- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-2-1-1-1-1-1-1-1-1-1-1-1-1-mer
- Ligands
- 6 x SF4: IRON/SULFUR CLUSTER(Non-covalent)
- 1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)
FMN.2: 23 residues within 4Å:- Chain A: G.110, R.111, G.112, G.113, A.114, K.121, N.139, D.141, E.142, E.144, D.150, Y.227, G.230, E.231, E.232, V.265, T.266, N.267, T.270, T.374, A.449, L.450, A.453
17 PLIP interactions:17 interactions with chain A- Hydrophobic interactions: A:Y.227, A:E.231, A:E.231, A:A.449, A:A.453
- Hydrogen bonds: A:R.111, A:G.112, A:G.113, A:A.114, A:G.115, A:K.121, A:N.139, A:E.144, A:D.150, A:V.265, A:N.267
- Salt bridges: A:K.121
- 2 x T7X: Phosphatidylinositol(Non-covalent)
T7X.3: 20 residues within 4Å:- Chain B: W.56, F.99, L.102, A.105, S.109, F.350, L.354, R.463, N.464, L.467, L.468, M.471, F.475
- Chain L: T.16, Q.17, R.24, P.32, H.35, M.39
- Ligands: CDL.4
15 PLIP interactions:5 interactions with chain L, 10 interactions with chain B- Hydrophobic interactions: L:T.16, L:P.32, L:M.39, B:F.99, B:L.102, B:A.105, B:F.350, B:L.468, B:F.475
- Hydrogen bonds: L:R.24, L:R.24, B:R.463, B:R.463, B:N.464
- Salt bridges: B:R.463
T7X.20: 17 residues within 4Å:- Chain 3: R.82, A.85, V.86, G.89, V.90, I.93
- Chain 5: F.13, R.16
- Chain 6: L.22, L.25, L.29, R.36
- Chain Z: T.46, Y.49, L.50, I.53
- Ligands: CDL.4
9 PLIP interactions:3 interactions with chain 3, 3 interactions with chain 6, 1 interactions with chain Z, 2 interactions with chain 5- Hydrophobic interactions: 3:V.86, 3:I.93, 6:L.22, 5:F.13, 5:R.16
- Salt bridges: 3:R.82
- Hydrogen bonds: 6:R.36, 6:R.36, Z:Y.49
- 3 x CDL: CARDIOLIPIN(Non-covalent)
CDL.4: 17 residues within 4Å:- Chain 3: I.93
- Chain 6: T.18, A.21, L.22, L.25
- Chain B: W.56, R.463
- Chain L: H.31, P.32, E.34, H.35
- Chain Z: I.43, T.46, V.47, L.50
- Ligands: T7X.3, T7X.20
13 PLIP interactions:1 interactions with chain B, 5 interactions with chain Z, 2 interactions with chain 3, 1 interactions with chain L, 4 interactions with chain 6- Salt bridges: B:R.463, Z:K.54, L:H.31
- Hydrophobic interactions: Z:I.43, Z:T.46, Z:V.47, Z:L.50, 3:I.93, 3:I.93, 6:T.18, 6:A.21, 6:L.22, 6:L.25
CDL.5: 20 residues within 4Å:- Chain 3: N.81
- Chain B: N.27, I.31, I.34, V.38, F.39, S.42, K.44, Y.45
- Chain C: F.101, T.104, L.108, K.112
- Chain J: F.10, C.21
- Chain Z: G.59, P.60, T.64, L.67
- Ligands: CDL.6
16 PLIP interactions:2 interactions with chain C, 1 interactions with chain J, 2 interactions with chain Z, 9 interactions with chain B, 2 interactions with chain 3- Hydrophobic interactions: C:F.101, C:T.104, J:F.10, Z:P.60, Z:L.67, B:N.27, B:I.31, B:I.31, B:V.38, B:V.38, B:F.39
- Salt bridges: B:K.44, B:K.44, B:K.44
- Hydrogen bonds: 3:N.81, 3:N.81
CDL.6: 15 residues within 4Å:- Chain B: I.23, I.26, N.27
- Chain C: F.91, W.94, M.97, A.98, F.101
- Chain D: F.149, V.150, L.153
- Chain Z: A.21, F.22, T.23
- Ligands: CDL.5
12 PLIP interactions:5 interactions with chain C, 1 interactions with chain Z, 2 interactions with chain D, 4 interactions with chain B- Hydrophobic interactions: C:F.91, C:W.94, C:A.98, C:F.101, C:F.101, D:F.149, D:V.150, B:I.23, B:I.23, B:I.23, B:I.26
- Hydrogen bonds: Z:F.22
- 1 x U10: UBIQUINONE-10(Non-covalent)
U10.7: 17 residues within 4Å:- Chain E: A.21, V.24, R.28, P.51, L.52, D.54, G.55, L.56, L.58, E.207, L.212, F.225, F.229, L.230, R.284
- Chain W: W.85, I.114
11 PLIP interactions:10 interactions with chain E, 1 interactions with chain W- Hydrophobic interactions: E:A.21, E:V.24, E:L.52, E:L.56, E:F.225, E:F.225, E:F.229, E:F.229, E:L.230, W:W.85
- Hydrogen bonds: E:R.284
- 1 x PEV: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE(Non-covalent)
PEV.8: 32 residues within 4Å:- Chain E: F.184, P.185, V.188, M.189, F.191, I.192, F.203, V.283, F.287, Y.290, L.298, V.302, F.303, L.306, W.310
- Chain H: M.49, F.50, V.53, S.54, F.57
- Chain J: Q.13, P.15, V.16, I.23
- Chain N: R.197, Q.201
- Chain X: T.70, L.71, F.72, L.73, M.76, V.77
29 PLIP interactions:16 interactions with chain E, 6 interactions with chain X, 3 interactions with chain H, 3 interactions with chain N, 1 interactions with chain J- Hydrophobic interactions: E:F.184, E:V.188, E:V.188, E:F.191, E:I.192, E:I.192, E:I.192, E:F.203, E:V.283, E:F.287, E:Y.290, E:L.298, E:W.310, E:W.310, X:L.71, X:F.72, X:F.72, X:L.73, X:L.73, X:V.77, H:F.50, H:V.53, H:F.57, J:I.23
- Hydrogen bonds: E:Y.290, E:Y.290, N:Q.201
- Salt bridges: N:R.197, N:R.197
- 2 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
FES.11: 9 residues within 4Å:- Chain O: R.104, F.105, C.106, Y.107, C.117, R.118, C.120, A.132, C.134
4 PLIP interactions:4 interactions with chain O,- Metal complexes: O:C.106, O:C.117, O:C.117, O:C.134
FES.13: 9 residues within 4Å:- Chain R: C.130, P.134, C.135, C.171, M.172, G.173, C.174, C.175, M.180
5 PLIP interactions:5 interactions with chain R,- Metal complexes: R:C.130, R:C.135, R:C.171, R:C.174, R:C.175
- 1 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)
NDP.12: 22 residues within 4Å:- Chain P: G.75, T.77, G.78, F.79, L.80, R.100, P.125, L.144, I.145, G.146, R.147, F.154, A.159, V.183, C.185, K.200, P.219, A.220, T.221, M.222, R.228, I.229
14 PLIP interactions:14 interactions with chain P- Hydrogen bonds: P:G.75, P:T.77, P:T.77, P:T.77, P:F.79, P:L.80, P:L.144, P:G.146, P:M.222
- Salt bridges: P:R.100, P:R.147, P:R.147, P:R.228
- pi-Cation interactions: P:R.100
- 2 x ZN: ZINC ION(Non-covalent)
ZN.14: 4 residues within 4Å:- Chain T: C.72, H.82, C.97, C.100
3 PLIP interactions:3 interactions with chain T- Metal complexes: T:C.72, T:H.82, T:C.97
ZN.18: 3 residues within 4Å:- Chain 5: H.107
- Chain 6: H.130
- Ligands: BCT.19
2 PLIP interactions:1 interactions with chain 6, 1 interactions with chain 5- Metal complexes: 6:H.130, 5:H.107
- 1 x BCT: BICARBONATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Soufari, H. et al., Specific features and assembly of the plant mitochondrial complex I revealed by cryo-EM. Nat Commun (2020)
- Release Date
- 2020-10-28
- Peptides
- 51kDa: A
Nad2m: B
Nad3m: C
Nad6m: D
Nad1m: E
Nad4Lm: F
PGIV: G
B16.6: H
MWFE: I
B9: J
B14.5a: K
B14.5b: L
15kDa: M
Nad7m: N
75kDa: O
39kDa: P
Nad9m: Q
24kDa: R
18kDa: S
13kDa: T
B13: U
B17.2: V
PSST: W
TYKY: X
B14: Y
20.9kDa: Z
B8: 0
ACPM1: 1
Unk1: 2
P2: 3
CAL1: 4
CA1: 56
Nad4m: 7
PDSW: 8
ESSS: 9
B22: a
Nad5m: b
B18: c
AGGG: d
ACPM2: e
B15: f
Unk2: g
P1: h
B12-1: i - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
IC
JD
NE
HF
KG
YH
ZI
VJ
WK
SL
iM
jN
GO
CP
TQ
FR
BS
OT
PU
RV
UW
EX
DY
XZ
c0
Q1
k2
r3
n4
o5
q6
p7
M8
f9
ga
db
ac
bd
he
ef
lg
sh
mi
t - Membrane
-
We predict this structure to be a membrane protein.
SMTL ID : 7a23.1
Plant mitochondrial respiratory complex I
51kDa
Nad2m
Nad3m
Nad6m
Nad1m
Nad4Lm
PGIV
B16.6
MWFE
B9
B14.5a
B14.5b
15kDa
Nad7m
75kDa
39kDa
Nad9m
24kDa
18kDa
13kDa
B13
B17.2
PSST
TYKY
B14
20.9kDa
B8
ACPM1
Unk1
P2
CAL1
CA1
Nad4m
PDSW
ESSS
B22
Nad5m
B18
AGGG
ACPM2
B15
Unk2
P1
B12-1
Related Entries With Identical Sequence
4v5h.1 | 5fn3.1 | 5oa1.1 | 6oab.1 | 6qs4.1 | 6rn2.1 | 6rn4.1 | 7a24.1 | 7aqq.1 | 7aqr.1 | 7aqw.1 | 7ar7.1 | 7ar8.1 | 7arb.1 | 7emf.1 | 8bed.1 | 8bee.1 | 8bef.1 | 8beh.1 | 8bpx.1 | 8bpx.2 | 8bpx.3 | 8bpx.5 | 8bpx.6 | 8bpx.7 | 8bpx.14 | 8bpx.16 | 8bpx.17 | 8bpx.18 | 8bpx.19 more...less...8bpx.20 | 8bpx.21 | 8bpx.22 | 8bpx.23 | 8bpx.24 | 8bpx.26 | 8bpx.27 | 8bpx.28 | 8bpx.30 | 8bpx.31 | 8bpx.32 | 8bpx.34 | 8bpx.35 | 8bpx.38 | 8bpx.39 | 8bpx.40 | 8bpx.42 | 8bpx.44 | 8bpx.47 | 8bq5.1 | 8bq5.2 | 8bq5.3 | 8bq5.5 | 8bq5.6 | 8bq5.7 | 8bq5.14 | 8bq5.16 | 8bq5.17 | 8bq5.18 | 8bq5.19 | 8bq5.20 | 8bq5.21 | 8bq5.22 | 8bq5.23 | 8bq5.24 | 8bq5.26 | 8bq5.27 | 8bq5.28 | 8bq5.30 | 8bq5.31 | 8bq5.32 | 8bq5.34 | 8bq5.35 | 8bq5.38 | 8bq5.39 | 8bq5.40 | 8bq5.42 | 8bq5.44 | 8bq5.47 | 8bq6.1 | 8bq6.2 | 8bq6.3 | 8bq6.5 | 8bq6.6 | 8bq6.7 | 8bq6.14 | 8bq6.16 | 8bq6.17 | 8bq6.18 | 8bq6.19 | 8bq6.20 | 8bq6.21 | 8bq6.22 | 8bq6.23 | 8bq6.24 | 8bq6.26 | 8bq6.27 | 8bq6.28 | 8bq6.30 | 8bq6.31 | 8bq6.32 | 8bq6.34 | 8bq6.35 | 8bq6.38 | 8bq6.39 | 8bq6.40 | 8bq6.42 | 8bq6.44 | 8bq6.47