SMTL ID : 7vcf.1

Cryo-EM structure of Chlamydomonas TOC-TIC supercomplex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 2.50 Å

Oligo State

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

Ligands

4 x LMG: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE(Non-covalent)

LMG.1: 19 residues within 4Å: Chain A: Y.182, L.183, G.185, F.186, L.189, E.223, Q.224, A.320, I.321, S.323, I.324, L.329, T.332 Chain J: T.35 Chain L: L.155 Chain O: I.226, F.230 Ligands: LMG.2, LMG.3 13 PLIP interactions: 10 interactions with chain A, 1 interactions with chain J, 2 interactions with chain O Hydrophobic interactions: A:L.183, A:I.321, A:I.324, A:L.329, J:T.35, O:I.226, O:F.230 Hydrogen bonds: A:G.185, A:F.186, A:Q.224, A:S.323 Water bridges: A:Y.182, A:Y.327 LMG.2: 13 residues within 4Å: Chain A: V.190, K.191, W.194, R.200 Chain J: V.27 Chain L: K.143, L.144, G.147, G.148 Chain O: Y.227, F.230, W.236 Ligands: LMG.1 14 PLIP interactions: 2 interactions with chain L, 5 interactions with chain A, 6 interactions with chain O, 1 interactions with chain J Hydrophobic interactions: L:L.144, A:V.190, A:W.194, A:W.194, O:Y.227, O:Y.227, O:F.230, O:F.230, O:W.236, O:W.236, J:V.27 Hydrogen bonds: L:K.143, A:R.200 Salt bridges: A:K.191 LMG.3: 22 residues within 4Å: Chain A: L.9, L.329, I.345, T.360, E.361, T.362, A.363, F.364, L.367, S.374 Chain L: L.152, L.155, L.159, S.162, S.163, H.166 Chain O: W.136, Y.139, F.140, E.142 Ligands: LMG.1, LMG.4 21 PLIP interactions: 7 interactions with chain L, 10 interactions with chain A, 4 interactions with chain O Hydrophobic interactions: L:L.152, L:L.155, L:L.159, A:L.9, A:L.329, A:I.345, A:E.361, A:T.362, A:F.364, O:W.136, O:W.136, O:W.136, O:F.140 Hydrogen bonds: L:H.166, A:E.361, A:S.374, A:S.374, A:R.377 Salt bridges: L:H.166, L:H.166, L:H.166 LMG.4: 15 residues within 4Å: Chain A: L.9, S.12, Y.16, V.17, N.31, Y.32, T.33, Y.41, S.45, L.358, I.359, L.1918, L.1920, I.1922 Ligands: LMG.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.9, A:Y.16, A:V.17, A:Y.32, A:Y.41, A:L.358, A:I.359 Hydrogen bonds: A:N.31, A:Y.32, A:T.33, A:I.1922

1 x IHP: INOSITOL HEXAKISPHOSPHATE(Non-covalent)

IHP.5: 14 residues within 4Å: Chain A: W.1235, K.1238, Y.1359, K.1457, K.1464, I.1689, S.1690, L.1691, K.1692 Chain E: S.768, H.770, R.802, K.807 Chain I: K.83 19 PLIP interactions: 6 interactions with chain E, 11 interactions with chain A, 2 interactions with chain I Hydrogen bonds: E:S.768, A:W.1235, A:S.1690, A:L.1691 Salt bridges: E:H.770, E:R.802, E:K.807, E:K.807, E:K.807, A:K.1238, A:K.1238, A:K.1457, A:K.1457, A:K.1464, A:K.1464, A:K.1692, A:K.1692, I:K.83, I:K.83

2 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 2 residues within 4Å: Chain E: C.704, E.706 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:C.704, E:E.706 MG.7: 3 residues within 4Å: Chain N: R.478, T.708, T.712 2 PLIP interactions: 2 interactions with chain N Metal complexes: N:T.708, N:T.712

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jin, Z. et al., Structure of a TOC-TIC supercomplex spanning two chloroplast envelope membranes. Cell (2022)

Release Date

2022-11-30

Peptides

Tic214: A
Toc75: B
Toc52: C
Tic13: D
Toc120: E
Toc34: F
YlmG: G
Toc39: H
Toc10: I
Tic12: J
Unknown fragment: K
Tic35: L
Tic56: M
Tic100: N
Tic20-Venus-Flag: O

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
F

F
G

G
H

H
I

I
K

J
M

K
N

L
O

M
Q

N
T

O
W

Membrane

We predict this structure to be a membrane protein.
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Tic214

Toc75

Toc52

Tic13

Toc120

Toc34

YlmG

Toc39

Toc10

Tic12

Unknown fragment

Tic35

Tic56

Tic100

Tic20-Venus-Flag

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