Kawamoto A, Vizarraga D, Marcos-Silva M, Martin J, Makino F, Miyata T, Roel J, Marcos E, Aparicio D, Fita I, Miyata M, Pinyol J, Namba K, Kenri T
To Be Published
- Water (18 Da, Ligand)
- Anti-adhesive fab fragment (Complex from Mus musculus)
- Adhesin p1 (158 kDa, Protein from Mycoplasmoides pneumoniae M129)
- Heavy chain fab (23 kDa, Protein from Mus musculus)
- Mycoplasma pneumoniae adhesin p1 complexed with the anti-adhesive fab fragment. (200 kDa, Complex)
- Light chain fab (24 kDa, Protein from Mus musculus)
- Adhesin p1 (Complex from Mycoplasmoides pneumoniae M129)
Structure of the RBM3 ring of Salmonella flagellar MS-ring protein FliF with C33 symmetry applied
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 8zdt
Q-score: 0.629
Kinoshita M, Makino F, Miyata T, Imada K, Minamino T, Namba K
Commun Biol (2025) [ ]
Structure of the RBM3 ring of Salmonella flagellar MS-ring protein FliF with C34 symmetry applied
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8zdu
Q-score: 0.603
Kinoshita M, Makino F, Miyata T, Imada K, Minamino T, Namba K
Commun Biol (2025) [ ]
Cryo-EM structure of Light-harvesting complex from Spinacia oleracea
Resolution: 2.17 Å
EM Method: Single-particle
Fitted PDBs: 8y15
Q-score: 0.709
Seki S, Miyata T, Norioka N, Tanaka H, Kurisu G, Namba K, Fujii R
Pnas Nexus (2024) 3 pp. pgae405-pgae405 [ DOI: doi:10.1093/pnasnexus/pgae405 Pubmed: 39346626 ]
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Spinacia oleracea)
- Water (18 Da, Ligand)
- Light-harvesting complex ii from spinacia oleracea (700 kDa, Complex from Spinacia oleracea)
- Lutein (568 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
Cryo-EM structure of in vitro reconstituted Light-harvesting complex II trimer
Resolution: 2.37 Å
EM Method: Single-particle
Fitted PDBs: 8yee
Q-score: 0.678
Seki S, Miyata T, Norioka N, Tanaka H, Kurisu G, Namba K, Fujii R
Pnas Nexus (2024) 3 pp. pgae405-pgae405 [ DOI: doi:10.1093/pnasnexus/pgae405 Pubmed: 39346626 ]
- Water (18 Da, Ligand)
- Lutein (568 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Spinacia oleracea)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- In vitro reconstituted light-harvesting complex ii (120 kDa, Complex from Spinacia oleracea)
- Chlorophyll a (893 Da, Ligand)
Cryo-EM structure of light-harvesting complex II with C1 symmetry
Seki S, Miyata T, Norioka N, Tanaka H, Kurisu G, Namba K, Fujii R
Pnas Nexus (2024) 3 pp. pgae405-pgae405 [ DOI: doi:10.1093/pnasnexus/pgae405 Pubmed: 39346626 ]
- Light-harvesting complex ii (120 kDa, Complex from Spinacia oleracea)
Cryo-EM structure of in vitro reconstituted LHCII with C1 symmetry
Cryo-EM structure of Dragon Grouper nervous necrosis virus-like particle at pH6.5 (2.82A)
Resolution: 2.82 Å
EM Method: Single-particle
Fitted PDBs: 8yf7
Q-score: 0.364
Sterbova P, Wang CH, Carillo KJD, Lou YC, Kato T, Namba K, Tzou DM, Chang WH
Acs Infect Dis. (2024) 10 pp. 3304-3319 [ DOI: doi:10.1021/acsinfecdis.4c00407 Pubmed: 39087906 ]
Resolution: 2.08 Å
EM Method: Helical reconstruction
Fitted PDBs: 9iwq
Q-score: 0.716
Waraich K, Makino F, Miyata T, Kinoshita M, Minamino T, Namba K
To Be Published
Fukawa E, Suzuki Y, Adachi T, Miyata T, Makino F, Tanaka H, Namba K, Sowa K, Kitazumi Y, Shirai O
Electrochim Acta (2024) 490 [ DOI: doi:10.1016/j.electacta.2024.144271 ]
- Fructose dehydrogenase small subunit (20 kDa, Protein from Gluconobacter japonicus)
- Ubiquinone-10 (863 Da, Ligand)
- Fructose dehydrogenase (h1147a) large subunit (59 kDa, Protein from Gluconobacter japonicus)
- Fructose dehydrogenase cytochrome subunit (52 kDa, Protein from Gluconobacter japonicus)
- Heme c (618 Da, Ligand)
- D-fructose dehydrogenase (h1147a) from gluconobacter japonicus (140 kDa, Complex from Gluconobacter japonicus)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Fe3-s4 cluster (295 Da, Ligand)