Yeast RAVE bound to V-ATPase V1 complex
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 9cop
Q-score: 0.252
Wang H, Tarsio M, Kane PM, Rubinstein JL
PNAS (2024) 121 pp. e2414511121-e2414511121 [ Pubmed: 39625975 DOI: doi:10.1073/pnas.2414511121 ]
- V-type proton atpase subunit f (13 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit e (26 kDa, Protein from Saccharomyces cerevisiae)
- Regulator of v-atpase in vacuolar membrane protein 2 (40 kDa, Protein from Saccharomyces cerevisiae)
- Suppressor of kinetochore protein 1 (22 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit h (54 kDa, Protein from Saccharomyces cerevisiae)
- Regulator of v-atpase in vacuolar membrane protein 1 (155 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit g (12 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase catalytic subunit a (118 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Yeast rave bound to v-atpase v1 complex (Complex from Saccharomyces cerevisiae)
- V-type proton atpase subunit b (57 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit d (29 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
Resolution: 3.49 Å
EM Method: Single-particle
Fitted PDBs: 9chu
Q-score: 0.478
Xu J, Chen G, Wang H, Cao S, Heng J, Deupi X, Du Y, Kobilka BK
PNAS (2024) 121 pp. e2414544121-e2414544121 [ DOI: doi:10.1073/pnas.2414544121 Pubmed: 39565314 ]
- Calcineurin fused beta2ar in complex with fkbp12 (Complex)
- Fkbp1a (Complex from Homo sapiens)
- Calcineurin fused beta2ar (Complex from Homo sapiens)
- Protein phosphatase 3 catalytic subunit alpha (Complex from Mus musculus)
- Peptidyl-prolyl cis-trans isomerase fkbp1a (11 kDa, Protein from Homo sapiens)
- 8-deethyl-8-[but-3-enyl]-ascomycin (804 Da, Ligand)
- Noradrenaline (170 Da, Ligand)
- Beta-2 adrenergic receptor,calcineurin subunit b type 1 (49 kDa, Protein from Homo sapiens)
- Protein phosphatase 3 catalytic subunit alpha (42 kDa, Protein from Mus musculus)
cryo-EM structure of calcineurin-fused beta2 adrenergic receptor in apo state
Resolution: 3.95 Å
EM Method: Single-particle
Fitted PDBs: 9chv
Q-score: 0.39
Xu J, Chen G, Wang H, Cao S, Heng J, Deupi X, Du Y, Kobilka BK
PNAS (2024) 121 pp. e2414544121-e2414544121 [ DOI: doi:10.1073/pnas.2414544121 Pubmed: 39565314 ]
- Calcineurin fused beta2ar in complex with fkbp12 (Complex)
- Fkbp1a (Complex from Homo sapiens)
- Calcineurin fused beta2ar (Complex from Homo sapiens)
- Protein phosphatase 3 catalytic subunit alpha (Complex from Mus musculus)
- Beta-2 adrenergic receptor,calcineurin subunit b type 1 (51 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase fkbp1a (11 kDa, Protein from Homo sapiens)
- 8-deethyl-8-[but-3-enyl]-ascomycin (804 Da, Ligand)
- Protein phosphatase 3 catalytic subunit alpha (42 kDa, Protein from Mus musculus)
cryo-EM structure of calcineurin-fused beta2 adrenergic receptor in carazolol bound inactive state
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 9chx
Q-score: 0.431
Xu J, Chen G, Wang H, Cao S, Heng J, Deupi X, Du Y, Kobilka BK
PNAS (2024) 121 pp. e2414544121-e2414544121 [ DOI: doi:10.1073/pnas.2414544121 Pubmed: 39565314 ]
- Calcineurin fused beta2ar in complex with fkbp12 (Complex)
- Fkbp1a (Complex from Homo sapiens)
- Calcineurin fused beta2ar (Complex from Homo sapiens)
- Protein phosphatase 3 catalytic subunit alpha (Complex from Mus musculus)
- (2s)-1-(9h-carbazol-4-yloxy)-3-(isopropylamino)propan-2-ol (298 Da, Ligand)
- Beta-2 adrenergic receptor,calcineurin subunit b type 1 (51 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase fkbp1a (11 kDa, Protein from Homo sapiens)
- 8-deethyl-8-[but-3-enyl]-ascomycin (804 Da, Ligand)
- Protein phosphatase 3 catalytic subunit alpha (42 kDa, Protein from Mus musculus)
Structure of cobalamin-dependent methionine synthase (MetH) in a resting state
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8g3h
Q-score: 0.303
Watkins MB, Wang H, Burnim A, Ando N
PNAS (2023) 120 pp. e2302531120-e2302531120 [ DOI: doi:10.1073/pnas.2302531120 Pubmed: 37339208 ]
- Methionine synthase (131 kDa, Protein from Thermus filiformis)
- Cobalamin-dependent methionine synthase holoprotein (132 kDa, Complex from Thermus filiformis)
- Cobalamin (1 kDa, Ligand)
- Zinc ion (65 Da, Ligand)
Yeast RNA polymerase II transcription pre-initiation complex with core Mediator
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8cen
Q-score: 0.269
Schilbach S, Wang H, Dienemann C, Cramer P
PNAS (2023) 120 pp. e2220542120-e2220542120 [ Pubmed: 37014863 DOI: doi:10.1073/pnas.2220542120 ]
- Dna-directed rna polymerase ii subunit rpb3 (38 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 9 (17 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factors, and rna polymerase ii transcription factor b subunit 3 (Complex from Saccharomyces cerevisiae)
- Tata-binding protein (27 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb2 (138 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 10 (17 kDa, Protein from Saccharomyces cerevisiae)
- Nontemplate dna (209-mer) (64 kDa, DNA from synthetic construct)
- Rna polymerase ii transcription factor b subunit 3 (38 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factors and mediator of rna polymerase ii transcription subunits (Complex from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 6 (32 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 17 (78 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb4 (25 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 1 (64 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iia large subunit (32 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 19 (24 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb11 (13 kDa, Protein from Saccharomyces cerevisiae)
- Template dna (209-mer) (64 kDa, DNA from synthetic construct)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iie subunit alpha (55 kDa, Protein from Saccharomyces cerevisiae)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase subunits (Complex from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 21 (16 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iif subunit beta (46 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iia subunit 2 (13 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 20 (22 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 4 (32 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih helicase subunit xpd (89 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih subunit ssl1 (52 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 22 (13 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 31 (14 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iib (39 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih subunit tfb5 (8 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih helicase subunit xpb (95 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iie subunit beta (37 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 7 (25 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih subunit tfb4 (37 kDa, Protein from Saccharomyces cerevisiae)
- Yeast rna polymerase ii transcription pre-initiation complex with core mediator (2 MDa, Complex)
- Mediator of rna polymerase ii transcription subunit 18 (34 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 8 (25 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Transcription initiation factor iif subunit alpha (82 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb1 (191 kDa, Protein from Saccharomyces cerevisiae)
- Dna (Complex from Synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 14 (84 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih subunit tfb1 (72 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih subunit tfb2 (58 kDa, Protein from Saccharomyces cerevisiae)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8ceo
Q-score: 0.222
Schilbach S, Wang H, Dienemann C, Cramer P
PNAS (2023) 120 pp. e2220542120-e2220542120 [ Pubmed: 37014863 DOI: doi:10.1073/pnas.2220542120 ]
- Dna-directed rna polymerase ii subunit rpb3 (38 kDa, Protein from Saccharomyces cerevisiae)
- Yeast rna polymerase ii transcription pre-initiation complex with core mediator and the +1 nucleosome (2 MDa, Complex from Saccharomyces cerevisiae)
- Histone h2b (13 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iie subunit alpha (55 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Rna polymerase ii transcription factor b subunit 3 (38 kDa, Protein from Saccharomyces cerevisiae)
- Rna polymerase ii transcription factor b subunit 2 (58 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 17 (78 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 7 (25 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 20 (22 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 31 (14 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih (52 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih subunit tfb4 (37 kDa, Protein from Saccharomyces cerevisiae)
- Tfb1 isoform 1 (72 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 8 (25 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 18 (34 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 19 (24 kDa, Protein from Saccharomyces cerevisiae)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Transcription initiation factor iie subunit beta (37 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 9 (17 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih helicase subunit xpd (89 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 4 (32 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih subunit tfb5 (8 kDa, Protein from Saccharomyces cerevisiae)
- Tata-binding protein (27 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 22 (13 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb11 (13 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 14 (123 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iib (39 kDa, Protein from Saccharomyces cerevisiae)
- Nontemplate dna (209-mer) (64 kDa, DNA from synthetic construct)
- Iron/sulfur cluster (351 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 10 (17 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 21 (16 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Saccharomyces cerevisiae)
- Toa1 isoform 1 (32 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 1 (64 kDa, Protein from Saccharomyces cerevisiae)
- General transcription and dna repair factor iih helicase subunit xpb (95 kDa, Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 6 (32 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit rpb1 (191 kDa, Protein from Saccharomyces cerevisiae)
- Template dna (209-mer) (64 kDa, DNA from synthetic construct)
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb2 (138 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iif subunit beta (46 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iif subunit alpha (82 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iia subunit 2 (13 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb4 (25 kDa, Protein from Saccharomyces cerevisiae)
Yeast VO in complex with Vma12-22p
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8eas
Q-score: 0.606
Wang H, Bueler SA, Rubinstein JL
PNAS (2023) 120 pp. e2217181120-e2217181120 [ Pubmed: 36724250 DOI: doi:10.1073/pnas.2217181120 ]
- V-type proton atpase subunit c'' (22 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit e (8 kDa, Protein from Saccharomyces cerevisiae)
- Yeast vo in complex with vma12-22p (Complex from Saccharomyces cerevisiae)
- Vacuolar atpase assembly protein vma22 (21 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit c (16 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase assembly factor vma12p (16 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit a, vacuolar isoform (95 kDa, Protein from Saccharomyces cerevisiae)
- V0 assembly protein 1 (29 kDa, Protein from Saccharomyces cerevisiae)
- Yeast v-atpase subunit f (9 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit f (13 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit c' (17 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit d (39 kDa, Protein from Saccharomyces cerevisiae)
Yeast VO missing subunits a, e, and f in complex with Vma12-22p
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8eat
Q-score: 0.529
Wang H, Bueler SA, Rubinstein JL
PNAS (2023) 120 pp. e2217181120-e2217181120 [ Pubmed: 36724250 DOI: doi:10.1073/pnas.2217181120 ]
- V-type proton atpase subunit c'' (22 kDa, Protein from Saccharomyces cerevisiae)
- Vacuolar atpase assembly protein vma22 (21 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit c (16 kDa, Protein from Saccharomyces cerevisiae)
- V0 assembly protein 1 (29 kDa, Protein from Saccharomyces cerevisiae)
- Vacuolar atpase assembly integral membrane protein vph2 (25 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit f (13 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit c' (17 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit d (39 kDa, Protein from Saccharomyces cerevisiae)
- Yeast vo missing subunits a, e, and f in complex with vma12-22p (Complex from Saccharomyces cerevisiae)
Yeast VO in complex with Vma21p
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8eau
Q-score: 0.518
Wang H, Bueler SA, Rubinstein JL
PNAS (2023) 120 pp. e2217181120-e2217181120 [ Pubmed: 36724250 DOI: doi:10.1073/pnas.2217181120 ]
- V-type proton atpase subunit c'' (22 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit e (8 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit c (16 kDa, Protein from Saccharomyces cerevisiae)
- Yeast vo in complex with vma21p (Complex from Saccharomyces cerevisiae)
- V-type proton atpase subunit a, vacuolar isoform (95 kDa, Protein from Saccharomyces cerevisiae)
- V0 assembly protein 1 (29 kDa, Protein from Saccharomyces cerevisiae)
- Vacuolar atpase assembly integral membrane protein vma21 (8 kDa, Protein from Saccharomyces cerevisiae)
- Yeast v-atpase subunit f (9 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit c' (17 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit d (39 kDa, Protein from Saccharomyces cerevisiae)