SMTL ID : 7x3u.1

cryo-EM structure of human TRiC-ADP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

16 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)(Covalent)

ADP.1: 14 residues within 4Å: Chain A: L.36, G.37, D.88, G.89, T.90, T.91, S.92, G.412, L.452, L.488, L.490, V.503, E.505, K.510 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:G.89, A:T.91, A:T.91, A:T.91, A:T.91, A:S.92, A:G.412, A:E.505, A:K.510 ADP.2: 14 residues within 4Å: Chain B: L.36, G.37, P.38, D.88, G.89, T.90, T.91, S.92, G.412, L.452, L.490, V.503, E.505, K.510 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:G.89, B:T.91, B:T.91, B:T.91, B:T.91, B:S.92, B:G.412, B:E.505, B:K.510 ADP.3: 19 residues within 4Å: Chain C: L.43, G.44, P.45, D.97, G.98, T.99, T.100, S.101, T.165, T.166, S.168, S.169, G.410, E.414, L.478, M.480, I.493, E.495, K.500 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:G.44, C:D.97, C:G.98, C:T.100, C:T.100, C:T.100, C:T.100, C:S.101, C:S.101, C:S.101, C:S.168, C:S.169, C:G.410, C:E.495, C:K.500 ADP.4: 17 residues within 4Å: Chain D: L.43, G.44, P.45, D.97, G.98, T.99, T.100, S.101, T.165, T.166, S.168, G.410, G.411, E.414, I.493, E.495, K.500 14 PLIP interactions: 14 interactions with chain D Hydrogen bonds: D:D.97, D:G.98, D:T.100, D:T.100, D:T.100, D:S.101, D:S.101, D:S.101, D:S.168, D:S.169, D:G.410, D:G.411, D:E.495, D:K.500 ADP.5: 16 residues within 4Å: Chain E: G.53, P.54, D.104, G.105, T.106, T.107, S.108, K.174, G.424, G.425, G.426, L.465, I.493, V.495, R.496, V.508 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:G.105, E:T.107, E:T.107, E:S.108, E:S.108, E:S.173, E:G.425, E:G.426, E:V.495, E:R.496 Salt bridges: E:K.174, E:K.174 ADP.6: 16 residues within 4Å: Chain F: L.52, G.53, P.54, D.104, G.105, T.106, T.107, S.108, S.173, G.424, G.425, G.426, L.465, I.493, V.495, V.508 10 PLIP interactions: 10 interactions with chain F Hydrogen bonds: F:G.105, F:T.107, F:T.107, F:T.107, F:T.107, F:S.108, F:S.173, F:G.425, F:G.426 Salt bridges: F:K.174 ADP.7: 17 residues within 4Å: Chain G: L.50, G.51, P.52, D.102, G.103, T.104, T.105, G.419, G.420, G.421, L.460, C.491, L.492, M.499, V.504, E.506, K.511 11 PLIP interactions: 11 interactions with chain G Hydrogen bonds: G:G.51, G:T.104, G:T.105, G:T.105, G:T.105, G:T.105, G:G.106, G:G.420, G:G.421, G:E.506, G:K.511 ADP.8: 17 residues within 4Å: Chain H: L.50, G.51, D.102, G.103, T.104, T.105, T.169, S.173, G.419, G.420, G.421, L.460, C.491, L.492, V.504, E.506, K.511 6 PLIP interactions: 6 interactions with chain H Hydrogen bonds: H:G.51, H:T.105, H:S.173, H:G.420, H:G.421, H:K.511 ADP.9: 16 residues within 4Å: Chain I: L.41, G.42, P.43, D.93, G.94, T.95, T.96, S.97, G.410, G.411, L.451, V.480, G.482, I.495, E.497, K.502 10 PLIP interactions: 10 interactions with chain I Hydrogen bonds: I:G.94, I:T.96, I:T.96, I:T.96, I:T.96, I:S.97, I:G.411, I:G.482, I:E.497, I:K.502 ADP.10: 15 residues within 4Å: Chain J: L.41, G.42, P.43, D.93, G.94, T.95, T.96, S.97, G.410, G.411, L.451, V.480, G.482, I.495, E.497 8 PLIP interactions: 8 interactions with chain J Hydrogen bonds: J:D.93, J:G.94, J:T.96, J:T.96, J:S.97, J:G.411, J:G.482, J:E.497 ADP.11: 13 residues within 4Å: Chain K: L.40, G.41, G.93, T.94, T.95, S.96, G.408, G.409, L.449, V.477, I.479, V.492, R.499 9 PLIP interactions: 9 interactions with chain K Hydrogen bonds: K:G.93, K:T.95, K:T.95, K:T.95, K:T.95, K:S.96, K:G.409, K:G.410, K:R.499 ADP.12: 17 residues within 4Å: Chain L: L.40, G.41, P.42, D.92, G.93, T.94, T.95, S.96, T.161, G.408, G.409, G.410, L.449, V.477, I.479, V.492, R.499 11 PLIP interactions: 11 interactions with chain L Hydrogen bonds: L:D.92, L:D.92, L:G.93, L:T.95, L:T.95, L:T.95, L:T.95, L:S.96, L:G.409, L:G.410, L:R.499 ADP.13: 20 residues within 4Å: Chain M: Y.47, G.48, P.49, D.99, G.100, T.101, N.102, F.103, T.166, S.167, M.169, S.170, K.171, G.411, G.412, L.480, I.482, I.497, D.499, K.504 13 PLIP interactions: 13 interactions with chain M Hydrogen bonds: M:Y.47, M:Y.47, M:D.99, M:G.100, M:N.102, M:N.102, M:F.103, M:S.170, M:G.412, M:D.499, M:K.504 Salt bridges: M:K.171, M:K.171 ADP.14: 17 residues within 4Å: Chain N: Y.47, P.49, D.99, G.100, T.101, N.102, F.103, M.169, S.170, K.171, G.411, G.412, L.452, I.482, I.497, D.499, K.504 13 PLIP interactions: 13 interactions with chain N Hydrogen bonds: N:Y.47, N:D.99, N:D.99, N:G.100, N:N.102, N:N.102, N:F.103, N:S.170, N:G.412, N:D.499, N:K.504 Salt bridges: N:K.171, N:K.171 ADP.15: 17 residues within 4Å: Chain O: L.38, P.40, D.90, G.91, T.92, T.93, S.94, R.157, T.158, G.410, A.411, L.451, V.479, L.481, M.487, D.496, K.501 10 PLIP interactions: 10 interactions with chain O Hydrogen bonds: O:D.90, O:G.91, O:T.93, O:T.93, O:S.94, O:R.157, O:R.157, O:A.411, O:D.496, O:K.501 ADP.16: 16 residues within 4Å: Chain P: L.38, G.39, D.90, G.91, T.92, T.93, S.94, T.154, R.157, T.158, K.159, A.411, V.479, L.481, V.494, D.496 15 PLIP interactions: 15 interactions with chain P Hydrogen bonds: P:D.90, P:G.91, P:T.93, P:T.93, P:T.93, P:T.93, P:S.94, P:R.157, P:R.157, P:R.157, P:A.411, P:G.412, P:D.496, P:K.501 Salt bridges: P:K.159

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: AB
T-complex protein 1 subunit beta: CD
T-complex protein 1 subunit delta: EF
T-complex protein 1 subunit epsilon: GH
T-complex protein 1 subunit gamma: IJ
T-complex protein 1 subunit eta: KL
T-complex protein 1 subunit theta: MN
T-complex protein 1 subunit zeta: OP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
a

B
A

C
b

D
B

E
D

F
d

G
E

H
e

I
g

J
G

K
h

L
H

M
Q

N
q

O
Z

P
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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