5XTD Oxidoreductase Electron Transport date Jun 19, 2017
title Cryo-Em Structure Of Human Respiratory Complex I
authors J.Gu, M.Wu, M.Yang
compound source
Molecule: Nadh Dehydrogenase [Ubiquinone] Flavoprotein 1, Mitochondrial;
Chain: A
Synonym: Complex I-51kd,Ci-51kd,Nadh Dehydrogenase Flavopro Nadh-Ubiquinone Oxidoreductase 51 Kda Subunit;
Ec: 1.6.5.3,1.6.99.3
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] Iron-Sulfur Prote Mitochondrial;
Chain: B
Synonym: Complex I-23kd,Ci-23kd,Nadh-Ubiquinone Oxidoreduct Subunit,Tyky Subunit;
Ec: 1.6.5.3,1.6.99.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] Iron-Sulfur Prote Mitochondrial;
Chain: C
Synonym: Complex I-20kd,Ci-20kd,Nadh-Ubiquinone Oxidoreduct Subunit,Psst Subunit;
Ec: 1.6.5.3,1.6.99.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 6;
Chain: E
Synonym: Complex I-B14,Ci-B14,Lyr Motif-Containing Protein Ubiquinone Oxidoreductase B14 Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 2;
Chain: F
Synonym: Complex I-B8,Ci-B8,Nadh-Ubiquinone Oxidoreductase Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Acyl Carrier Protein, Mitochondrial
Chain: G, X
Synonym: Acp,Ci-Sdap,Nadh-Ubiquinone Oxidoreductase 9.6 Kda

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 5;
Chain: H
Synonym: Complex I Subunit B13,Complex I-13kd-B,Ci-13kd-B,N Ubiquinone Oxidoreductase 13 Kda-B Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 7;
Chain: I
Synonym: Complex I-B14.5a,Ci-B14.5a,Nadh-Ubiquinone Oxidore Subunit B14.5a;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 9, Mitochondrial;
Chain: J
Synonym: Complex I-39kd,Ci-39kd,Nadh-Ubiquinone Oxidoreduct Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] Flavoprotein 3, Mitochondrial;
Chain: K
Synonym: Complex I-9kd,Ci-9kd,Nadh-Ubiquinone Oxidoreductas Subunit,Renal Carcinoma Antigen Ny-Ren-4;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] Iron-Sulfur Prote Mitochondrial;
Chain: L
Synonym: Complex I-18 Kda,Ci-18 Kda,Complex I-Aqdq,Ci-Aqdq, Ubiquinone Oxidoreductase 18 Kda Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh-Ubiquinone Oxidoreductase 75 Kda Subunit, Mitochondrial;
Chain: M
Synonym: Complex I-75kd,Ci-75kd
Ec: 1.6.5.3,1.6.99.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 12;
Chain: N
Synonym: 13 Kda Differentiation-Associated Protein,Complex Cib17.2,Nadh-Ubiquinone Oxidoreductase Subunit B17.2;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] Flavoprotein 2, Mitochondrial;
Chain: O
Synonym: Nadh-Ubiquinone Oxidoreductase 24 Kda Subunit
Ec: 1.6.5.3,1.6.99.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] Iron-Sulfur Prote Mitochondrial;
Chain: P
Synonym: Complex I-30kd,Ci-30kd,Nadh-Ubiquinone Oxidoreduct Subunit;
Ec: 1.6.5.3,1.6.99.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] Iron-Sulfur Prote Mitochondrial;
Chain: Q
Synonym: Complex I-49kd,Ci-49kd,Nadh-Ubiquinone Oxidoreduct Subunit;
Ec: 1.6.5.3,1.6.99.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 1;
Chain: S
Synonym: Complex I-Mwfe,Ci-Mwfe,Nadh-Ubiquinone Oxidoreduct Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] Iron-Sulfur Prote Mitochondrial;
Chain: T
Synonym: Complex I-13kd-A,Ci-13kd-A,Nadh-Ubiquinone Oxidore Kda-A Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 3;
Chain: U
Synonym: Complex I-B9,Ci-B9,Nadh-Ubiquinone Oxidoreductase Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 11;
Chain: V
Synonym: Complex I-B14.7,Ci-B14.7,Nadh-Ubiquinone Oxidoredu Subunit B14.7;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 13;
Chain: W
Synonym: Cell Death Regulatory Protein Grim-19,Complex I-B1 B16.6,Gene Associated With Retinoic And Interferon-Induced 19 Protein,Gene Associated With Retinoic And Ifn-Induced Mo Protein,Nadh-Ubiquinone Oxidoreductase B16.6 Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 2, Mitochondrial;
Chain: Y
Synonym: Complex I-Aggg,Ci-Aggg,Nadh-Ubiquinone Oxidoreduct Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 3;
Chain: Z
Synonym: Complex I-B12,Ci-B12,Nadh-Ubiquinone Oxidoreductas Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 5, Mitochondrial;
Chain: a
Synonym: Complex I-Sgdh,Ci-Sgdh,Nadh-Ubiquinone Oxidoreduct Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 6;
Chain: b
Synonym: Complex I-B17,Ci-B17,Nadh-Ubiquinone Oxidoreductas Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 8, Mitochondrial;
Chain: c
Synonym: Complex I-Ashi,Ci-Ashi,Nadh-Ubiquinone Oxidoreduct Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 10;
Chain: d
Synonym: Complex I-Pdsw,Ci-Pdsw,Nadh-Ubiquinone Oxidoreduct Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 11, Mitochondrial;
Chain: e
Synonym: Complex I-Esss,Ci-Esss,Nadh-Ubiquinone Oxidoreduct Subunit,Neuronal Protein 17.3,P17.3;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Subunit C1, Mitochondrial;
Chain: f
Synonym: Complex I-Kfyi,Ci-Kfyi,Nadh-Ubiquinone Oxidoreduct Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Subunit C2
Chain: g
Synonym: Complex I-B14.5b,Ci-B14.5b,Human Lung Cancer Oncog Protein,Hlc-1,Nadh-Ubiquinone Oxidoreductase Subunit B14.5b

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] Iron-Sulfur Prote
Chain: h
Synonym: Complex I-15 Kda,Ci-15 Kda,Nadh-Ubiquinone Oxidore Kda Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh-Ubiquinone Oxidoreductase Chain 2
Chain: I
Ec: 1.6.5.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh-Ubiquinone Oxidoreductase Chain 3
Chain: j
Ec: 1.6.5.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh-Ubiquinone Oxidoreductase Chain 4l
Chain: k
Ec: 1.6.5.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh-Ubiquinone Oxidoreductase Chain 5
Chain: l
Ec: 1.6.5.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh-Ubiquinone Oxidoreductase Chain 6
Chain: m
Ec: 1.6.5.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 1;
Chain: n
Synonym: Complex I-Mnll,Ci-Mnll,Nadh-Ubiquinone Oxidoreduct Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 4;
Chain: o
Synonym: Complex I-B15,Ci-B15,Nadh-Ubiquinone Oxidoreductas Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 9;
Chain: p
Synonym: Complex I-B22,Ci-B22,Lyr Motif-Containing Protein Ubiquinone Oxidoreductase B22 Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh-Ubiquinone Oxidoreductase Chain 4
Chain: r
Ec: 1.6.5.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh-Ubiquinone Oxidoreductase Chain 1
Chain: s
Ec: 1.6.5.3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 8;
Chain: u
Synonym: Complex I-19kd,Ci-19kd,Complex I-Pgiv,Ci-Pgiv,Nadh Ubiquinone Oxidoreductase 19 Kda Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 7;
Chain: v
Synonym: Cell Adhesion Protein Sqm1,Complex I-B18,Ci-B18,Na Ubiquinone Oxidoreductase B18 Subunit;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Alpha Subcomple 10, Mitochondrial;
Chain: w
Synonym: Complex I-42kd,Ci-42kd,Nadh-Ubiquinone Oxidoreduct Subunit

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 3.70 Å
ligand
enzyme Oxidoreductase E.C.1.6.5.3 BRENDA
subcellular loc. Membrane localization by OPM: Mitochondrial inner membrane
intermembrane space side
matrix space side
Gene
Ontology
ChainFunctionProcessComponent
A

  • mitochondrial respiratory ch...
  • B


    C


    G, X


    H


    I


    J


    K


    L


    M


    N


    O


    P


    Q


    S


    T


    U


    V


    W
  • positive regulation of prote...

  • Y


    Z


    b


    c


    d


    f


    g


    h


    i


    j


    k


    l


    m


    n


    o


    p


    r


    s


    u


    v


    w


    Primary referenceArchitecture of Human Mitochondrial Respiratory Megacomplex I2III2IV2., Guo R, Zong S, Wu M, Gu J, Yang M, Cell. 2017 Sep 7;170(6):1247-1257.e12. doi: 10.1016/j.cell.2017.07.050. Epub 2017, Aug 24. PMID:28844695
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1230 Kb) [Save to disk]
  • Biological Unit Coordinates (5xtd.pdb1.gz) 1211 Kb
  • CSU: Contacts of Structural Units for 5XTD
  • Retrieve 5XTD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5XTD from S2C, [Save to disk]
  • View 5XTD in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 5XTD
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5xtd from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5xtd_H] [5xtd_e] [5xtd_u] [5xtd_B] [5xtd_k] [5xtd_c] [5xtd_n] [5xtd_h] [5xtd_K] [5xtd_v] [5xtd_C] [5xtd_L] [5xtd_Q] [5xtd_i] [5xtd_w] [5xtd_g] [5xtd_S] [5xtd_V] [5xtd_N] [5xtd_W] [5xtd_m] [5xtd_E] [5xtd_o] [5xtd_Y] [5xtd_O] [5xtd_A] [5xtd_J] [5xtd_l] [5xtd_s] [5xtd_T] [5xtd_X] [5xtd_d] [5xtd_Z] [5xtd_j] [5xtd_b] [5xtd_M] [5xtd_f] [5xtd_P] [5xtd_a] [5xtd_p] [5xtd_G] [5xtd_I] [5xtd_F] [5xtd_U] [5xtd_r]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5XTD
  • Community annotation for 5XTD at PDBWiki (http://pdbwiki.org)

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