Cryo-EM reconstruction of PI3KC3-C1 in complex with Human RAB1A(Q70L)
Resolution: 2.73 Å
EM Method: Single-particle
Fitted PDBs: 9mhf
Q-score: 0.588
Cook ASI, Chen M, Ngyuen TN, Claveras-Cabezudo A, Khuu G, Rao S, Garcia SN, Yang M, Iavarone AT, Ren X, Lazarou M, Hummer G, Hurley JH
To Be Published
- Phosphoinositide 3-kinase regulatory subunit 4 (158 kDa, Protein from Homo sapiens)
- Myristic acid (228 Da, Ligand)
- Ras-related protein rab-1a (25 kDa, Protein from Homo sapiens)
- Beclin 1-associated autophagy-related key regulator (55 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Phosphatidylinositol-3 kinase class iii complex i bound to rab1a (384 kDa, Complex from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Beclin-1 (51 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Phosphatidylinositol 3-kinase catalytic subunit type 3 (101 kDa, Protein from Homo sapiens)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9mhg
Q-score: 0.43
Cook ASI, Chen M, Ngyuen TN, Claveras-Cabezudo A, Khuu G, Rao S, Garcia SN, Yang M, Iavarone AT, Ren X, Lazarou M, Hummer G, Hurley JH
To Be Published
- Phosphoinositide 3-kinase regulatory subunit 4 (158 kDa, Protein from Homo sapiens)
- Myristic acid (228 Da, Ligand)
- Ras-related protein rab-1a (25 kDa, Protein from Homo sapiens)
- Beclin 1-associated autophagy-related key regulator (55 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Phosphatidylinositol-3 kinase class iii complex i bound to rab1a (384 kDa, Complex from Homo sapiens)
- Beclin-1 (51 kDa, Protein from Homo sapiens)
- Phosphatidylinositol 3-kinase catalytic subunit type 3 (101 kDa, Protein from Homo sapiens)
PI3KC3-C1 in complex with RAB1A. VPS34 kinase domain active conformation
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 9mhh
Q-score: 0.373
Cook ASI, Chen M, Ngyuen TN, Claveras-Cabezudo A, Khuu G, Rao S, Garcia SN, Yang M, Iavarone AT, Ren X, Lazarou M, Hummer G, Hurley JH
To Be Published
- Phosphoinositide 3-kinase regulatory subunit 4 (158 kDa, Protein from Homo sapiens)
- Ras-related protein rab-1a (25 kDa, Protein from Homo sapiens)
- Beclin 1-associated autophagy-related key regulator (55 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Phosphatidylinositol-3 kinase class iii complex i bound to rab1a (384 kDa, Complex from Homo sapiens)
- Beclin-1 (51 kDa, Protein from Homo sapiens)
- Phosphatidylinositol 3-kinase catalytic subunit type 3 (101 kDa, Protein from Homo sapiens)
Cryo-EM structure of native SWR1 bound to DNA (composite structure)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9b1d
Q-score: 0.435
Louder RK, Park G, Ye Z, Cha JS, Gardner AM, Lei Q, Ranjan A, Hollmuller E, Stengel F, Pugh BF, Wu C
Cell (2024) 187 pp. 6849-6864.e18 [ DOI: doi:10.1016/j.cell.2024.09.007 Pubmed: 39357520 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Native swr1 bound to dna. (1 MDa, Complex from Saccharomyces cerevisiae)
- Ruvb-like protein 2 (51 kDa, Protein from Saccharomyces cerevisiae W303)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Actin-like protein arp6 (50 kDa, Protein from Saccharomyces cerevisiae W303)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Helicase swr1 (178 kDa, Protein from Saccharomyces cerevisiae W303)
- Native swr1 complex (Complex from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Vacuolar protein sorting-associated protein 71 (32 kDa, Protein from Saccharomyces cerevisiae W303)
- Ruvb-like protein 1 (91 kDa, Protein from Saccharomyces cerevisiae W303)
- Vacuolar protein sorting-associated protein 72 (90 kDa, Protein from Saccharomyces cerevisiae W303)
Hsp90 provides platform for CRaf dephosphorylation by PP5
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8gft
Q-score: 0.333
Jaime-Garza M, Nowotny CA, Coutandin D, Wang F, Tabios M, Agard DA
Nat Commun (2023) 14 pp. 2197-2197 [ DOI: doi:10.1038/s41467-023-37659-7 Pubmed: 37069154 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Heat shock protein hsp 90-beta (83 kDa, Protein from Homo sapiens)
- Hsp90 co-chaperone cdc37, n-terminally processed (45 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- Serine/threonine-protein phosphatase 5 (57 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Manganese (ii) ion (54 Da, Ligand)
- Protein phosphatase 5 (h304a) (Complex from Homo sapiens)
- Hsp90:cdc37:craf:pp5 complex (57 kDa, Complex from Homo sapiens)
- Raf proto-oncogene serine/threonine-protein kinase (34 kDa, Protein from Homo sapiens)
Cryo-EM structure of ND6-P25L mutant respiratory complex I from Mus musculus at 3.8 A
Resolution: 3.82 Å
EM Method: Single-particle
Fitted PDBs: 7ak6
Q-score: 0.447
Yin Z, Burger N, Kula-Alwar D, Aksentijevic D, Bridges HR, Prag HA, Grba DN, Viscomi C, James AM, Mottahedin A, Krieg T, Murphy MP, Hirst J
Nat Commun (2021) 12 pp. 707-707 [ DOI: doi:10.1038/s41467-021-20942-w Pubmed: 33514727 ]
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial (30 kDa, Protein from Mouse)
- Nadh-ubiquinone oxidoreductase chain 1 (36 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial (42 kDa, Protein from Mouse)
- Acyl carrier protein, mitochondrial (17 kDa, Protein from Mouse)
- Iron/sulfur cluster (351 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3 (11 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial (21 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial (52 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3 (9 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5 (13 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 (20 kDa, Protein from Mouse)
- Mcg5603 (15 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 subunit c2 (14 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial (40 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 (6 kDa, Protein from Mouse)
- Nadh-ubiquinone oxidoreductase chain 5 (68 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (50 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 5 (12 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial (11 kDa, Protein from Mouse)
- Nadh-ubiquinone oxidoreductase chain 4 (51 kDa, Protein from Mouse)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Flavin mononucleotide (456 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 4l (10 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial (24 kDa, Protein from Mouse)
- Nadh-ubiquinone oxidoreductase chain 3 (13 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13 (16 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6 (15 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial (13 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7 (16 kDa, Protein from Mouse)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6 (15 kDa, Protein from Mouse)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 6 (18 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 subunit c1, mitochondrial (8 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial (24 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial (19 kDa, Protein from Mouse)
- Nadh-ubiquinone oxidoreductase chain 2 (38 kDa, Protein from Mouse)
- Cardiolipin (1 kDa, Ligand)
- Nadh dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial (27 kDa, Protein from Mouse)
- Mouse mitochondrial complex i with nd6-p25l mutation (1 MDa, Complex from Mus musculus)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9 (22 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10 (21 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial (21 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 (17 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7 (12 kDa, Protein from Mouse)
- Zinc ion (65 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 (10 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mitochondrial (11 kDa, Protein from Mouse)
- Nadh-ubiquinone oxidoreductase 75 kda subunit, mitochondrial (79 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1 (7 kDa, Protein from Mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4 (15 kDa, Protein from Mouse)
- ~{s}-[2-[3-[[(2~{r})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] (3~{s})-3-oxidanyltetradecanethioate (584 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial (17 kDa, Protein from Mouse)
- 1,2-diacyl-sn-glycero-3-phosphoethanolamine (748 Da, Ligand)