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 [ DOI: doi:10.1038/s42003-024-05863-w Pubmed: 38347078 ]
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- Bacteriochlorophyll a (911 Da, Ligand)
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- Reaction center protein l chain (31 kDa, Protein from Allochromatium vinosum DSM 180)
- Spirilloxanthin (596 Da, Ligand)
- Photosynthetic lh1-rc complex from the purple sulfur phototrophic bacterium allochromatium vinosum (Complex from Allochromatium vinosum DSM 180)
- (2s)-3-hydroxypropane-1,2-diyl dihexadecanoate (568 Da, Ligand)
- Bacteriopheophytin a (889 Da, Ligand)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Water (18 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Reaction center protein m chain (36 kDa, Protein from Allochromatium vinosum DSM 180)
- Magnesium ion (24 Da, Ligand)
- Antenna complex alpha/beta subunit (7 kDa, Protein from Allochromatium vinosum DSM 180)
- Photosynthetic reaction center h subunit (28 kDa, Protein from Allochromatium vinosum DSM 180)
- Photosynthetic reaction center cytochrome c subunit (41 kDa, Protein from Allochromatium vinosum DSM 180)
- Ubiquinone-8 (727 Da, Ligand)
- Antenna complex alpha/beta subunit (7 kDa, Protein from Allochromatium vinosum DSM 180)
- Calcium ion (40 Da, Ligand)
- Menaquinone 8 (717 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- Lauryl dimethylamine-n-oxide (229 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Dodecyl-beta-d-maltoside (510 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 [ DOI: doi:10.1038/s42003-024-05863-w Pubmed: 38347078 ]
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- Bacteriochlorophyll a (911 Da, Ligand)
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- Reaction center protein l chain (31 kDa, Protein from Allochromatium vinosum DSM 180)
- Spirilloxanthin (596 Da, Ligand)
- Photosynthetic lh1-rc complex from the purple sulfur phototrophic bacterium allochromatium vinosum (Complex from Allochromatium vinosum DSM 180)
- (2s)-3-hydroxypropane-1,2-diyl dihexadecanoate (568 Da, Ligand)
- Bacteriopheophytin a (889 Da, Ligand)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Water (18 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Reaction center protein m chain (36 kDa, Protein from Allochromatium vinosum DSM 180)
- Magnesium ion (24 Da, Ligand)
- Antenna complex alpha/beta subunit (7 kDa, Protein from Allochromatium vinosum DSM 180)
- Photosynthetic reaction center h subunit (28 kDa, Protein from Allochromatium vinosum DSM 180)
- Photosynthetic reaction center cytochrome c subunit (41 kDa, Protein from Allochromatium vinosum DSM 180)
- Ubiquinone-8 (727 Da, Ligand)
- Antenna complex alpha/beta subunit (7 kDa, Protein from Allochromatium vinosum DSM 180)
- Calcium ion (40 Da, Ligand)
- Menaquinone 8 (717 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Antenna complex alpha/beta subunit (5 kDa, Protein from Allochromatium vinosum DSM 180)
- Lauryl dimethylamine-n-oxide (229 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Dodecyl-beta-d-maltoside (510 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
- Staphylococcus phage s6 (Virus from Staphylococcus phage S6)
- Hoc-like protein orf90 (53 kDa, Protein from Staphylococcus phage S6)
- Major structural protein orf12 (59 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)
- Groel-ugt1a complex (Complex from Escherichia coli)
- Udp-glucuronosyltransferase 1a (ugt1a) (Complex from Homo sapiens)
- Chaperonin groel (57 kDa, Protein 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
- Groel (Complex from Escherichia coli)
- Udp-glucuronosyltransferase 1a (ugt1a) (Complex from Homo sapiens)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Single empty ring 2 (ser2) of groel-ugt1a complex (Complex 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
- Or(4)-groel-ugt1a containing modeled (polyalanine) ugt1a (Complex from Escherichia coli)
- Polyalanine model of udp-glucuronosyltransferase 1a (ugt1a) (2 kDa, Protein from Homo sapiens)
- Groel-ugt1a double occupied ring complex (Complex from Escherichia coli)
- Udp-glucuronosyltransferase 1a (ugt1a) (Complex from Homo sapiens)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
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