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- PDB-5xtd: Cryo-EM structure of human respiratory complex I -

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Database: PDB / ID: 5xtd
TitleCryo-EM structure of human respiratory complex I
DescriptorAcyl carrier protein,mitochondrial
NADH-ubiquinone oxidoreductase 75 kDa subunit,mitochondrial
(NADH dehydrogenase [ubiquinone] flavoprotein ...) x 3
(NADH dehydrogenase [ubiquinone] iron-sulfur protein ...) x 7
(NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit ...) x 12
and more 3 items
KeywordsOXIDOREDUCTASE/ELECTRON TRANSPORT / Homo sapiens / Oxidoreductase / Respiratory / OXIDOREDUCTASE-ELECTRON TRANSPORT complex
Specimen sourceHomo sapiens / human
MethodElectron microscopy (3.7 Å resolution / Particle / Single particle)
AuthorsGu, J. / Wu, M. / Yang, M.
CitationCell, 2017, 170, 1247-1257.e12

Cell, 2017, 170, 1247-1257.e12 Yorodumi Papers
Architecture of Human Mitochondrial Respiratory Megacomplex I2III2IV2.
Runyu Guo / Shuai Zong / Meng Wu / Jinke Gu / Maojun Yang

Validation Report
SummaryFull reportAbout validation report
DateDeposition: Jun 19, 2017 / Release: Aug 30, 2017
RevisionDateData content typeGroupCategoryItemProviderType
1.0Aug 30, 2017Structure modelrepositoryInitial release
1.1Sep 6, 2017Structure modelDatabase referencescitation_citation.country / _citation.journal_abbrev / _citation.journal_id_ASTM / _citation.journal_id_CSD / _citation.journal_id_ISSN / _citation.pdbx_database_id_DOI / _citation.title / _citation.year

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Assembly

Deposited unit
A: NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial
B: NADH dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial
C: NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial
E: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6
F: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2
G: Acyl carrier protein, mitochondrial
H: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5
I: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7
J: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial
K: NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial
L: NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial
M: NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial
N: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12
O: NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial
P: NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial
Q: NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial
S: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1
T: NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial
U: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3
V: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11
W: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13
X: Acyl carrier protein, mitochondrial
Y: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mitochondrial
Z: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3
a: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial
b: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6
c: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial
d: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10
e: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial
f: NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
g: NADH dehydrogenase [ubiquinone] 1 subunit C2
h: NADH dehydrogenase [ubiquinone] iron-sulfur protein 5
i: NADH-ubiquinone oxidoreductase chain 2
j: NADH-ubiquinone oxidoreductase chain 3
k: NADH-ubiquinone oxidoreductase chain 4L
l: NADH-ubiquinone oxidoreductase chain 5
m: NADH-ubiquinone oxidoreductase chain 6
n: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1
o: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4
p: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9
r: NADH-ubiquinone oxidoreductase chain 4
s: NADH-ubiquinone oxidoreductase chain 1
u: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8
v: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7
w: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial
hetero molecules


Theoretical massNumber of molelcules
Total (without water)964,00675
Polyers942,04145
Non-polymers21,96530
Water0
#1


TypeNameSymmetry operationNumber
identity operation1_5551
Buried area (Å2)283330
ΔGint (kcal/M)-1914
Surface area (Å2)291200

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Components

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NADH dehydrogenase [ubiquinone] flavoprotein ... , 3 types, 3 molecules AKO

#1: Polypeptide(L)NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial / Complex I-51kD / CI-51kD / NADH dehydrogenase flavoprotein 1 / NADH-ubiquinone oxidoreductase 51 kDa subunit


Mass: 47323.938 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: P49821, EC: 1.6.5.3, EC: 1.6.99.3

Cellular component

Molecular function

Biological process

  • mitochondrial ATP synthesis coupled electron transport (GO: 0042775)
  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#10: Polypeptide(L)NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial / Complex I-9kD / CI-9kD / NADH-ubiquinone oxidoreductase 9 kDa subunit / Renal carcinoma antigen NY-REN-4


Mass: 3900.312 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: P56181

Cellular component

Molecular function

Biological process

  • mitochondrial ATP synthesis coupled electron transport (GO: 0042775)
  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#14: Polypeptide(L)NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial / NADH-ubiquinone oxidoreductase 24 kDa subunit


Mass: 23430.881 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: P19404, EC: 1.6.5.3, EC: 1.6.99.3

Cellular component

Molecular function

Biological process

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NADH dehydrogenase [ubiquinone] iron-sulfur protein ... , 7 types, 7 molecules BCLPQTh

#2: Polypeptide(L)NADH dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial / Complex I-23kD / CI-23kD / NADH-ubiquinone oxidoreductase 23 kDa subunit / TYKY subunit


Mass: 20314.037 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O00217, EC: 1.6.5.3, EC: 1.6.99.3

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
  • response to oxidative stress (GO: 0006979)
#3: Polypeptide(L)NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial / Complex I-20kD / CI-20kD / NADH-ubiquinone oxidoreductase 20 kDa subunit / PSST subunit


Mass: 17887.928 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O75251, EC: 1.6.5.3, EC: 1.6.99.3

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#11: Polypeptide(L)NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial / Complex I-18 kDa / CI-18 kDa / Complex I-AQDQ / CI-AQDQ / NADH-ubiquinone oxidoreductase 18 kDa subunit


Mass: 13721.598 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O43181

Cellular component

Molecular function

Biological process

#15: Polypeptide(L)NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial / Complex I-30kD / CI-30kD / NADH-ubiquinone oxidoreductase 30 kDa subunit


Mass: 24432.656 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O75489, EC: 1.6.5.3, EC: 1.6.99.3

Cellular component

Molecular function

Biological process

#16: Polypeptide(L)NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial / Complex I-49kD / CI-49kD / NADH-ubiquinone oxidoreductase 49 kDa subunit


Mass: 49236.480 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O75306, EC: 1.6.5.3, EC: 1.6.99.3

Cellular component

Molecular function

Biological process

  • mitochondrial ATP synthesis coupled electron transport (GO: 0042775)
  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
  • response to oxidative stress (GO: 0006979)
#18: Polypeptide(L)NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial / Complex I-13kD-A / CI-13kD-A / NADH-ubiquinone oxidoreductase 13 kDa-A subunit


Mass: 10578.848 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O75380

Cellular component

Molecular function

Biological process

#31: Polypeptide(L)NADH dehydrogenase [ubiquinone] iron-sulfur protein 5 / Complex I-15 kDa / CI-15 kDa / NADH-ubiquinone oxidoreductase 15 kDa subunit


Mass: 12314.254 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O43920

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)

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NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit ... , 12 types, 12 molecules EFHIJNSUVWuw

#4: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6 / Complex I-B14 / CI-B14 / LYR motif-containing protein 6 / NADH-ubiquinone oxidoreductase B14 subunit


Mass: 13758.070 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: P56556

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
  • response to oxidative stress (GO: 0006979)
#5: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 / Complex I-B8 / CI-B8 / NADH-ubiquinone oxidoreductase B8 subunit


Mass: 9535.905 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O43678

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#7: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5 / Complex I subunit B13 / Complex I-13kD-B / CI-13kD-B / NADH-ubiquinone oxidoreductase 13 kDa-B subunit


Mass: 13119.208 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: Q16718

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#8: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7 / Complex I-B14.5a / CI-B14.5a / NADH-ubiquinone oxidoreductase subunit B14.5a


Mass: 12282.051 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O95182

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
  • mitochondrial translation (GO: 0032543)
#9: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial / Complex I-39kD / CI-39kD / NADH-ubiquinone oxidoreductase 39 kDa subunit


Mass: 38387.594 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: Q16795

Cellular component

Molecular function

Biological process

#13: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 / 13 kDa differentiation-associated protein / Complex I-B17.2 / CIB17.2 / NADH-ubiquinone oxidoreductase subunit B17.2


Mass: 16880.068 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: Q9UI09

Cellular component

Molecular function

Biological process

  • mitochondrial ATP synthesis coupled electron transport (GO: 0042775)
  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
  • respiratory gaseous exchange (GO: 0007585)
  • response to oxidative stress (GO: 0006979)
#17: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1 / Complex I-MWFE / CI-MWFE / NADH-ubiquinone oxidoreductase MWFE subunit


Mass: 8084.391 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O15239

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#19: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3 / Complex I-B9 / CI-B9 / NADH-ubiquinone oxidoreductase B9 subunit


Mass: 9156.602 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O95167

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#20: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11 / Complex I-B14.7 / CI-B14.7 / NADH-ubiquinone oxidoreductase subunit B14.7


Mass: 14736.853 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: Q86Y39

Cellular component

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#21: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13 / Cell death regulatory protein GRIM-19 / Complex I-B16.6 / CI-B16.6 / Gene associated with retinoic and interferon-induced mortality 19 protein / Gene associated with retinoic and IFN-induced mortality 19 protein / NADH-ubiquinone oxidoreductase B16.6 subunit


Mass: 16132.570 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: Q9P0J0

Cellular component

Molecular function

Biological process

  • apoptotic signaling pathway (GO: 0097190)
  • cellular response to interferon-beta (GO: 0035458)
  • cellular response to retinoic acid (GO: 0071300)
  • extrinsic apoptotic signaling pathway (GO: 0097191)
  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
  • negative regulation of cell growth (GO: 0030308)
  • negative regulation of intrinsic apoptotic signaling pathway (GO: 2001243)
  • negative regulation of transcription, DNA-templated (GO: 0045892)
  • positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO: 0043280)
  • positive regulation of peptidase activity (GO: 0010952)
  • positive regulation of protein catabolic process (GO: 0045732)
  • protein import into mitochondrial inner membrane (GO: 0045039)
  • reactive oxygen species metabolic process (GO: 0072593)
#42: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 / Complex I-19kD / CI-19kD / Complex I-PGIV / CI-PGIV / NADH-ubiquinone oxidoreductase 19 kDa subunit


Mass: 19853.736 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: P51970

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#44: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial / Complex I-42kD / CI-42kD / NADH-ubiquinone oxidoreductase 42 kDa subunit


Mass: 37200.270 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O95299

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)

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Polypeptide(L) , 2 types, 3 molecules GXM

#6: Polypeptide(L)Acyl carrier protein, mitochondrial / ACP / CI-SDAP / NADH-ubiquinone oxidoreductase 9.6 kDa subunit


Mass: 9845.247 Da / Num. of mol.: 2 / Source: (natural) Homo sapiens / References: UniProt: O14561

Cellular component

Molecular function

Biological process

#12: Polypeptide(L)NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial / Complex I-75kD / CI-75kD


Mass: 75471.484 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: P28331, EC: 1.6.5.3, EC: 1.6.99.3

Cellular component

Molecular function

Biological process

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NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit ... , 11 types, 11 molecules YZabcdenopv

#22: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mitochondrial / Complex I-AGGG / CI-AGGG / NADH-ubiquinone oxidoreductase AGGG subunit


Mass: 7468.270 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O95178

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#23: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3 / Complex I-B12 / CI-B12 / NADH-ubiquinone oxidoreductase B12 subunit


Mass: 9261.605 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O43676

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#24: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial / Complex I-SGDH / CI-SGDH / NADH-ubiquinone oxidoreductase SGDH subunit


Mass: 16573.160 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O43674

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#25: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6 / Complex I-B17 / CI-B17 / NADH-ubiquinone oxidoreductase B17 subunit


Mass: 15517.228 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O95139

Cellular component

Molecular function

Biological process

  • mitochondrial ATP synthesis coupled electron transport (GO: 0042775)
  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#26: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial / Complex I-ASHI / CI-ASHI / NADH-ubiquinone oxidoreductase ASHI subunit


Mass: 18267.562 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O95169

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#27: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10 / Complex I-PDSW / CI-PDSW / NADH-ubiquinone oxidoreductase PDSW subunit


Mass: 20721.650 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O96000

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#28: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial / Complex I-ESSS / CI-ESSS / NADH-ubiquinone oxidoreductase ESSS subunit / Neuronal protein 17.3 / p17.3


Mass: 11494.942 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: Q9NX14

Cellular component

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#37: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 / Complex I-MNLL / CI-MNLL / NADH-ubiquinone oxidoreductase MNLL subunit


Mass: 6741.883 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O75438

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#38: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4 / Complex I-B15 / CI-B15 / NADH-ubiquinone oxidoreductase B15 subunit


Mass: 15100.399 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O95168

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
  • response to oxidative stress (GO: 0006979)
#39: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9 / Complex I-B22 / CI-B22 / LYR motif-containing protein 3 / NADH-ubiquinone oxidoreductase B22 subunit


Mass: 21189.141 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: Q9Y6M9

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
  • sensory perception of sound (GO: 0007605)
#43: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7 / Cell adhesion protein SQM1 / Complex I-B18 / CI-B18 / NADH-ubiquinone oxidoreductase B18 subunit


Mass: 16435.045 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: P17568

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)

+
NADH dehydrogenase [ubiquinone] 1 subunit ... , 2 types, 2 molecules fg

#29: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial / Complex I-KFYI / CI-KFYI / NADH-ubiquinone oxidoreductase KFYI subunit


Mass: 5704.602 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O43677

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
#30: Polypeptide(L)NADH dehydrogenase [ubiquinone] 1 subunit C2 / Complex I-B14.5b / CI-B14.5b / Human lung cancer oncogene 1 protein / HLC-1 / NADH-ubiquinone oxidoreductase subunit B14.5b


Mass: 14209.521 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: O95298

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
  • mitochondrial respiratory chain complex I assembly (GO: 0032981)
  • neutrophil degranulation (GO: 0043312)

+
NADH-ubiquinone oxidoreductase chain ... , 7 types, 7 molecules ijklmrs

#32: Polypeptide(L)NADH-ubiquinone oxidoreductase chain 2


Mass: 39007.656 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: Q4GRX1, EC: 1.6.5.3

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
#33: Polypeptide(L)NADH-ubiquinone oxidoreductase chain 3


Mass: 13147.871 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: B9EE38, EC: 1.6.5.3

Cellular component

Molecular function

#34: Polypeptide(L)NADH-ubiquinone oxidoreductase chain 4L


Mass: 10702.086 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: V9JN72, EC: 1.6.5.3

Cellular component

Molecular function

Biological process

#35: Polypeptide(L)NADH-ubiquinone oxidoreductase chain 5


Mass: 67096.023 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: X5BVZ3, EC: 1.6.5.3

Cellular component

Molecular function

Biological process

#36: Polypeptide(L)NADH-ubiquinone oxidoreductase chain 6


Mass: 18660.979 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: Q8HAX7, EC: 1.6.5.3

Cellular component

Molecular function

#40: Polypeptide(L)NADH-ubiquinone oxidoreductase chain 4


Mass: 51689.688 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: B2XJG5, EC: 1.6.5.3

Cellular component

Molecular function

Biological process

  • mitochondrial electron transport, NADH to ubiquinone (GO: 0006120)
#41: Polypeptide(L)NADH-ubiquinone oxidoreductase chain 1


Mass: 35621.215 Da / Num. of mol.: 1 / Source: (natural) Homo sapiens / References: UniProt: H9PGF0, EC: 1.6.5.3

Cellular component

Molecular function

+
Non-polymers , 8 types, 30 molecules

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


Mass: 351.640 Da / Num. of mol.: 6 / Formula: Fe4S4
#46: ChemicalChemComp-FMN / FLAVIN MONONUCLEOTIDE / RIBOFLAVIN MONOPHOSPHATE


Mass: 456.344 Da / Num. of mol.: 1 / Formula: C17H21N4O9P
#47: Chemical
ChemComp-PLX / (9R,11S)-9-({[(1S)-1-HYDROXYHEXADECYL]OXY}METHYL)-2,2-DIMETHYL-5,7,10-TRIOXA-2LAMBDA~5~-AZA-6LAMBDA~5~-PHOSPHAOCTACOSANE-6,6,11-TRIOL


Mass: 767.132 Da / Num. of mol.: 9 / Formula: C42H89NO8P
#48: ChemicalChemComp-8Q1 / S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate / S-dodecanoyl-4'-phosphopantetheine


Mass: 540.651 Da / Num. of mol.: 2 / Formula: C23H45N2O8PS
#49: ChemicalChemComp-NDP / NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE


Mass: 745.421 Da / Num. of mol.: 1 / Formula: C21H30N7O17P3
#50: ChemicalChemComp-FES / FE2/S2 (INORGANIC) CLUSTER


Mass: 175.820 Da / Num. of mol.: 2 / Formula: Fe2S2
#51: Chemical
ChemComp-CDL / CARDIOLIPIN / DIPHOSPHATIDYL GLYCEROL / BIS-(1,2-DIACYL-SN-GLYCERO-3-PHOSPHO)-1',3'-SN-GLYCEROL / phospholipid *YM


Mass: 1464.043 Da / Num. of mol.: 5 / Formula: C81H156O17P2
#52: Chemical
ChemComp-PEE / 1,2-Dioleoyl-sn-glycero-3-phosphoethanolamine / DOPE / DOPE (phospholipid) *YM


Mass: 749.073 Da / Num. of mol.: 4 / Formula: C41H83NO8P

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / Reconstruction method: SINGLE PARTICLE

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Sample preparation

ComponentName: Human respiratory complex I / 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
Source: NATURAL
Molecular weightValue: 1 deg. / Units: MEGADALTONS / Experimental value: YES
Source (natural)Organism: Homo sapiens
Buffer solutionpH: 7.4
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE

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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: OTHER
Electron lensMode: BRIGHT FIELD
Image recordingElectron dose: 1.25 e/Å2 / Film or detector model: FEI FALCON II (4k x 4k)

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Processing

EM software
IDNameVersionCategoryImage processing IDImaging IDFitting ID
1EMAN2.1PARTICLE SELECTION1
2AutoEMation2.0IMAGE ACQUISITION1
4CTFFIND3.0CTF CORRECTION1
7COOT0.8.2MODEL FITTING1
9RELION1.4INITIAL EULER ASSIGNMENT1
10RELION1.4FINAL EULER ASSIGNMENT1
12RELION1.4RECONSTRUCTION1
13PHENIX1.11.1MODEL REFINEMENT1
CTF correctionType: NONE
SymmetryPoint symmetry: C1
3D reconstructionResolution: 3.7 Å / Resolution method: FSC 0.143 CUT-OFF / Number of particles: 167761 / Symmetry type: POINT

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