ISDA: 8IBD

Deposition Date 2023-02-10

Release Date 2024-09-18

Last Version Date 2024-12-04

Entry Detail

PDB ID:

8IBD

Keywords:

ELECTRON TRANSPORT

Title:

Respiratory complex CI:CIII2, type II, Wild type mouse under cold temperature

Biological Source:

Source Organism(s):

Mus musculus (Taxon ID: 10090)

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

4.20 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):mt-Nd3
Chain IDs:A
Chain Length:115
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:P03899 Pfam ID:PF00507

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):Uqcrc1
Chain IDs:TA (auth: AA), EB (auth: Aa)
Chain Length:480
Number of Molecules:2
Biological Source:Mus musculus

UniProt ID:Q9CZ13 Pfam ID:PF00675, PF05193

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):Uqcrc2
Chain IDs:UA (auth: AB), FB (auth: Ab)
Chain Length:453
Number of Molecules:2
Biological Source:Mus musculus

UniProt ID:Q9DB77 Pfam ID:PF05193, PF00675

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cytochrome b
Gene (Uniprot):Mt-Cyb
Chain IDs:VA (auth: AC), GB (auth: Ac)
Chain Length:381
Number of Molecules:2
Biological Source:Mus musculus

UniProt ID:P00158 Pfam ID:PF00033, PF00032

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cytochrome c1, heme protein,
Gene (Uniprot):Cyc1
Chain IDs:WA (auth: AD), HB (auth: Ad)
Chain Length:325
Number of Molecules:2
Biological Source:Mus musculus

UniProt ID:Q9D0M3 Pfam ID:PF02167

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):Uqcrfs1
Chain IDs:XA (auth: AE), BB (auth: AI), IB (auth: Ae), MB (auth: Ai)
Chain Length:274
Number of Molecules:4
Biological Source:Mus musculus

UniProt ID:Q9CR68 Pfam ID:PF09165, PF02921, PF00355

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):Uqcrb
Chain IDs:YA (auth: AF), JB (auth: Af)
Chain Length:111
Number of Molecules:2
Biological Source:Mus musculus

UniProt ID:Q9CQB4 Pfam ID:PF02271

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):Uqcrq
Chain IDs:ZA (auth: AG), KB (auth: Ag)
Chain Length:82
Number of Molecules:2
Biological Source:Mus musculus

UniProt ID:Q9CQ69 Pfam ID:PF02939

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):Uqcrh
Chain IDs:AB (auth: AH), LB (auth: Ah)
Chain Length:89
Number of Molecules:2
Biological Source:Mus musculus

UniProt ID:P99028 Pfam ID:PF02320

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):Uqcr10
Chain IDs:CB (auth: AJ), NB (auth: Aj)
Chain Length:64
Number of Molecules:2
Biological Source:Mus musculus

UniProt ID:Q8R1I1 Pfam ID:PF05365

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):Uqcr11
Chain IDs:DB (auth: AK), OB (auth: Ak)
Chain Length:56
Number of Molecules:2
Biological Source:Mus musculus

UniProt ID:Q9CPX8 Pfam ID:PF08997

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufs7
Chain IDs:B
Chain Length:224
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9DC70 Pfam ID:PF01058

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufs3
Chain IDs:C
Chain Length:76
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9DCT2 Pfam ID:PF00329

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufs2
Chain IDs:D
Chain Length:463
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q91WD5 Pfam ID:PF00346

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufv2
Chain IDs:E
Chain Length:106
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9D6J6 Pfam ID:PF01257

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufv1
Chain IDs:F
Chain Length:464
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q91YT0 Pfam ID:PF01512, PF10589, PF22461

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):Ndufs1
Chain IDs:G
Chain Length:151
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q91VD9 Pfam ID:PF10588, PF09326, PF22151, PF22117, PF13510, PF00384

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):Mtnd1
Chain IDs:H
Chain Length:189
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:P03888 Pfam ID:PF00146

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufs8
Chain IDs:I
Chain Length:128
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q8K3J1 Pfam ID:PF12838

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):Mtnd6
Chain IDs:J
Chain Length:172
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:P03925 Pfam ID:PF00499

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):Mtnd4l
Chain IDs:K
Chain Length:104
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:P03903 Pfam ID:PF00420

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):Mtnd5
Chain IDs:L
Chain Length:186
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:P03921 Pfam ID:PF00662, PF00361, PF06455

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):Mtnd4
Chain IDs:M
Chain Length:459
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:P03911 Pfam ID:PF01059, PF00361

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):mt-Nd2
Chain IDs:N
Chain Length:179
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:P03893 Pfam ID:PF00361, PF06444

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa10
Chain IDs:O
Chain Length:355
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q99LC3 Pfam ID:PF01712

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa9
Chain IDs:P
Chain Length:176
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9DC69 Pfam ID:PF05368

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufs4
Chain IDs:Q
Chain Length:175
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CXZ1 Pfam ID:PF04800

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufs6
Chain IDs:R
Chain Length:116
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:P52503 Pfam ID:PF10276

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa2
Chain IDs:S
Chain Length:99
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CQ75 Pfam ID:PF05047

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Acyl carrier protein, mitocho
Gene (Uniprot):Ndufab1
Chain IDs:T, U
Chain Length:156
Number of Molecules:2
Biological Source:Mus musculus

UniProt ID:Q9CR21 Pfam ID:PF00550

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa5
Chain IDs:V
Chain Length:116
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CPP6 Pfam ID:PF04716

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa6
Chain IDs:W
Chain Length:131
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CQZ5 Pfam ID:PF13233

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa8
Chain IDs:X
Chain Length:172
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9DCJ5 Pfam ID:PF06747

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa11
Chain IDs:Y
Chain Length:143
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:G5E814 Pfam ID:PF02466

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa13
Chain IDs:Z
Chain Length:144
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9ERS2 Pfam ID:PF06212

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa1
Chain IDs:AA (auth: a)
Chain Length:115
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:O35683 Pfam ID:PF15879

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa3
Chain IDs:BA (auth: b)
Chain Length:224
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CQ91 Pfam ID:PF14987

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufc1
Chain IDs:CA (auth: c)
Chain Length:76
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CQY9 Pfam ID:PF15088

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufc2
Chain IDs:DA (auth: d)
Chain Length:463
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CQ54 Pfam ID:PF06374

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufs5
Chain IDs:EA (auth: e)
Chain Length:106
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q99LY9 Pfam ID:PF10200

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufb1
Chain IDs:FA (auth: f)
Chain Length:464
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:P0DN34 Pfam ID:PF08040

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufb11
Chain IDs:GA (auth: g)
Chain Length:151
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:O09111 Pfam ID:PF10183

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufb5
Chain IDs:HA (auth: h)
Chain Length:189
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CQH3 Pfam ID:PF09781

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufb6
Chain IDs:IA (auth: i)
Chain Length:128
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q3UIU2 Pfam ID:PF09782

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufb2
Chain IDs:JA (auth: j)
Chain Length:172
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CPU2 Pfam ID:PF14813

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufb3
Chain IDs:KA (auth: k)
Chain Length:104
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CQZ6 Pfam ID:PF08122

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufb8
Chain IDs:LA (auth: l)
Chain Length:186
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9D6J5 Pfam ID:PF05821

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufb4
Chain IDs:MA (auth: m)
Chain Length:459
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CQC7 Pfam ID:PF07225

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufb9
Chain IDs:NA (auth: n)
Chain Length:179
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CQJ8 Pfam ID:PF05347

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufb7
Chain IDs:OA (auth: o)
Chain Length:355
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9CR61 Pfam ID:PF05676

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufb10
Chain IDs:PA (auth: p)
Chain Length:176
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9DCS9 Pfam ID:PF10249

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa12
Chain IDs:QA (auth: q)
Chain Length:175
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q7TMF3 Pfam ID:PF05071

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufa7
Chain IDs:RA (auth: r)
Chain Length:116
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q9Z1P6 Pfam ID:PF07347

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):Ndufv3
Chain IDs:SA (auth: s)
Chain Length:99
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q8BK30 Pfam ID:PF15880

Ligand Molecules

3PE

3PH

ADP

CDL

EHZ

FES

FMN

HEC

HEM

NDP

PC1

SF4

U10

UQ1

UQ6

UQ9

Primary Citation

Structural basis of respiratory complex adaptation to cold temperatures.

Shin, Y.C, Latorre-Muro, P, Djurabekova, A, Zdorevskyi, O, Bennett, C.F, Burger, N, Song, K, Xu, C, Paulo, J.A, Gygi, S.P, Sharma, V, Liao, M, Puigserver, P.Show

Cell 187 6584 ? (2024)

PMID: 39395414 DOI: 10.1016/j.cell.2024.09.029

Abstact

In response to cold, mammals activate brown fat for respiratory-dependent thermogenesis reliant on the electron transport chain. Yet, the structural basis of respiratory complex adaptation upon cold exposure remains elusive. Herein, we combined thermoregulatory physiology and cryoelectron microscopy (cryo-EM) to study endogenous respiratory supercomplexes from mice exposed to different temperatures. A cold-induced conformation of CI:III2 (termed type 2) supercomplex was identified with a ∼25° rotation of CIII2 around its inter-dimer axis, shortening inter-complex Q exchange space, and exhibiting catalytic states that favor electron transfer. Large-scale supercomplex simulations in mitochondrial membranes reveal how lipid-protein arrangements stabilize type 2 complexes to enhance catalytic activity. Together, our cryo-EM studies, multiscale simulations, and biochemical analyses unveil the thermoregulatory mechanisms and dynamics of increased respiratory capacity in brown fat at the structural and energetic level.

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Protein

Chemical

Disease

Primary Citation of related structures

Abstact

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