Cryo-EM structure of MRV full core
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9cyx
Q-score: 0.535
Liu X, Xia X, Martynowycz MW, Gonen T, Zhou ZH
Nat Commun (2024) 15 pp. 10638-10638 [ Pubmed: 39639006 DOI: doi:10.1038/s41467-024-54968-7 ]
- Outer capsid protein lambda-2 (143 kDa, Protein from Mammalian orthoreovirus 3 Dearing)
- Inner capsid protein sigma-2 (47 kDa, Protein from Mammalian orthoreovirus 3 Dearing)
- Mammalian orthoreovirus 3 dearing (Virus from Mammalian orthoreovirus 3 Dearing)
- Lambda 1 (141 kDa, Protein from Mammalian orthoreovirus 3 Dearing)
Cryo-EM structure of MRV virion
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 9cyy
Q-score: 0.586
Liu X, Xia X, Martynowycz MW, Gonen T, Zhou ZH
Nat Commun (2024) 15 pp. 10638-10638 [ Pubmed: 39639006 DOI: doi:10.1038/s41467-024-54968-7 ]
- Mammalian orthoreovirus 3 dearing (Virus from Mammalian orthoreovirus 3 Dearing)
- Outer capsid protein lambda-2 (144 kDa, Protein from Mammalian orthoreovirus 3 Dearing)
- Mu2 (83 kDa, Protein from Mammalian orthoreovirus 3 Dearing)
- Rna-directed rna polymerase (142 kDa, Protein from Mammalian orthoreovirus 3 Dearing)
- Inner capsid protein sigma-2 (47 kDa, Protein from Mammalian orthoreovirus 3 Dearing)
- Outer capsid protein sigma-3 (41 kDa, Protein from Mammalian orthoreovirus 3 Dearing)
- Outer capsid protein mu-1 (76 kDa, Protein from Mammalian orthoreovirus 3 Dearing)
- Lambda 1 (141 kDa, Protein from Mammalian orthoreovirus 3 Dearing)
SpRY-Cas9:gRNA complex targeting TGG PAM DNA
Resolution: 3.26 Å
EM Method: Single-particle
Fitted PDBs: 8spq
Q-score: 0.431
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ DOI: doi:10.1038/s41467-024-47830-3 Pubmed: 38688943 ]
- Ts (16 kDa, DNA from Escherichia phage Lambda)
- Nts (5 kDa, DNA from Escherichia phage Lambda)
- Ternary complex of spry-cas9 with lambda 1 grna and lambda 1 dna (211 kDa, Complex from Streptococcus pyogenes)
- Ts (5 kDa, DNA from Escherichia phage Lambda)
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes serotype M1)
- Magnesium ion (24 Da, Ligand)
- Grna (31 kDa, RNA from Streptococcus pyogenes)
SpRY-Cas9:gRNA complex targeting TTC PAM DNA
Resolution: 3.69 Å
EM Method: Single-particle
Fitted PDBs: 8sqh
Q-score: 0.379
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ DOI: doi:10.1038/s41467-024-47830-3 Pubmed: 38688943 ]
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Nts (16 kDa, DNA from Escherichia phage Lambda)
- Ts (5 kDa, DNA from Escherichia phage Lambda)
- Magnesium ion (24 Da, Ligand)
- Ternary complex of spry-cas9 with lambda 1 grna and lambda 1 dna oligo (211 kDa, Complex from Streptococcus pyogenes)
- Grna (31 kDa, RNA from Streptococcus pyogenes)
- Ts (4 kDa, DNA from Escherichia phage Lambda)
SpRY-Cas9:gRNA complex targeting TAC PAM DNA
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 8srs
Q-score: 0.521
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ DOI: doi:10.1038/s41467-024-47830-3 Pubmed: 38688943 ]
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Ts (3 kDa, DNA from Escherichia phage Lambda)
- Ternary complex of spry-cas9 with lambda 1 grna and lambda 1 dna (211 kDa, Complex from Streptococcus pyogenes)
- Ts (5 kDa, DNA from Escherichia phage Lambda)
- Magnesium ion (24 Da, Ligand)
- Nts (16 kDa, DNA from Escherichia phage Lambda)
- Grna (31 kDa, RNA from Streptococcus pyogenes)
- Water (18 Da, Ligand)
Cryo-EM Structure of PG9RSH DU011 Fab in complex with BG505 DS-SOSIP.664
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8fk5
Q-score: 0.456
Holt GT, Gorman J, Wang S, Lowegard AU, Zhang B, Liu T, Lin BC, Louder MK, Frenkel MS, McKee K, O'Dell S, Rawi R, Shen CH, Doria-Rose NA, Kwong PD, Donald BR
Cell Rep (2023) 42 pp. 112711-112711 [ DOI: doi:10.1016/j.celrep.2023.112711 Pubmed: 37436900 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cryo-em structure of pg9rsh du011 fab in complex with bg505 ds-sosip.664 (Complex from Human immunodeficiency virus 1)
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Immunoblobulin g1 fab heavy chain variable region (fragment) (27 kDa, Protein from Homo sapiens)
- Immunoglobulin lambda-1 light chain-like (22 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
Mammalian orthoreovirus T3SA- in complex with the neural receptor NgR1
Sutherland DM, Strebl M, Koehler M, Welsh OL, Yu X, Hu L, Dos Santos Natividade R, Knowlton JJ, Taylor GM, Moreno RA, Worz P, Lonergan ZR, Aravamudhan P, Guzman-Cardozo C, Kour S, Pandey UB, Alsteens D, Wang Z, Prasad BVV, Stehle T, Dermody TS
PNAS (2023) 120 pp. e2219404120-e2219404120 [ DOI: doi:10.1073/pnas.2219404120 Pubmed: 37276413 ]
- Nogo receptor 1 (Complex from Homo sapiens)
- T3sa- reovirus outer capsid protein lambda2 (Protein from Mammalian orthoreovirus 3 Dearing)
- T3sa- reovirus outer capsid protein mu1 (Protein from Mammalian orthoreovirus 3 Dearing)
- Mammalian orthoreovirus t3sa- in complex (Complex from Mammalian orthoreovirus 3 Dearing)
- T3sa- reovirus outer capsid protein sigma3 (Protein from Mammalian orthoreovirus 3 Dearing)
- T3sa- reovirus inner capsid protein sigma2 (Protein from Mammalian orthoreovirus 3 Dearing)
- T3sa- reovirus inner capsid protein lambda1 (Protein from Mammalian orthoreovirus 3 Dearing)
- Nogo receptor 1 (Protein from Homo sapiens)
- Mammalian orthoreovirus t3sa- in complex with the neural receptor ngr1 (Complex)
Sutherland DM, Strebl M, Koehler M, Welsh OL, Yu X, Hu L, Dos Santos Natividade R, Knowlton JJ, Taylor GM, Moreno RA, Worz P, Lonergan ZR, Aravamudhan P, Guzman-Cardozo C, Kour S, Pandey UB, Alsteens D, Wang Z, Prasad BVV, Stehle T, Dermody TS
PNAS (2023) 120 pp. e2219404120-e2219404120 [ DOI: doi:10.1073/pnas.2219404120 Pubmed: 37276413 ]
- T3sa- reovirus outer capsid protein sigma3 (Protein from Mammalian orthoreovirus 3 Dearing)
- T3sa- reovirus outer capsid protein mu1 (Protein from Mammalian orthoreovirus 3 Dearing)
- Mammalian orthoreovirus 3 dearing (Virus from Mammalian orthoreovirus 3 Dearing)
- T3sa- reovirus outer capsid protein lambda2 (Protein from Mammalian orthoreovirus 3 Dearing)
- T3sa- reovirus inner capsid protein sigma2 (Protein from Mammalian orthoreovirus 3 Dearing)
- T3sa- reovirus inner capsid protein lambda1 (Protein from Mammalian orthoreovirus 3 Dearing)
AL amyloid fibril from a lambda 1 light chain
Resolution: 3.1 Å
EM Method: Helical reconstruction
Fitted PDBs: 7nsl
Q-score: 0.523
Radamaker L, Karimi-Farsijani S, Andreotti G, Baur J, Neumann M, Schreiner S, Berghaus N, Motika R, Haupt C, Walther P, Schmidt V, Huhn S, Hegenbart U, Schonland SO, Wiese S, Read C, Schmidt M, Fandrich M
Nat Commun (2021) 12 pp. 6434-6434 [ Pubmed: 34741031 DOI: doi:10.1038/s41467-021-26553-9 ]
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7elh
Q-score: 0.478
Pan M, Alvarez-Cabrera AL, Kang JS, Wang L, Fan C, Zhou ZH
Nat Commun (2021) 12 pp. 4176-4176 [ Pubmed: 34234134 DOI: doi:10.1038/s41467-021-24455-4 ]
- Phosphate ion (94 Da, Ligand)
- Lambda 1 (122 kDa, Protein from Mammalian orthoreovirus 3)
- Mammalian orthoreovirus 3 dearing (Virus from Mammalian orthoreovirus 3 Dearing)
- Lambda 1 (19 kDa, Protein from Mammalian orthoreovirus 3)
- Rna (60-mer) (19 kDa, RNA from Mammalian orthoreovirus 3 Dearing)
- Minor core protein mu2 (83 kDa, Protein from Mammalian orthoreovirus 3)
- Rna-directed rna polymerase (142 kDa, Protein from Mammalian orthoreovirus 3)
- Transcript rna (1 kDa, RNA from Mammalian orthoreovirus 3 Dearing)