SMTL ID : 7x3j.1

Cryo-EM structure of human TRiC-tubulin-S2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-2-2-2-2-2-mer

Ligands

16 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Covalent)(Non-covalent)

ATP.1: 15 residues within 4Å: Chain A: S.35, L.36, G.37, D.88, G.89, T.90, T.91, S.92, G.412, I.448, L.452, L.488, L.490, V.503, E.505 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:G.37, A:G.89, A:G.89, A:T.91, A:S.92, A:G.412, A:G.413, A:E.505 ATP.2: 20 residues within 4Å: Chain B: T.42, L.43, G.44, P.45, D.66, D.92, G.96, D.97, G.98, T.99, T.100, S.101, T.165, S.168, S.169, G.410, I.450, M.480, E.495, K.500 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:G.44, B:D.92, B:G.96, B:G.98, B:T.99, B:T.99, B:T.100, B:S.168, B:S.169, B:S.169, B:G.410, B:E.495, B:K.500 Salt bridges: B:K.170 ATP.3: 15 residues within 4Å: Chain C: S.51, L.52, G.53, P.54, D.99, D.104, G.105, T.106, T.107, S.108, K.174, G.425, L.465, V.495, V.508 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:G.53, C:D.99, C:D.104, C:T.106, C:T.106, C:G.425 Salt bridges: C:K.174, C:K.174, C:K.174 ATP.4: 14 residues within 4Å: Chain D: S.49, L.50, G.51, D.71, G.72, G.101, D.102, T.104, T.105, G.420, C.491, L.492, M.499, V.504 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:G.51, D:D.71, D:D.71, D:D.71, D:G.72, D:T.105, D:G.420, D:G.421 ATP.5: 17 residues within 4Å: Chain E: C.40, L.41, G.42, P.43, D.93, G.94, T.95, T.96, G.410, G.411, L.451, V.480, N.481, G.482, E.483, I.495, E.497 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:C.40, E:G.42, E:T.95, E:T.96, E:T.96, E:G.411, E:N.481, E:G.482, E:I.495 ATP.6: 12 residues within 4Å: Chain F: P.42, V.90, G.91, D.92, G.93, T.95, D.391, M.394, R.398, G.409, L.449, R.499 9 PLIP interactions: 9 interactions with chain F Hydrogen bonds: F:D.92, F:D.92, F:G.93, F:D.391, F:G.409, F:G.410, F:R.499 Salt bridges: F:R.398, F:R.398 ATP.7: 19 residues within 4Å: Chain G: Y.47, P.49, A.69, D.99, G.100, T.101, N.102, M.169, S.170, K.171, D.394, G.411, G.412, G.413, L.452, I.482, I.497, D.499, K.504 15 PLIP interactions: 15 interactions with chain G Hydrogen bonds: G:G.48, G:G.100, G:T.101, G:T.101, G:N.102, G:N.102, G:S.170, G:G.412, G:G.413, G:D.499, G:K.504, G:K.504 Salt bridges: G:K.171, G:K.171, G:K.171 ATP.8: 18 residues within 4Å: Chain H: N.37, L.38, G.39, D.59, D.90, G.91, T.92, T.93, S.94, T.154, R.157, T.158, G.410, A.411, G.412, L.481, D.496, K.501 12 PLIP interactions: 12 interactions with chain H Hydrogen bonds: H:G.39, H:D.90, H:D.90, H:T.93, H:S.94, H:T.158, H:T.158, H:A.411, H:G.412, H:D.496, H:K.501, H:K.501 ATP.9: 16 residues within 4Å: Chain I: T.42, L.43, G.44, P.45, G.96, D.97, G.98, T.99, T.100, T.165, S.169, G.410, I.450, L.478, E.495, K.500 10 PLIP interactions: 10 interactions with chain I Hydrogen bonds: I:G.44, I:G.96, I:G.96, I:G.98, I:T.99, I:S.169, I:S.169, I:G.410, I:E.495, I:K.500 ATP.10: 16 residues within 4Å: Chain J: S.51, L.52, G.53, P.54, D.104, G.105, T.106, T.107, S.108, S.173, K.174, G.425, G.426, L.465, V.495, V.508 11 PLIP interactions: 11 interactions with chain J Hydrogen bonds: J:G.53, J:D.104, J:G.105, J:T.107, J:T.107, J:S.108, J:S.173, J:S.173, J:G.425, J:G.426 Salt bridges: J:K.174 ATP.11: 18 residues within 4Å: Chain K: S.49, L.50, G.51, P.52, D.71, G.72, A.73, G.101, D.102, T.104, T.105, D.402, G.419, G.420, C.491, L.492, V.504, E.506 12 PLIP interactions: 12 interactions with chain K Hydrogen bonds: K:G.51, K:D.71, K:D.71, K:G.72, K:A.73, K:D.102, K:T.104, K:T.104, K:D.402, K:G.420, K:E.506, K:E.506 ATP.12: 18 residues within 4Å: Chain L: C.40, L.41, G.42, P.43, G.92, D.93, G.94, T.95, T.96, G.410, G.411, G.412, V.480, N.481, G.482, E.483, I.495, E.497 8 PLIP interactions: 8 interactions with chain L Hydrogen bonds: L:G.42, L:D.93, L:G.94, L:T.95, L:T.96, L:G.412, L:G.482, L:E.483 ATP.13: 16 residues within 4Å: Chain M: T.39, L.40, G.41, D.92, G.93, T.94, T.95, S.96, G.408, G.409, G.410, I.445, L.449, I.479, V.492, R.499 9 PLIP interactions: 9 interactions with chain M Hydrogen bonds: M:G.41, M:D.92, M:T.94, M:T.95, M:S.96, M:S.96, M:G.409, M:G.410, M:R.499 ATP.14: 18 residues within 4Å: Chain N: Y.47, G.48, P.49, A.69, G.98, D.99, G.100, T.101, M.169, S.170, K.171, D.394, G.411, G.412, I.482, I.497, D.499, K.504 14 PLIP interactions: 14 interactions with chain N Hydrogen bonds: N:G.48, N:A.69, N:G.100, N:T.101, N:T.101, N:T.101, N:N.102, N:S.170, N:G.412, N:D.499, N:K.504, N:K.504 Salt bridges: N:K.171, N:K.171 ATP.15: 20 residues within 4Å: Chain O: N.37, L.38, G.39, D.59, G.60, D.90, G.91, T.92, T.93, T.154, R.157, T.158, K.159, G.410, A.411, G.412, L.481, V.494, D.496, K.501 15 PLIP interactions: 15 interactions with chain O Hydrogen bonds: O:G.39, O:D.59, O:D.59, O:G.60, O:D.90, O:G.91, O:T.93, O:T.93, O:R.157, O:T.158, O:A.411, O:G.412, O:D.496, O:K.501 Salt bridges: O:K.159 ATP.16: 15 residues within 4Å: Chain P: S.35, L.36, G.37, D.88, G.89, T.90, T.91, S.92, G.412, I.448, L.452, L.488, L.490, V.503, E.505 10 PLIP interactions: 10 interactions with chain P Hydrogen bonds: P:G.37, P:G.89, P:T.90, P:T.90, P:T.91, P:T.91, P:S.92, P:G.412, P:G.413, P:E.505

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, C. et al., Pathway and mechanism of tubulin folding mediated by TRiC/CCT along its ATPase cycle revealed using cryo-EM. Commun Biol (2023)

Release Date

2023-06-07

Peptides

T-complex protein 1 subunit alpha: AP
T-complex protein 1 subunit beta: BI
T-complex protein 1 subunit delta: CJ
T-complex protein 1 subunit epsilon: DK
T-complex protein 1 subunit gamma: EL
T-complex protein 1 subunit eta: FM
T-complex protein 1 subunit theta: GN
T-complex protein 1 subunit zeta: HO

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

P
a

B
B

I
b

C
D

J
d

D
E

K
e

E
G

L
g

F
H

M
h

G
Q

N
q

H
Z

O
z

T-complex protein 1 subunit alpha

T-complex protein 1 subunit beta

T-complex protein 1 subunit delta

T-complex protein 1 subunit epsilon

T-complex protein 1 subunit gamma

T-complex protein 1 subunit eta

T-complex protein 1 subunit theta

T-complex protein 1 subunit zeta

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