- 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-mer
- Ligands
- 13 x 3PE: 1,2-Distearoyl-sn-glycerophosphoethanolamine
- 4 x CDL: CARDIOLIPIN
CDL.6: 29 residues within 4Å:- Chain D: L.16, I.19, S.22, M.23, R.116, K.119, Y.120, L.123, I.126, T.127, M.150, L.153
- Chain E: P.353, L.354, T.357, W.358, L.360, M.361, L.364, L.369, P.371, I.442
- Chain P: L.68, M.71, K.72, L.75
- Ligands: 3PE.10, CDL.15, 3PE.16
21 PLIP interactions:8 interactions with chain E, 11 interactions with chain D, 2 interactions with chain P- Hydrophobic interactions: E:L.354, E:T.357, E:W.358, E:L.364, E:L.369, E:I.442, D:L.16, D:I.19, D:L.123, D:L.123, D:I.126, D:T.127, P:K.72, P:L.75
- Hydrogen bonds: E:P.353, E:T.357, D:Y.120, D:Y.120
- Salt bridges: D:K.119, D:K.119, D:K.119
CDL.7: 18 residues within 4Å:- Chain D: K.560, T.561, S.565, L.569, N.572, M.573, L.576
- Chain J: Y.61, I.68, L.103, G.111, T.112, A.114, M.115, V.118, M.120
- Ligands: 3PE.4, 3PE.19
10 PLIP interactions:3 interactions with chain D, 7 interactions with chain J- Hydrophobic interactions: D:L.569, J:Y.61, J:Y.61, J:L.103, J:L.103, J:A.114, J:M.115, J:V.118
- Hydrogen bonds: D:N.572
- Salt bridges: D:K.560
CDL.14: 25 residues within 4Å:- Chain E: M.10, M.55, I.120, L.121
- Chain F: P.256, L.257, T.334, M.335, P.338
- Chain I: F.169, W.170, T.171, V.172
- Chain L: K.25, N.27, P.29, R.30, V.32, Y.33
- Chain N: F.22, L.26, D.30, K.33
- Ligands: 3PE.11, 3PE.12
15 PLIP interactions:2 interactions with chain E, 4 interactions with chain I, 4 interactions with chain N, 3 interactions with chain F, 2 interactions with chain L- Hydrophobic interactions: E:I.120, E:L.121, I:F.169, I:W.170, I:W.170, I:W.170, N:F.22, N:L.26, F:L.257, F:M.335, F:P.338, L:Y.33
- Hydrogen bonds: N:K.33
- Salt bridges: N:K.33, L:K.25
CDL.15: 31 residues within 4Å:- Chain D: W.66, W.68, L.76, K.77, M.78, N.136, F.138, Q.139, I.142
- Chain E: T.449
- Chain O: V.98, T.101, T.102, A.105, Y.106
- Chain P: V.82, I.83, I.86, T.87, N.90, I.91, E.95, H.115
- Chain Q: W.80, F.81, Y.84, H.89
- Chain X: R.49
- Ligands: CDL.6, 3PE.10, 3PE.16
26 PLIP interactions:8 interactions with chain P, 7 interactions with chain D, 3 interactions with chain O, 1 interactions with chain E, 1 interactions with chain X, 6 interactions with chain Q- Hydrophobic interactions: P:V.82, P:I.83, P:I.86, P:T.87, D:W.66, D:W.66, D:W.66, D:W.68, D:L.76, D:F.138, D:I.142, O:V.98, O:A.105, E:T.449, Q:W.80, Q:W.80, Q:F.81, Q:Y.84, Q:Y.84
- Hydrogen bonds: P:N.90, P:E.95, P:E.95, O:Y.106
- Salt bridges: P:H.115, X:R.49, Q:H.89
- 1 x PC1: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE
- 1 x ADP: ADENOSINE-5'-DIPHOSPHATE
- 1 x EHZ: ~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] (3~{S})-3-oxidanyltetradecanethioate
EHZ.20: 18 residues within 4Å:- Chain H: S.112, L.113
- Chain V: H.12, V.16, H.26, M.44, R.47, F.48, H.51, K.52, E.54, M.57, A.60, L.63, A.67, E.70, F.71, N.74
7 PLIP interactions:6 interactions with chain V, 1 interactions with chain H- Hydrophobic interactions: V:V.16, V:A.67, V:F.71, V:F.71, V:N.74
- Hydrogen bonds: V:E.70, H:S.112
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Shin, Y.C. et al., Structural basis of respiratory complex adaptation to cold temperatures. Cell (2024)
- Release Date
- 2024-09-18
- Peptides
- NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial: A
NADH-ubiquinone oxidoreductase chain 6: B
NADH-ubiquinone oxidoreductase chain 4L: C
NADH-ubiquinone oxidoreductase chain 5: D
NADH-ubiquinone oxidoreductase chain 4: E
NADH-ubiquinone oxidoreductase chain 2: F
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial: G
Acyl carrier protein, mitochondrial: H
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8: I
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11: J
NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial: K
NADH dehydrogenase [ubiquinone] 1 subunit C2: L
NADH dehydrogenase [ubiquinone] iron-sulfur protein 5: M
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1: N
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial: O
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial: P
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6: Q
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mitochondrial: R
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3: S
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial: T
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4: U
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9: V
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7: W
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10: X - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
DB
JC
KD
LE
MF
NG
OH
UI
XJ
YK
cL
dM
eN
fO
gP
hQ
iR
jS
kT
lU
mV
nW
oX
p - Membrane
-
We predict this structure to be a membrane protein.
SMTL ID : 8ibb.1
Respiratory complex Membrane domain of CI, focus-refined of type IB, Wild type mouse under cold temperature
NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial
NADH-ubiquinone oxidoreductase chain 6
NADH-ubiquinone oxidoreductase chain 4L
NADH-ubiquinone oxidoreductase chain 5
NADH-ubiquinone oxidoreductase chain 4
NADH-ubiquinone oxidoreductase chain 2
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial
Acyl carrier protein, mitochondrial
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11
NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
NADH dehydrogenase [ubiquinone] 1 subunit C2
NADH dehydrogenase [ubiquinone] iron-sulfur protein 5
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mitochondrial
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10
Related Entries With Identical Sequence
6g2j.1 | 6g72.1 | 6zr2.1 | 6ztq.1 | 7ak5.1 | 7ak6.1 | 7b93.1 | 7psa.1 | 8c2s.1 | 8ca3.1 | 8ca5.1 | 8iap.1 | 8iaq.1 | 8ib5.1 | 8ib6.1 | 8iba.1 | 8ibe.1 | 8ibf.1 | 8ic3.1 | 8ic4.1 | 8olt.1 | 8om1.1 | 8pw5.39 | 8pw5.48 | 8pw5.56 | 8pw5.57 | 8pw5.58 | 8pw5.59 | 8pw5.60 | 8pw5.61 more...less...8pw5.62 | 8pw5.63 | 8pw5.68 | 8pw5.69 | 8pw5.70 | 8pw5.71 | 8pw5.72 | 8pw5.73 | 8pw5.74 | 8pw5.75 | 8pw5.76 | 8pw5.77 | 8pw5.78 | 8pw5.79 | 8pw5.80 | 8pw5.81 | 8pw6.37 | 8pw6.46 | 8pw6.54 | 8pw6.55 | 8pw6.56 | 8pw6.57 | 8pw6.58 | 8pw6.59 | 8pw6.60 | 8pw6.61 | 8pw6.66 | 8pw6.67 | 8pw6.68 | 8pw6.69 | 8pw6.70 | 8pw6.71 | 8pw6.72 | 8pw6.73 | 8pw6.74 | 8pw6.75 | 8pw6.76 | 8pw6.77 | 8pw6.78 | 8pw6.79 | 8pw7.36 | 8pw7.45 | 8pw7.53 | 8pw7.54 | 8pw7.55 | 8pw7.56 | 8pw7.57 | 8pw7.58 | 8pw7.59 | 8pw7.60 | 8pw7.65 | 8pw7.66 | 8pw7.67 | 8pw7.68 | 8pw7.69 | 8pw7.70 | 8pw7.71 | 8pw7.72 | 8pw7.73 | 8pw7.74 | 8pw7.75 | 8pw7.76 | 8pw7.77 | 8pw7.78 | 8rgp.1 | 8rgq.1 | 8rgr.1 | 8rgt.1 | 8xnl.1 | 8xnm.1 | 8xnn.1 | 8xno.1 | 8xnp.1 | 8xnq.1 | 8xnr.1 | 8xns.1 | 8xnt.1 | 8xnu.1 | 8xnv.1 | 8xnw.1 | 8xnx.1 | 8xny.1 | 8xnz.1 | 8xo0.1