Resolution: 2.24 Å
EM Method: Single-particle
Fitted PDBs: 8wdu
Q-score: 0.676
Tani K, Kanno R, Harada A, Kobayashi Y, Minamino A, Takenaka S, Nakamura N, Ji XC, Purba ER, Hall M, Yu LJ, Madigan MT, Mizoguchi A, Iwasaki K, Humbel BM, Kimura Y, Wang-Otomo ZY
Commun Biol (2024) 7 pp. 176-176 [ Pubmed: 38347078 DOI: doi:10.1038/s42003-024-05863-w ]
- Antenna complex alpha/beta subunit (7 kDa, Protein from Allochromatium vinosum DSM 180)
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
- Antenna complex alpha/beta subunit (7 kDa, Protein from Allochromatium vinosum DSM 180)
- Bacteriochlorophyll a (911 Da, Ligand)
- Reaction center protein l chain (31 kDa, Protein from Allochromatium vinosum DSM 180)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- (2s)-3-hydroxypropane-1,2-diyl dihexadecanoate (568 Da, Ligand)
- Reaction center protein m chain (36 kDa, Protein from Allochromatium vinosum DSM 180)
- Ubiquinone-8 (727 Da, Ligand)
- Photosynthetic lh1-rc complex from the purple sulfur phototrophic bacterium allochromatium vinosum (Complex from Allochromatium vinosum DSM 180)
- Menaquinone 8 (717 Da, Ligand)
- Photosynthetic reaction center cytochrome c subunit (41 kDa, Protein from Allochromatium vinosum DSM 180)
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- Water (18 Da, Ligand)
- Lauryl dimethylamine-n-oxide (229 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Bacteriopheophytin a (889 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Magnesium ion (24 Da, Ligand)
- Photosynthetic reaction center h subunit (28 kDa, Protein from Allochromatium vinosum DSM 180)
- Spirilloxanthin (596 Da, Ligand)
Resolution: 2.24 Å
EM Method: Single-particle
Fitted PDBs: 8wdv
Q-score: 0.658
Tani K, Kanno R, Harada A, Kobayashi Y, Minamino A, Takenaka S, Nakamura N, Ji XC, Purba ER, Hall M, Yu LJ, Madigan MT, Mizoguchi A, Iwasaki K, Humbel BM, Kimura Y, Wang-Otomo ZY
Commun Biol (2024) 7 pp. 176-176 [ Pubmed: 38347078 DOI: doi:10.1038/s42003-024-05863-w ]
- Antenna complex alpha/beta subunit (7 kDa, Protein from Allochromatium vinosum DSM 180)
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
- Antenna complex alpha/beta subunit (7 kDa, Protein from Allochromatium vinosum DSM 180)
- Bacteriochlorophyll a (911 Da, Ligand)
- Reaction center protein l chain (31 kDa, Protein from Allochromatium vinosum DSM 180)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- (2s)-3-hydroxypropane-1,2-diyl dihexadecanoate (568 Da, Ligand)
- Reaction center protein m chain (36 kDa, Protein from Allochromatium vinosum DSM 180)
- Ubiquinone-8 (727 Da, Ligand)
- Photosynthetic lh1-rc complex from the purple sulfur phototrophic bacterium allochromatium vinosum (Complex from Allochromatium vinosum DSM 180)
- Menaquinone 8 (717 Da, Ligand)
- Photosynthetic reaction center cytochrome c subunit (41 kDa, Protein from Allochromatium vinosum DSM 180)
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- Water (18 Da, Ligand)
- Lauryl dimethylamine-n-oxide (229 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Bacteriopheophytin a (889 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Magnesium ion (24 Da, Ligand)
- Photosynthetic reaction center h subunit (28 kDa, Protein from Allochromatium vinosum DSM 180)
- Spirilloxanthin (596 Da, Ligand)
Capsid structure of Staphylococcus jumbo bacteriophage S6
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7x30
Q-score: 0.458
Koibuchi W, Uchiyama J, Matsuzaki S, Murata K, Iwasaki K, Miyazaki N
To Be Published
- Major structural protein orf12 (59 kDa, Protein from Staphylococcus phage S6)
- Staphylococcus phage s6 (Virus from Staphylococcus phage S6)
- Hoc-like protein orf90 (53 kDa, Protein from Staphylococcus phage S6)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7xoj
Q-score: 0.466
Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E
To Be Published
- Groel (Complex from Escherichia coli)
- Udp-glucuronosyltransferase 1a (ugt1a) (Complex from Homo sapiens)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Groel-ugt1a complex (Complex from Escherichia coli)
Cryo-EM structure of double occupied ring (DOR) of GroEL-UGT1A complex at 2.7 Ang. resolution
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7xok
Q-score: 0.464
Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E
To Be Published
- Groel (Complex from Escherichia coli)
- Udp-glucuronosyltransferase 1a (ugt1a) (Complex from Homo sapiens)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Double occupied ring (dor) of groel-ugt1a complex (Complex from Escherichia coli)
Cryo-EM structure of single empty ring 2 (SER2) of GroEL-UGT1A complex at 3.2 Ang. resolution
Resolution: 3.26 Å
EM Method: Single-particle
Fitted PDBs: 7xol
Q-score: 0.432
Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E
To Be Published
- Single empty ring 2 (ser2) of groel-ugt1a complex (Complex from Escherichia coli)
- Groel (Complex from Escherichia coli)
- Udp-glucuronosyltransferase 1a (ugt1a) (Complex from Homo sapiens)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7xom
Q-score: 0.448
Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E
To Be Published
- Groel-ugt1a double occupied ring complex (Complex from Escherichia coli)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Polyalanine model of udp-glucuronosyltransferase 1a (ugt1a) (2 kDa, Protein from Homo sapiens)
- Or(4)-groel-ugt1a containing modeled (polyalanine) ugt1a (Complex from Escherichia coli)
- Udp-glucuronosyltransferase 1a (ugt1a) (Complex from Homo sapiens)
Cryo-EM structure of empty ring subunit 1 (ER1) from single empty ring of GroEL-UGT1A complex
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7xon
Q-score: 0.47
Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E
To Be Published
Cryo-EM structure of empty ring subunit 2 (ER2) from GroEL-UGT1A single empty ring complex
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7xoo
Q-score: 0.492
Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E
To Be Published
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7xop
Q-score: 0.485
Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E
To Be Published