8SNB image
Entry Detail
PDB ID:
8SNB
EMDB ID:
Title:
atomic model of sea urchin sperm doublet microtubule (48-nm periodicity)
Biological Source:
PDB Version:
Deposition Date:
2023-04-26
Release Date:
2023-06-28
Method Details:
Experimental Method:
Resolution:
3.30 Å
Aggregation State:
FILAMENT
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:CFAP96(C4orf47)
Chain IDs:A (auth: 1A), B (auth: 1B)
Chain Length:251
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Coiled-coil domain-containing protein 105
Chain IDs:C (auth: 1E), D (auth: 1F), E (auth: 1G), F (auth: 1H)
Chain Length:448
Number of Molecules:4
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Coiled-coil domain-containing protein 81
Chain IDs:G (auth: 1K), H (auth: 1L), I (auth: 1M), DA (auth: 1v), EA (auth: 1w), FA (auth: 1x), GA (auth: 1y), HA (auth: 1z), VA (auth: 2a)
Chain Length:696
Number of Molecules:9
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:FAM166C
Chain IDs:J (auth: 1P), K (auth: 1Q)
Chain Length:204
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Protein FAM166B
Chain IDs:L (auth: 1T), M (auth: 1U), N (auth: 1V), O (auth: 1W)
Chain Length:429
Number of Molecules:4
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:CFAP144(FAM183A)
Chain IDs:P (auth: 1Y)
Chain Length:696
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Outer dense fiber protein 3
Chain IDs:Q (auth: 1a), R (auth: 1b), FC (auth: 5E), GC (auth: 5F), HC (auth: 5G), IC (auth: 5H), JC (auth: 5I), KC (auth: 5J), LC (auth: 5K), MC (auth: 5L), NC (auth: 5M), OC (auth: 5N), PC (auth: 5O)
Chain Length:251
Number of Molecules:13
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Tex33
Chain IDs:S (auth: 1d)
Chain Length:359
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:C20Orf85
Chain IDs:T (auth: 1f), U (auth: 1g)
Chain Length:206
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:ATP6V1FNB
Chain IDs:V (auth: 1i), W (auth: 1j), RE (auth: 9M), SE (auth: 9N), TE (auth: 9O)
Chain Length:188
Number of Molecules:5
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Tex26(LOC100888047)
Chain IDs:X (auth: 1l), Y (auth: 1m)
Chain Length:176
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Meiosis-specific nuclear structural protein 1
Chain IDs:Z (auth: 1o), AA (auth: 1p), BA (auth: 1q), CA (auth: 1r)
Chain Length:142
Number of Molecules:4
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Enkurin domain-containing protein
Chain IDs:IA (auth: 2A), JA (auth: 2B), KA (auth: 2C), LA (auth: 2D)
Chain Length:696
Number of Molecules:4
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:CFAP107
Chain IDs:MA (auth: 2G)
Chain Length:235
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Cilia- and flagella-associated protein 126
Chain IDs:NA (auth: 2J), OA (auth: 2K), PA (auth: 2L)
Chain Length:141
Number of Molecules:3
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Flagellar FliJ protein
Chain IDs:QA (auth: 2O)
Chain Length:120
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Meiosis-specific nuclear structural protein 1
Chain IDs:RA (auth: 2R), SA (auth: 2S)
Chain Length:499
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Cilia- and flagella-associated protein 161
Chain IDs:TA (auth: 2V), UA (auth: 2W)
Chain Length:292
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:CFA20 domain-containing protein
Chain IDs:WA (auth: 3A), XA (auth: 3B), YA (auth: 3C), ZA (auth: 3D), AB (auth: 3E), BB (auth: 3F), CB (auth: 3G)
Chain Length:195
Number of Molecules:7
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:EF-hand domain-containing protein
Chain IDs:DB (auth: 3J), EB (auth: 3K)
Chain Length:592
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Trichohyalin-plectin-homology domain-containing protein
Chain IDs:FB (auth: 3N), GB (auth: 3O)
Chain Length:560
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:CFAP276
Chain IDs:HB (auth: 3R), IB (auth: 3S), JB (auth: 3T)
Chain Length:172
Number of Molecules:3
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Cilia- and flagella-associated protein 45
Chain IDs:KB (auth: 3W), LB (auth: 3X), MB (auth: 3Y), NB (auth: 3Z)
Chain Length:541
Number of Molecules:4
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Cilia- and flagella-associated protein 52
Chain IDs:OB (auth: 4A), PB (auth: 4B), QB (auth: 4C)
Chain Length:635
Number of Molecules:3
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Trichohyalin-plectin-homology domain-containing protein
Chain IDs:RB (auth: 4F), SB (auth: 4G)
Chain Length:516
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Nucleoside diphosphate kinase
Chain IDs:TB (auth: 4J), UB (auth: 4K)
Chain Length:380
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Cilia- and flagella-associated protein 77
Chain IDs:VB (auth: 4N), WB (auth: 4O), XB (auth: 4P), YB (auth: 4Q)
Chain Length:243
Number of Molecules:4
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Cilia- and flagella-associated protein 97
Chain IDs:ZB (auth: 4T), AC (auth: 4U), BC (auth: 4V)
Chain Length:231
Number of Molecules:3
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:HeLo_like_N(LOC577943)
Chain IDs:CC (auth: 4Y)
Chain Length:302
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Outer dense fiber protein 3
Chain IDs:DC (auth: 5A), EC (auth: 5B), YE (auth: 9Y), ZE (auth: 9Z)
Chain Length:277
Number of Molecules:4
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:PACRG
Chain IDs:QC (auth: 6A), RC (auth: 6B), SC (auth: 6C), TC (auth: 6D), UC (auth: 6E), VC (auth: 6F)
Chain Length:236
Number of Molecules:6
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Pierce1
Chain IDs:WC (auth: 6I), XC (auth: 6J)
Chain Length:123
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Protein phosphatase 1 regulatory subunit 32
Chain IDs:YC (auth: 6M), ZC (auth: 6N)
Chain Length:469
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:RIB35
Chain IDs:AD (auth: 6Q), BD (auth: 6R)
Chain Length:310
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:RIB43A-like with coiled-coils protein 2
Chain IDs:CD (auth: 6U), DD (auth: 6V), ED (auth: 6W), FD (auth: 6X)
Chain Length:379
Number of Molecules:4
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:EF-hand domain-containing family member C2
Chain IDs:GD (auth: 7A), HD (auth: 7B), ID (auth: 7C), JD (auth: 7D)
Chain Length:744
Number of Molecules:4
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Flagellar protofilament ribbon protein rib74
Chain IDs:KD (auth: 7G), LD (auth: 7H), MD (auth: 7I)
Chain Length:645
Number of Molecules:3
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:SAXO3(LOC115918676)
Chain IDs:ND (auth: 7M), OD (auth: 7N)
Chain Length:322
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:TEPP protein
Chain IDs:PD (auth: 7Q), QD (auth: 7R)
Chain Length:185
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:SPATA48
Chain IDs:RD (auth: 7U), SD (auth: 7V)
Chain Length:200
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Sperm-associated antigen 8
Chain IDs:TD (auth: 7Y), UD (auth: 7Z)
Chain Length:204
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Testicular haploid expressed gene protein-like
Chain IDs:VD (auth: 8A)
Chain Length:268
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Tektin
Chain IDs:WD (auth: 8D), XD (auth: 8E), YD (auth: 8F), ZD (auth: 8G)
Chain Length:462
Number of Molecules:4
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Tektin
Chain IDs:AE (auth: 8J), BE (auth: 8K), CE (auth: 8L), DE (auth: 8M), EE (auth: 8N)
Chain Length:430
Number of Molecules:5
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Tektin
Chain IDs:FE (auth: 8Q), GE (auth: 8R), HE (auth: 8S), IE (auth: 8T), JE (auth: 8U)
Chain Length:402
Number of Molecules:5
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Tex43
Chain IDs:KE (auth: 8X), LE (auth: 8Y), ME (auth: 8Z)
Chain Length:119
Number of Molecules:3
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Tex36(CFAP95, C9orf135)
Chain IDs:NE (auth: 9A)
Chain Length:220
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:CFAP90(C5orf49)
Chain IDs:OE (auth: 9D)
Chain Length:171
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Tex49
Chain IDs:PE (auth: 9G)
Chain Length:150
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Tex49_homologue(LOC580808)
Chain IDs:QE (auth: 9J)
Chain Length:179
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:CFAP68(UPF0686, C11orf1)
Chain IDs:UE (auth: 9R)
Chain Length:153
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:SPATA45
Chain IDs:VE (auth: 9T)
Chain Length:83
Number of Molecules:1
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:C4orf45
Chain IDs:WE (auth: 9V), XE (auth: 9W)
Chain Length:294
Number of Molecules:2
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Tubulin alpha chain
Chain IDs:AF (auth: AA), BF (auth: AB), EF (auth: AE), GF (auth: AG), IF (auth: AI), KF (auth: AK), MF (auth: AM), NF (auth: BA), OF (auth: BB), RF (auth: BE), TF (auth: BG), VF (auth: BI), XF (auth: BK), ZF (auth: BM), AG (auth: CA), BG (auth: CB), EG (auth: CE), GG (auth: CG), IG (auth: CI), KG (auth: CK), MG (auth: CM), NG (auth: DA), OG (auth: DB), RG (auth: DE), TG (auth: DG), VG (auth: DI), XG (auth: DK), ZG (auth: DM), AH (auth: EA), CH (auth: EC), EH (auth: EE), GH (auth: EG), IH (auth: EI), KH (auth: EK), NH (auth: FA), OH (auth: FB), RH (auth: FE), TH (auth: FG), VH (auth: FI), XH (auth: FK), AI (auth: GA), BI (auth: GB), EI (auth: GE), GI (auth: GG), II (auth: GI), KI (auth: GK), NI (auth: HA), OI (auth: HB), RI (auth: HE), TI (auth: HG), VI (auth: HI), XI (auth: HK), AJ (auth: IA), BJ (auth: IB), EJ (auth: IE), GJ (auth: IG), IJ (auth: II), KJ (auth: IK), MJ (auth: IM), NJ (auth: JA), OJ (auth: JB), RJ (auth: JE), TJ (auth: JG), VJ (auth: JI), XJ (auth: JK), AK (auth: KA), BK (auth: KB), EK (auth: KE), GK (auth: KG), IK (auth: KI), KK, NK (auth: LA), OK (auth: LB), RK (auth: LE), TK (auth: LG), VK (auth: LI), XK (auth: LK), AL (auth: MA), BL (auth: MB), EL (auth: ME), GL (auth: MG), IL (auth: MI), KL (auth: MK), LL (auth: ML), NL (auth: NA), OL (auth: NB), RL (auth: NE), TL (auth: NG), VL (auth: NI), YL (auth: NL), AM (auth: OA), BM (auth: OB), EM (auth: OE), GM (auth: OG), IM (auth: OI), KM (auth: OK), LM (auth: OL), NM (auth: PA), OM (auth: PB), RM (auth: PE), TM (auth: PG), VM (auth: PI), XM (auth: PK), YM (auth: PL), AN (auth: QA), BN (auth: QB), EN (auth: QE), GN (auth: QG), IN (auth: QI), KN (auth: QK), LN (auth: QL), NN (auth: RA), ON (auth: RB), RN (auth: RE), TN (auth: RG), VN (auth: RI), XN (auth: RK), YN (auth: RL), AO (auth: SA), BO (auth: SB), EO (auth: SE), GO (auth: SG), IO (auth: SI), KO (auth: SK), NO (auth: TA), OO (auth: TB), RO (auth: TE), TO (auth: TG), VO (auth: TI), XO (auth: TK), AP (auth: UA), BP (auth: UB), EP (auth: UE), GP (auth: UG), IP (auth: UI), KP (auth: UK), NP (auth: VA), OP (auth: VB), RP (auth: VE), TP (auth: VG), VP (auth: VI), XP (auth: VK), AQ (auth: WA), BQ (auth: WB), EQ (auth: WE), GQ (auth: WG), IQ (auth: WI), KQ (auth: WK)
Chain Length:451
Number of Molecules:148
Biological Source:Strongylocentrotus purpuratus
Polymer Type:polypeptide(L)
Description:Tubulin beta chain
Chain IDs:CF (auth: AC), DF (auth: AD), FF (auth: AF), HF (auth: AH), JF (auth: AJ), LF (auth: AL), PF (auth: BC), QF (auth: BD), SF (auth: BF), UF (auth: BH), WF (auth: BJ), YF (auth: BL), CG (auth: CC), DG (auth: CD), FG (auth: CF), HG (auth: CH), JG (auth: CJ), LG (auth: CL), PG (auth: DC), QG (auth: DD), SG (auth: DF), UG (auth: DH), WG (auth: DJ), YG (auth: DL), BH (auth: EB), DH (auth: ED), FH (auth: EF), HH (auth: EH), JH (auth: EJ), LH (auth: EL), MH (auth: EM), PH (auth: FC), QH (auth: FD), SH (auth: FF), UH (auth: FH), WH (auth: FJ), YH (auth: FL), ZH (auth: FM), CI (auth: GC), DI (auth: GD), FI (auth: GF), HI (auth: GH), JI (auth: GJ), LI (auth: GL), MI (auth: GM), PI (auth: HC), QI (auth: HD), SI (auth: HF), UI (auth: HH), WI (auth: HJ), YI (auth: HL), ZI (auth: HM), CJ (auth: IC), DJ (auth: ID), FJ (auth: IF), HJ (auth: IH), JJ (auth: IJ), LJ (auth: IL), PJ (auth: JC), QJ (auth: JD), SJ (auth: JF), UJ (auth: JH), WJ (auth: JJ), YJ (auth: JL), ZJ (auth: JM), CK (auth: KC), DK (auth: KD), FK (auth: KF), HK (auth: KH), JK (auth: KJ), LK (auth: KL), MK (auth: KM), PK (auth: LC), QK (auth: LD), SK (auth: LF), UK (auth: LH), WK (auth: LJ), YK (auth: LL), ZK (auth: LM), CL (auth: MC), DL (auth: MD), FL (auth: MF), HL (auth: MH), JL (auth: MJ), ML (auth: MM), PL (auth: NC), QL (auth: ND), SL (auth: NF), UL (auth: NH), WL (auth: NJ), XL (auth: NK), ZL (auth: NM), CM (auth: OC), DM (auth: OD), FM (auth: OF), HM (auth: OH), JM (auth: OJ), MM (auth: OM), PM (auth: PC), QM (auth: PD), SM (auth: PF), UM (auth: PH), WM (auth: PJ), ZM (auth: PM), CN (auth: QC), DN (auth: QD), FN (auth: QF), HN (auth: QH), JN (auth: QJ), MN (auth: QM), PN (auth: RC), QN (auth: RD), SN (auth: RF), UN (auth: RH), WN (auth: RJ), ZN (auth: RM), CO (auth: SC), DO (auth: SD), FO (auth: SF), HO (auth: SH), JO (auth: SJ), LO (auth: SL), MO (auth: SM), PO (auth: TC), QO (auth: TD), SO (auth: TF), UO (auth: TH), WO (auth: TJ), YO (auth: TL), ZO (auth: TM), CP (auth: UC), DP (auth: UD), FP (auth: UF), HP (auth: UH), JP (auth: UJ), LP (auth: UL), MP (auth: UM), PP (auth: VC), QP (auth: VD), SP (auth: VF), UP (auth: VH), WP (auth: VJ), YP (auth: VL), ZP (auth: VM), CQ (auth: WC), DQ (auth: WD), FQ (auth: WF), HQ (auth: WH), JQ (auth: WJ), LQ (auth: WL)
Chain Length:447
Number of Molecules:150
Biological Source:Strongylocentrotus purpuratus
Primary Citation

Abstact

Sperm motility is crucial to reproductive success in sexually reproducing organisms. Impaired sperm movement causes male infertility, which is increasing globally. Sperm are powered by a microtubule-based molecular machine-the axoneme-but it is unclear how axonemal microtubules are ornamented to support motility in diverse fertilization environments. Here, we present high-resolution structures of native axonemal doublet microtubules (DMTs) from sea urchin and bovine sperm, representing external and internal fertilizers. We identify >60 proteins decorating sperm DMTs; at least 15 are sperm associated and 16 are linked to infertility. By comparing DMTs across species and cell types, we define core microtubule inner proteins (MIPs) and analyze evolution of the tektin bundle. We identify conserved axonemal microtubule-associated proteins (MAPs) with unique tubulin-binding modes. Additionally, we identify a testis-specific serine/threonine kinase that links DMTs to outer dense fibers in mammalian sperm. Our study provides structural foundations for understanding sperm evolution, motility, and dysfunction at a molecular level.

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Chemical

Disease

Primary Citation of related structures