SMTL ID : 8xks.1

The cryo-EM structure of Orf2971-FtsHi motor complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain C: C.58, C.61, C.306, C.309 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.58, C:C.61, C:C.306, C:C.309 ZN.2: 5 residues within 4Å: Chain C: C.69, A.71, C.72, C.113, C.116 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.69, C:C.72, C:C.113, C:C.116

1 x DGA: DIACYL GLYCEROL(Covalent)

DGA.3: 20 residues within 4Å: Chain E: I.737 Chain H: W.255, L.305, L.313, V.316, A.317, W.320, L.324, L.405, S.408, L.409, A.412, L.413, W.437, V.443, V.445, L.471, T.472, F.488, L.494 23 PLIP interactions: 21 interactions with chain H, 2 interactions with chain E Hydrophobic interactions: H:W.255, H:W.255, H:L.305, H:L.313, H:V.316, H:W.320, H:W.320, H:L.324, H:L.405, H:L.405, H:L.409, H:L.409, H:A.412, H:L.413, H:W.437, H:W.437, H:V.443, H:V.445, H:L.471, H:F.488, H:L.494 Hydrogen bonds: E:I.737, E:I.737

2 x DGD: DIGALACTOSYL DIACYL GLYCEROL (DGDG)(Non-covalent)

DGD.4: 18 residues within 4Å: Chain J: I.225, M.226, A.228, G.229, G.230, T.233, P.242, G.246, E.286, W.291, H.293, K.294, E.307, L.308, T.309, A.312, A.315 Ligands: LMG.7 14 PLIP interactions: 14 interactions with chain J Hydrophobic interactions: J:I.225, J:I.225, J:A.312, J:A.315 Hydrogen bonds: J:M.226, J:G.229, J:G.230, J:W.291, J:K.294, J:L.308, J:T.309, J:T.309 Salt bridges: J:H.293, J:K.294 DGD.8: 12 residues within 4Å: Chain L: R.152, L.160, R.161, V.163, A.164, F.165, G.167, W.168 Chain M: W.186, L.189, E.202, R.205 10 PLIP interactions: 6 interactions with chain L, 4 interactions with chain M Hydrophobic interactions: L:R.161, L:V.163, L:A.164, M:W.186, M:L.189, M:L.189 Hydrogen bonds: L:R.152, M:E.202 Salt bridges: L:R.152, L:R.152

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

LMG.5: 16 residues within 4Å: Chain J: G.190, G.192, W.205, P.206, L.207, R.208, D.209, W.210, G.211, D.212, P.214, W.217, W.218, A.221 Chain L: L.221 Ligands: LMG.7 14 PLIP interactions: 13 interactions with chain J, 1 interactions with chain L Hydrophobic interactions: J:W.218, J:W.218, J:W.218, J:W.218, J:A.221, L:L.221 Hydrogen bonds: J:G.192, J:D.209, J:D.209, J:W.210, J:G.211, J:D.212, J:D.212, J:D.212 LMG.7: 17 residues within 4Å: Chain J: P.214, M.215, W.218, I.225, A.312, A.315, L.316, A.318, G.319, L.322, T.323 Chain L: S.219, L.221, A.243, K.244 Ligands: DGD.4, LMG.5 12 PLIP interactions: 7 interactions with chain J, 5 interactions with chain L Hydrophobic interactions: J:I.225, J:A.312, J:A.315, J:L.316, J:L.316, J:L.322, J:L.322 Hydrogen bonds: L:S.219, L:S.219, L:L.221, L:K.244, L:K.244

1 x ACD: ARACHIDONIC ACID(Non-covalent)

ACD.6: 15 residues within 4Å: Chain K: A.354, F.357, W.394, H.398, V.412, G.414, W.415, H.416, A.453, H.457, R.460, L.520, L.523, S.524, A.568 8 PLIP interactions: 8 interactions with chain K Hydrophobic interactions: K:F.357, K:W.394, K:W.415, K:A.453, K:L.523, K:A.568 Hydrogen bonds: K:R.460, K:R.460

1 x SQD: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL(Non-covalent)

SQD.9: 12 residues within 4Å: Chain J: W.276 Chain L: E.135, R.137, F.141, S.142, W.145, Q.149, R.248, P.249, F.255 Chain M: W.209, R.212 10 PLIP interactions: 8 interactions with chain L, 1 interactions with chain J, 1 interactions with chain M Hydrophobic interactions: L:F.141, L:F.141, L:W.145, L:W.145, L:F.255, J:W.276 Hydrogen bonds: L:R.248, M:R.212 Salt bridges: L:R.86, L:R.248

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, N. et al., Architecture of the ATP-driven motor for protein import into chloroplasts. Mol Plant (2024)

Release Date

2024-12-04

Peptides

Ctap1: A
Fhl2: B
4Fe-4S ferredoxin-type domain-containing protein: C
AAA+ ATPase domain-containing protein: D
Uncharacterized 341.7 kDa protein in psbD-psbC intergenic region: E
AAA+ ATPase domain-containing protein: FG
Flagellar associated protein: H
Tic22: I
FaxL: J
Fatty acid desaturase domain-containing protein: K
Moc25: L
Moc29: M
Moc34: N
Moc45: O
PcyA1: P
ADP-ribosylglycohydrolase: Q
Acyl carrier protein: R
Moc13: S
Moc31: T

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

M
M

N
N

O
O

P
P

Q
Q

R
R

S
S

T
T

Membrane

We predict this structure to be a membrane protein.
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Ctap1

Fhl2

4Fe-4S ferredoxin-type domain-containing protein

AAA+ ATPase domain-containing protein

Uncharacterized 341.7 kDa protein in psbD-psbC intergenic region

AAA+ ATPase domain-containing protein

Flagellar associated protein

Tic22

FaxL

Fatty acid desaturase domain-containing protein

Moc25

Moc29

Moc34

Moc45

PcyA1

ADP-ribosylglycohydrolase

Acyl carrier protein

Moc13

Moc31

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