5ZCQ: Azide-bound cytochrome c oxidase structure determined using the crystals exposed to 10 mM azide solution for 2 days

PDB ID: 5ZCQDownload
MMDB ID: 165619
PDB Deposition Date: 2018/2/19
Updated in MMDB: 2023/11
Experimental Method:
x-ray diffraction
Resolution: 1.65  Å
Source Organism:
Similar Structures:
Biological Unit for 5ZCQ: tridecameric; determined by author
Molecular Components in 5ZCQ
Label Count Molecule
Proteins (13 molecules)
1
Cytochrome C Oxidase Subunit 1
Molecule annotation
1
Cytochrome C Oxidase Subunit 2
(Gene symbol: COX2)
Molecule annotation
1
Cytochrome C Oxidase Subunit 3
Molecule annotation
1
Cytochrome C Oxidase Subunit 4 Isoform 1, Mitochondrial
(Gene symbol: COX4I1)
Molecule annotation
1
Cytochrome C Oxidase Subunit 5A, Mitochondrial
(Gene symbol: COX5A)
Molecule annotation
1
Cytochrome C Oxidase Subunit 5B, Mitochondrial
(Gene symbol: COX5B)
Molecule annotation
1
Cytochrome C Oxidase Subunit 6a2, Mitochondrial
(Gene symbol: COX6A2)
Molecule annotation
1
Cytochrome C Oxidase Subunit 6B1
(Gene symbol: COX6B1)
Molecule annotation
1
Cytochrome C Oxidase Subunit 6C
(Gene symbol: MGC148714)
Molecule annotation
1
Cytochrome C Oxidase Subunit 7a1, Mitochondrial
(Gene symbol: COX7A1)
Molecule annotation
1
Cytochrome C Oxidase Subunit 7B, Mitochondrial
(Gene symbol: COX7B)
Molecule annotation
1
Cytochrome C Oxidase Subunit 7C, Mitochondrial
(Gene symbol: COX7C)
Molecule annotation
1
Cytochrome C Oxidase Subunit 8B, Mitochondrial
(Gene symbol: COX8B)
Molecule annotation
Chemicals and Non-standard biopolymers (69 molecules)
1
2
HEME-AHEME-A
2
1
COPPER (II) IONCOPPER (II) ION
3
1
MAGNESIUM IONMAGNESIUM ION
4
1
SODIUM IONSODIUM ION
5
2
AZIDE IONAZIDE ION
6
3
TRISTEAROYLGLYCEROLTRISTEAROYLGLYCEROL
7
5
(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE
8
32
1,2-ETHANEDIOL1,2-ETHANEDIOL
9
5
CHOLIC ACIDCHOLIC ACID
10
1
DINUCLEAR COPPER IONDINUCLEAR COPPER ION
11
1
(7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE(7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE
12
5
DECYL-BETA-D-MALTOPYRANOSIDEDECYL-BETA-D-MALTOPYRANOSIDE
13
1
Molecule information is not available.
14
3
CARDIOLIPINCARDIOLIPIN
15
5
(1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE(1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE
16
1
ZINC IONZINC ION
* 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