5COD image
Deposition Date 2015-07-20
Release Date 2015-09-23
Last Version Date 2024-10-23
Entry Detail
PDB ID:
5COD
Keywords:
Title:
Bovine heart complex I membrane domain
Biological Source:
Source Organism:
Bos taurus (Taxon ID: 9913)
Method Details:
Experimental Method:
Resolution:
6.74 Å
R-Value Free:
0.43
R-Value Work:
0.42
R-Value Observed:
0.42
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Unknown structure
Chain IDs:S (auth: BA), LA (auth: BB), EB (auth: BC), XB (auth: BD), QC (auth: BE), JD (auth: BF)
Chain Length:146
Number of Molecules:6
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 5
Chain IDs:A (auth: L1), T (auth: L2), MA (auth: L3), FB (auth: L4), YB (auth: L5), RC (auth: L6)
Chain Length:606
Number of Molecules:6
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 4
Chain IDs:B (auth: M1), U (auth: M2), NA (auth: M3), GB (auth: M4), ZB (auth: M5), SC (auth: M6)
Chain Length:459
Number of Molecules:6
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:SDAP
Chain IDs:J (auth: U1), CA (auth: U2), VA (auth: U3), OB (auth: U4), HC (auth: U5), AD (auth: U6)
Chain Length:15
Number of Molecules:6
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Unknown structure
Chain IDs:C (auth: f1), E (auth: h1), F (auth: i1), V (auth: f2), X (auth: h2), Y (auth: i2), OA (auth: f3), QA (auth: h3), RA (auth: i3), HB (auth: f4), JB (auth: h4), KB (auth: i4), AC (auth: f5), CC (auth: h5), DC (auth: i5), TC (auth: f6), VC (auth: h6), WC (auth: i6)
Chain Length:30
Number of Molecules:18
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Unknown structure
Chain IDs:D (auth: g1), W (auth: g2), PA (auth: g3), IB (auth: g4), BC (auth: g5), UC (auth: g6)
Chain Length:22
Number of Molecules:6
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Unknown structure
Chain IDs:G (auth: j1), H (auth: k1), M (auth: p1), N (auth: s1), Z (auth: j2), AA (auth: k2), FA (auth: p2), GA (auth: s2), SA (auth: j3), TA (auth: k3), YA (auth: p3), ZA (auth: s3), LB (auth: j4), MB (auth: k4), RB (auth: p4), SB (auth: s4), EC (auth: j5), FC (auth: k5), KC (auth: p5), LC (auth: s5), XC (auth: j6), YC (auth: k6), DD (auth: p6), ED (auth: s6)
Chain Length:28
Number of Molecules:24
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Unknown structure
Chain IDs:I (auth: l1), BA (auth: l2), UA (auth: l3), NB (auth: l4), GC (auth: l5), ZC (auth: l6)
Chain Length:606
Number of Molecules:6
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Unknown structure
Chain IDs:K (auth: n1), DA (auth: n2), WA (auth: n3), PB (auth: n4), IC (auth: n5), BD (auth: n6)
Chain Length:59
Number of Molecules:6
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Unknown structure
Chain IDs:L (auth: o1), EA (auth: o2), XA (auth: o3), QB (auth: o4), JC (auth: o5), CD (auth: o6)
Chain Length:21
Number of Molecules:6
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Unknown structure
Chain IDs:O (auth: t1), HA (auth: t2), AB (auth: t3), TB (auth: t4), MC (auth: t5), FD (auth: t6)
Chain Length:57
Number of Molecules:6
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Unknown structure
Chain IDs:P (auth: u1), IA (auth: u2), BB (auth: u3), UB (auth: u4), NC (auth: u5), GD (auth: u6)
Chain Length:15
Number of Molecules:6
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Unknown structure
Chain IDs:Q (auth: v1), JA (auth: v2), CB (auth: v3), VB (auth: v4), OC (auth: v5), HD (auth: v6)
Chain Length:32
Number of Molecules:6
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Unknown structure
Chain IDs:R (auth: w1), KA (auth: w2), DB (auth: w3), WB (auth: w4), PC (auth: w5), ID (auth: w6)
Chain Length:27
Number of Molecules:6
Biological Source:Bos taurus
Ligand Molecules
Primary Citation
Structure of subcomplex I beta of mammalian respiratory complex I leads to new supernumerary subunit assignments.
Proc.Natl.Acad.Sci.USA 112 12087 12092 (2015)
PMID: 26371297 DOI: 10.1073/pnas.1510577112

Abstact

Mitochondrial complex I (proton-pumping NADH:ubiquinone oxidoreductase) is an essential respiratory enzyme. Mammalian complex I contains 45 subunits: 14 conserved "core" subunits and 31 "supernumerary" subunits. The structure of Bos taurus complex I, determined to 5-Å resolution by electron cryomicroscopy, described the structure of the mammalian core enzyme and allowed the assignment of 14 supernumerary subunits. Here, we describe the 6.8-Å resolution X-ray crystallography structure of subcomplex Iβ, a large portion of the membrane domain of B. taurus complex I that contains two core subunits and a cohort of supernumerary subunits. By comparing the structures and composition of subcomplex Iβ and complex I, supported by comparisons with Yarrowia lipolytica complex I, we propose assignments for eight further supernumerary subunits in the structure. Our new assignments include two CHCH-domain containing subunits that contain disulfide bridges between CX9C motifs; they are processed by the Mia40 oxidative-folding pathway in the intermembrane space and probably stabilize the membrane domain. We also assign subunit B22, an LYR protein, to the matrix face of the membrane domain. We reveal that subunit B22 anchors an acyl carrier protein (ACP) to the complex, replicating the LYR protein-ACP structural module that was identified previously in the hydrophilic domain. Thus, we significantly extend knowledge of how the mammalian supernumerary subunits are arranged around the core enzyme, and provide insights into their roles in biogenesis and regulation.

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Primary Citation of related structures