8TO0 image
Deposition Date 2023-08-02
Release Date 2023-11-01
Last Version Date 2023-11-22
Entry Detail
PDB ID:
8TO0
Keywords:
STRUCTURAL PROTEIN
Title:
48-nm repeating structure of doublets from mouse sperm flagella
Biological Source:
Source Organism:
Mus musculus (Taxon ID: 10090)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
7.70 Å
Aggregation State:
CELL
Reconstruction Method:
SUBTOMOGRAM AVERAGING
8TO0 validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cilia- and flagella-associated protein 95
Gene (Uniprot):Cfap95
Chain IDs:A (auth: 0), GG (auth: 7)
Chain Length:228
Number of Molecules:2
Biological Source:Mus musculus
UniProt ID:Q9CQC3 Pfam ID:PF15139
Protein Blast
Polymer Type:polypeptide(L)
Molecule:EF-hand domain-containing family member B
Gene (Uniprot):Efhb
Chain IDs:BA (auth: 1), CB (auth: 2)
Chain Length:853
Number of Molecules:2
Biological Source:Mus musculus
UniProt ID:Q8CDU5 Pfam ID:PF13499
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cilia- and flagella-associated protein 53
Gene (Uniprot):Cfap53
Chain IDs:CC (auth: 3), DD (auth: 4)
Chain Length:514
Number of Molecules:2
Biological Source:Mus musculus
UniProt ID:Q9D439 Pfam ID:PF13868
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Nucleoside diphosphate kinase 7
Gene (Uniprot):Nme7
Chain IDs:EE (auth: 5), FF (auth: 6)
Chain Length:395
Number of Molecules:2
Biological Source:Mus musculus
UniProt ID:Q9QXL8 Pfam ID:PF00334
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cilia- and flagella-associated protein 107
Gene (Uniprot):Cfap107
Chain IDs:HH (auth: 8), II (auth: 9)
Chain Length:196
Number of Molecules:2
Biological Source:Mus musculus
UniProt ID:Q4KKZ1 Pfam ID:PF22595
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cilia- and flagella-associated protein 141
Gene (Uniprot):Cfap141
Chain IDs:KD (auth: AB)
Chain Length:101
Number of Molecules:1
Biological Source:Mus musculus
UniProt ID:Q9D9D9 Pfam ID:PF15104
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Tektin-3
Gene (Uniprot):Tekt3
Chain IDs:OA (auth: AC), PA (auth: AD), QA (auth: AE), RA (auth: AF), SA (auth: AG), TA (auth: AH), UA (auth: AI), VA (auth: AJ), WA (auth: AK), BD (auth: BI), CD (auth: BJ), ED (auth: BK), FD (auth: BL), GD (auth: BM), KK (auth: AL)
Chain Length:447
Number of Molecules:15
Biological Source:Mus musculus
UniProt ID:Q6X6Z7 Pfam ID:PF03148
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Sperm-associated antigen 8
Gene (Uniprot):Spag8
Chain IDs:XF (auth: AZ)
Chain Length:206
Number of Molecules:1
Biological Source:Mus musculus
UniProt ID:Q3V0Q6 Pfam ID:PF22584
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Tektin-4
Gene (Uniprot):Tekt4
Chain IDs:NB (auth: Aa), OB (auth: Ab), PB (auth: Ac), QB (auth: Ad), RB (auth: Af), SB (auth: Ag), TB (auth: Ah), UB (auth: Ai)
Chain Length:551
Number of Molecules:8
Biological Source:Mus musculus
UniProt ID:Q149S1 Pfam ID:PF03148
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cilia- and flagella-associated protein 161
Gene (Uniprot):Cfap161
Chain IDs:LI (auth: Ay), YK (auth: BH)
Chain Length:451
Number of Molecules:2
Biological Source:Mus musculus
UniProt ID:Q6P8Y0
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Tektin bundle-interacting protein 1
Gene (Uniprot):Tektip1
Chain IDs:KC (auth: Az), LC (auth: A1), MC (auth: A2), NC (auth: A3)
Chain Length:206
Number of Molecules:4
Biological Source:Mus musculus
UniProt ID:A6H6Q4 Pfam ID:PF15041
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cilia- and flagella-associated protein 45
Gene (Uniprot):Cfap45
Chain IDs:VP (auth: B), WP (auth: AA), XP (auth: c), YP (auth: Ax), QQ (auth: d)
Chain Length:551
Number of Molecules:5
Biological Source:Mus musculus
UniProt ID:Q9D9U9 Pfam ID:PF13868
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Enkurin
Gene (Uniprot):Enkur
Chain IDs:CQ (auth: B5), DQ (auth: CK), EQ (auth: CZ), FQ (auth: Cp)
Chain Length:255
Number of Molecules:4
Biological Source:Mus musculus
UniProt ID:Q6SP97 Pfam ID:PF13864
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein FAM166B
Gene (Uniprot):Cimip2b
Chain IDs:WE (auth: B6), DP (auth: CL), EP (auth: Ca), FP (auth: Cq), GP (auth: C6), HP (auth: DK)
Chain Length:273
Number of Molecules:6
Biological Source:Mus musculus
UniProt ID:A2AIP0 Pfam ID:PF10629
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cilia- and flagella-associated protein 52
Gene (Uniprot):Cfap52
Chain IDs:ZP (auth: BG), AQ (auth: Ba), BQ (auth: Bo)
Chain Length:451
Number of Molecules:3
Biological Source:Mus musculus
UniProt ID:Q5F201 Pfam ID:PF00400
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Coiled-coil domain-containing protein 105
Gene (Uniprot):Tektl1
Chain IDs:RQ (auth: C), SQ (auth: D), TQ (auth: E), YQ (auth: F), ZQ (auth: H)
Chain Length:551
Number of Molecules:5
Biological Source:Mus musculus
UniProt ID:Q9D4K7 Pfam ID:PF03148
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein Flattop
Gene (Uniprot):Cfap126
Chain IDs:GQ (auth: C5), HQ (auth: DJ), IQ (auth: DY)
Chain Length:189
Number of Molecules:3
Biological Source:Mus musculus
UniProt ID:Q6P8X9 Pfam ID:PF22611
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cilia- and flagella- associated protein 210
Gene (Uniprot):Cfap210
Chain IDs:JQ (auth: Dn), KQ (auth: D3)
Chain Length:547
Number of Molecules:2
Biological Source:Mus musculus
UniProt ID:A0JLY1 Pfam ID:PF13868
Protein Blast
Polymer Type:polypeptide(L)
Molecule:RIB43A-like with coiled-coils protein 2
Gene (Uniprot):Ribc2
Chain IDs:DG (auth: Do), JP (auth: DZ), KP (auth: D4), LP (auth: EI), MP (auth: EX)
Chain Length:377
Number of Molecules:5
Biological Source:Mus musculus
UniProt ID:Q9D4Q1 Pfam ID:PF05914
Protein Blast
Polymer Type:polypeptide(L)
Molecule:EF-hand domain-containing protein 1
Gene (Uniprot):Efhc1
Chain IDs:UI (auth: E1), UK (auth: Em), VL (auth: FE)
Chain Length:648
Number of Molecules:3
Biological Source:Mus musculus
UniProt ID:Q9D9T8 Pfam ID:PF06565, PF13499
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cilia- and flagella-associated protein 276
Gene (Uniprot):Cfap276
Chain IDs:LQ (auth: EH), MQ (auth: EW), NQ (auth: El)
Chain Length:445
Number of Molecules:3
Biological Source:Mus musculus
UniProt ID:Q9DAD0 Pfam ID:PF12494
Protein Blast
Polymer Type:polypeptide(L)
Molecule:EF-hand calcium-binding domain-containing protein 6
Gene (Uniprot):Efcab6
Chain IDs:PQ (auth: Ez)
Chain Length:1516
Number of Molecules:1
Biological Source:Mus musculus
UniProt ID:Q6P1E8 Pfam ID:PF13202, PF13833, PF08976, PF13499
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Sperm acrosome-associated protein 9
Gene (Uniprot):Spaca9
Chain IDs:ZK (auth: F1), AL (auth: F2), BL (auth: F3), CL (auth: F4), DL (auth: F5), EL (auth: F6), FL (auth: F7), GL (auth: F8), HL (auth: F9), IL (auth: F0), MN (auth: GA), ON (auth: GB), PN (auth: GC), QN (auth: GD), RN (auth: GE), SN (auth: GF), TN (auth: GG), UN (auth: GH), VN (auth: GI), WN (auth: GJ), XN (auth: GK), YN (auth: GL), ZN (auth: GM), AO (auth: GN), BO (auth: GO), CO (auth: GP), DO (auth: GQ)
Chain Length:168
Number of Molecules:27
Biological Source:Mus musculus
UniProt ID:Q7TPM5 Pfam ID:PF15120
Protein Blast
Polymer Type:polypeptide(L)
Molecule:EF-hand domain-containing family member C2
Gene (Uniprot):Efhc2
Chain IDs:VM (auth: Fg), SP (auth: FS), TP (auth: Fo), UP (auth: Fv)
Chain Length:750
Number of Molecules:4
Biological Source:Mus musculus
UniProt ID:Q9D485 Pfam ID:PF06565
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cilia- and flagella-associated protein 20
Gene (Uniprot):Cfap20
Chain IDs:WM (auth: Fh), XM (auth: Fi), YM (auth: Fj), ZM (auth: Fk), AN (auth: Fl), BN (auth: Fm), CN (auth: Fn)
Chain Length:193
Number of Molecules:7
Biological Source:Mus musculus
UniProt ID:Q8BTU1 Pfam ID:PF05018
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Parkin coregulated gene protein homolog
Gene (Uniprot):Pacrg
Chain IDs:DN (auth: Fp), EN (auth: Fq), FN (auth: Fr), GN (auth: Fs), HN (auth: Ft)
Chain Length:445
Number of Molecules:5
Biological Source:Mus musculus
UniProt ID:Q9DAK2 Pfam ID:PF10274
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Piercer of microtubule wall 1 protein
Gene (Uniprot):Pierce1
Chain IDs:UQ (auth: Fw)
Chain Length:451
Number of Molecules:1
Biological Source:Mus musculus
UniProt ID:Q5BN45 Pfam ID:PF14892
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Dual specificity protein phosphatase 3
Gene (Uniprot):Dusp3
Chain IDs:IN (auth: Fx), JN (auth: Fy), KN (auth: Fz)
Chain Length:185
Number of Molecules:3
Biological Source:Mus musculus
UniProt ID:Q9D7X3 Pfam ID:PF00782
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Piercer of microtubule wall 2 protein
Gene (Uniprot):Pierce2
Chain IDs:LN (auth: G)
Chain Length:430
Number of Molecules:1
Biological Source:Mus musculus
UniProt ID:V9GXK1 Pfam ID:PF14892
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Tektin-5
Gene (Uniprot):Tekt5
Chain IDs:EO (auth: GR), FO (auth: GS), GO (auth: GT), HO (auth: GU), IO (auth: GV), JO (auth: GW), KO (auth: GX), LO (auth: GY), MO (auth: GZ), NO (auth: Ga), PO (auth: Gb), QO (auth: Gc), RO (auth: Gd), SO (auth: Ge), TO (auth: z0), UO (auth: z1), VO (auth: z3), WO (auth: z4), XO (auth: Gf), YO (auth: Gg), ZO (auth: Gh), AP (auth: Gi), BP (auth: Gj)
Chain Length:168
Number of Molecules:23
Biological Source:Mus musculus
UniProt ID:G5E8A8 Pfam ID:PF03148
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Tektin-1
Gene (Uniprot):Tekt1
Chain IDs:B (auth: L), C (auth: M), AR (auth: I), BR (auth: J), CR (auth: K)
Chain Length:430
Number of Molecules:5
Biological Source:Mus musculus
UniProt ID:Q9DAJ2 Pfam ID:PF03148
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Detyrosinated tubulin alpha-1A chain
Gene (Uniprot):Tuba1a
Chain IDs:D (auth: N), F (auth: P), H (auth: R), J (auth: T), L (auth: V), N (auth: X), P (auth: Z), AA (auth: n), DA (auth: p), FA (auth: r), HA (auth: t), JA (auth: v), LA (auth: x), NA (auth: z), YA (auth: BQ), AB (auth: BS), DB (auth: BU), FB (auth: BW), HB (auth: BY), KB (auth: AW), MB (auth: AY), VB (auth: Aj), XB (auth: Al), ZB (auth: An), BC (auth: Ap), EC (auth: Ar), GC (auth: At), IC (auth: Av), PC (auth: A5), RC (auth: A7), TC (auth: A9), VC (auth: BA), XC (auth: BC), ZC (auth: BE), ID (auth: BO), LD (auth: CX), OD (auth: Cc), QD (auth: Ce), SD (auth: Cg), UD (auth: Ci), WD (auth: Bc), YD (auth: Be), AE (auth: Bg), CE (auth: Bi), FE (auth: Bk), HE (auth: Bm), JE (auth: Br), LE (auth: Bt), NE (auth: Bv), PE (auth: Bx), RE (auth: Bz), TE (auth: B2), VE (auth: B4), YE (auth: B8), AF (auth: B0), CF (auth: CB), EF (auth: CD), HF (auth: CF), JF (auth: CH), LF (auth: CJ), NF (auth: CN), PF (auth: CP), RF (auth: CR), TF (auth: CT), VF (auth: CV), ZF (auth: Dj), BG (auth: Dl), EG (auth: Dp), HG (auth: Dr), KG (auth: Ck), MG (auth: Cm), OG (auth: Co), QG (auth: Cs), SG (auth: Cu), UG (auth: Cw), WG (auth: Cy), YG (auth: C1), AH (auth: C3), DH (auth: C8), FH (auth: C0), IH (auth: DB), KH (auth: DD), MH (auth: DF), OH (auth: DH), RH (auth: DM), TH (auth: DO), VH (auth: DQ), XH (auth: DS), ZH (auth: DU), BI (auth: DW), DI (auth: Db), FI (auth: Dd), HI (auth: Df), KI (auth: Dh), NI (auth: Es), PI (auth: Eu), RI (auth: Ew), TI (auth: Ey), VI (auth: E3), WI (auth: Dt), YI (auth: Dv), AJ (auth: Dx), CJ (auth: Dz), EJ (auth: D2), FJ (auth: D5), HJ (auth: D7), KJ (auth: D9), MJ (auth: EA), OJ (auth: EC), QJ (auth: EE), SJ (auth: EG), TJ (auth: EJ), VJ (auth: EL), XJ (auth: EN), ZJ (auth: EP), BK (auth: ER), DK (auth: ET), FK (auth: EV), GK (auth: EY), IK (auth: Ea), LK (auth: Ec), NK (auth: Ee), PK (auth: Eg), RK (auth: Ei), TK (auth: Ek), VK (auth: Eo), XK (auth: Eq), KL (auth: E5), LL (auth: AM), NL (auth: E7), PL (auth: E9), RL (auth: FA), TL (auth: FC), WL (auth: FG), YL (auth: FI), AM (auth: FK), CM (auth: FM), EM (auth: FO), GM (auth: FQ), IM (auth: FU), KM (auth: FW), NM (auth: FY), PM (auth: Fa), RM (auth: Fc), TM (auth: Fe), NN (auth: AO), NP (auth: AQ), VQ (auth: AS), XQ (auth: AU)
Chain Length:451
Number of Molecules:149
Biological Source:Mus musculus
UniProt ID:P68369 Pfam ID:PF00091, PF03953
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Tubulin beta-4B chain
Gene (Uniprot):Tubb4b
Chain IDs:E (auth: O), G (auth: Q), I (auth: S), K (auth: U), M (auth: W), O (auth: Y), CA (auth: o), EA (auth: q), GA (auth: s), IA (auth: u), KA (auth: w), MA (auth: y), ZA (auth: BR), BB (auth: BT), EB (auth: BV), GB (auth: BX), IB (auth: BZ), JB (auth: AV), LB (auth: AX), WB (auth: Ak), YB (auth: Am), AC (auth: Ao), DC (auth: Aq), FC (auth: As), HC (auth: Au), JC (auth: Aw), OC (auth: A4), QC (auth: A6), SC (auth: A8), UC (auth: A0), WC (auth: BB), YC (auth: BD), AD (auth: BF), HD (auth: BN), JD (auth: BP), MD (auth: CY), ND (auth: Cb), PD (auth: Cd), RD (auth: Cf), TD (auth: Ch), VD (auth: Bb), XD (auth: Bd), ZD (auth: Bf), BE (auth: Bh), DE (auth: Bj), GE (auth: Bl), IE (auth: Bn), KE (auth: Bs), ME (auth: Bu), OE (auth: Bw), QE (auth: By), SE (auth: B1), UE (auth: B3), XE (auth: B7), ZE (auth: B9), BF (auth: CA), DF (auth: CC), GF (auth: CE), IF (auth: CG), KF (auth: CI), MF (auth: CM), OF (auth: CO), QF (auth: CQ), SF (auth: CS), UF (auth: CU), WF (auth: CW), YF (auth: Di), AG (auth: Dk), CG (auth: Dm), FG (auth: Dq), IG (auth: Ds), JG (auth: Cj), LG (auth: Cl), NG (auth: Cn), PG (auth: Cr), RG (auth: Ct), TG (auth: Cv), VG (auth: Cx), XG (auth: Cz), ZG (auth: C2), BH (auth: C4), CH (auth: C7), EH (auth: C9), GH (auth: DA), JH (auth: DC), LH (auth: DE), NH (auth: DG), PH (auth: DI), QH (auth: DL), SH (auth: DN), UH (auth: DP), WH (auth: DR), YH (auth: DT), AI (auth: DV), CI (auth: DX), EI (auth: Dc), GI (auth: De), JI (auth: Dg), MI (auth: Er), OI (auth: Et), QI (auth: Ev), SI (auth: Ex), XI (auth: Du), ZI (auth: Dw), BJ (auth: Dy), DJ (auth: D1), GJ (auth: D6), IJ (auth: D8), LJ (auth: D0), NJ (auth: EB), PJ (auth: ED), RJ (auth: EF), UJ (auth: EK), WJ (auth: EM), YJ (auth: EO), AK (auth: EQ), CK (auth: ES), EK (auth: EU), HK (auth: EZ), JK (auth: Eb), MK (auth: Ed), OK (auth: Ef), QK (auth: Eh), SK (auth: Ej), WK (auth: Ep), JL (auth: E4), ML (auth: E6), OL (auth: E8), QL (auth: E0), SL (auth: FB), UL (auth: FD), XL (auth: FH), ZL (auth: FJ), BM (auth: FL), DM (auth: FN), FM (auth: FP), HM (auth: FR), JM (auth: FV), LM (auth: FX), MM (auth: AN), OM (auth: FZ), QM (auth: Fb), SM (auth: Fd), UM (auth: Ff), OO (auth: AP), CP (auth: Bq), IP (auth: Da), OP (auth: En), PP (auth: E2), QP (auth: FF), RP (auth: FT), OQ (auth: AR), WQ (auth: AT)
Chain Length:445
Number of Molecules:153
Biological Source:Mus musculus
UniProt ID:P68372 Pfam ID:PF00091, PF03953
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Meiosis-specific nuclear structural protein 1
Gene (Uniprot):Mns1
Chain IDs:XA (auth: a), JJ (auth: A)
Chain Length:491
Number of Molecules:2
Biological Source:Mus musculus
UniProt ID:Q61884 Pfam ID:PF13868
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Tektin-2
Gene (Uniprot):Tekt2
Chain IDs:Q (auth: b), R (auth: e), S (auth: f), T (auth: g), U (auth: h), V (auth: i), W (auth: j), X (auth: k), Y (auth: l), Z (auth: m)
Chain Length:551
Number of Molecules:10
Biological Source:Mus musculus
UniProt ID:Q922G7 Pfam ID:PF03148
Ligand Molecules
NA
Primary Citation
De novo protein identification in mammalian sperm using in situ cryoelectron tomography and AlphaFold2 docking.
Cell 186 5041 5053.e19 (2023)
PMID: 37865089 DOI: 10.1016/j.cell.2023.09.017

Abstact

To understand the molecular mechanisms of cellular pathways, contemporary workflows typically require multiple techniques to identify proteins, track their localization, and determine their structures in vitro. Here, we combined cellular cryoelectron tomography (cryo-ET) and AlphaFold2 modeling to address these questions and understand how mammalian sperm are built in situ. Our cellular cryo-ET and subtomogram averaging provided 6.0-Å reconstructions of axonemal microtubule structures. The well-resolved tertiary structures allowed us to unbiasedly match sperm-specific densities with 21,615 AlphaFold2-predicted protein models of the mouse proteome. We identified Tektin 5, CCDC105, and SPACA9 as novel microtubule-associated proteins. These proteins form an extensive interaction network crosslinking the lumen of axonemal doublet microtubules, suggesting their roles in modulating the mechanical properties of the filaments. Indeed, Tekt5 -/- sperm possess more deformed flagella with 180° bends. Together, our studies presented a cellular visual proteomics workflow and shed light on the in vivo functions of Tektin 5.

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Protein

Chemical

Disease

Primary Citation of related structures
8TO0