SMTL ID : 8shn.1

CCT-G beta 5 complex closed state 6

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-2-2-2-2-2-1-mer

Ligands

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

ADP.1: 22 residues within 4Å: Chain A: S.34, L.35, G.36, P.37, D.87, G.88, T.89, T.90, S.91, T.153, S.156, S.157, K.158, G.410, G.411, L.451, L.487, R.495, V.502, E.504 Ligands: MG.2, AF3.3 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:G.36, A:G.88, A:T.89, A:T.90, A:T.90, A:S.91, A:S.156, A:S.156, A:S.157, A:G.411, A:R.495, A:E.504 Water bridges: A:T.90, A:T.90 Salt bridges: A:K.158, A:K.158 ADP.4: 20 residues within 4Å: Chain B: T.41, L.42, G.43, P.44, D.96, G.97, T.98, T.99, S.100, T.164, T.165, S.167, S.168, G.409, I.449, M.479, I.492, E.494 Ligands: MG.5, AF3.6 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:G.43, B:G.97, B:T.98, B:T.99, B:S.100, B:S.100, B:S.100, B:S.100, B:S.167, B:S.167, B:S.168, B:S.168, B:G.409, B:E.494 Water bridges: B:T.99, B:T.99 ADP.7: 21 residues within 4Å: Chain C: L.34, G.35, P.36, D.86, G.87, T.88, T.89, S.90, T.151, S.152, N.154, S.155, K.156, G.406, G.407, L.447, I.475, V.490, Q.492 Ligands: MG.8, AF3.9 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:G.35, C:G.87, C:T.88, C:T.89, C:T.89, C:S.90, C:N.154, C:S.155, C:G.407, C:Q.492 Salt bridges: C:K.156, C:K.156 ADP.10: 20 residues within 4Å: Chain D: L.51, G.52, P.53, D.103, G.104, T.105, T.106, T.171, S.174, K.175, G.420, G.421, L.461, I.490, C.492, L.493, V.505, E.507 Ligands: MG.11, AF3.12 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:G.52, D:G.104, D:T.106, D:S.174, D:G.421, D:E.507 Salt bridges: D:K.175 ADP.13: 24 residues within 4Å: Chain E: C.38, L.39, G.40, P.41, G.92, T.93, T.94, S.95, T.159, T.160, K.161, G.408, G.409, G.410, L.449, V.478, N.479, G.480, E.481, L.491, I.493, E.495 Ligands: MG.14, AF3.15 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:G.40, E:G.92, E:T.93, E:T.94, E:S.95, E:T.160, E:G.409, E:G.410, E:G.480, E:E.481, E:E.495 Salt bridges: E:K.161 ADP.16: 23 residues within 4Å: Chain F: T.39, L.40, G.41, P.42, D.92, G.93, T.94, T.95, S.96, T.161, S.164, S.165, G.408, G.409, G.410, I.445, V.477, I.479, V.492, E.494, R.499 Ligands: MG.17, AF3.18 15 PLIP interactions: 15 interactions with chain F Hydrogen bonds: F:G.41, F:G.93, F:T.94, F:T.95, F:S.96, F:S.96, F:S.164, F:S.164, F:S.165, F:G.409, F:G.410, F:E.494, F:R.499 Salt bridges: F:K.166, F:K.166 ADP.19: 23 residues within 4Å: Chain G: A.45, Y.46, G.47, P.48, D.98, G.99, T.100, N.101, F.102, M.168, S.169, K.170, G.410, G.411, L.451, L.479, I.481, M.491, I.496, D.498, K.503 Ligands: MG.20, AF3.21 16 PLIP interactions: 16 interactions with chain G Hydrogen bonds: G:Y.46, G:Y.46, G:G.47, G:D.98, G:D.98, G:G.99, G:T.100, G:N.101, G:F.102, G:S.169, G:G.411, G:G.412, G:D.498, G:K.503 Salt bridges: G:K.170, G:K.170 ADP.22: 22 residues within 4Å: Chain H: N.37, L.38, G.39, P.40, D.90, G.91, T.92, T.93, S.94, T.154, T.158, K.159, G.410, A.411, G.412, L.451, V.479, L.481, V.494, D.496 Ligands: MG.23, AF3.24 10 PLIP interactions: 10 interactions with chain H Hydrogen bonds: H:G.39, H:D.90, H:G.91, H:T.93, H:S.94, H:A.411, H:G.412, H:D.496 Salt bridges: H:K.159, H:K.159 ADP.25: 21 residues within 4Å: Chain I: L.35, G.36, P.37, D.87, G.88, T.89, T.90, S.91, T.153, S.156, S.157, K.158, G.410, G.411, L.451, L.487, R.495, V.502, E.504 Ligands: MG.26, AF3.27 15 PLIP interactions: 15 interactions with chain I Hydrogen bonds: I:S.34, I:G.36, I:G.88, I:T.89, I:T.90, I:T.90, I:T.90, I:T.90, I:S.91, I:S.157, I:G.411, I:R.495, I:E.504 Salt bridges: I:K.158, I:K.158 ADP.28: 20 residues within 4Å: Chain J: L.42, G.43, P.44, D.96, G.97, T.98, T.99, S.100, T.164, T.165, S.167, S.168, G.408, G.409, I.449, L.477, I.492, E.494 Ligands: MG.29, AF3.30 14 PLIP interactions: 14 interactions with chain J Hydrogen bonds: J:G.43, J:G.97, J:T.98, J:T.99, J:T.99, J:S.100, J:S.100, J:S.100, J:S.100, J:S.167, J:S.168, J:S.168, J:G.409, J:E.494 ADP.31: 19 residues within 4Å: Chain K: L.34, G.35, P.36, G.87, T.88, T.89, S.90, T.151, N.154, S.155, K.156, G.406, G.407, L.447, I.475, V.477, V.490 Ligands: MG.32, AF3.33 13 PLIP interactions: 13 interactions with chain K Hydrogen bonds: K:S.33, K:G.35, K:G.87, K:T.88, K:T.88, K:T.89, K:T.89, K:S.90, K:N.154, K:S.155, K:G.407 Salt bridges: K:K.156, K:K.156 ADP.34: 22 residues within 4Å: Chain L: L.51, G.52, P.53, D.103, G.104, T.105, T.106, T.170, T.171, S.174, K.175, G.420, G.421, L.461, I.490, C.492, L.493, M.500, V.505, E.507 Ligands: MG.35, AF3.36 11 PLIP interactions: 11 interactions with chain L Hydrogen bonds: L:G.52, L:N.71, L:G.104, L:T.106, L:T.106, L:T.106, L:T.106, L:S.174, L:G.421, L:E.507 Salt bridges: L:K.175 ADP.37: 25 residues within 4Å: Chain M: C.38, L.39, G.40, P.41, D.91, G.92, T.93, T.94, S.95, T.159, T.160, K.161, G.408, G.409, G.410, L.449, V.478, G.480, E.481, L.491, I.493, E.495, K.500 Ligands: MG.38, AF3.39 14 PLIP interactions: 14 interactions with chain M Hydrogen bonds: M:G.40, M:G.92, M:G.92, M:T.94, M:T.94, M:S.95, M:G.409, M:G.410, M:G.480, M:E.481, M:K.500, M:K.500 Salt bridges: M:K.161, M:K.161 ADP.40: 21 residues within 4Å: Chain N: L.40, G.41, P.42, D.92, G.93, T.94, T.95, S.96, T.161, A.162, S.164, S.165, G.408, G.409, L.449, V.477, V.492, E.494, R.499 Ligands: MG.41, AF3.42 15 PLIP interactions: 15 interactions with chain N Hydrogen bonds: N:T.39, N:G.41, N:G.93, N:T.94, N:T.95, N:T.95, N:T.95, N:T.95, N:S.164, N:S.164, N:S.165, N:G.409, N:E.494, N:R.499 Salt bridges: N:K.166 ADP.43: 21 residues within 4Å: Chain O: Y.46, G.47, P.48, D.98, G.99, T.100, N.101, F.102, T.165, M.168, S.169, K.170, G.410, G.411, G.412, L.451, I.481, I.496, D.498 Ligands: MG.44, AF3.45 13 PLIP interactions: 13 interactions with chain O Hydrogen bonds: O:Y.46, O:G.47, O:D.98, O:G.99, O:G.99, O:N.101, O:F.102, O:S.169, O:G.411, O:G.412, O:D.498 Salt bridges: O:K.170, O:K.170 ADP.46: 22 residues within 4Å: Chain P: N.37, L.38, G.39, P.40, D.90, G.91, T.92, T.93, S.94, T.154, T.158, K.159, G.410, A.411, G.412, L.451, V.479, L.481, V.494, D.496 Ligands: MG.47, AF3.48 11 PLIP interactions: 11 interactions with chain P Hydrogen bonds: P:G.39, P:G.91, P:T.92, P:T.93, P:T.93, P:S.94, P:A.411, P:G.412, P:D.496 Salt bridges: P:K.159, P:K.159

16 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: D.87 Ligands: ADP.1, AF3.3 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.87 MG.5: 3 residues within 4Å: Chain B: D.96 Ligands: ADP.4, AF3.6 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.96, B:D.96 MG.8: 4 residues within 4Å: Chain C: D.86, K.156 Ligands: ADP.7, AF3.9 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:D.86, C:D.86 MG.11: 3 residues within 4Å: Chain D: D.103 Ligands: ADP.10, AF3.12 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:D.103, D:D.103 MG.14: 4 residues within 4Å: Chain E: D.91, G.92 Ligands: ADP.13, AF3.15 No protein-ligand interaction detected (PLIP) MG.17: 4 residues within 4Å: Chain F: D.92, A.162 Ligands: ADP.16, AF3.18 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:D.92, F:D.92 MG.20: 3 residues within 4Å: Chain G: D.98, K.170 Ligands: ADP.19 2 PLIP interactions: 2 interactions with chain G Metal complexes: G:D.98, G:D.98 MG.23: 4 residues within 4Å: Chain H: D.90, K.159 Ligands: ADP.22, AF3.24 1 PLIP interactions: 1 interactions with chain H Metal complexes: H:D.90 MG.26: 3 residues within 4Å: Chain I: D.87 Ligands: ADP.25, AF3.27 1 PLIP interactions: 1 interactions with chain I Metal complexes: I:D.87 MG.29: 4 residues within 4Å: Chain J: D.96, T.165 Ligands: ADP.28, AF3.30 2 PLIP interactions: 2 interactions with chain J Metal complexes: J:D.96, J:D.96 MG.32: 3 residues within 4Å: Chain K: D.86 Ligands: ADP.31, AF3.33 No protein-ligand interaction detected (PLIP) MG.35: 3 residues within 4Å: Chain L: D.103 Ligands: ADP.34, AF3.36 1 PLIP interactions: 1 interactions with chain L Metal complexes: L:D.103 MG.38: 4 residues within 4Å: Chain M: D.91, K.161 Ligands: ADP.37, AF3.39 1 PLIP interactions: 1 interactions with chain M Metal complexes: M:D.91 MG.41: 4 residues within 4Å: Chain N: D.92, A.162 Ligands: ADP.40, AF3.42 2 PLIP interactions: 2 interactions with chain N Metal complexes: N:D.92, N:D.92 MG.44: 3 residues within 4Å: Chain O: D.98, K.170 Ligands: ADP.43 2 PLIP interactions: 2 interactions with chain O Metal complexes: O:D.98, O:D.98 MG.47: 4 residues within 4Å: Chain P: D.90, K.159 Ligands: ADP.46, AF3.48 1 PLIP interactions: 1 interactions with chain P Metal complexes: P:D.90

16 x AF3: ALUMINUM FLUORIDE(Non-covalent)

AF3.3: 10 residues within 4Å: Chain A: N.55, D.56, G.57, D.87, T.89, T.90, K.158, D.393 Ligands: ADP.1, MG.2 No protein-ligand interaction detected (PLIP) AF3.6: 10 residues within 4Å: Chain B: D.65, G.66, G.95, D.96, T.98, T.99, K.169, D.391 Ligands: ADP.4, MG.5 No protein-ligand interaction detected (PLIP) AF3.9: 10 residues within 4Å: Chain C: D.55, G.56, G.85, D.86, T.88, T.89, K.156, D.389 Ligands: ADP.7, MG.8 No protein-ligand interaction detected (PLIP) AF3.12: 10 residues within 4Å: Chain D: N.71, D.72, G.73, D.103, T.105, T.106, K.175, D.403 Ligands: ADP.10, MG.11 No protein-ligand interaction detected (PLIP) AF3.15: 10 residues within 4Å: Chain E: D.60, G.61, G.90, D.91, T.93, T.94, K.161, D.391 Ligands: ADP.13, MG.14 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:D.60 AF3.18: 11 residues within 4Å: Chain F: N.60, D.61, G.62, D.92, G.93, T.94, T.95, K.166, D.391 Ligands: ADP.16, MG.17 No protein-ligand interaction detected (PLIP) AF3.21: 10 residues within 4Å: Chain G: D.67, A.68, G.97, D.98, G.99, T.100, N.101, K.170, D.393 Ligands: ADP.19 1 PLIP interactions: 1 interactions with chain G Metal complexes: G:T.100 AF3.24: 10 residues within 4Å: Chain H: D.59, G.60, D.90, G.91, T.92, T.93, K.159, D.393 Ligands: ADP.22, MG.23 No protein-ligand interaction detected (PLIP) AF3.27: 11 residues within 4Å: Chain I: N.55, D.56, G.57, G.86, D.87, T.89, T.90, K.158, D.393 Ligands: ADP.25, MG.26 No protein-ligand interaction detected (PLIP) AF3.30: 8 residues within 4Å: Chain J: D.65, D.96, T.98, T.99, K.169, D.391 Ligands: ADP.28, MG.29 1 PLIP interactions: 1 interactions with chain J Metal complexes: J:D.96 AF3.33: 11 residues within 4Å: Chain K: N.54, D.55, G.56, G.85, D.86, T.88, T.89, K.156, D.389 Ligands: ADP.31, MG.32 No protein-ligand interaction detected (PLIP) AF3.36: 11 residues within 4Å: Chain L: N.71, D.72, G.73, D.103, G.104, T.105, T.106, K.175, D.403 Ligands: ADP.34, MG.35 No protein-ligand interaction detected (PLIP) AF3.39: 10 residues within 4Å: Chain M: D.60, G.61, G.90, D.91, T.93, T.94, K.161, D.391 Ligands: ADP.37, MG.38 No protein-ligand interaction detected (PLIP) AF3.42: 10 residues within 4Å: Chain N: D.61, G.62, G.91, D.92, T.94, T.95, K.166, D.391 Ligands: ADP.40, MG.41 1 PLIP interactions: 1 interactions with chain N Metal complexes: N:D.61 AF3.45: 10 residues within 4Å: Chain O: D.67, A.68, G.97, D.98, G.99, T.100, N.101, K.170, D.393 Ligands: ADP.43 1 PLIP interactions: 1 interactions with chain O Metal complexes: O:T.100 AF3.48: 10 residues within 4Å: Chain P: D.59, G.60, G.89, D.90, T.92, T.93, K.159, D.393 Ligands: ADP.46, MG.47 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, S. et al., Visualizing the chaperone-mediated folding trajectory of the G protein beta 5 beta-propeller. Mol.Cell (2023)

Release Date

2023-10-25

Peptides

T-complex protein 1 subunit alpha: AI
T-complex protein 1 subunit beta: BJ
T-complex protein 1 subunit delta: CK
T-complex protein 1 subunit epsilon: DL
T-complex protein 1 subunit gamma: EM
T-complex protein 1 subunit eta, N-terminally processed: FN
T-complex protein 1 subunit theta: GO
T-complex protein 1 subunit zeta: HP
Guanine nucleotide-binding protein subunit beta-5: Q

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

I
a

B
B

J
b

C
D

K
d

D
E

L
e

E
G

M
g

F
H

N
h

G
Q

O
q

H
Z

P
z

Q
N

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, N-terminally processed

T-complex protein 1 subunit theta

T-complex protein 1 subunit zeta

Guanine nucleotide-binding protein subunit beta-5

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