations, and therefore were hypothesized to play a scaffolding role in microdomain formation ...

    The lateral segregation of membrane constituents into functional microdomains, conceptually known as lipid raft, is a universal organization principle for cellular membranes in both prokaryotes and eukaryotes. The widespread Stomatin, Prohibitin, Flotillin, and HflK/C (SPFH) family proteins are enriched in functional membrane microdomains at various subcellular locations, and therefore were hypothesized to play a scaffolding role in microdomain formation. In addition, many SPFH proteins are also implicated in highly specific processes occurring on the membrane. However, none of these functions is understood at the molecular level. Here we report the structure of a supramolecular complex that is isolated from bacterial membrane microdomains and contains two SPFH proteins (HflK and HflC) and a membrane-anchored AAA+ protease FtsH. HflK and HflC form a circular 24-mer assembly, featuring a laterally segregated membrane microdomain (20 nm in diameter) bordered by transmembrane domains of HflK/C and a completely sealed periplasmic vault. Four FtsH hexamers are embedded inside this microdomain through interactions with the inner surface of the vault. These observations provide a mechanistic explanation for the role of HflK/C and their mitochondrial homologs prohibitins in regulating membrane-bound AAA+ proteases, and suggest a general model for the organization and functionalization of membrane microdomains by SPFH proteins.


    Organizational Affiliation

    National Biomedical Imaging Center, Peking University, Beijing, China. gaon@pku.edu.cn.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ATP-dependent zinc metalloprotease FtsH644Escherichia coliMutation(s): 0 
Gene Names: 
ftsHftsH_1ftsH_2ftsH_3BANRA_01798BANRA_03817BANRA_04194BANRA_04343BvCms2454_04835BvCmsC61A_01490BvCmsHHP019_05301BvCmsHHP056_02497BvCmsKKP005_04143BvCmsKKP036_00257BvCmsKKP057_00928BvCmsKKP061_00875BvCmsKSNP073_02150BvCmsKSP011_02063BvCmsKSP067_01451BvCmsKSP076_01617BvCmsNSNP036_02138BvCmsSIP024_04392BvCmsSIP082_00789CV83915_02920EC3234A_53c00570EC95NR1_02561ERS085358_02102ERS085366_00565ERS085386_00500ERS085406_02919ERS139208_02225Esc0902E_34410ETECE1373_00582ETECE36_01186ETECE925_00608HmCms169_01189HmCms184_00222HmCmsJML074_04865JE86ST02C_36600JE86ST05C_36640MS7163_03476NCTC10082_02960NCTC10089_00619NCTC10090_03652NCTC10764_03997NCTC10865_00800NCTC11022_03344NCTC11112_00879NCTC11126_02919NCTC11181_02861NCTC12950_00611NCTC13148_03277NCTC13216_01230NCTC4450_02597NCTC7922_03737NCTC7927_00682NCTC7928_02353NCTC8008_05220NCTC8179_06085NCTC8500_00501NCTC8621_00639NCTC8959_03144NCTC8960_03202NCTC9036_00669NCTC9044_01223NCTC9045_00707NCTC9048_00646NCTC9050_03735NCTC9075_00889NCTC9077_00753NCTC9081_01067NCTC9111_00988NCTC9434_00556NCTC9702_00663NCTC9703_05090NCTC9706_02858NCTC9775_04136NCTC9777_02143PGD_03938SAMEA3472043_01811SAMEA3472044_03322SAMEA3472056_03082SAMEA3472064_00676SAMEA3472080_00955SAMEA3472112_01517SAMEA3472117_01725SAMEA3472120_02456SAMEA3472147_01888SAMEA3484427_00598SAMEA3484429_00744SAMEA3485101_01720SAMEA3485110_00623SAMEA3751407_00536SAMEA3752312_02461SAMEA3752386_00450SAMEA3753064_02946SAMEA3753290_00138SAMEA3753300_02121SM09_03453THOESC010_05460TUM18780_05440WP2S18E08_05220WP4S18E07_05560WP4S18E08_05420BvCmsF30A_02098JFD_04106NCTC8333_00617SAMEA3753106_02377

EC: 3.4.24
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Protein HflK419Escherichia coliMutation(s): 0 
Gene Names: 
hflKhflK_1hflK_2A6519_001745A6592_09725A8C65_01745A8W81_003029A8X68_000832A9819_23885A9X72_22800AAG43_001305AAS29_001394ABE90_022860ABT96_001979ACN002_4400ACN68_17960ACN81_01545ACU57_19135ACW72_001442AM270_14655AM464_15610AMK64_000388AO169_001107AT335_001051AUQ29_20590AW059_20300AW086_09965B2D52_002145B5N24_002885B6L15_001818B6R12_001213B6R15_002000B6R17_000435B6R27_001127B6R48_001127B6R87_001128B7C15_002844BANRA_02754BANRA_02863BE963_12385BF481_004151BFL24_28330BG821_000571BHF52_13010BHS81_24975BHS87_23380BIZ41_02865BJI68_16630BJJ90_23295BK292_24855BK375_06700BKD45_001714BMC79_002199BMR21_08485BMT50_06160BMT91_05645BN17_41511BO068_002517BOB65_001220BOH76_10870BON63_12720BON65_22450BON70_11075BON72_19745BON73_07535BON76_04120BON83_17400BON92_18435BON93_15510BON94_18225BON96_04085BON98_15490BRV34_000762BRV41_002747BTQ06_07290BUE81_24150BUE82_22495BvCms2454_04355BvCmsC61A_01680BvCmsHHP019_00839BvCmsHHP056_01641BvCmsKKP005_02259BvCmsKKP036_00104BvCmsKKP057_02394BvCmsKKP061_03355BvCmsKSNP073_03478BvCmsKSP011_04670BvCmsKSP067_03844BvCmsKSP076_04394BvCmsNSNP036_02335BvCmsSIP082_00672BVL39_04255BXT93_16385BZL69_06755C2U48_11640C3F40_14180C5542_000569C5715_23370C5F72_23640C5N07_07180C5Y87_09380C6B22_03255C6N50_003506C7B02_22710C9114_00835C9E67_27580C9Z62_19540CA593_04940CBT22_001965CCS08_01775CCZ91_002203CDC27_22675CF32_000405CG692_00215CG831_001929CIG67_23195CLG78_004222COD50_25005CQB02_20420CR539_02820CS116_002254CV83915_01855CWS33_03550CXJ73_002149CY655_26335D0X26_12950D3822_10590D3O91_01570D3Y67_00715D4V09_14425D5H22_23970D9D31_07890D9D43_14560D9D77_08735D9E34_14855D9H13_15300D9H94_06295D9J03_08445D9J11_13475DAH18_07400DAH23_05540DAH34_17745DAH37_06200DAH50_08360DB282_10350DD762_20800DEN95_17280DEO15_07875DIV22_15560DL654_20975DLX40_22285DM968_08655DN627_22580DNQ45_06710DP258_23175DRW19_23360DS732_02655DTL43_02345DTL90_17250DTM45_20950DU321_10415DXT69_21915DXT71_04260DXT73_07390E0I42_01060E0N24_15540E2112_14640E2119_06465E2127_06860E2128_01910E2129_03990E2135_09640E4K51_09085E4K54_09665E5P52_11720E5S34_00845E5S38_10455E5S47_20580E5S52_05155E5S61_21835E5S62_12240EAI46_08375EAN77_04025EBP16_20780EC1094V2_4081EC3234A_108c00160EC95NR1_03794ECs5150ED648_13765EGC08_07270EH88_000588EHD79_20020EHH55_18930EI021_09690EI041_05010EIZ93_17475EKI52_12650EL79_4169EL80_4084ELT17_13910ELT21_00845ELT29_19175ELU85_14525ELV08_11370ELV15_00975ELV28_07675ELX69_13470ELX96_07270ELY05_00525ELY32_09020ELY41_00540ELY48_02815EO241_14855ERS085366_02335ERS139208_00850ETECE1373_04258ETECE925_04168EXX13_20220EYX47_03520EYX55_02905EYY34_13925F2N27_07320F2N28_06810F3N40_08340F9400_18305F9407_16545F9B07_05995F9S76_18130F9S83_12630F9V07_13695F9V24_16410F9X20_007165F9X20_07235FA849_10885FA868_05460FC554_05795FEL34_15225FFF58_08240FGY90_11850FHD44_08690FHR00_07400FJQ51_04640FKO60_18290FMP09_08525FOI11_014740FOI11_20940FPS82_03975FQE77_15260FQF29_05195FV293_00865FVB16_06380FWK02_13090FY127_03730G3813_002774G4A38_03090G5696_13885G6Z99_19860G7635_003092GAJ26_12530GBE29_17460GF646_10360GFY34_21205GIB53_02425GKF86_05500GKF89_03455GKG12_11675GKZ24_24990GNO40_09845GOP20_15705GP650_21115GP662_06525GP979_12080GQA06_06275GQE42_10425GQE64_09105GQE87_16240GQF58_15680GQF59_13895GQM04_15800GQM06_01935GQM09_08025GQM10_00835GQW07_15995GQW68_01985GQW76_14640GRO95_15840GRQ19_15895GRW05_08865GRW80_01335GRW81_08410GSY44_04535GUC01_09055GW978_03300GXV26_004242H0O53_13460H0O72_04915H4P50_23020H4P51_22860HHG09_002879HHH44_002336HIE44_001312HIF90_000433HIR12_000250HJ940_001563HJ942_000803HJN04_003334HJO75_003272HJQ60_002514HJS37_003331HJS41_003150HJU54_000802HL563_08480HLU56_08180HLZ50_23395HmCmsJML074_01365HMT08_17905HMV95_06705HNC36_09185HNC52_04490HNC59_12550HNC66_09365HNC99_21075HNV65_03230HPE39_02365HV109_21490HVW11_07920HVW43_13980HVX16_23365HVX31_18205HVX32_02295HVZ30_18915HVZ33_22260HVZ71_22535HX136_22685HZ71_003229HZ72_003440I6H00_16150I6H01_15315I6H02_16705IA00_000506JE86ST02C_47500JE86ST05C_48560NCTC10082_01824NCTC10090_02573NCTC10429_04710NCTC10974_05098NCTC11022_04511NCTC11181_01756NCTC11341_03057NCTC12950_04913NCTC13127_05909NCTC13216_02308NCTC4450_01452NCTC7922_05246NCTC8008_04078NCTC8500_05052NCTC8959_04284NCTC8960_02016NCTC9036_04401NCTC9044_02658NCTC9045_05319NCTC9048_04880NCTC9077_05652NCTC9117_05600NCTC9702_05278NCTC9706_01788NCTC9777_00916NCTC9969_04623ND22_003119PGD_03356PU06_09640RG28_05870SAMEA3472043_02154SAMEA3472044_01523SAMEA3472056_01694SAMEA3472064_04041SAMEA3472080_00094SAMEA3472112_03401SAMEA3472117_03579SAMEA3472120_02725SAMEA3484427_02085SAMEA3484429_03125SAMEA3485101_04737SAMEA3485110_03176SAMEA3751407_02266SAMEA3752386_02711SAMEA3752557_01673SAMEA3753064_01612SAMEA3753290_02101SAMEA3753300_00648THOESC010_40300TUM18780_39570UN91_24800WP2S18E08_42680WP4S18E07_40780WP4S18E08_41270WQ89_21930WR15_07020AW119_22625B6R31_000826BK383_13095BON67_23005BON68_27810BON69_04845BON71_15700BON74_00975BON75_25100BON77_18300BON80_13805BON81_16125BON82_22840BON89_08675BvCmsF30A_00863CR538_23100DAH17_10605DAH19_12215DAH20_11800DAH21_09055DAH22_18590DAH24_05210DAH25_03530DAH26_05205DAH27_21410DAH28_22125DAH31_14610DAH32_17600DAH33_19095DAH35_07375DAH36_10045DAH38_16980DAH40_08720DAH41_16575DAH42_13045DAH43_08795DAH45_08710DAH46_08780DAH47_07565DAH48_07705DAH49_08805DEN87_06665DEN88_19635DEN91_06335DEN92_19480DEN93_06575DEN94_10960DEN96_12990DEN97_13940DEN98_12585DEN99_15995DEO00_13395DEO01_17895DEO02_11960DEO03_17965DEO04_15050DEO05_14910DEO06_20655DEO07_22705DEO08_18755DEO09_14775DEO10_15685DEO11_15565DEO12_23715DEO13_05845DEO14_03190DEO17_22835DEO18_10540DEO19_11790DEO20_13770DXT70_06860E2113_05280E2117_17165E2121_03105E2122_03295E2131_09880E2132_07570E2133_02480E2134_14015E4T14_12485E4T14_21510E5M02_02365E5P22_06640E5P23_06360E5P24_09300E5P25_13825E5P26_01585E5P27_12445E5P28_02905E5P29_11420E5P30_20150E5P31_11100E5P32_03550E5P33_08535E5P35_07555E5P36_11265E5P37_09920E5P39_02650E5P40_12810E5P41_06335E5P42_05805E5P43_02935E5P44_08890E5P45_01525E5P46_13575E5P47_02835E5P48_02985E5P49_08775E5P50_02655E5P51_10285E5S36_08650E5S37_06580E5S45_06495E5S48_04890E5S51_06735E5S53_13380E5S54_18600E5S55_12345E5S56_11845E5S57_12400ELT20_09135ELT27_08245ELT41_02215ELU90_16125ELU99_11410ELV09_04625ELV21_08220ELV26_07410ELX48_07330ELX61_05490ELX66_15425ELX85_01515ELY36_08940ELY39_09690EYV17_07355EYV18_13000F0L67_00970HV209_19960HVW19_13065IH768_00215IH772_04645J0541_002323J4S20_000418J5U05_001376JFD_00829JNP96_03045NCTC9037_04579SAMEA3753106_02839

Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Modulator of FtsH protease HflC334Escherichia coliMutation(s): 0 
Gene Names: HMPREF1611_02636
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.27 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2022-03-23
    Type: Initial release