Cryo-EM structure of the channelrhodopsin GtCCR2 focused on the monomer
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 8yej
Q-score: 0.57
Tanaka T, Hososhima S, Yamashita Y, Sugimoto T, Nakamura T, Shigemura S, Iida W, Sano FK, Oda K, Uchihashi T, Katayama K, Furutani Y, Tsunoda SP, Shihoya W, Kandori H, Nureki O
Mol Cell (2024) 84 pp. 3530-3544.e6 [ Pubmed: 39232582 DOI: doi:10.1016/j.molcel.2024.08.016 ]
- Water (18 Da, Ligand)
- Gtccr2 (52 kDa, Protein from Guillardia theta CCMP2712)
- Retinal (284 Da, Ligand)
- Gtccr2 (Complex from Guillardia theta)
Cryo-EM structure of the channelrhodopsin GtCCR2
Resolution: 2.73 Å
EM Method: Single-particle
Fitted PDBs: 8yek
Q-score: 0.564
Tanaka T, Hososhima S, Yamashita Y, Sugimoto T, Nakamura T, Shigemura S, Iida W, Sano FK, Oda K, Uchihashi T, Katayama K, Furutani Y, Tsunoda SP, Shihoya W, Kandori H, Nureki O
Mol Cell (2024) 84 pp. 3530-3544.e6 [ Pubmed: 39232582 DOI: doi:10.1016/j.molcel.2024.08.016 ]
- Water (18 Da, Ligand)
- Retinal (284 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Gtccr2 (52 kDa, Protein from Guillardia theta CCMP2712)
- Gtccr2 (Complex from Guillardia theta)
Cryo-EM structure of the channelrhodopsin GtCCR4
Resolution: 2.71 Å
EM Method: Single-particle
Fitted PDBs: 8yel
Q-score: 0.602
Tanaka T, Hososhima S, Yamashita Y, Sugimoto T, Nakamura T, Shigemura S, Iida W, Sano FK, Oda K, Uchihashi T, Katayama K, Furutani Y, Tsunoda SP, Shihoya W, Kandori H, Nureki O
Mol Cell (2024) 84 pp. 3530-3544.e6 [ Pubmed: 39232582 DOI: doi:10.1016/j.molcel.2024.08.016 ]
- Water (18 Da, Ligand)
- Retinal (284 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Cation channel rhodopsin 4 (45 kDa, Protein from Guillardia theta)
- Gtccr4 (Complex from Guillardia theta)
Teramoto T, Koyasu T, Yokogawa T, Adachi N, Mayanagi K, Nakamura T, Senda T, Kakuta Y
To Be Published
- Rna-free ribonuclease p (21 kDa, Protein from Hydrogenobacter thermophilus DSM 653)
- Aquifex aeolicus pre-trnaval (23 kDa, RNA from Aquifex aeolicus)
- Magnesium ion (24 Da, Ligand)
- Hydrogenobacter thermophilus rna-free ribonuclease p, harp, in complex with pre-trna (Complex from Hydrogenobacter thermophilus)
Conformation 1 of SARS-CoV-2 Omicron BA.1 Variant Spike protein complexed with MO1 Fab
Resolution: 2.48 Å
EM Method: Single-particle
Fitted PDBs: 8h3m
Q-score: 0.635
Ishimaru H, Nishimura M, Tjan LH, Sutandhio S, Marini MI, Effendi GB, Shigematsu H, Kato K, Hasegawa N, Aoki K, Kurahashi Y, Furukawa K, Shinohara M, Nakamura T, Arii J, Nagano T, Nakamura S, Sano S, Iwata S, Okamura S, Mori Y
J Virol (2023) 97 pp. e0028623-e0028623 [ Pubmed: 37191569 DOI: doi:10.1128/jvi.00286-23 ]
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Mo1 heavy chain (48 kDa, Protein from Homo sapiens)
- Spike protein complexed with mo1 fab (500 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
Conformation 2 of SARS-CoV-2 Omicron BA.1 Variant Spike protein complexed with MO1 Fab
Resolution: 2.73 Å
EM Method: Single-particle
Fitted PDBs: 8h3n
Q-score: 0.611
Ishimaru H, Nishimura M, Tjan LH, Sutandhio S, Marini MI, Effendi GB, Shigematsu H, Kato K, Hasegawa N, Aoki K, Kurahashi Y, Furukawa K, Shinohara M, Nakamura T, Arii J, Nagano T, Nakamura S, Sano S, Iwata S, Okamura S, Mori Y
J Virol (2023) 97 pp. e0028623-e0028623 [ Pubmed: 37191569 DOI: doi:10.1128/jvi.00286-23 ]
- Mo1 heavy-chain (48 kDa, Protein from Homo sapiens)
- Mo1 light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Spike protein complexed with mo1 fab (500 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
Conformation 3 of SARS-CoV-2 Omicron BA.1 Variant Spike protein complexed with MO1 Fab
Ishimaru H, Nishimura M, Tjan LH, Sutandhio S, Marini MI, Effendi GB, Shigematsu H, Kato K, Hasegawa N, Aoki K, Kurahashi Y, Furukawa K, Shinohara M, Nakamura T, Arii J, Nagano T, Nakamura S, Sano S, Iwata S, Okamura S, Mori Y
J Virol (2023) 97 pp. e0028623-e0028623 [ Pubmed: 37191569 DOI: doi:10.1128/jvi.00286-23 ]
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 8hla
Q-score: 0.577
Himiyama T, Hamaguchi T, Yonekura K, Nakamura T
Bioconjug.Chem. (2023) [ Pubmed: 36888722 DOI: doi:10.1021/acs.bioconjchem.3c00057 ]
- Naph@mix (300 kDa, Complex from Thermococcus kodakarensis)