Primary Citation PubMed: 23417064
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Crystal structure of the entire respiratory complex I.
(2013) Nature 494
PubMed: 23417064 | PubMedCentral: PMC3672946 | DOI: 10.1038/nature11871
Author Information : The coordinates and structure factors have been deposited in the Protein Data Bank under accession codes 4HE8 (membrane domain) and 4HEA (entire complex).
Publication Year: 2013
Structural analysis of mitochondrial mutations reveals a role for bigenomic protein interactions in human disease.
(2013) PLoS One 8
PubMed: 23874847 | PubMedCentral: PMC3706435 | DOI: 10.1371/journal.pone.0069003
The models for each complex were derived from the following X-ray crystallographic data; Complex I (NADH dehydrogenase) 4HEA and 3M9S  ,  , Thermus thermophilus ; II (succinate dehydrogenase) 1... OY  ; Sus scrofa , III (cytochrome bc 1 ) 1BE3  , Bos taurus ; IV (cytochrome c oxidase) 1OCC  , Bos taurus ; V (ATP synthase) 1C17  , Escherichia coli and 1H8E, Bos Taurus  .
PubMed ID is not available.
Published in 2014
PDB ID 4HEA.
Publication Year: 2014
Robust and accurate prediction of residue-residue interactions across protein interfaces using evolutionary information.
(2014) Elife 3
PubMed: 24842992 | PubMedCentral: PMC4034769 | DOI: 10.7554/eLife.02030
( B ) Complex I of the electron transport chain has an unusually large number of highly co-varying inter residue pairs not in contact in the crystal structure of 4HEA; these contacts may be formed in ... ifferent state of the complex.
Baradaran R , Berrisford JM , Minhas GS , Sazanov LA , 2013 , Crystal structure of the entire respiratory complex I from Thermus thermophilus , 4HEA ; http://dx.doi.org/10.2210/pdb4hea/pdb , Publicly available at the RCSB Protein Data Bank.
For the 50S ribosome and NADH dehydrogenase, we used Thermus thermophilus HB8 sequences from PDB structures 3uxr ( Bulkley et al., 2012 ) and 4hea ( Baradaran et al., 2013 ) respectively.
The 5 kDa protein NdhP is essential for stable NDH-1L assembly in Thermosynechococcus elongatus.
(2014) PLoS One 9
PubMed: 25119998 | PubMedCentral: PMC4131877 | DOI: 10.1371/journal.pone.0103584
Comparison of the X-ray structure of NDH-1 from T. thermophiles  (PDB code: 4HEA) to the electron density map from NDH-1L that was retrieved in this study was done by using UCSF Chimera  and Ad... be Photoshop.
Modelling of cyanobacterial subunits was performed using the SwissModel server ( http://swissmodel.expasy.org ,  ) with the structure of NDH-1 from T. thermophilus  (PDB: 4HEA) as template.
A: Fitting of the NDH-1L projection map with sfGFP  (PDB code: 2B3P) to the X-ray structure of NDH-1 from T. thermophilus  (PDB code: 4HEA).
Extended Data Fig. 5 Comparison of the individual structures of the core subunits of bacterial and mammalian complex I a) The structure of each subunit from T. thermophilus (wheat, 4HEA.
b) Observed differences in the structures of the core subunits of B. taurus and T. thermophilus complexes I. Grey, conserved structure from B. taurus and T. thermophilus (4HEA.
† The %identity and the RMSD (root mean square deviation calculated using PDBeFOLD 59 ) are between the sequences and structures of the subunits of B. taurus and T. thermophilus (4HEA.
pdb 7 ) complex I (4HEA.
Subsequently, comparison of the model with the structure of complex I from T. thermophilus (4HEA.
The seven core hydrophilic subunits of B. taurus complex I were modelled initially using the coordinates of T. thermophilus complex I (4HEA.
Extended Data Fig. 4 Global comparison of the core subunit structures of bacterial and mammalian complex I The core subunits from B. taurus are in blue, and from T. thermophilus (4HEA.
Baradaran R , Berrisford J.M , Minhas G.S , Sazanov L.A , 2012 , Crystal structure of the entire respiratory complex I from Thermus thermophilus , 4HEA ; http://dx.doi.org/10.2210/pdb4HEA/pdb , Public... y available at the RCSB Protein Data Bank.
Published in 2015
( c ) Overlay of X-ray electron density map (gray surface, contour level 1.9) with an EM envelope of Yarrowia lipolytica complex I (gray mesh) and the X-ray structure of bacterial Thermus thermophilus... complex I (PDB file 4HEA); central subunits: NDUFS2 subunit (NQO4, blue; N-terminal β-sheet highlighted in yellow), NDUFS7 subunit (NQO6, cyan), NDUFS8 subunit (NQO9, orange), NDUFS3 subunit (NQO5, hot pink), loop connecting helices 1 and 2 of subunit ND3 (NQO7, red); structure of ACP from E. coli (PDB file 2FAE, pink; decanoyl phosphopantetheine, yellow stick representation) fitted to electron density (magenta); please compare the original figure of the publication [ 25 ].
Publication Year: 2015
Structural Analysis Protein Data Bank (PDB) files 2YBB (supercomplex of I, III, and IV), 4HEA (complex I), 1PPJ (complex III), 1V54 (complex IV), and 1E79 with 1C17 (complex V) were rendered and color... d with the Visual Molecular Dynamics viewer 1.9.1 ( Humphrey et al. 1996 ).
We inferred the potential function of positively selected amino acid sites belonging to MT-ND subunits by mapping them onto the 3D crystal structure of Thermus thermophiles (PDB ID: 4HEA), a Gram nega... ive eubacterium [ 56 ].
Fig. 3 Crystal structure of the entire respiratory complex I at 3.3 Å (PDB: 4HEA) from Thermus thermophiles front view ( a ).
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