› 8g2z

Electron Microscopy
4.1Å resolution

48-nm doublet microtubule from Tetrahymena thermophila strain CU428

Released:
DOI: 10.2210/pdb8g2z/pdb
PDB entry 8g2z coloured by chain, front view.
PDB entry 8g2z coloured by chain, side view.
PDB entry 8g2z coloured by chain, top view.
Source organism: Tetrahymena thermophila CU428
Primary publication:
Native doublet microtubules from Tetrahymena thermophila reveal the importance of outer junction proteins.
Kubo S, Black CS, Joachimiak E, Yang SK, Legal T, Peri K, Khalifa AAZ, Ghanaeian A, McCafferty CL, Valente-Paterno M, De Bellis C, Huynh PM, Fan Z, Marcotte EM, Wloga D, Bui KH
Nat Commun 14 2168 (2023)
PMID: 37061538
Related structures: EMD-29685

Function and Biology Details

Reaction catalysed: 
ATP + nucleoside diphosphate = ADP + nucleoside triphosphate
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero 431-mer (preferred)
PDBe Complex ID:
PDB-CPX-217956 (preferred)
Entry contents:
46 distinct polypeptide molecules
Macromolecules (46 distinct):
RIB27A Chains: 0A, 1A, 2A, 3A
Molecule details ›
Chains: 0A, 1A, 2A, 3A
Length: 236 amino acids
Theoretical weight: 27.61 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7LUL4 (Residues: 1-236; Coverage: 100%)
Gene name: TTHERM_00522810
STOP protein Chain: 0B
Molecule details ›
Chain: 0B
Length: 329 amino acids
Theoretical weight: 38.21 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q23JL9 (Residues: 1-329; Coverage: 100%)
Gene name: TTHERM_00758860
Ciliary microtubule inner protein 2A-C-like domain-containing protein Chains: 0C, 1C
Molecule details ›
Chains: 0C, 1C
Length: 156 amino acids
Theoretical weight: 17.71 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q235M9 (Residues: 1-156; Coverage: 100%)
Gene name: TTHERM_01052990
Sequence domains: Ciliary microtubule inner protein 2B-like
Ciliary microtubule inner protein 2A-C-like domain-containing protein Chains: 0D, 1D, 2D
Molecule details ›
Chains: 0D, 1D, 2D
Length: 225 amino acids
Theoretical weight: 25.75 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q238X3 (Residues: 1-225; Coverage: 100%)
Gene name: TTHERM_00449470
Sequence domains: Ciliary microtubule inner protein 2B-like
EF-hand domain-containing protein Chains: 0E, 1E, 2E, 3E
Molecule details ›
Chains: 0E, 1E, 2E, 3E
Length: 191 amino acids
Theoretical weight: 22.4 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7LT67 (Residues: 1-191; Coverage: 100%)
Gene name: TTHERM_00691900
Sequence domains: EF-hand domain pair
CFAM166C Chain: 0F
Molecule details ›
Chain: 0F
Length: 219 amino acids
Theoretical weight: 25.07 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q22B75 (Residues: 1-219; Coverage: 100%)
Gene name: TTHERM_01109800
CFAP107 Chains: 0G, 1G
Molecule details ›
Chains: 0G, 1G
Length: 183 amino acids
Theoretical weight: 21.3 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q237T1 (Residues: 1-183; Coverage: 100%)
Gene name: TTHERM_00320040
Meiosis-specific nuclear structural protein 1 Chains: 0H, 1H
Molecule details ›
Chains: 0H, 1H
Length: 447 amino acids
Theoretical weight: 55.56 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7LV70 (Residues: 1-447; Coverage: 100%)
Gene name: TTHERM_00338110
Sequence domains: Trichohyalin-plectin-homology domain
EF hand protein, putative Chains: 0N, 1N, 2N
Molecule details ›
Chains: 0N, 1N, 2N
Length: 492 amino acids
Theoretical weight: 57.49 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q22WJ6 (Residues: 1-492; Coverage: 100%)
Gene name: TTHERM_00155380
Cilia- and flagella-associated protein 20 Chains: 0Q, 1Q, 2Q, 3Q, 4Q, 5Q, 6Q
Molecule details ›
Chains: 0Q, 1Q, 2Q, 3Q, 4Q, 5Q, 6Q
Length: 195 amino acids
Theoretical weight: 22.98 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q22NU3 (Residues: 1-195; Coverage: 100%)
Gene name: TTHERM_00418580
Sequence domains: CFA20 domain
Parkin co-regulated protein Chains: 0S, 1S, 2S, 3S
Molecule details ›
Chains: 0S, 1S, 2S, 3S
Length: 319 amino acids
Theoretical weight: 36.3 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7MLV6 (Residues: 1-319; Coverage: 100%)
Gene name: TTHERM_00446290
Sequence domains: Parkin co-regulated protein
IJ34 Chains: 0T, 1T, 2T, 3T
Molecule details ›
Chains: 0T, 1T, 2T, 3T
Length: 298 amino acids
Theoretical weight: 34.43 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7M9T0 (Residues: 1-298; Coverage: 100%)
Gene name: TTHERM_00348390
Sequence domains:
Cilia- and flagella-associated protein 52 Chains: 0U, 1U, 2U, 3U
Molecule details ›
Chains: 0U, 1U, 2U, 3U
Length: 656 amino acids
Theoretical weight: 73.43 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q22ZH2 (Residues: 1-656; Coverage: 100%)
Gene name: TTHERM_01094880
Sequence domains: WD domain, G-beta repeat
Enkurin domain-containing protein Chains: 0V, 1V, 2V, 3V
Molecule details ›
Chains: 0V, 1V, 2V, 3V
Length: 269 amino acids
Theoretical weight: 31.49 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7M279 (Residues: 1-269; Coverage: 100%)
Gene name: TTHERM_00137550
Sequence domains: Calmodulin-binding
RIB43A protein Chains: 0X, 1X, 2X, 3X, 4X
Molecule details ›
Chains: 0X, 1X, 2X, 3X, 4X
Length: 142 amino acids
Theoretical weight: 17.29 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: A4VDZ5 (Residues: 1-142; Coverage: 100%)
Gene name: TTHERM_00641119
Sequence domains: RIB43A
EF-hand domain-containing protein Chains: 1B, 2B, 3B
Molecule details ›
Chains: 1B, 2B, 3B
Length: 498 amino acids
Theoretical weight: 57.58 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7ME23 (Residues: 1-498; Coverage: 100%)
Gene name: TTHERM_00406590
Sequence domains:
CFAP182A Chain: 1F
Molecule details ›
Chain: 1F
Length: 173 amino acids
Theoretical weight: 20.11 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q24BV4 (Residues: 1-173; Coverage: 100%)
Gene name: TTHERM_01049330
Sequence domains: Piercer of microtubule wall 1/2
CFAP143 Chain: 1I
Molecule details ›
Chain: 1I
Length: 263 amino acids
Theoretical weight: 30.49 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: A4VD56 (Residues: 1-263; Coverage: 100%)
Gene name: TTHERM_00502359
CFAP21A Chain: 1J
Molecule details ›
Chain: 1J
Length: 422 amino acids
Theoretical weight: 48.5 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7MLS4 (Residues: 1-422; Coverage: 100%)
Gene name: TTHERM_00494280
Cilia- and flagella-associated protein 53 Chains: 1K, 2K
Molecule details ›
Chains: 1K, 2K
Length: 489 amino acids
Theoretical weight: 60.72 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q23YQ8 (Residues: 1-489; Coverage: 100%)
Gene name: TTHERM_01207630
Sequence domains: Trichohyalin-plectin-homology domain
EF-hand domain-containing protein Chains: 1L, 2L, 3L
Molecule details ›
Chains: 1L, 2L, 3L
Length: 940 amino acids
Theoretical weight: 110.67 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q23KF9 (Residues: 1-940; Coverage: 100%)
Gene name: TTHERM_00193760
Nucleoside diphosphate kinase Chains: 1M, 2M
Molecule details ›
Chains: 1M, 2M
Length: 372 amino acids
Theoretical weight: 42.64 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: W7XGD1 (Residues: 1-372; Coverage: 100%)
Gene name: TTHERM_000372529
Sequence domains: Nucleoside diphosphate kinase
Cilia- and flagella-associated protein 45 Chains: 1O, 2O, 3O
Molecule details ›
Chains: 1O, 2O, 3O
Length: 494 amino acids
Theoretical weight: 59.58 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: W7XCX2 (Residues: 1-494; Coverage: 100%)
Gene name: TTHERM_001164064
Sequence domains: Trichohyalin-plectin-homology domain
Trichohyalin-plectin-homology domain-containing protein Chains: 1P, 2P
Molecule details ›
Chains: 1P, 2P
Length: 507 amino acids
Theoretical weight: 61.71 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q23EX8 (Residues: 1-507; Coverage: 100%)
Gene name: TTHERM_00643530
Sequence domains: Trichohyalin-plectin-homology domain
DM10 domain-containing protein Chains: 1R, 2R, 3R
Molecule details ›
Chains: 1R, 2R, 3R
Length: 516 amino acids
Theoretical weight: 60.97 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7MCU1 (Residues: 1-516; Coverage: 100%)
Gene name: TTHERM_00584850
Sequence domains: DM10 domain
Protofilament ribbon protein Chains: 1W, 2W
Molecule details ›
Chains: 1W, 2W
Length: 280 amino acids
Theoretical weight: 34.22 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q240R7 (Residues: 1-280; Coverage: 100%)
Gene name: TTHERM_00624660
Sequence domains: RIB43A
EF-hand domain-containing protein Chains: 2C, 3C, 4C
Molecule details ›
Chains: 2C, 3C, 4C
Length: 300 amino acids
Theoretical weight: 34.95 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7ME81 (Residues: 1-300; Coverage: 100%)
Gene name: TTHERM_00267880
Sequence domains: EF-hand domain pair
CFAP182B Chain: 2F
Molecule details ›
Chain: 2F
Length: 96 amino acids
Theoretical weight: 11.7 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7MLW3 (Residues: 1-96; Coverage: 100%)
Gene name: TTHERM_00535210
Sequence domains: Piercer of microtubule wall 1/2
Flagellar FliJ protein Chain: 2G
Molecule details ›
Chain: 2G
Length: 99 amino acids
Theoretical weight: 12.1 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: A4VCU8 (Residues: 1-99; Coverage: 100%)
Gene name: TTHERM_00242188
Sequence domains: Cilia- and flagella-associated protein 141
RIB27B Chains: 2H, 3H, 4H
Molecule details ›
Chains: 2H, 3H, 4H
Length: 229 amino acids
Theoretical weight: 26.27 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q22CT6 (Residues: 1-229; Coverage: 100%)
Gene name: TTHERM_01016050
Sperm-tail PG-rich repeat protein Chains: 2I, 3I
Molecule details ›
Chains: 2I, 3I
Length: 293 amino acids
Theoretical weight: 33.65 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7M2G0 (Residues: 1-293; Coverage: 100%)
Gene name: TTHERM_00218910
Sequence domains: Sperm-tail PG-rich repeat
Dienelactone hydrolase domain-containing protein Chain: 3D
Molecule details ›
Chain: 3D
Length: 237 amino acids
Theoretical weight: 26.11 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q232I6 (Residues: 1-237; Coverage: 100%)
Gene name: TTHERM_00594110
Sequence domains: Dienelactone hydrolase family
Ptype ATPase, putative Chain: 4F
Molecule details ›
Chain: 4F
Length: 276 amino acids
Theoretical weight: 31.39 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7M9I4 (Residues: 1-276; Coverage: 100%)
Gene name: TTHERM_00565590
EF-hand domain-containing family member C2 Chains: 4R, 5R, 6R, 7R
Molecule details ›
Chains: 4R, 5R, 6R, 7R
Length: 613 amino acids
Theoretical weight: 72.64 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7M0S7 (Residues: 1-613; Coverage: 100%)
Gene name: TTHERM_00143690
Sequence domains: DM10 domain
Parkin co-regulated protein Chains: 4S, 5S
Molecule details ›
Chains: 4S, 5S
Length: 249 amino acids
Theoretical weight: 28.41 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: I7M317 (Residues: 1-249; Coverage: 100%)
Gene name: TTHERM_00499570
Sequence domains: Parkin co-regulated protein
OJ2 Chains: 5A, 5B, 5C, 5D
Molecule details ›
Chains: 5A, 5B, 5C, 5D
Length: 175 amino acids
Theoretical weight: 19.93 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q236L2 (Residues: 1-175; Coverage: 100%)
Gene name: TTHERM_00086850
Sperm-tail PG-rich repeat protein Chains: 5E, 5F, 5G, 5H
Molecule details ›
Chains: 5E, 5F, 5G, 5H
Length: 247 amino acids
Theoretical weight: 28.99 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q22WR6 (Residues: 1-247; Coverage: 100%)
Gene name: TTHERM_00974270
Sequence domains: Cilia- and flagella-associated protein 77
OJ3 Chains: 5I, 5J, 5K
Molecule details ›
Chains: 5I, 5J, 5K
Length: 168 amino acids
Theoretical weight: 14.32 KDa
Source organism: Tetrahymena thermophila CU428
SB1 Chain: 6F
Molecule details ›
Chain: 6F
Length: 145 amino acids
Theoretical weight: 17.79 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q231B2 (Residues: 1-145; Coverage: 100%)
Gene name: TTHERM_00433450
Sperm-tail PG-rich repeat protein Chain: 6G
Molecule details ›
Chain: 6G
Length: 364 amino acids
Theoretical weight: 42.13 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q24GM1 (Residues: 1-364; Coverage: 100%)
Gene name: TTHERM_00724700
Sequence domains: Sperm-tail PG-rich repeat
Nebulin Chain: 6H
Molecule details ›
Chain: 6H
Length: 518 amino acids
Theoretical weight: 61.05 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: Q231B6 (Residues: 1-518; Coverage: 100%)
Gene name: TTHERM_00433410
B5B6_fMIP Chains: 8L, 8N
Molecule details ›
Chains: 8L, 8N
Length: 507 amino acids
Theoretical weight: 43.17 KDa
Source organism: Tetrahymena thermophila CU428
CFAP112A Chain: 8P
Molecule details ›
Chain: 8P
Length: 529 amino acids
Theoretical weight: 45.04 KDa
Source organism: Tetrahymena thermophila CU428
B2B3_fMIP Chain: 8R
Molecule details ›
Chain: 8R
Length: 361 amino acids
Theoretical weight: 31.1 KDa
Source organism: Tetrahymena thermophila CU428
Tubulin alpha chain Chains: AA, AC, AE, AG, AI, AK, AM, BA, BC, BE, BG, BI, BK, BM, CA, CC, CE, CG, CI, CK, CM, DA, DC, DE, DG, DI, DK, DM, EA, EC, EE, EG, EI, EK, EM, FA, FC, FE, FG, FI, FK, FM, GA, GC, GE, GG, GI, GK, GM, HA, HC, HE, HG, HI, HK, HM, IA, IC, IE, IG, II, IK, IM, JA, JC, JE, JG, JI, JK, JM, KA, KC, KE, KG, KI, KK, KM, LA, LC, LE, LG, LI, LK, LM, MA, MC, ME, MG, MI, MK, MM, NA, NC, NE, NG, NI, NK, NM, OA, OC, OE, OG, OI, OK, OM, PA, PC, PE, PG, PI, PK, PM, QA, QC, QE, QG, QI, QK, QM, RA, RC, RE, RG, RI, RK, RM, SA, SC, SE, SG, SI, SK, SM, TA, TC, TE, TG, TI, TK, TM, UA, UC, UE, UG, UI, UK, UM, VA, VC, VE, VG, VI, VK, VM, WA, WC, WE, WG, WI, WK, WM
Molecule details ›
Chains: AA, AC, AE, AG, AI, AK, AM, BA, BC, BE, BG, BI, BK, BM, CA, CC, CE, CG, CI, CK, CM, DA, DC, DE, DG, DI, DK, DM, EA, EC, EE, EG, EI, EK, EM, FA, FC, FE, FG, FI, FK, FM, GA, GC, GE, GG, GI, GK, GM, HA, HC, HE, HG, HI, HK, HM, IA, IC, IE, IG, II, IK, IM, JA, JC, JE, JG, JI, JK, JM, KA, KC, KE, KG, KI, KK, KM, LA, LC, LE, LG, LI, LK, LM, MA, MC, ME, MG, MI, MK, MM, NA, NC, NE, NG, NI, NK, NM, OA, OC, OE, OG, OI, OK, OM, PA, PC, PE, PG, PI, PK, PM, QA, QC, QE, QG, QI, QK, QM, RA, RC, RE, RG, RI, RK, RM, SA, SC, SE, SG, SI, SK, SM, TA, TC, TE, TG, TI, TK, TM, UA, UC, UE, UG, UI, UK, UM, VA, VC, VE, VG, VI, VK, VM, WA, WC, WE, WG, WI, WK, WM
Length: 449 amino acids
Theoretical weight: 49.64 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: P41351 (Residues: 1-449; Coverage: 100%)
Sequence domains:
Tubulin beta chain Chains: AB, AD, AF, AH, AJ, AL, AN, BB, BD, BF, BH, BJ, BL, BN, CB, CD, CF, CH, CJ, CL, CN, DB, DD, DF, DH, DJ, DL, DN, EB, ED, EF, EH, EJ, EL, EN, FB, FD, FF, FH, FJ, FL, FN, GB, GD, GF, GH, GJ, GL, GN, HB, HD, HF, HH, HJ, HL, HN, IB, ID, IF, IH, IJ, IL, IN, JB, JD, JF, JH, JJ, JL, JN, KB, KD, KF, KH, KJ, KL, KN, LB, LD, LF, LH, LJ, LL, LN, MB, MD, MF, MH, MJ, ML, MN, NB, ND, NF, NH, NJ, NL, NN, OB, OD, OF, OH, OJ, OL, ON, PB, PD, PF, PH, PJ, PL, PN, QB, QD, QF, QH, QJ, QL, QN, RB, RD, RF, RH, RJ, RL, RN, SB, SD, SF, SH, SJ, SL, SN, TB, TD, TF, TH, TJ, TL, TN, UB, UD, UF, UH, UJ, UL, UN, VB, VD, VF, VH, VJ, VL, VN, WB, WD, WF, WH, WJ, WL, WN
Molecule details ›
Chains: AB, AD, AF, AH, AJ, AL, AN, BB, BD, BF, BH, BJ, BL, BN, CB, CD, CF, CH, CJ, CL, CN, DB, DD, DF, DH, DJ, DL, DN, EB, ED, EF, EH, EJ, EL, EN, FB, FD, FF, FH, FJ, FL, FN, GB, GD, GF, GH, GJ, GL, GN, HB, HD, HF, HH, HJ, HL, HN, IB, ID, IF, IH, IJ, IL, IN, JB, JD, JF, JH, JJ, JL, JN, KB, KD, KF, KH, KJ, KL, KN, LB, LD, LF, LH, LJ, LL, LN, MB, MD, MF, MH, MJ, ML, MN, NB, ND, NF, NH, NJ, NL, NN, OB, OD, OF, OH, OJ, OL, ON, PB, PD, PF, PH, PJ, PL, PN, QB, QD, QF, QH, QJ, QL, QN, RB, RD, RF, RH, RJ, RL, RN, SB, SD, SF, SH, SJ, SL, SN, TB, TD, TF, TH, TJ, TL, TN, UB, UD, UF, UH, UJ, UL, UN, VB, VD, VF, VH, VJ, VL, VN, WB, WD, WF, WH, WJ, WL, WN
Length: 443 amino acids
Theoretical weight: 49.62 KDa
Source organism: Tetrahymena thermophila CU428
UniProt:
  • Canonical: P41352 (Residues: 1-443; Coverage: 100%)
Gene names: BTU1, BTU2
Sequence domains:

Ligands and Environments

3 bound ligands:
Ligand GTP 161 x GTP
Ligand MG 161 x MG
Ligand GDP 161 x GDP
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.1Å
Relevant EMDB volumes: EMD-29685

Quick links

Citations

1 review citation

Lumenal components of cytoplasmic microtubules.
Tsuji et al. (2022)
6 other articles

1 mention without citation

Poc1 is a basal body inner junction protein that promotes triplet microtubule integrity and interconnections.
Ruehle et al. (2023)