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- PDB-5j7y: Architecture of loose respirasome -

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Database: PDB / ID: 5j7y
TitleArchitecture of loose respirasome
Components
  • (COMPLEX I B14. ...) x 2
  • (COMPLEX I SDAP/NDUFAB1) x 3
  • (COMPLEX I UNKNOWN SUBUNIT FRAGMENT ...) x 12
  • (COMPLEX III SUBUNIT ...Coenzyme Q – cytochrome c reductase) x 7
  • (Cytochrome b-c1 complex subunit Rieske, ...) x 2
  • (Cytochrome c oxidase subunit ...) x 5
  • COMPLEX I 13KDA/NDUFS6
  • COMPLEX I 15KDA/NDUFS5
  • COMPLEX I 18KDA/NDUFS6
  • COMPLEX I 24KDA/NDUFV2
  • COMPLEX I 30KDA/NDUFS3
  • COMPLEX I 39KDA/NDUFA9
  • COMPLEX I 42KDA/NDUFA10
  • COMPLEX I 49KDA/NDUFS2
  • COMPLEX I 51KDA/NDUFV1
  • COMPLEX I 75KDA/NDUFS1
  • COMPLEX I B13/NDUFA5
  • COMPLEX I B14/NDUFA6
  • COMPLEX I B15/NDUFB4
  • COMPLEX I B16.6/NDUFA13
  • COMPLEX I B17.2/NDUFA12
  • COMPLEX I B18/NDUFB7
  • COMPLEX I B22/NDUFB9
  • COMPLEX I B8/NDUFA2
  • COMPLEX I B9/NDUFA3
  • COMPLEX I ESSS/NDUFB11
  • COMPLEX I KFYI/NDUFC1
  • COMPLEX I MWFE/NDUFA1
  • COMPLEX I ND1
  • COMPLEX I ND2
  • COMPLEX I ND3
  • COMPLEX I ND4
  • COMPLEX I ND4L
  • COMPLEX I ND5
  • COMPLEX I ND6
  • COMPLEX I PDSW/NDUFB10
  • COMPLEX I PGIV/NDUFA8
  • COMPLEX I PSST/NDUFS7
  • COMPLEX I TYKY/NDUFS8
  • COMPLEX IV COX4
  • COMPLEX IV COX5A
  • COMPLEX IV COX5B
  • COMPLEX IV COX6B1
  • COMPLEX IV COX6C
  • COMPLEX IV COX7B
  • COMPLEX IV COX7C
  • COMPLEX IV COX8B
  • Cytochrome b-c1 complex subunit 6
  • Cytochrome b
KeywordsMEMBRANE PROTEIN / Mitochondrial supercomplex / NADH-ubiquinone oxidoreductase / coenzyme Q-cytochrome c Oxidoreductase / cytochrome c oxidase / respirasome / membrane protein
Function / homologyCytochrome c oxidase subunit I domain / Di-haem cytochrome, transmembrane / Single alpha-helix domain superfamily / Cytochrome b/b6-like domain superfamily / Cytochrome c oxidase subunit III / Cytochrome c oxidase-like, subunit I domain / Cytochrome c oxidase, subunit I, copper-binding site / Cytochrome C oxidase, subunit VIIB domain superfamily / Ubiquinol-cytochrome C reductase hinge domain / Cytochrome c1, transmembrane anchor, C-terminal ...Cytochrome c oxidase subunit I domain / Di-haem cytochrome, transmembrane / Single alpha-helix domain superfamily / Cytochrome b/b6-like domain superfamily / Cytochrome c oxidase subunit III / Cytochrome c oxidase-like, subunit I domain / Cytochrome c oxidase, subunit I, copper-binding site / Cytochrome C oxidase, subunit VIIB domain superfamily / Ubiquinol-cytochrome C reductase hinge domain / Cytochrome c1, transmembrane anchor, C-terminal / Cytochrome c oxidase, subunit Vb, zinc binding site / Cytochrome c oxidase, subunit VIa, conserved site / Rieske [2Fe-2S] iron-sulphur domain / Ubiquinol-cytochrome c reductase 8kDa, N-terminal / Insulinase (Peptidase family M16) / Cytochrome b-c1 complex subunit 10 / Rieske iron-sulphur protein / Cytochrome c oxidase, subunit II / Cytochrome c oxidase, subunit III, 4-helical bundle / Cytochrome c oxidase subunit IV / Peptidase M16, N-terminal / Cytochrome C oxidase subunit II, transmembrane domain / Metalloenzyme, LuxS/M16 peptidase-like / Globular protein, non-globular alpha/beta subunit / Cytochrome c-like domain / Cupredoxin / Cytochrome C oxidase, subunit VIIB / Cytochrome b / Cytochrome c oxidase subunit III domain / Peptidase M16, C-terminal / Cytochrome b-c1 complex subunit 9 superfamily / Cytochrome C oxidase subunit II, periplasmic domain / Cytochrome C and Quinol oxidase polypeptide I / Cytochrome b/b6/petB / Cytochrome b(C-terminal)/b6/petD / Cytochrome c oxidase subunit VII / Mitochondrial cytochrome c oxidase subunit VIc/VIIs superfamily / Cytochrome bc1 complex subunit Rieske, transmembrane domain superfamily / Cytochrome c oxidase, subunit Vb superfamily / Cytochrome c oxidase-like, subunit I superfamily / Rieske [2Fe-2S] iron-sulphur domain superfamily / Cytochrome c-like domain superfamily / Ubiquinol-cytochrome C reductase hinge domain superfamily / Cytochrome b-c1 complex subunit 8 superfamily / Cytochrome c oxidase subunit 2, C-terminal / Cytochrome c oxidase subunit IV superfamily / Cytochrome c oxidase subunit VIIc superfamily / Cytochrome c oxidase, subunit VIb superfamily / Cytochrome c oxidase, subunit 8 superfamily / Cytochrome c oxidase, subunit Va/VI superfamily / Cytochrome b-c1 complex subunit 7 superfamily / Cytochrome c oxidase, subunit VIIa superfamily / Cytochrome c oxidase, subunit VIa superfamily / Cytochrome C oxidase subunit II, transmembrane domain superfamily / Cytochrome b/b6, C-terminal domain superfamily / Cytochrome c oxidase subunit III-like superfamily / Mitochondrial cytochrome c oxidase subunit VIc/VIIs / Cytochrome b-c1 complex subunit 9 / Ubiquinol-cytochrome c reductase, iron-sulphur subunit / Cytochrome c oxidase subunit III / Ubiquinol-cytochrome c reductase 8 kDa, N-terminal / Ubiquinol-cytochrome C reductase hinge protein / Cytochrome C oxidase subunit II, transmembrane domain / Ubiquinol cytochrome reductase transmembrane region / Cytochrome c oxidase subunit VIIc / Cytochrome c oxidase subunit IV / Cytochrome c oxidase subunit VIc / UcrQ family / Peptidase M16 inactive domain / Ubiquinol-cytochrome C reductase, UQCRX/QCR9 like / Cytochrome C oxidase chain VIIB / Ubiquinol-cytochrome C reductase complex, 6.4kD protein / Heme-copper oxidase catalytic subunit, copper B binding region signature. / Rieske iron-sulphur protein, C-terminal / Insulinase family, zinc-binding region signature. / Cytochrome c oxidase subunit Vb, zinc binding region signature. / Cytochrome c oxidase subunit VIa signature. / Heme-copper oxidase subunit III family profile. / Cytochrome oxidase subunit I profile. / Cytochrome oxidase subunit II copper A binding domain profile. / Cytochrome oxidase subunit II transmembrane region profile. / Cytochrome b/b6 N-terminal region profile. / Cytochrome b/b6 C-terminal region profile. / Cytochrome c family profile. / Rieske [2Fe-2S] iron-sulfur domain profile. / Cytochrome c oxidase subunit Vb, zinc binding domain profile. / Cytochrome oxidase c subunit VIb / Cytochrome oxidase c subunit VIII / Cytochrome c oxidase subunit Va / Cytochrome c oxidase subunit VIIa, metazoa / Cytochrome b/b6, C-terminal / Cytochrome b/b6, N-terminal / Cytochrome b-c1 complex subunit 8 / Cytochrome c oxidase subunit 6C / Cytochrome c oxidase subunit IV family / Cytochrome c oxidase subunit VIIc / Cytochrome b-c1 complex subunit Rieske, transmembrane domain / Cytochrome b-c1 complex, subunit 6 / Cytochrome c oxidase, subunit VIb / Cytochrome c oxidase, subunit 8
Function and homology information
Specimen sourceOvis aries (sheep)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / 6.7 Å resolution
AuthorsLetts, J.A. / Fiedorczuk, F. / Sazanov, L.A.
Funding supportUnited Kingdom , 1 items
OrganizationGrant numberCountry
Medical Research Council (United Kingdom)MC_U105674180United Kingdom
CitationJournal: Nature / Year: 2016
Title: The architecture of respiratory supercomplexes.
Authors: James A Letts / Karol Fiedorczuk / Leonid A Sazanov
Validation Report
SummaryFull reportAbout validation report
DateDeposition: Apr 7, 2016 / Release: Sep 21, 2016
RevisionDateData content typeGroupCategoryItemProviderType
1.0Sep 21, 2016Structure modelrepositoryInitial release
1.1Oct 5, 2016Structure modelDatabase references
1.2Jun 28, 2017Structure modelStructure summaryentity / struct_keywords_entity.pdbx_description / _struct_keywords.text
1.3Aug 2, 2017Structure modelData collection / Structure summaryem_software / entity_em_software.name / _entity.pdbx_description

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Assembly

Deposited unit
A: COMPLEX I ND3
B: COMPLEX I PSST/NDUFS7
C: COMPLEX I 30KDA/NDUFS3
D: COMPLEX I 49KDA/NDUFS2
E: COMPLEX I 24KDA/NDUFV2
F: COMPLEX I 51KDA/NDUFV1
G: COMPLEX I 75KDA/NDUFS1
H: COMPLEX I ND1
I: COMPLEX I TYKY/NDUFS8
J: COMPLEX I ND6
K: COMPLEX I ND4L
L: COMPLEX I ND5
M: COMPLEX I ND4
N: COMPLEX I ND2
O: COMPLEX I 18KDA/NDUFS6
P: COMPLEX I 13KDA/NDUFS6
Q: COMPLEX I 15KDA/NDUFS5
R: COMPLEX I MWFE/NDUFA1
S: COMPLEX I B8/NDUFA2
T: COMPLEX I B9/NDUFA3
U: COMPLEX I B13/NDUFA5
V: COMPLEX I B14/NDUFA6
W: COMPLEX I PGIV/NDUFA8
X: COMPLEX I 39KDA/NDUFA9
Y: COMPLEX I 42KDA/NDUFA10
Z: COMPLEX I B14.7/NDUFA11
a: COMPLEX I B17.2/NDUFA12
b: COMPLEX I B16.6/NDUFA13
c: COMPLEX I SDAP/NDUFAB1
d: COMPLEX I B8/NDUFA2
e: COMPLEX I SDAP/NDUFAB1
f: COMPLEX I SDAP/NDUFAB1
g: COMPLEX I B15/NDUFB4
h: COMPLEX I B18/NDUFB7
i: COMPLEX I B22/NDUFB9
j: COMPLEX I PDSW/NDUFB10
k: COMPLEX I ESSS/NDUFB11
0: COMPLEX I KFYI/NDUFC1
1: COMPLEX I B14.5B/NDUFC2
2: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 1
3: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 2
4: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 2
5: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 3
6: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 4
7: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 5
8: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 6
9: COMPLEX I B18/NDUFB7
z: COMPLEX I B18/NDUFB7
y: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 11
x: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 12
w: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 13
v: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 14
u: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 15
t: COMPLEX I UNKNOWN SUBUNIT FRAGMENT 16
AA: COMPLEX III SUBUNIT 1 / CORE 1
AB: COMPLEX III SUBUNIT 2 / CORE 2
AC: Cytochrome b
AD: COMPLEX III SUBUNIT 4 / CYTOCHROME C1
AE: Cytochrome b-c1 complex subunit Rieske, mitochondrial
AF: COMPLEX III SUBUNIT 7 / 14KDA
AG: COMPLEX III SUBUNIT 8 / QP-C
AH: Cytochrome b-c1 complex subunit 6
AI: Cytochrome b-c1 complex subunit Rieske, mitochondrial
AJ: COMPLEX III SUBUNIT 9 / 7.2KDA
AK: COMPLEX III SUBUNIT 10 / 6.4KDA
AL: COMPLEX III SUBUNIT 1 / CORE 1
AM: COMPLEX III SUBUNIT 2 / CORE 2
AN: Cytochrome b
AO: COMPLEX III SUBUNIT 4 / CYTOCHROME C1
AP: Cytochrome b-c1 complex subunit Rieske, mitochondrial
AQ: COMPLEX III SUBUNIT 7 / 14KDA
AR: COMPLEX III SUBUNIT 8 / QP-C
AS: Cytochrome b-c1 complex subunit 6
AT: Cytochrome b-c1 complex subunit Rieske, mitochondrial
AU: COMPLEX III SUBUNIT 9 / 7.2KDA
AV: COMPLEX III SUBUNIT 10 / 6.4KDA
BN: Cytochrome c oxidase subunit 1
BO: Cytochrome c oxidase subunit 2
BC: Cytochrome c oxidase subunit 3
BD: COMPLEX IV COX4
BE: COMPLEX IV COX5A
BP: COMPLEX IV COX5B
BG: Cytochrome c oxidase subunit 6A, mitochondrial
BH: COMPLEX IV COX6B1
BI: COMPLEX IV COX6C
BJ: Cytochrome c oxidase subunit 7A1, mitochondrial
BK: COMPLEX IV COX7B
BL: COMPLEX IV COX7C
BM: COMPLEX IV COX8B
hetero molecules


Theoretical massNumber of molelcules
Total (without water)1,284,763109
Polyers1,276,35489
Non-polymers8,40820
Water0
1


  • idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1

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Components

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Protein/peptide , 46 types, 51 molecules ABCDEFGHIJKLMNOPQRSdTUVWXYabce...

#1: Protein/peptide COMPLEX I ND3


Mass: 8698.714 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#2: Protein/peptide COMPLEX I PSST/NDUFS7


Mass: 13196.322 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#3: Protein/peptide COMPLEX I 30KDA/NDUFS3


Mass: 16528.332 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#4: Protein/peptide COMPLEX I 49KDA/NDUFS2


Mass: 32698.209 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#5: Protein/peptide COMPLEX I 24KDA/NDUFV2


Mass: 16174.965 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#6: Protein/peptide COMPLEX I 51KDA/NDUFV1


Mass: 36600.117 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#7: Protein/peptide COMPLEX I 75KDA/NDUFS1


Mass: 55757.980 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#8: Protein/peptide COMPLEX I ND1


Mass: 25294.037 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#9: Protein/peptide COMPLEX I TYKY/NDUFS8


Mass: 14715.244 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#10: Protein/peptide COMPLEX I ND6


Mass: 14570.941 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#11: Protein/peptide COMPLEX I ND4L


Mass: 7932.770 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#12: Protein/peptide COMPLEX I ND5


Mass: 48953.438 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#13: Protein/peptide COMPLEX I ND4


Mass: 38740.727 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#14: Protein/peptide COMPLEX I ND2


Mass: 29379.080 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#15: Protein/peptide COMPLEX I 18KDA/NDUFS6


Mass: 8868.924 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#16: Protein/peptide COMPLEX I 13KDA/NDUFS6


Mass: 7251.930 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#17: Protein/peptide COMPLEX I 15KDA/NDUFS5


Mass: 5634.938 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#18: Protein/peptide COMPLEX I MWFE/NDUFA1


Mass: 2486.056 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#19: Protein/peptide COMPLEX I B8/NDUFA2


Mass: 6826.406 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#20: Protein/peptide COMPLEX I B9/NDUFA3


Mass: 4528.573 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#21: Protein/peptide COMPLEX I B13/NDUFA5


Mass: 8188.084 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#22: Protein/peptide COMPLEX I B14/NDUFA6


Mass: 9549.763 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#23: Protein/peptide COMPLEX I PGIV/NDUFA8


Mass: 8783.818 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#24: Protein/peptide COMPLEX I 39KDA/NDUFA9


Mass: 26315.285 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#25: Protein/peptide COMPLEX I 42KDA/NDUFA10


Mass: 27421.645 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#27: Protein/peptide COMPLEX I B17.2/NDUFA12


Mass: 9464.658 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#28: Protein/peptide COMPLEX I B16.6/NDUFA13


Mass: 7847.665 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#29: Protein/peptide COMPLEX I SDAP/NDUFAB1


Mass: 6741.301 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#30: Protein/peptide COMPLEX I SDAP/NDUFAB1


Mass: 4698.783 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#31: Protein/peptide COMPLEX I SDAP/NDUFAB1


Mass: 5039.203 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#32: Protein/peptide COMPLEX I B15/NDUFB4


Mass: 11081.651 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#33: Protein/peptide COMPLEX I B18/NDUFB7


Mass: 5379.623 Da / Num. of mol.: 3 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#34: Protein/peptide COMPLEX I B22/NDUFB9


Mass: 5975.357 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#35: Protein/peptide COMPLEX I PDSW/NDUFB10


Mass: 3762.629 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#36: Protein/peptide COMPLEX I ESSS/NDUFB11


Mass: 7081.720 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#37: Protein/peptide COMPLEX I KFYI/NDUFC1


Mass: 3081.790 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#53: Protein/peptide Cytochrome b / / Complex III subunit 3 / Complex III subunit III / Cytochrome b-c1 complex subunit 3 / Ubiquinol-cytochrome-c reductase complex cytochrome b subunit


Mass: 42684.602 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: P24959
#58: Protein/peptide Cytochrome b-c1 complex subunit 6 / Complex III subunit 6 / Mitochondrial hinge protein


Mass: 7920.902 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: B9VH04
#65: Protein/peptide COMPLEX IV COX4


Mass: 16899.340 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5PPE8
#66: Protein/peptide COMPLEX IV COX5A


Mass: 12083.727 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5NXT8
#67: Protein/peptide COMPLEX IV COX5B


Mass: 10670.012 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5PW27
#69: Protein/peptide COMPLEX IV COX6B1


Mass: 9411.600 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5P4E7
#70: Protein/peptide COMPLEX IV COX6C


Mass: 8466.968 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5PXG3
#72: Protein/peptide COMPLEX IV COX7B


Mass: 5461.107 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5QE72
#73: Protein/peptide COMPLEX IV COX7C


Mass: 5362.319 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5Q6E1
#74: Protein/peptide COMPLEX IV COX8B


Mass: 4738.523 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5PFK9

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COMPLEX I B14. ... , 2 types, 2 molecules Z1

#26: Protein/peptide COMPLEX I B14.7/NDUFA11


Mass: 10145.497 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#38: Protein/peptide COMPLEX I B14.5B/NDUFC2


Mass: 2571.161 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion

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COMPLEX I UNKNOWN SUBUNIT FRAGMENT ... , 12 types, 13 molecules 2345678yxwvut

#39: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 1


Mass: 3252.000 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#40: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 2


Mass: 2400.951 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#41: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 3


Mass: 2911.580 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#42: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 4


Mass: 1805.216 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#43: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 5


Mass: 3337.105 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#44: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 6


Mass: 2315.846 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#45: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 11


Mass: 3932.839 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#46: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 12


Mass: 1124.378 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#47: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 13


Mass: 2060.531 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#48: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 14


Mass: 1549.902 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#49: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 15


Mass: 1379.692 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion
#50: Protein/peptide COMPLEX I UNKNOWN SUBUNIT FRAGMENT 16


Mass: 1039.273 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion

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COMPLEX III SUBUNIT ... , 7 types, 14 molecules AAALABAMADAOAFAQAGARAJAUAKAV

#51: Protein/peptide COMPLEX III SUBUNIT 1 / CORE 1 / Coenzyme Q – cytochrome c reductase


Mass: 49385.414 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5Q5G6
#52: Protein/peptide COMPLEX III SUBUNIT 2 / CORE 2 / Coenzyme Q – cytochrome c reductase


Mass: 45189.773 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5Q0F9
#54: Protein/peptide COMPLEX III SUBUNIT 4 / CYTOCHROME C1 / Coenzyme Q – cytochrome c reductase


Mass: 27323.277 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5Q0A9
#56: Protein/peptide COMPLEX III SUBUNIT 7 / 14KDA / Coenzyme Q – cytochrome c reductase


Mass: 12949.756 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5P642
#57: Protein/peptide COMPLEX III SUBUNIT 8 / QP-C / Coenzyme Q – cytochrome c reductase


Mass: 8884.331 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5PUP9
#60: Protein/peptide COMPLEX III SUBUNIT 9 / 7.2KDA / Coenzyme Q – cytochrome c reductase


Mass: 6937.975 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5P6B2
#61: Protein/peptide COMPLEX III SUBUNIT 10 / 6.4KDA / Coenzyme Q – cytochrome c reductase


Mass: 5932.946 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5PSD1

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Cytochrome b-c1 complex subunit Rieske, ... , 2 types, 4 molecules AEAPAIAT

#55: Protein/peptide Cytochrome b-c1 complex subunit Rieske, mitochondrial


Mass: 21654.607 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5P2X9, quinol-cytochrome-c reductase
#59: Protein/peptide Cytochrome b-c1 complex subunit Rieske, mitochondrial


Mass: 5824.802 Da / Num. of mol.: 2 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5P2X9, quinol-cytochrome-c reductase

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Cytochrome c oxidase subunit ... , 5 types, 5 molecules BNBOBCBGBJ

#62: Protein/peptide Cytochrome c oxidase subunit 1 / / Cytochrome c oxidase polypeptide I


Mass: 57075.859 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: O78749, cytochrome-c oxidase
#63: Protein/peptide Cytochrome c oxidase subunit 2 / / Cytochrome c oxidase polypeptide II


Mass: 26015.426 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: O78750
#64: Protein/peptide Cytochrome c oxidase subunit 3 / / Cytochrome c oxidase polypeptide III


Mass: 29655.195 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: O21619
#68: Protein/peptide Cytochrome c oxidase subunit 6A, mitochondrial / / Cytochrome c oxidase polypeptide VIa


Mass: 9538.775 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5PI52
#71: Protein/peptide Cytochrome c oxidase subunit 7A1, mitochondrial /


Mass: 6535.508 Da / Num. of mol.: 1 / Source: (natural) Ovis aries (sheep) / Organ: HEART / Organelle: MITOCHONDRIAMitochondrion / References: UniProt: W5P5H0

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Non-polymers , 6 types, 20 molecules

#75: Chemical
ChemComp-SF4 / IRON/SULFUR CLUSTER


Mass: 351.640 Da / Num. of mol.: 6 / Formula: Fe4S4 / Iron–sulfur cluster
#76: Chemical
ChemComp-FES / FE2/S2 (INORGANIC) CLUSTER


Mass: 175.820 Da / Num. of mol.: 4 / Formula: Fe2S2
#77: Chemical
ChemComp-HEM / PROTOPORPHYRIN IX CONTAINING FE / HEME


Mass: 616.487 Da / Num. of mol.: 6 / Formula: C34H32FeN4O4 / Heme
#78: Chemical ChemComp-CU / COPPER (II) ION


Mass: 63.546 Da / Num. of mol.: 1 / Formula: Cu / Copper
#79: Chemical ChemComp-HEA / HEME-A


Mass: 852.837 Da / Num. of mol.: 2 / Formula: C49H56FeN4O6 / Heme A
#80: Chemical ChemComp-CUA / DINUCLEAR COPPER ION


Mass: 127.092 Da / Num. of mol.: 1 / Formula: Cu2

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / Reconstruction method: single particle reconstruction

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Sample preparation

ComponentName: Loose respirasome / Type: COMPLEX
Entity ID: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76
Source: NATURAL
Molecular weightValue: 1.64 MDa / Experimental value: NO
Source (natural)Organ: Heart / Organelle: Mitochondria / Organism: Ovis aries (sheep)
Buffer solutionpH: 7.7
Buffer component
IDConc.NameFormulaBuffer ID
1100 mMSodium ChlorideNaCl1
220 mMHEPES1
30.1 %digitonin1
SpecimenConc.: 2 mg/ml / Details: Single particles dispersed in digitonin / Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
Specimen supportGrid material: COPPER / Grid mesh size: 300 / Grid type: Quantifoil R0.6/1
VitrificationInstrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE / Humidity: 100 % / Chamber temperature: 277 kelvins / Details: Blotted 32 seconds

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyMicroscope model: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELDBright-field microscopy / Nominal magnification: 47000 / Calibrated magnification: 81395 / Nominal defocus max: 5000 nm / Nominal defocus min: 1000 nm / Cs: 2.7 mm / C2 aperture diameter: 70 microns / Alignment procedure: COMA FREE
Specimen holderCryogen: NITROGEN / Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Image recordingAverage exposure time: 4 sec. / Electron dose: 34 e/Å2
Details: Images were collected in movie mode with 17 frames per second
Detector mode: INTEGRATING / Film or detector model: FEI FALCON II (4k x 4k) / Number of grids imaged: 3 / Number of real images: 1608
Image scansSampling size: 14 microns / Width: 4096 / Height: 4096 / Movie frames/image: 69 / Used frames/image: 1-32

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Processing

EM software
IDNameVersionCategory
1RELION1.4particle selection
4GctfCTF correction
7UCSF Chimeramodel fitting
8Cootmodel fitting
10RELION1.4initial Euler assignment
11RELION1.4final Euler assignment
12RELION1.4classification
13RELION1.43D reconstruction
14PHENIXmodel refinement
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Particle selectionNumber of particles selected: 67650
3D reconstructionResolution: 6.7 Å / Resolution method: FSC 0.143 CUT-OFF / Number of particles: 13910 / Symmetry type: POINT
Atomic model buildingRef protocol: BACKBONE TRACE / Ref space: REAL

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