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SMTL ID : 9ot2.1

13PF microtubule symmetry expansion

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1:

27 residues within 4Å:

Chain A: G.10, Q.11, A.12, Q.15, I.16, D.98, A.99, A.100, N.101, N.102, S.140, G.142, G.143, G.144, T.145, G.146, I.171, T.179, E.183, N.206, Y.224, L.227, N.228, I.231
Chain B: L.246, K.252
Ligands: MG.2

21 PLIP interactions:

18 interactions with chain A, 3 interactions with chain B

Hydrogen bonds: A:Q.11, A:Q.15, A:N.101, A:N.101, A:S.140, A:G.144, A:T.145, A:T.145, A:G.146, A:T.179, A:E.183, A:N.206, A:N.206, A:Y.224, A:N.228, A:N.228, A:N.228
pi-Stacking: A:Y.224
Salt bridges: B:K.252, B:K.252, B:K.252

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2:

5 residues within 4Å:

Chain A: Q.11, D.69, T.145
Chain B: K.252
Ligands: GTP.1

No protein-ligand interaction detected (PLIP)

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.3:

22 residues within 4Å:

Chain B: G.10, Q.11, C.12, Q.15, I.16, A.97, N.99, S.138, G.140, G.141, G.142, T.143, G.144, S.145, V.169, D.177, E.181, N.204, L.207, Y.222, L.225, N.226

19 PLIP interactions:

19 interactions with chain B

Hydrogen bonds: B:Q.11, B:Q.11, B:C.12, B:Q.15, B:S.138, B:G.142, B:T.143, B:T.143, B:T.143, B:T.143, B:G.144, B:D.177, B:D.177, B:N.204, B:N.204, B:N.226, B:N.226
pi-Stacking: B:Y.222, B:Y.222

1 x TA1: TAXOL(Non-covalent)

TA1.4:

25 residues within 4Å:

Chain B: K.19, E.22, V.23, D.26, E.27, L.215, L.217, D.224, H.227, L.228, A.231, S.234, G.235, F.270, P.272, L.273, T.274, S.275, R.276, Q.279, R.318, P.358, R.359, G.360, L.361

21 PLIP interactions:

21 interactions with chain B

Hydrophobic interactions: B:E.22, B:V.23, B:V.23, B:D.26, B:E.27, B:L.215, B:H.227, B:L.228, B:A.231, B:F.270, B:F.270, B:R.276, B:P.358, B:L.361
Hydrogen bonds: B:H.227, B:T.274, B:T.274, B:R.359
Salt bridges: B:H.227, B:R.276
pi-Stacking: B:H.227

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Legal, T. et al., Structure of the ciliary tip central pair reveals the unique role of the microtubule-seam binding protein SPEF1. Curr.Biol. (2025)

Release Date

2025-07-30

Peptides

Tubulin alpha-1B chain: A
Tubulin beta chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Tubulin alpha-1B chain

Tubulin beta chain

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