5LNK Oxidoreductase date Aug 04, 2016
title Entire Ovine Respiratory Complex I
authors K.Fiedorczuk, J.A.Letts, K.Kaszuba, L.A.Sazanov
compound source
Molecule: Mitochondrial Complex I, 51 Kda Subunit
Chain: 1
 Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, 24 Kda Subunit
Chain: 2
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, 75 Kda Subunit
Chain: 3
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, 49 Kda Subunit
Chain: 4
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, 30 Kda Subunit
Chain: 5
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Psst Subunit
Chain: 6
Other_details: Ncbiprot Xp_012033846.2
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Tyky Subunit
Chain: 9
Other_details: Ncbiprot Xp_011972879.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Nd1 Subunit
Chain: H
Synonym: Nadh Dehydrogenase Subunit 1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Nd2 Subunit
Chain: N
Synonym: Nadh Dehydrogenase Subunit 2
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Nd3 Subunit
Chain: A
Synonym: Nadh Dehydrogenase Subunit 3
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Nd4 Subunit
Chain: M
Synonym: Nadh Dehydrogenase Subunit 4
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Nd4l Subunit
Chain: K
Synonym: Nadh Dehydrogenase Subunit 4l
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Nd5 Subunit
Chain: L
Synonym: Nadh Dehydrogenase Subunit 5
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Nd6 Subunit
Chain: J
Synonym: Nadh Dehydrogenase Subunit 6
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, 10 Kda Subunit
Chain: a
Other_details: Ncbiprot Xp_011991231.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, 13 Kda Subunit
Chain: b
Other_details: Ncbiprot Xp_011980592.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, 18 Kda Subunit
Chain: c
Other_details: Ncbiprot Xp_004017046.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, 39 Kda Subunit
Chain: d
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B8 Subunit
Chain: e
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B13 Subunit
Chain: f
Other_details: Ncbiprot Xp_004005022.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B14 Subunit
Chain: g
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B14.5a Subunit
Chain: h
Other_details: Ncbiprot Xp_004008614.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B17.2 Subunit
Chain: I
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Acyl Carrier Protein
Chain: j, X
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, 42 Kda Subunit
Chain: k
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, 15 Kda Subunit
Chain: l
Other_details: Ncbiprot Xp_004001873.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B9 Subunit
Chain: m
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B12 Subunit
Chain: n
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B14.5b Subunit
Chain: o
Other_details: Ncbiprot Xp_004019479.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B15 Subunit
Chain: p
Other_details: Ncbiprot Xp_004003003.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B16.6 Subunit
Chain: q
Synonym: Cell Death Regulatory Protein Grim-19,Complex I-B1 B16.6,Gene Associated With Retinoic-Interferon-Induced Mort Protein,Grim-19,Nadh-Ubiquinone Oxidoreductase B16.6 Subuni
Other_details: Ncbiprot Xp_004008450.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B17 Subunit
Chain: r
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B18 Subunit
Chain: s
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B22 Subunit
Chain: t
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Aggg Subunit
Chain: u
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Nadh Dehydrogenase [Ubiquinone] 1 Beta Subcomplex 8, Mitochondrial;
Chain: v
Synonym: Complex I-Ashi,Nadh-Ubiquinone Oxidoreductase Ashi
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Esss Subunit
Chain: w
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Kfyi Subunit
Chain: x
Synonym: Complex I-Kfyi,Ci-Kfyi,Nadh-Ubiquinone Oxidoreduct Subunit;
Other_details: Ncbiprot Xp_004017292.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Mnll Subunit
Chain: y
Other_details: Ncbiprot Xp_004018002.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Mwfe Subunit
Chain: z
Other_details: Ncbiprot Np_001305903.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Pdsw Subunit
Chain: Z
Other_details: Ncbiprot Xp_011999786.1
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Pgiv Subunit
Chain: Y
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, Sgdh Subunit
Chain: W
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940

Molecule: Mitochondrial Complex I, B14.7 Subunit
Chain: V
Other_details: Uniprot W5par2
Organism_scientific: Ovis Aries
Organism_common: Sheep
Organism_taxid: 9940
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 3.90 Å
ligand 3PE, CDL, FES, FMN, NDP, PC1, PNS, SF4, ZMP, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
1


2


3


4


5


6


9


A


H


J


K


L


M


N


Y


Z


a


b


c


d


e


f


g


h


i


j, X


k


l


m


n


o


p
  • NADH dehydrogenase (ubiquino...


    • q


    r


    s


    t


    u


    v


    w


    x


    y
  • NADH dehydrogenase activity


    • z


    Primary referenceAtomic structure of the entire mammalian mitochondrial complex I., Fiedorczuk K, Letts JA, Degliesposti G, Kaszuba K, Skehel M, Sazanov LA, Nature. 2016 Sep 5;538(7625):406-410. doi: 10.1038/nature19794. PMID:27595392
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1203 Kb) [Save to disk]
  • Biological Unit Coordinates (5lnk.pdb1.gz) 1166 Kb
  • LPC: Ligand-Protein Contacts for 5LNK
  • CSU: Contacts of Structural Units for 5LNK
  • Retrieve 5LNK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5LNK from S2C, [Save to disk]
    • View 5LNK 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 5LNK
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5lnk_r] [5lnk_y] [5lnk_K] [5lnk_v] [5lnk_Y] [5lnk_t] [5lnk_u] [5lnk_k] [5lnk_q] [5lnk_g] [5lnk_z] [5lnk_j] [5lnk_f] [5lnk_9] [5lnk_X] [5lnk_x] [5lnk_l] [5lnk_4] [5lnk_2] [5lnk_n] [5lnk_L] [5lnk_V] [5lnk_J] [5lnk] [5lnk_s] [5lnk_o] [5lnk_p] [5lnk_Z] [5lnk_w] [5lnk_i] [5lnk_e] [5lnk_W] [5lnk_h] [5lnk_m] [5lnk_6] [5lnk_5] [5lnk_A] [5lnk_N] [5lnk_c] [5lnk_3] [5lnk_a] [5lnk_M] [5lnk_1] [5lnk_H] [5lnk_d] [5lnk_b]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5LNK: [L51_S25_CI-B8] [NADH-G_4Fe-4S_3] [NADH_4Fe-4S ] by SMART
    • Other resources with information on 5LNK
  • Community annotation for 5LNK at PDBWiki (http://pdbwiki.org)

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