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7DGR: Activity optimized supercomplex state2

PDB ID:	7DGR Download
MMDB ID:	215426
PDB Deposition Date:	2020/11/12
Updated in MMDB:	2022/05
Experimental Method:	electron microscopy
Resolution:	4.6 Å
Source Organism:	Bos taurus
Similar Structures:

Biological Unit for 7DGR: 80-meric; determined by author

Molecular Components in 7DGR
Label	Count	Molecule
Proteins (80 molecules)
9	1	Nadh Dehydrogenase [ubiquinone] Flavoprotein 2, Mitochondrial
4	1	Nadh-ubiquinone Oxidoreductase Chain 4
2	1	Nadh-ubiquinone Oxidoreductase Chain 2
7	1	Nadh-ubiquinone Oxidoreductase Chain 6
6	1	Nadh-ubiquinone Oxidoreductase Chain 5
5	1	Nadh-ubiquinone Oxidoreductase Chain 4L
3	1	Nadh-ubiquinone Oxidoreductase Chain 3
1	1	Nadh-ubiquinone Oxidoreductase Chain 1
8	1	Nadh Dehydrogenase [ubiquinone] Flavoprotein 1, Mitochondrial
A	1	Nadh-ubiquinone Oxidoreductase 75 KDA Subunit, Mitochondrial
B	1	Nadh Dehydrogenase [ubiquinone] Iron-sulfur Protein 2, Mitochondrial
C	1	Nadh Dehydrogenase [ubiquinone] Iron-sulfur Protein 3, Mitochondrial
D	1	Nadh Dehydrogenase [ubiquinone] Iron-sulfur Protein 7, Mitochondrial
E	1	Nadh Dehydrogenase [ubiquinone] Iron-sulfur Protein 8, Mitochondrial
F	1	Nadh Dehydrogenase [ubiquinone] Flavoprotein 3, Mitochondrial
G	1	Nadh Dehydrogenase [ubiquinone] Iron-sulfur Protein 4, Mitochondrial
H	1	Nadh Dehydrogenase [ubiquinone] Iron-sulfur Protein 5
I	1	Nadh Dehydrogenase [ubiquinone] Iron-sulfur Protein 6, Mitochondrial
J	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 1
K	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 2
L	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 3
N	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 5
O	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 6
P	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 7
Q	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 8
R	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 9, Mitochondrial
S	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 10, Mitochondrial
T	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 11
U	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 12
V	1	Nadh Dehydrogenase [ubiquinone] 1 Alpha Subcomplex Subunit 13
W M	2	Acyl Carrier Protein, Mitochondrial
X	1	Nadh Dehydrogenase [ubiquinone] 1 Beta Subcomplex Subunit 1
Y	1	Nadh Dehydrogenase [ubiquinone] 1 Beta Subcomplex Subunit 2, Mitochondrial
Z	1	Nadh Dehydrogenase [ubiquinone] 1 Beta Subcomplex Subunit 3
a	1	Nadh Dehydrogenase [ubiquinone] 1 Beta Subcomplex Subunit 4
b	1	Nadh Dehydrogenase [ubiquinone] 1 Beta Subcomplex Subunit 5, Mitochondrial
c	1	Nadh Dehydrogenase [ubiquinone] 1 Beta Subcomplex Subunit 6
d	1	Nadh Dehydrogenase [ubiquinone] 1 Beta Subcomplex Subunit 7
f	1	Nadh Dehydrogenase [ubiquinone] 1 Beta Subcomplex Subunit 9
h	1	Nadh Dehydrogenase [ubiquinone] 1 Beta Subcomplex Subunit 11, Mitochondrial
i	1	Nadh Dehydrogenase [ubiquinone] 1 Subunit C1, Mitochondrial
j	1	Nadh Dehydrogenase [ubiquinone] 1 Subunit C2
g	1	Nadh Dehydrogenase [ubiquinone] 1 Beta Subcomplex Subunit 10
e	1	Nadh Dehydrogenase [ubiquinone] 1 Beta Subcomplex Subunit 8, Mitochondrial
k w	2	Cytochrome B-c1 Complex Subunit 1, Mitochondrial
l x	2	Cytochrome B-c1 Complex Subunit 2, Mitochondrial
m y	2	Cytochrome B
o z	2	Cytochrome C1, Heme Protein, Mitochondrial
p A0	2	Cytochrome B-c1 Complex Subunit Rieske, Mitochondrial
q A1	2	Cytochrome B-c1 Complex Subunit 7
r A2	2	Cytochrome B-c1 Complex Subunit 8
s B3	2	Cytochrome B-c1 Complex Subunit 6, Mitochondrial
t A3	2	Cytochrome B-c1 Complex Subunit 10
u B2	2	Cytochrome B-c1 Complex Subunit 9
v B1	2	Cytochrome B-c1 Complex Subunit Rieske, Mitochondrial
A9	1	Cytochrome C Oxidase Subunit 1
C4	1	Cytochrome C Oxidase Subunit 2
C2	1	Cytochrome C Oxidase Subunit 3
A7	1	Cytochrome C Oxidase Subunit 4 Isoform 1, Mitochondrial
C0	1	Cytochrome C Oxidase Subunit 5A, Mitochondrial
A6	1	Cytochrome C Oxidase Subunit 5B, Mitochondrial
A4	1	Cytochrome C Oxidase Subunit 6a2, Mitochondrial
A5	1	Cytochrome C Oxidase Subunit 6B1
B4	1	Cytochrome C Oxidase Subunit 6C
C3	1	Cytochrome C Oxidase Subunit 7a1, Mitochondrial
B0	1	Cytochrome C Oxidase Subunit 7B, Mitochondrial
C1	1	Cytochrome C Oxidase Subunit 7C, Mitochondrial
A8	1	Cytochrome C Oxidase Subunit 8B, Mitochondrial
Chemicals and Non-standard biopolymers (37 molecules)
1	3	FE2/S2 (INORGANIC) CLUSTER (Link to PubChem not yet available)
2	4	1,2-Distearoyl-sn-glycerophosphoethanolamine (Link to PubChem not yet available)
3	3	CARDIOLIPIN (Link to PubChem not yet available)
4	5	1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE (Link to PubChem not yet available)
5	1	FLAVIN MONONUCLEOTIDE (Link to PubChem not yet available)
6	6	IRON/SULFUR CLUSTER (Link to PubChem not yet available)
7	2	ZINC ION (Link to PubChem not yet available)
8	1	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE (Link to PubChem not yet available)
9	4	PROTOPORPHYRIN IX CONTAINING FE (Link to PubChem not yet available)
10	2	HEME C (Link to PubChem not yet available)
11	2	HEME-A (Link to PubChem not yet available)
12	3	COPPER (II) ION (Link to PubChem not yet available)
13	1	MAGNESIUM ION (Link to PubChem not yet available)

* Click molecule labels to explore molecular sequence information.

Citing MMDB

Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303