Electron Microscopy Data Bank

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CryoEM structure of full length mouse TRPML2

Release date: March 23, 2022
Resolution: 3.18 Å
EM Method: Single-particle
Fitted PDBs: 7dys
Q-score: 0.438

Song X, Li J, Tian M, Zhu H, Hu X, Zhang Y, Cao Y, Ye H, McCormick PJ, Zeng B, Fu Y, Duan J, Zhang J

J Biol Chem (2022) 298 pp. 101487-101487 [ DOI: doi:10.1016/j.jbc.2021.101487 Pubmed: 34915027 ]

Sample:

Mucolipin-2 (60 kDa, Protein from Mus musculus)
Trpml2 (Cellular component from Mus musculus)

EMD-26021

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Structural and functional impact by SARS-CoV-2 Omicron spike mutations

Release date: Feb. 16, 2022
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7tnw
Q-score: 0.44

Zhang J, Cai Y, Lavine CL, Peng H, Zhu H, Anand K, Tong P, Gautam A, Mayer ML, Rits-Volloch S, Wang S, Sliz P, Wesemann DR, Yang W, Seaman MS, Lu J, Xiao T, Chen B

Cell Rep (2022) 39 pp. 110729-110729 [ DOI: doi:10.1016/j.celrep.2022.110729 Pubmed: 35452593 ]

Sample:

Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Closed state of pre-fusion sars-cov-2 omicron variant spike protein (440 MDa, Complex from Severe acute respiratory syndrome coronavirus 2)

EMD-26029

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Structural and functional impact by SARS-CoV-2 Omicron spike mutations

Release date: Feb. 16, 2022
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7to4
Q-score: 0.394

Zhang J, Cai Y, Lavine CL, Peng H, Zhu H, Anand K, Tong P, Gautam A, Mayer ML, Rits-Volloch S, Wang S, Sliz P, Wesemann DR, Yang W, Seaman MS, Lu J, Xiao T, Chen B

Cell Rep (2022) 39 pp. 110729-110729 [ DOI: doi:10.1016/j.celrep.2022.110729 Pubmed: 35452593 ]

Sample:

One rbd-up state of pre-fusion sars-cov-2 omicron variant spike protein (440 MDa, Complex from Severe acute respiratory syndrome coronavirus 2)
Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)

EMD-24982

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One RBD-up 1 of pre-fusion SARS-CoV-2 Delta variant spike protein

Release date: Nov. 10, 2021
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7sbl
Q-score: 0.394

Zhang J, Xiao T, Cai Y, Lavine CL, Peng H, Zhu H, Anand K, Tong P, Gautam A, Mayer ML, Walsh Jr RM, Rits-Volloch S, Wesemann DR, Yang W, Seaman MS, Lu J, Chen B

Science (2021) 374 pp. 1353-1360 [ DOI: doi:10.1126/science.abl9463 Pubmed: 34698504 ]

Sample:

2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
One rbd-up 1 of pre-fusion sars-cov-2 delta variant spike protein (440 MDa, Complex from Severe acute respiratory syndrome coronavirus 2)

EMD-24988

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One RBD-up 2 of pre-fusion SARS-CoV-2 Gamma variant spike protein

Release date: Nov. 10, 2021
Resolution: 4.4 Å
EM Method: Single-particle
Fitted PDBs: 7sbt
Q-score: 0.269

Zhang J, Xiao T, Cai Y, Lavine CL, Peng H, Zhu H, Anand K, Tong P, Gautam A, Mayer ML, Walsh Jr RM, Rits-Volloch S, Wesemann DR, Yang W, Seaman MS, Lu J, Chen B

Science (2021) 374 pp. 1353-1360 [ DOI: doi:10.1126/science.abl9463 Pubmed: 34698504 ]

Sample:

One rbd-up 2 of pre-fusion sars-cov-2 gamma variant spike protein (440 MDa, Complex from Severe acute respiratory syndrome coronavirus 2)
Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)

EMD-24981

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Closed state of pre-fusion SARS-CoV-2 Delta variant spike protein

Release date: Nov. 3, 2021
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7sbk
Q-score: 0.434

Zhang J, Xiao T, Cai Y, Lavine CL, Peng H, Zhu H, Anand K, Tong P, Gautam A, Mayer ML, Walsh Jr RM, Rits-Volloch S, Wesemann DR, Yang W, Seaman MS, Lu J, Chen B

Science (2021) 374 pp. 1353-1360 [ DOI: doi:10.1126/science.abl9463 Pubmed: 34698504 ]

Sample:

Closed state of pre-fusion sars-cov-2 delta variant spike protein (440 MDa, Complex from Severe acute respiratory syndrome coronavirus 2)
2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)

EMD-24983

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One RBD-up 2 of pre-fusion SARS-CoV-2 Delta variant spike protein

Release date: Nov. 3, 2021
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 7sbo
Q-score: 0.266

Zhang J, Xiao T, Cai Y, Lavine CL, Peng H, Zhu H, Anand K, Tong P, Gautam A, Mayer ML, Walsh Jr RM, Rits-Volloch S, Wesemann DR, Yang W, Seaman MS, Lu J, Chen B

Science (2021) 374 pp. 1353-1360 [ DOI: doi:10.1126/science.abl9463 Pubmed: 34698504 ]

Sample:

One rbd-up 2 of pre-fusion sars-cov-2 delta variant spike protein (440 MDa, Complex from Severe acute respiratory syndrome coronavirus 2)
2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)

EMD-24984

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Closed state of pre-fusion SARS-CoV-2 Kappa variant spike protein

Release date: Nov. 3, 2021
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7sbp
Q-score: 0.427

Zhang J, Xiao T, Cai Y, Lavine CL, Peng H, Zhu H, Anand K, Tong P, Gautam A, Mayer ML, Walsh Jr RM, Rits-Volloch S, Wesemann DR, Yang W, Seaman MS, Lu J, Chen B

Science (2021) 374 pp. 1353-1360 [ DOI: doi:10.1126/science.abl9463 Pubmed: 34698504 ]

Sample:

2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Closed state of pre-fusion sars-cov-2 kappa variant spike protein (440 MDa, Complex from Severe acute respiratory syndrome coronavirus 2)
Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)

EMD-24985

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One RBD-up 1 of pre-fusion SARS-CoV-2 Kappa variant spike protein

Release date: Nov. 3, 2021
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7sbq
Q-score: 0.365

Zhang J, Xiao T, Cai Y, Lavine CL, Peng H, Zhu H, Anand K, Tong P, Gautam A, Mayer ML, Walsh Jr RM, Rits-Volloch S, Wesemann DR, Yang W, Seaman MS, Lu J, Chen B

Science (2021) 374 pp. 1353-1360 [ DOI: doi:10.1126/science.abl9463 Pubmed: 34698504 ]

Sample:

2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
One rbd-up 1 of pre-fusion sars-cov-2 kappa variant spike protein (440 MDa, Complex from Severe acute respiratory syndrome coronavirus 2)
Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)

EMD-24986

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One RBD-up 2 of pre-fusion SARS-CoV-2 Kappa variant spike protein

Release date: Nov. 3, 2021
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 7sbr
Q-score: 0.274

Zhang J, Xiao T, Cai Y, Lavine CL, Peng H, Zhu H, Anand K, Tong P, Gautam A, Mayer ML, Walsh Jr RM, Rits-Volloch S, Wesemann DR, Yang W, Seaman MS, Lu J, Chen B

Science (2021) 374 pp. 1353-1360 [ DOI: doi:10.1126/science.abl9463 Pubmed: 34698504 ]

Sample:

2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
One rbd-up 2 of pre-fusion sars-cov-2 kappa variant spike protein (440 MDa, Complex from Severe acute respiratory syndrome coronavirus 2)
Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)

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