› 6u42

Electron Microscopy
3.4Å resolution

Natively decorated ciliary doublet microtubule

Released:
DOI: 10.2210/pdb6u42/pdb
PDB entry 6u42 coloured by chain, front view.
PDB entry 6u42 coloured by chain, side view.
PDB entry 6u42 coloured by chain, top view.
Source organism: Chlamydomonas reinhardtii
Primary publication:
Structure of the Decorated Ciliary Doublet Microtubule.
Ma M, Stoyanova M, Rademacher G, Dutcher SK, Brown A, Zhang R
Cell 179 909-922.e12 (2019)
PMID: 31668805
Related structures: EMD-20631

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 451-mer (preferred)
PDBe Complex ID:
PDB-CPX-104288 (preferred)
Entry contents:
38 distinct polypeptide molecules
Macromolecules (38 distinct):
Tubulin beta-1/beta-2 chain Chains: 0A, 0C, 0E, 0G, 0I, 0K, 0M, 0O, 0Q, 0S, 0U, 0W, 0Y, 1, 1A, 1C, 1E, 1G, 1K, 1M, 1O, 1Q, 1S, 1U, 1W, 2A, 2C, 2E, 2G, 2I, 2K, 2M, 2Q, 2S, 2U, 2W, 2Y, 3, 3A, 3C, 3G, 3I, 3K, 3M, 3O, 3Q, 3S, 5, 7, 9, A1, A3, A5, A7, A9, B1, B3, B5, B8, C0, C2, C4, C6, C8, D0, D2, D4, D6, D8, E0, E2, E4, E6, E8, F0, F2, F6, F8, G0, G2, G4, G6, G8, H2, H4, H6, H8, I0, I2, I4, I8, J0, J2, J4, J6, J8, K0, K4, K6, K8, L0, L2, L4, L6, M0, M2, M4, M6, M8, N0, N2, N6, N8, O0, O2, O4, O6, O8, P4, P6, P8, Q0, Q2, Q4, Q6, Q8, R0, R2, R4, R6, R8, S0, S2, S4, S6, S8, T0, T2, T4, T6, T8, U2, U4, U6, U8, V0, V2, V4, V6, V8, W0, W2, W4, W6, W8, X0, X2, X4, X6, X8, Y0, Y2, Y4, Y6, Y8, Z0, Z2, Z4, Z6, Z8
Molecule details ›
Chains: 0A, 0C, 0E, 0G, 0I, 0K, 0M, 0O, 0Q, 0S, 0U, 0W, 0Y, 1, 1A, 1C, 1E, 1G, 1K, 1M, 1O, 1Q, 1S, 1U, 1W, 2A, 2C, 2E, 2G, 2I, 2K, 2M, 2Q, 2S, 2U, 2W, 2Y, 3, 3A, 3C, 3G, 3I, 3K, 3M, 3O, 3Q, 3S, 5, 7, 9, A1, A3, A5, A7, A9, B1, B3, B5, B8, C0, C2, C4, C6, C8, D0, D2, D4, D6, D8, E0, E2, E4, E6, E8, F0, F2, F6, F8, G0, G2, G4, G6, G8, H2, H4, H6, H8, I0, I2, I4, I8, J0, J2, J4, J6, J8, K0, K4, K6, K8, L0, L2, L4, L6, M0, M2, M4, M6, M8, N0, N2, N6, N8, O0, O2, O4, O6, O8, P4, P6, P8, Q0, Q2, Q4, Q6, Q8, R0, R2, R4, R6, R8, S0, S2, S4, S6, S8, T0, T2, T4, T6, T8, U2, U4, U6, U8, V0, V2, V4, V6, V8, W0, W2, W4, W6, W8, X0, X2, X4, X6, X8, Y0, Y2, Y4, Y6, Y8, Z0, Z2, Z4, Z6, Z8
Length: 443 amino acids
Theoretical weight: 49.67 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: P04690 (Residues: 1-443; Coverage: 100%)
Gene names: TUBB1, TUBB2
Sequence domains:
Tubulin alpha-1 chain Chains: 0B, 0F, 0H, 0J, 0L, 0N, 0P, 0R, 0V, 0X, 0Z, 1B, 1D, 1F, 1H, 1L, 1N, 1P, 1R, 1T, 1V, 1X, 1Z, 2, 2B, 2D, 2F, 2H, 2J, 2L, 2N, 2P, 2R, 2T, 2V, 2X, 2Z, 3B, 3D, 3F, 3H, 3J, 3L, 3N, 3P, 3R, 3T, 4, 6, 8, A0, A2, A4, A8, B0, B2, B4, B7, B9, C1, C5, C7, C9, D1, D3, D5, D7, E1, E3, E5, E7, E9, F1, F3, F5, F7, F9, G1, G3, G5, G7, G9, H1, H3, H5, H7, H9, I1, I3, I5, I7, I9, J1, J3, J5, J7, J9, K1, K3, K5, K7, K9, L1, L3, L5, L7, L9, M1, M3, M5, M7, M9, N1, N3, N5, N7, N9, O1, O3, O5, O7, O9, P3, P5, P7, P9, Q1, Q3, Q5, Q9, R1, R3, R5, R7, R9, S1, S5, S7, S9, T1, T3, T5, T7, U1, U3, U5, U7, U9, V1, V3, V7, V9, W1, W3, W5, W7, W9, X3, X5, X7, X9, Y1, Y3, Y5, Y9, Z1, Z3, Z5, Z7, Z9
Molecule details ›
Chains: 0B, 0F, 0H, 0J, 0L, 0N, 0P, 0R, 0V, 0X, 0Z, 1B, 1D, 1F, 1H, 1L, 1N, 1P, 1R, 1T, 1V, 1X, 1Z, 2, 2B, 2D, 2F, 2H, 2J, 2L, 2N, 2P, 2R, 2T, 2V, 2X, 2Z, 3B, 3D, 3F, 3H, 3J, 3L, 3N, 3P, 3R, 3T, 4, 6, 8, A0, A2, A4, A8, B0, B2, B4, B7, B9, C1, C5, C7, C9, D1, D3, D5, D7, E1, E3, E5, E7, E9, F1, F3, F5, F7, F9, G1, G3, G5, G7, G9, H1, H3, H5, H7, H9, I1, I3, I5, I7, I9, J1, J3, J5, J7, J9, K1, K3, K5, K7, K9, L1, L3, L5, L7, L9, M1, M3, M5, M7, M9, N1, N3, N5, N7, N9, O1, O3, O5, O7, O9, P3, P5, P7, P9, Q1, Q3, Q5, Q9, R1, R3, R5, R7, R9, S1, S5, S7, S9, T1, T3, T5, T7, U1, U3, U5, U7, U9, V1, V3, V7, V9, W1, W3, W5, W7, W9, X3, X5, X7, X9, Y1, Y3, Y5, Y9, Z1, Z3, Z5, Z7, Z9
Length: 451 amino acids
Theoretical weight: 49.64 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: P09204 (Residues: 1-451; Coverage: 100%)
Gene name: TUBA1
Sequence domains:
Parkin-co-regulated gene product Chains: 3V, 3X, 3Z, 4B, 4D, 4F, 4H, 4J
Molecule details ›
Chains: 3V, 3X, 3Z, 4B, 4D, 4F, 4H, 4J
Length: 307 amino acids
Theoretical weight: 34.22 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: B1B601 (Residues: 1-307; Coverage: 100%)
Gene names: CHLRE_02g113400v5, PACRG
Sequence domains: Parkin co-regulated protein
Cilia- and flagella-associated protein 20 Chains: 3W, 3Y, 4A, 4C, 4E, 4G, 4I
Molecule details ›
Chains: 3W, 3Y, 4A, 4C, 4E, 4G, 4I
Length: 190 amino acids
Theoretical weight: 22.19 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8IU92 (Residues: 1-190; Coverage: 100%)
Gene names: BUG22, CFAP20, CHLREDRAFT_189631, FAP20
Sequence domains: CFA20 domain
Cilia- and flagella-associated protein 53 Chains: 4L, 4M
Molecule details ›
Chains: 4L, 4M
Length: 482 amino acids
Theoretical weight: 56.66 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8IRJ7 (Residues: 1-482; Coverage: 100%)
Gene names: CFAP53, CHLREDRAFT_196792, FAP53
Sequence domains: Trichohyalin-plectin-homology domain
Meiosis-specific nuclear structural protein 1 Chains: 4N, 4O, 4P
Molecule details ›
Chains: 4N, 4O, 4P
Length: 505 amino acids
Theoretical weight: 60.03 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A0A2K3CRG7 (Residues: 1-505; Coverage: 100%)
Gene name: CHLRE_17g737100v5
Sequence domains: Trichohyalin-plectin-homology domain
Flagellar protofilament ribbon protein Chains: 4Q, 4R, 4S, 4T, 4U
Molecule details ›
Chains: 4Q, 4R, 4S, 4T, 4U
Length: 367 amino acids
Theoretical weight: 42.71 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: Q9M6B0 (Residues: 1-367; Coverage: 100%)
Gene name: RIB43a
Sequence domains: RIB43A
FAP112 Chains: 4V, 4W, 4X
Molecule details ›
Chains: 4V, 4W, 4X
Length: 475 amino acids
Theoretical weight: 53.13 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8J0X0 (Residues: 1-475; Coverage: 100%)
Gene name: CHLRE_02g145850v5
Trichohyalin-plectin-homology domain-containing protein Chains: 4Y, 4Z
Molecule details ›
Chains: 4Y, 4Z
Length: 462 amino acids
Theoretical weight: 53.64 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A0A2K3E0E3 (Residues: 1-462; Coverage: 100%)
Gene name: CHLRE_02g078550v5
Sequence domains: Trichohyalin-plectin-homology domain
Cilia- and flagella-associated protein 45 Chains: 5A, 5B, 5C, 5D
Molecule details ›
Chains: 5A, 5B, 5C, 5D
Length: 501 amino acids
Theoretical weight: 59.04 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8I9E8 (Residues: 1-501; Coverage: 100%)
Gene names: CFAP45, CHLREDRAFT_206096, FAP45
Sequence domains: Trichohyalin-plectin-homology domain
RIB30 Chain: 5E
Molecule details ›
Chain: 5E
Length: 274 amino acids
Theoretical weight: 29.86 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A0A2K3E5X9 (Residues: 1-274; Coverage: 100%)
Gene name: CHLRE_01g017650v5
Flagellar associated protein Chains: 5F, 5G, 7B
Molecule details ›
Chains: 5F, 5G, 7B
Length: 391 amino acids
Theoretical weight: 43.88 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8IY81 (Residues: 1-391; Coverage: 100%)
Gene name: CHLRE_12g545850v5
Sequence domains: Hsp70 protein
Protein Flattop homolog Chains: 5H, 5I, 5J, 5K
Molecule details ›
Chains: 5H, 5I, 5J, 5K
Length: 137 amino acids
Theoretical weight: 15.44 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8IVJ1 (Residues: 1-137; Coverage: 100%)
Gene names: CFAP126, CHLREDRAFT_190291, FAP126, FLTP
Cilia- and flagella-associated protein 52 Chains: 5L, 5M, 5N
Molecule details ›
Chains: 5L, 5M, 5N
Length: 633 amino acids
Theoretical weight: 68.55 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A0A2K3D260 (Residues: 1-633; Coverage: 100%)
Gene name: CHLRE_12g489750v5
Sequence domains: WD domain, G-beta repeat
Nucleoside diphosphate kinase Chains: 5O, 5P
Molecule details ›
Chains: 5O, 5P
Length: 380 amino acids
Theoretical weight: 41.99 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8JGW5 (Residues: 1-380; Coverage: 100%)
Gene name: CHLRE_12g558700v5
Sequence domains: Nucleoside diphosphate kinase
FAP85 Chain: 5Q
Molecule details ›
Chain: 5Q
Length: 197 amino acids
Theoretical weight: 22.23 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8J250 (Residues: 1-197; Coverage: 100%)
Gene name: CHLRE_06g283100v5
FAP106 Chains: 5R, 5S, 5T, 5U, 5V
Molecule details ›
Chains: 5R, 5S, 5T, 5U, 5V
Length: 240 amino acids
Theoretical weight: 27.02 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8J098 (Residues: 1-240; Coverage: 100%)
Gene name: CHLRE_09g393954v5
Sequence domains: Calmodulin-binding
FAP115 Chains: 5X, 5Y, 5Z, 6A, 6B, 6C, 6D
Molecule details ›
Chains: 5X, 5Y, 5Z, 6A, 6B, 6C, 6D
Length: 230 amino acids
Theoretical weight: 26.65 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8JDK1 (Residues: 1-230; Coverage: 100%)
Gene name: CHLRE_02g142126v5
Flagellar associated protein Chain: 6E
Molecule details ›
Chain: 6E
Length: 268 amino acids
Theoretical weight: 29.22 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A0A2K3E1X6 (Residues: 1-268; Coverage: 100%)
Gene name: CHLRE_02g095149v5
FAP161 Chain: 6F
Molecule details ›
Chain: 6F
Length: 403 amino acids
Theoretical weight: 42.85 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8HRH3 (Residues: 1-403; Coverage: 100%)
Gene name: CHLRE_13g564400v5
Flagellar associated protein Chains: 6G, 6H
Molecule details ›
Chains: 6G, 6H
Length: 214 amino acids
Theoretical weight: 23.3 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A0A2K3DZF0 (Residues: 1-214; Coverage: 100%)
Gene name: CHLRE_03g200700v5
EF-hand domain-containing protein Chains: 6I, 6J, 6K, 6L, 6M, 6N, 6O, 6P
Molecule details ›
Chains: 6I, 6J, 6K, 6L, 6M, 6N, 6O, 6P
Length: 352 amino acids
Theoretical weight: 39.51 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8I1S7 (Residues: 1-352; Coverage: 100%)
Gene name: CHLRE_10g466650v5
Sequence domains: EF-hand domain
Flagellar associated protein Chains: 6Q, 6R, 6S
Molecule details ›
Chains: 6Q, 6R, 6S
Length: 87 amino acids
Theoretical weight: 10.07 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A0A2K3DTN6 (Residues: 1-87; Coverage: 100%)
Gene names: CHLRE_04g216203v5, CHLRE_04g216250v5
EF-hand domain-containing family member C2 Chains: 6T, 6U, 6V, 6W, 6X, 6Y, 6Z, 7A
Molecule details ›
Chains: 6T, 6U, 6V, 6W, 6X, 6Y, 6Z, 7A
Length: 635 amino acids
Theoretical weight: 72.08 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: Q8LKK4 (Residues: 1-635; Coverage: 100%)
Gene name: CHLRE_02g091700v5
Sequence domains: DM10 domain
FAP141 Chain: 7C
Molecule details ›
Chain: 7C
Length: 111 amino acids
Theoretical weight: 12.74 KDa
Source organism: Chlamydomonas reinhardtii
FAP222 Chains: 7D, 7E, 7F
Molecule details ›
Chains: 7D, 7E, 7F
Length: 146 amino acids
Theoretical weight: 15.92 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8JF23 (Residues: 1-146; Coverage: 100%)
Gene name: CHLRE_11g467561v5
FAP95 Chain: 7G
Molecule details ›
Chain: 7G
Length: 235 amino acids
Theoretical weight: 25.58 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8HSW0 (Residues: 1-235; Coverage: 100%)
Gene name: CHLRE_13g573500v5
FAP182 Chains: 7H, 7X
Molecule details ›
Chains: 7H, 7X
Length: 471 amino acids
Theoretical weight: 48.84 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8JHR6 (Residues: 1-471; Coverage: 100%)
Gene name: CHLRE_12g485000v5
Sequence domains: Piercer of microtubule wall 1/2
Flagellar associated protein Chains: 7I, 7J
Molecule details ›
Chains: 7I, 7J
Length: 483 amino acids
Theoretical weight: 51.33 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A0A2K3DZI2 (Residues: 1-483; Coverage: 100%)
Gene name: CHLRE_03g199500v5
FAP21 Chains: 7K, 7L
Molecule details ›
Chains: 7K, 7L
Length: 458 amino acids
Theoretical weight: 49.66 KDa
Source organism: Chlamydomonas reinhardtii
FAP273 Chains: 7M, 7N
Molecule details ›
Chains: 7M, 7N
Length: 139 amino acids
Theoretical weight: 15.47 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8IXN7 (Residues: 1-139; Coverage: 100%)
Gene name: CHLRE_03g200950v5
FAP107 Chains: 7O, 7P
Molecule details ›
Chains: 7O, 7P
Length: 238 amino acids
Theoretical weight: 25.94 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8JC52 (Residues: 1-238; Coverage: 100%)
Gene name: CHLRE_11g469000v5
Flagellar associated protein Chain: 7Q
Molecule details ›
Chain: 7Q
Length: 189 amino acids
Theoretical weight: 20.95 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A0A2K3D7C7 (Residues: 1-189; Coverage: 100%)
Gene name: CHLRE_11g467582v5
DC1 Chains: 7R, 7S
Molecule details ›
Chains: 7R, 7S
Length: 749 amino acids
Theoretical weight: 83.52 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8IPZ5 (Residues: 1-749; Coverage: 100%)
Gene name: CHLRE_17g703850v5
Outer dynein arm protein 1 Chains: 7T, 7U
Molecule details ›
Chains: 7T, 7U
Length: 552 amino acids
Theoretical weight: 62.29 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8JF70 (Residues: 1-552; Coverage: 100%)
Gene names: CHLREDRAFT_132719, DCC2, ODA1
Sequence domains: Domain of unknown function (DUF6872)
EF-hand domain-containing protein Chains: 7V, 7W
Molecule details ›
Chains: 7V, 7W
Length: 184 amino acids
Theoretical weight: 21.37 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: Q7Y0H2 (Residues: 1-184; Coverage: 100%)
Gene names: CHLRE_14g617550v5, ODA14
FAP68 Chain: 7Y
Molecule details ›
Chain: 7Y
Length: 312 amino acids
Theoretical weight: 35.57 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8HPK6 (Residues: 1-312; Coverage: 100%)
Gene name: CHLRE_01g015850v5
FAP90 Chains: 7Z, 8A, 8B, 8C, 8D
Molecule details ›
Chains: 7Z, 8A, 8B, 8C, 8D
Length: 242 amino acids
Theoretical weight: 27.76 KDa
Source organism: Chlamydomonas reinhardtii
UniProt:
  • Canonical: A8ICC1 (Residues: 1-242; Coverage: 100%)
Gene name: CHLRE_10g424250v5

Ligands and Environments

3 bound ligands:
Ligand GDP 170 x GDP
Ligand MG 170 x MG
Ligand GTP 170 x GTP
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.4Å
Relevant EMDB volumes: EMD-20631

Quick links

Citations

18 review citations

Motile ciliopathies.
Wallmeier et al. (2020)
17 more

15 mentions without citation

Structure, Folding and Stability of Nucleoside Diphosphate Kinases.
Georgescauld et al. (2020)
14 more