6RFR: Cryo-EM structure of respiratory complex I from Yarrowia lipolytica at 3.2 A resolution

PDB ID: 6RFRDownload
MMDB ID: 182169
PDB Deposition Date: 2019/4/16
Updated in MMDB: 2019/12
Experimental Method:
electron microscopy
Resolution: 3.2  Å
Source Organism:
Similar Structures:
Biological Unit for 6RFR: 42-meric; determined by author
Molecular Components in 6RFR
Label Count Molecule
Proteins (42 molecules)
1
Subunit Nuam of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nubm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nucm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nimm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nuem of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nufm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nugm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nuhm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nuim of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nujm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nukm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nulm of Nadh:ubiquinone Oxidoreductase (Complex I)
(Gene symbol: nd4L)
Molecule annotation
1
Subunit Numm of Protein Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Acyl Carrier Protein Acpm1 of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nb4m of Protein Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Acyl Carrier Protein Acpm2 of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Ni2m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nesm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nupm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nb6m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nuxm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nuym of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nuzm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Niam of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nebm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nb2m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nidm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nuvm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Ni8m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Ni9m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit N7bm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nuum of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nb5m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nunm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nu1m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nu2m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nu3m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nu4m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nu5m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nu6m of Nadh:ubiquinone Oxidoreductase (Complex I)
(Gene symbol: nd6)
Molecule annotation
1
Subunit Nb8m of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
1
Subunit Nipm of Nadh:ubiquinone Oxidoreductase (Complex I)
Molecule annotation
Chemicals and Non-standard biopolymers (49 molecules)
1
6
IRON/SULFUR CLUSTERIRON/SULFUR CLUSTER
2
2
FE2/S2 (INORGANIC) CLUSTERFE2/S2 (INORGANIC) CLUSTER
3
1
FLAVIN MONONUCLEOTIDEFLAVIN MONONUCLEOTIDE
4
15
1,2-Distearoyl-sn-glycerophosphoethanolamine1,2-Distearoyl-sn-glycerophosphoethanolamine
5
1
NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATENADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
6
6
CARDIOLIPINCARDIOLIPIN
7
2
Lauryl Maltose Neopentyl GlycolLauryl Maltose Neopentyl Glycol
8
7
DIUNDECYL PHOSPHATIDYL CHOLINEDIUNDECYL PHOSPHATIDYL CHOLINE
9
1
ZINC IONZINC ION
10
2
S-[2-({N-[(2S)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] tetradecanethioateS-[2-({N-[(2S)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] tetradecanethioate
11
1
Ubiquinone-9Ubiquinone-9
12
4
PhosphatidylinositolPhosphatidylinositol
13
1
1-PALMITOYL-2-LINOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE1-PALMITOYL-2-LINOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303