9F5Y image
Deposition Date 2024-04-30
Release Date 2025-03-12
Last Version Date 2025-04-02
Entry Detail
PDB ID:
9F5Y
Keywords:
MEMBRANE PROTEIN
Title:
Structure of the Chlamydomonas reinhardtii respiratory complex I from respiratory supercomplex
Biological Source:
Source Organism:
Chlamydomonas reinhardtii (Taxon ID: 3055)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
2.51 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
9F5Y validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH:ubiquinone oxidoreductase 24 kD subunit
Gene (Uniprot):CHLRE_10g450400v5
Chain IDs:A
Chain Length:282
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6V9B3 Pfam ID:PF01257
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial
Gene (Uniprot):CHLRE_10g422600v5
Chain IDs:B
Chain Length:172
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8ICJ1 Pfam ID:PF01512, PF22461, PF10589
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH:ubiquinone oxidoreductase 78 kDa subunit
Chain IDs:C
Chain Length:67
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8IVJ7
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH:ubiquinone oxidoreductase 30kDa subunit domain-containing protein
Gene (Uniprot):CHLRE_07g327400v5
Chain IDs:D
Chain Length:282
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8IHL3 Pfam ID:PF00329
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH:ubiquinone oxidoreductase 49 kD subunit
Gene (Uniprot):CHLRE_09g405850v5
Chain IDs:E
Chain Length:467
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6V9A8 Pfam ID:PF00346
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH:ubiquinone oxidoreductase subunit 10
Gene (Uniprot):CHLRE_12g492300v5
Chain IDs:F
Chain Length:65
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6V9B0 Pfam ID:PF01058
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH:ubiquinone oxidoreductase subunit 8
Gene (Uniprot):CHLRE_12g496750v5
Chain IDs:G
Chain Length:231
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6V9B1 Pfam ID:PF12838
Protein Blast
Polymer Type:polypeptide(L)
Molecule:B14.5a
Gene (Uniprot):CHLRE_12g484700v5
Chain IDs:H
Chain Length:142
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8JHV4
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial NADH:ubiquinone oxidoreductase 18 kDa subunit
Gene (Uniprot):CHLRE_13g568800v5
Chain IDs:I
Chain Length:165
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6UKY3 Pfam ID:PF04716
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Acyl carrier protein
Gene (Uniprot):CHLRE_16g673109v5
Chain IDs:J, RA (auth: r)
Chain Length:86
Number of Molecules:2
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6UKY4 Pfam ID:PF00550
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH:ubiquinone oxidoreductase B14 subunit
Gene (Uniprot):CHLRE_12g555250v5
Chain IDs:K
Chain Length:117
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6UKY9
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial
Chain IDs:L
Chain Length:187
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6UP29 Pfam ID:PF04800
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH:ubiquinone oxidoreductase 13 kD-like subunit
Gene (Uniprot):CHLRE_03g178250v5
Chain IDs:M
Chain Length:154
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6UP30
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12
Gene (Uniprot):CHLRE_11g467767v5
Chain IDs:N
Chain Length:156
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6UP31 Pfam ID:PF05071
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH:ubiquinone oxidoreductase B8 subunit
Gene (Uniprot):CHLRE_16g679500v5
Chain IDs:O
Chain Length:155
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6V9A9 Pfam ID:PF05047
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Putative NADH:ubiquinone oxidoreductase 39 kDa subunit
Gene (Uniprot):CHLRE_10g434450v5
Chain IDs:P
Chain Length:130
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6V506 Pfam ID:PF01370
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 1
Gene (Uniprot):ND1
Chain IDs:Q
Chain Length:197
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:P11658 Pfam ID:PF00146
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 2
Gene (Uniprot):ND2
Chain IDs:R
Chain Length:387
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:P08740 Pfam ID:PF00361
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 3
Gene (Uniprot):CHLRE_08g378900v5
Chain IDs:S
Chain Length:279
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6V502 Pfam ID:PF00507
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 4
Gene (Uniprot):ND4
Chain IDs:T
Chain Length:443
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:P20113 Pfam ID:PF00361
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase subunit 4L
Gene (Uniprot):CHLRE_09g402552v5
Chain IDs:U
Chain Length:227
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q84K56 Pfam ID:PF00420
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 5
Gene (Uniprot):ND5
Chain IDs:V
Chain Length:546
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:P08739 Pfam ID:PF00662, PF00361
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 6
Gene (Uniprot):ND6
Chain IDs:W
Chain Length:109
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:P10329 Pfam ID:PF00499
Protein Blast
Polymer Type:polypeptide(L)
Molecule:ASHI
Gene (Uniprot):CHLRE_01g007850v5
Chain IDs:X
Chain Length:157
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8JCW1
Protein Blast
Polymer Type:polypeptide(L)
Molecule:P9
Gene (Uniprot):CHLRE_03g206450v5
Chain IDs:Y
Chain Length:118
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A0A2K3DYZ8
Protein Blast
Polymer Type:polypeptide(L)
Molecule:KFYI
Gene (Uniprot):CHLRE_17g725400v5
Chain IDs:Z
Chain Length:124
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8J6N0
Protein Blast
Polymer Type:polypeptide(L)
Molecule:AGGG
Gene (Uniprot):CHLRE_09g405450v5
Chain IDs:AA (auth: a)
Chain Length:282
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8J815
Protein Blast
Polymer Type:polypeptide(L)
Molecule:ESSS
Gene (Uniprot):CHLRE_05g240800v5
Chain IDs:BA (auth: b)
Chain Length:172
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8J843
Protein Blast
Polymer Type:polypeptide(L)
Molecule:B9
Gene (Uniprot):CHLRE_12g537050v5
Chain IDs:CA (auth: c)
Chain Length:67
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8IVG9
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial NADH:ubiquinone oxidoreductase 10 kDa subunit
Gene (Uniprot):CHLRE_13g571150v5
Chain IDs:DA (auth: d)
Chain Length:282
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6QAY2
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial NADH:ubiquinone oxidoreductase 23 kDa subunit
Gene (Uniprot):CHLRE_14g617826v5
Chain IDs:EA (auth: e)
Chain Length:467
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6QAY4 Pfam ID:PF02466
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial NADH:ubiquinone oxidoreductase 7.5 kDa subunit
Gene (Uniprot):CHLRE_10g459750v5
Chain IDs:FA (auth: f)
Chain Length:65
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6QIV4 Pfam ID:PF15879
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial putative NADH:ubiquinone oxidoreductase 6.5 kDa subunit
Gene (Uniprot):CHLRE_05g244901v5
Chain IDs:GA (auth: g)
Chain Length:231
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6QIV8 Pfam ID:PF08122
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial NADH:ubiquinone oxidoreductase 13 kDa subunit
Gene (Uniprot):CHLRE_03g204650v5
Chain IDs:HA (auth: h)
Chain Length:142
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6QIV9
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH:ubiquinone oxidoreductase 15 kDa subunit-like
Gene (Uniprot):CHLRE_12g511200v5
Chain IDs:IA (auth: i)
Chain Length:165
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6TH88 Pfam ID:PF10200
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7
Gene (Uniprot):CHLRE_06g278188v5
Chain IDs:JA (auth: j)
Chain Length:86
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6UKY7 Pfam ID:PF05676
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9
Gene (Uniprot):CHLRE_11g467668v5
Chain IDs:KA (auth: k)
Chain Length:117
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6UKY8 Pfam ID:PF05347
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH:ubiquinone oxidoreductase 20,9 kD-like subunit
Gene (Uniprot):CHLRE_06g267200v5
Chain IDs:LA (auth: l)
Chain Length:187
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6UP28 Pfam ID:PF10785
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13
Gene (Uniprot):CHLRE_16g664600v5
Chain IDs:MA (auth: m)
Chain Length:154
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6UP32 Pfam ID:PF06212
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Putative NADH:ubiquinone oxidoreductase 12.5 kDa subunit
Gene (Uniprot):CHLRE_07g333900v5
Chain IDs:NA (auth: n)
Chain Length:156
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6V504
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Putative NADH:ubiquinone oxidoreductase 17.8 kDa subunit
Gene (Uniprot):CHLRE_12g555150v5
Chain IDs:OA (auth: o)
Chain Length:155
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6V505
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial NADH:ubiquinone oxidoreductase 16 kDa subunit
Gene (Uniprot):CHLRE_08g378050v5
Chain IDs:PA (auth: p)
Chain Length:130
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6QAY0
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial NADH:ubiquinone oxidoreductase 19 kDa subunit
Gene (Uniprot):CHLRE_02g100200v5
Chain IDs:QA (auth: q)
Chain Length:197
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6QAY1
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial NADH:ubiquinone oxidoreductase 32 kDa subunit
Gene (Uniprot):Gclp1
Chain IDs:SA (auth: s)
Chain Length:279
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6S7R7 Pfam ID:PF00132
Protein Blast
Polymer Type:polypeptide(L)
Molecule:CAG2 - CA-like
Gene (Uniprot):CHLRE_06g293850v5
Chain IDs:TA (auth: t)
Chain Length:443
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8JFK6
Protein Blast
Polymer Type:polypeptide(L)
Molecule:CAG1
Gene (Uniprot):CHLRE_12g516450v5
Chain IDs:UA (auth: u)
Chain Length:227
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8JHY4 Pfam ID:PF00132
Polymer Type:polypeptide(L)
Molecule:P10
Chain IDs:VA (auth: v)
Chain Length:546
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial NADH:ubiquinone oxidoreductase 9 kDa subunit
Chain IDs:WA (auth: w)
Chain Length:109
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:Q6QAY5
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NUOP8
Gene (Uniprot):CHLRE_16g683150v5
Chain IDs:XA (auth: x)
Chain Length:157
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8IS53
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NUOP7
Gene (Uniprot):CHLRE_11g467640v5
Chain IDs:YA (auth: y)
Chain Length:118
Number of Molecules:1
Biological Source:Chlamydomonas reinhardtii
UniProt ID:A8JA22
Ligand Molecules
3PH
8Q1
CDL
COO
FES
FMN
NDP
PC7
PGT
PTY
SF4
UQ5
ZN
Primary Citation
In-cell architecture of the mitochondrial respiratory chain.
Science 387 1296 1301 (2025)
PMID: 40112058 DOI: 10.1126/science.ads8738

Abstact

Mitochondria regenerate adenosine triphosphate (ATP) through oxidative phosphorylation. This process is carried out by five membrane-bound complexes collectively known as the respiratory chain, working in concert to transfer electrons and pump protons. The precise organization of these complexes in native cells is debated. We used in situ cryo-electron tomography to visualize the native structures and organization of several major mitochondrial complexes in Chlamydomonas reinhardtii cells. ATP synthases and respiratory complexes segregate into curved and flat crista membrane domains, respectively. Respiratory complexes I, III, and IV assemble into a respirasome supercomplex, from which we determined a native 5-angstrom (Å) resolution structure showing binding of electron carrier cytochrome c. Combined with single-particle cryo-electron microscopy at 2.4-Å resolution, we model how the respiratory complexes organize inside native mitochondria.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
9F5Y