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sample_name:"subunit f" AND citation_journal_name:"TO BE PUBLISHED"
Respiratory complex I from Paracoccus denitrificans in MSP2N2 nanodiscs
Release date: Sept. 11, 2024
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8qby
Q-score: 0.683
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8qby
Q-score: 0.683
Ivanov BS, Bridges HR, Hirst J, Jarman OD
To Be Published
Sample:
- Respiratory complex i (Complex from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit n (52 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh dehydrogenase subunit m (56 kDa, Protein from Paracoccus denitrificans PD1222)
- Etc complex i subunit conserved region (12 kDa, Protein from Paracoccus denitrificans PD1222)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Nadh-quinone oxidoreductase chain 10 (21 kDa, Protein from Paracoccus denitrificans PD1222)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Nadh-quinone oxidoreductase (73 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit f (47 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh dehydrogenase subunit l (77 kDa, Protein from Paracoccus denitrificans PD1222)
- Water (18 Da, Ligand)
- Nadh-quinone oxidoreductase subunit h (38 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit d (46 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit i (18 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh:ubiquinone oxidoreductase 17.2 kd subunit (14 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit k (10 kDa, Protein from Paracoccus denitrificans PD1222)
- Ubiquinone-10 (863 Da, Ligand)
- Nadh-quinone oxidoreductase subunit c (23 kDa, Protein from Paracoccus denitrificans PD1222)
- Zinc ion (65 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Flavin mononucleotide (456 Da, Ligand)
- Protein-l-isoaspartate o-methyltransferase (23 kDa, Protein from Paracoccus denitrificans PD1222)
- Sodium ion (22 Da, Ligand)
- Zinc finger chcc-type domain-containing protein (7 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit a (13 kDa, Protein from Paracoccus denitrificans PD1222)
- Iron/sulfur cluster (351 Da, Ligand)
- Nadh-quinone oxidoreductase subunit b (19 kDa, Protein from Paracoccus denitrificans PD1222)
- Cardiolipin (1 kDa, Ligand)
- Nadh dehydrogenase subunit e (26 kDa, Protein from Paracoccus denitrificans PD1222)
N5-methyl-H4MPT:CoM methyltransferase -coenzyme M complex + CoM
Aziz I, Kayastha K, Kaltwasser S, Vonck J, Welsch S, Murohy BJ, Kahnt J, Wu D, Wagner T, Shima S, Ermler U
To Be Published
Sample:
- Tetrahydromethanopterin s-methyltransferase subunit b (10 kDa, Protein from Methanothermobacter marburgensis)
- 1-thioethanesulfonic acid (142 Da, Ligand)
- Tetrahydromethanopterin s-methyltransferase subunit e (31 kDa, Protein from Methanothermobacter marburgensis)
- Tetrahydromethanopterin s-methyltransferase subunit a 1 (25 kDa, Protein from Methanothermobacter marburgensis)
- Sodium ion (22 Da, Ligand)
- Methyl-h4mpt:com methyltransferase (430 MDa, Complex from Methanothermobacter marburgensis)
- Tetrahydromethanopterin s-methyltransferase subunit c (27 kDa, Protein from Methanothermobacter marburgensis)
- Tetrahydromethanopterin s-methyltransferase subunit f (7 kDa, Protein from Methanothermobacter marburgensis)
- Tetrahydromethanopterin s-methyltransferase subunit d (22 kDa, Protein from Methanothermobacter marburgensis)
- Magnesium ion (24 Da, Ligand)
- Tetrahydromethanopterin s-methyltransferase subunit g (9 kDa, Protein from Methanothermobacter marburgensis)
- Water (18 Da, Ligand)
- [(2~{s},7~{r},11~{r},15~{s},19~{s},22~{s},26~{s},30~{r},34~{r},39~{s},43~{r},47~{r},51~{s},55~{s},58~{s},62~{s},66~{r},70~{r})-39-[[(2~{r},3~{r},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxymethyl]-7,11,15,19,22,26,30,34,43,47,51,55,58,62,66,70-hexadecamethyl-1,4,37,40-tetraoxacyclodoheptacont-2-yl]methyl [(2~{r},3~{s},5~{r},6~{r})-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl] hydrogen phosphate (1 kDa, Ligand)
Rat Kidney V-ATPase with SidK, State 1
Release date: Nov. 22, 2023
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7uzf
Q-score: 0.332
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7uzf
Q-score: 0.332
To Be Published
Sample:
- V-type proton atpase subunit c 1 (43 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)
- Renin receptor (39 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit (40 kDa, Protein from Rattus norvegicus)
- Ribonuclease k (11 kDa, Protein from Rattus norvegicus)
- Effector sidk (32 kDa, Protein from Legionella pneumophila)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- V-type proton atpase 116 kda subunit a isoform 1 (96 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 2 (9 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit f (13 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit h (55 kDa, Protein from Rattus norvegicus)
- Rat kidney v-atpase with sidk (Complex from Rattus norvegicus)
- V-type proton atpase subunit s1 (51 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit a (68 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- V-type proton atpase 16 kda proteolipid subunit (15 kDa, Protein from Rattus norvegicus)
- Atpase, h+ transporting, v0 subunit b (predicted), isoform cra_a (21 kDa, Protein from Rattus norvegicus)
Rat Kidney V-ATPase lacking subunit H, with SidK and NCOA7B, State 1
Release date: Nov. 22, 2023
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7uzg
Q-score: 0.35
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7uzg
Q-score: 0.35
To Be Published
Sample:
- V-type proton atpase subunit c 1 (43 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)
- Renin receptor (39 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit (40 kDa, Protein from Rattus norvegicus)
- Ribonuclease k (11 kDa, Protein from Rattus norvegicus)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- V-type proton atpase 116 kda subunit a isoform 1 (96 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 2 (9 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit f (13 kDa, Protein from Rattus norvegicus)
- Nuclear receptor coactivator 7 (19 kDa, Protein from Rattus norvegicus)
- Rat kidney v-atpase with sidk (Complex from Rattus norvegicus)
- V-type proton atpase subunit s1 (51 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit a (68 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- V-type proton atpase 16 kda proteolipid subunit (15 kDa, Protein from Rattus norvegicus)
- Legionella pneumophila effector sidk (34 kDa, Protein from Legionella pneumophila)
- Atpase, h+ transporting, v0 subunit b (predicted), isoform cra_a (21 kDa, Protein from Rattus norvegicus)
Rat Kidney V-ATPase with SidK, State 2
Release date: Nov. 22, 2023
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7uzh
Q-score: 0.33
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7uzh
Q-score: 0.33
To Be Published
Sample:
- V-type proton atpase subunit c 1 (43 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)
- Renin receptor (39 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit (40 kDa, Protein from Rattus norvegicus)
- Ribonuclease k (11 kDa, Protein from Rattus norvegicus)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- V-type proton atpase 116 kda subunit a isoform 1 (96 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 2 (9 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- Effector sidk (34 kDa, Protein from Legionella pneumophila)
- V-type proton atpase subunit f (13 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit h (55 kDa, Protein from Rattus norvegicus)
- Rat kidney v-atpase with sidk (Complex from Rattus norvegicus)
- V-type proton atpase subunit s1 (51 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit a (68 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- V-type proton atpase 16 kda proteolipid subunit (15 kDa, Protein from Rattus norvegicus)
- Atpase, h+ transporting, v0 subunit b (predicted), isoform cra_a (21 kDa, Protein from Rattus norvegicus)
Rat Kidney V-ATPase lacking subunit H, with SidK and NCOA7B, State 2
Release date: Nov. 22, 2023
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7uzi
Q-score: 0.293
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7uzi
Q-score: 0.293
To Be Published
Sample:
- V-type proton atpase subunit c 1 (43 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)
- Renin receptor (39 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit (40 kDa, Protein from Rattus norvegicus)
- Ribonuclease k (11 kDa, Protein from Rattus norvegicus)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- V-type proton atpase 116 kda subunit a isoform 1 (96 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 2 (9 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit f (13 kDa, Protein from Rattus norvegicus)
- Nuclear receptor coactivator 7 (19 kDa, Protein from Rattus norvegicus)
- Rat kidney v-atpase with sidk (Complex from Rattus norvegicus)
- V-type proton atpase subunit s1 (51 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit a (68 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- V-type proton atpase 16 kda proteolipid subunit (15 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit h (34 kDa, Protein from Rattus norvegicus)
- Atpase, h+ transporting, v0 subunit b (predicted), isoform cra_a (21 kDa, Protein from Rattus norvegicus)
Rat Kidney V1 complex with SidK and NCOA7B, State 1
Release date: Nov. 22, 2023
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7uzj
Q-score: 0.442
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7uzj
Q-score: 0.442
To Be Published
Sample:
- Effector sidk (32 kDa, Protein from Legionella pneumophila)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- Rat kidney v1 complex with sidk and ncoa7b (Complex from Rattus norvegicus)
- V-type proton atpase subunit c 1 (43 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)
- Nuclear receptor coactivator 7b (25 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit a (68 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit f (13 kDa, Protein from Rattus norvegicus)
- Magnesium ion (24 Da, Ligand)
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit h (55 kDa, Protein from Rattus norvegicus)
Rat Kidney V1 complex lacking subunit H with SidK and NCOA7B, State 1
Release date: Nov. 22, 2023
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7uzk
Q-score: 0.531
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7uzk
Q-score: 0.531
To Be Published
Sample:
- Effector sidk (32 kDa, Protein from Legionella pneumophila)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit c 1 (43 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)
- Nuclear receptor coactivator 7b (25 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit a (68 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit f (13 kDa, Protein from Rattus norvegicus)
- Magnesium ion (24 Da, Ligand)
- Rat kidney v1 complex with sidk and ncoa7b (Complex from Rattus norvegicus)
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
Structure of the Pol II-TCR-ELOF1 complex.
Release date: Sept. 27, 2023
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8b3d
Q-score: 0.532
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8b3d
Q-score: 0.532
To Be Published
Sample:
- Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
- Pol ii-tcr-elof1 complex. (Complex from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa domesticus)
- Ts (15 kDa, DNA from Homo sapiens)
- Uv-stimulated scaffold protein a (80 kDa, Protein from Homo sapiens)
- Nts (16 kDa, DNA from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Rna (3 kDa, RNA from Homo sapiens)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa domesticus)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Dna excision repair protein ercc-6 (168 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit beta (133 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa domesticus)
- Magnesium ion (24 Da, Ligand)
- Transcription elongation factor 1 homolog (9 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna polymerase ii subunit d (16 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa domesticus)
- Rna_pol_l_2 domain-containing protein (13 kDa, Protein from Sus scrofa domesticus)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa domesticus)
- Rpb7 (28 kDa, Protein from Sus scrofa domesticus)
Release date: Sept. 27, 2023
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8b3f
Q-score: 0.456
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8b3f
Q-score: 0.456
To Be Published
Sample:
- Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa domesticus)
- Ts (15 kDa, DNA from Homo sapiens)
- Pol ii-csb-csa-ddb1-elof1 complex. (Complex from Homo sapiens)
- Nts (16 kDa, DNA from Homo sapiens)
- Rna (3 kDa, RNA from Homo sapiens)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa domesticus)
- Dna excision repair protein ercc-6 (168 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa domesticus)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase subunit beta (133 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa domesticus)
- Magnesium ion (24 Da, Ligand)
- Transcription elongation factor 1 homolog (9 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna polymerase ii subunit d (16 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa domesticus)
- Rna_pol_l_2 domain-containing protein (13 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa domesticus)