Kalium channelrhodopsin 1 C110A mutant from Hyphochytrium catenoides, Dark State
Resolution: 3.08 Å
EM Method: Single-particle
Fitted PDBs: 9cdc
Q-score: 0.465
Morizumi T, Kim K, Li H, Nag P, Dogon T, Sineshchekov OA, Wang Y, Brown LS, Hwang S, Sun H, Bondar AN, Schapiro I, Govorunova EG, Spudich JL, Ernst OP
Nat Commun (2025) 16 pp. 1283-1283 [ Pubmed: 39900567 DOI: doi:10.1038/s41467-025-56491-9 ]
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Retinal (284 Da, Ligand)
- Kalium channelrhodopsin 1 c110a (30 kDa, Protein from Hyphochytrium catenoides)
- Kalium channelrhodopin 1 c110a reconstituted in peptidisc, dark state (91 MDa, Complex from Hyphochytrium catenoides)
- Cholesterol (386 Da, Ligand)
- Water (18 Da, Ligand)
Kalium channelrhodopsin 1 C110A mutant from Hyphochytrium catenoides, Laser-Flash-Illuminated
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 9cdd
Q-score: 0.432
Morizumi T, Kim K, Li H, Nag P, Dogon T, Sineshchekov OA, Wang Y, Brown LS, Hwang S, Sun H, Bondar AN, Schapiro I, Govorunova EG, Spudich JL, Ernst OP
Nat Commun (2025) 16 pp. 1283-1283 [ Pubmed: 39900567 DOI: doi:10.1038/s41467-025-56491-9 ]
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Retinal (284 Da, Ligand)
- Kalium channelrhodopin 1 c110a reconstituted in peptidisc, laser-flash-illuminated (91 MDa, Complex from Hyphochytrium catenoides)
- Kalium channelrhodopsin 1 (30 kDa, Protein from Hyphochytrium catenoides)
- Cholesterol (386 Da, Ligand)
- Water (18 Da, Ligand)
Kalium channelrhodopsin 1 C110A mutant from Hyphochytrium catenoides, Continuous Illumination State
Resolution: 3.44 Å
EM Method: Single-particle
Fitted PDBs: 9cde
Q-score: 0.395
Morizumi T, Kim K, Li H, Nag P, Dogon T, Sineshchekov OA, Wang Y, Brown LS, Hwang S, Sun H, Bondar AN, Schapiro I, Govorunova EG, Spudich JL, Ernst OP
Nat Commun (2025) 16 pp. 1283-1283 [ Pubmed: 39900567 DOI: doi:10.1038/s41467-025-56491-9 ]
- Kalium channelrhodopin 1 c110a reconstituted in peptidisc, continuous illumination state (91 MDa, Complex from Hyphochytrium catenoides)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Retinal (284 Da, Ligand)
- Kalium channelrhodopsin 1 c110a - continuous illumination state (30 kDa, Protein from Hyphochytrium catenoides)
- Water (18 Da, Ligand)
- Cholesterol (386 Da, Ligand)
Kalium channelrhodopsin 1 from Hyphochytrium catenoides (HcKCR1) embedded in peptidisc
Resolution: 2.88 Å
EM Method: Single-particle
Fitted PDBs: 8gi8
Q-score: 0.558
Morizumi T, Kim K, Li H, Govorunova EG, Sineshchekov OA, Wang Y, Zheng L, Bertalan E, Bondar AN, Askari A, Brown LS, Spudich JL, Ernst OP
Nat Commun (2023) 14 pp. 4365-4365 [ Pubmed: 37474513 DOI: doi:10.1038/s41467-023-40041-2 ]
- Kalium channelrhodopsin 1 (30 kDa, Protein from Hyphochytrium catenoides)
- Retinal (284 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- Water (18 Da, Ligand)
- Kalium channelrhodopsin 1 trimer reconstituted into nanodiscs (30 kDa, Complex from Hyphochytrium catenoides)
Cation channelrhodopsin from Hyphochytrium catenoides (HcCCR) embedded in peptidisc
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 8gi9
Q-score: 0.578
Morizumi T, Kim K, Li H, Govorunova EG, Sineshchekov OA, Wang Y, Zheng L, Bertalan E, Bondar AN, Askari A, Brown LS, Spudich JL, Ernst OP
Nat Commun (2023) 14 pp. 4365-4365 [ Pubmed: 37474513 DOI: doi:10.1038/s41467-023-40041-2 ]
- Retinal (284 Da, Ligand)
- Cation channelrhodopsin (30 kDa, Protein from Hyphochytrium catenoides)
- Sodium ion (22 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Cation channelrhodopsin trimer reconstituted in peptidisc (30 kDa, Complex from Hyphochytrium catenoides)
- Water (18 Da, Ligand)
- Cholesterol (386 Da, Ligand)
SARS-CoV-2 spike glycoprotein in complex with the ICO-hu23 neutralizing antibody Fab fragment
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8elj
Q-score: 0.343
Hermet P, Delache B, Herate C, Wolf E, Kivi G, Juronen E, Mumm K, Zusinaite E, Kainov D, Sankovski E, Virumae K, Planken A, Merits A, Besaw JE, Yee AW, Morizumi T, Kim K, Kuo A, Berriche A, Dereuddre-Bosquet N, Sconosciuti Q, Naninck T, Relouzat F, Cavarelli M, Ustav M, Wilson D, Ernst OP, Mannik A, LeGrand R, Ustav Jr M
PLoS Pathog (2023) 19 pp. e1011532-e1011532 [ DOI: doi:10.1371/journal.ppat.1011532 Pubmed: 37531329 ]
- Sars-cov-2 spike glycoprotein in complex with the ico-hu23 antibody fab fragment (Complex)
- Ico-hu23 antibody fab light chain (22 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ico-hu23 antibody fab fragment (Cellular component from Homo sapiens)
- Ico-hu23 antibody fab heavy chain (25 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike glycoprotein (Cellular component from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Cryo-EM structure of the native rhodopsin dimer from rod photoreceptor cells
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 6ofj
Q-score: 0.147
Zhao DY, Poge M, Morizumi T, Gulati S, Van Eps N, Zhang J, Miszta P, Filipek S, Mahamid J, Plitzko JM, Baumeister W, Ernst OP, Palczewski K
J Biol Chem (2019) 294 pp. 14215-14230 [ DOI: doi:10.1074/jbc.RA119.010089 Pubmed: 31399513 ]
- Rhodopsin (Complex from Bos taurus)
- Rhodopsin (39 kDa, Protein from Bos taurus)
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 6cmo
Q-score: 0.315
Kang Y, Kuybeda O, de Waal PW, Mukherjee S, Van Eps N, Dutka P, Zhou XE, Bartesaghi A, Erramilli S, Morizumi T, Gu X, Yin Y, Liu P, Jiang Y, Meng X, Zhao G, Melcher K, Ernst OP, Kossiakoff AA, Subramaniam S, Xu HE
Nature (2018) 558 pp. 553-558 [ DOI: doi:10.1038/s41586-018-0215-y Pubmed: 29899450 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Rattus norvegicus)
- Fab light chain (23 kDa, Protein from synthetic construct)
- Protein complex of rhodopsin with galphai (180 MDa, Complex from Homo sapiens)
- Fab heavy chain (25 kDa, Protein from synthetic construct)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Bos taurus)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Chimera protein of soluble cytochrome b562 and rhodopsin (52 kDa, Protein from Homo sapiens)