SARS-CoV-2 Omicron spike in complex with 5817 Fab
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8khc
Q-score: 0.351
Wang Y, Zhang Z, Yang M, Xiong X, Yan Q, Cao L, Wei P, Zhang Y, Zhang L, Lv K, Chen J, Liu X, Zhao X, Xiao J, Zhang S, Zhu A, Gan M, Zhang J, Cai R, Zhuo J, Zhang Y, Rao H, Qu B, Zhang Y, Chen L, Dai J, Cheng L, Hu Q, Chen Y, Lv H, So RTY, Peiris M, Zhao J, Liu X, Mok CKP, Wang X, Zhao J
Cell Rep (2024) 43 pp. 113653-113653 [ Pubmed: 38175758 DOI: doi:10.1016/j.celrep.2023.113653 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Light chain of 5817 fab (11 kDa, Protein from Homo sapiens)
- Heavy chain of 5817 fab (13 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Spike glycoprotein (124 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron spike in complex with 5817 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
The interface structure of Omicron RBD binding to 5817 Fab
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8khd
Q-score: 0.393
Wang Y, Zhang Z, Yang M, Xiong X, Yan Q, Cao L, Wei P, Zhang Y, Zhang L, Lv K, Chen J, Liu X, Zhao X, Xiao J, Zhang S, Zhu A, Gan M, Zhang J, Cai R, Zhuo J, Zhang Y, Rao H, Qu B, Zhang Y, Chen L, Dai J, Cheng L, Hu Q, Chen Y, Lv H, So RTY, Peiris M, Zhao J, Liu X, Mok CKP, Wang X, Zhao J
Cell Rep (2024) 43 pp. 113653-113653 [ Pubmed: 38175758 DOI: doi:10.1016/j.celrep.2023.113653 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- The interface structure of omicron rbd binding to 5817 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of 5817 (11 kDa, Protein from Homo sapiens)
- Heavy chain of 5817 (13 kDa, Protein from Homo sapiens)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
BA.2(S375) Spike (S6P)/hACE2 complex
Resolution: 2.92 Å
EM Method: Single-particle
Fitted PDBs: 8wgv
Q-score: 0.376
He X, Zhang X, Wu B, Deng J, Zhang Y, Zhu A, Yuan Y, Lin Y, Chen A, Feng J, Wang X, Wu S, Liu Y, Liu J, Wang Y, Li R, Liang C, Yuan Q, Liang Y, Fang Q, Xi Z, Li W, Liang L, Zhang Z, Tang H, Peng Y, Ke C, Ma X, Cai W, Pan T, Liu B, Deng K, Chen J, Zhao J, Wei X, Chen R, Zhang Y, Zhang H
Nat Immunol (2024) 25 pp. 622-632 [ Pubmed: 38454157 DOI: doi:10.1038/s41590-024-01776-2 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ba.2(s375) spike (s6p)/hace2 complex (Complex from Severe acute respiratory syndrome coronavirus 2)
- Angiotensin-converting enzyme 2 (70 kDa, Protein from Homo sapiens)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8wgw
Q-score: 0.541
He X, Zhang X, Wu B, Deng J, Zhang Y, Zhu A, Yuan Y, Lin Y, Chen A, Feng J, Wang X, Wu S, Liu Y, Liu J, Wang Y, Li R, Liang C, Yuan Q, Liang Y, Fang Q, Xi Z, Li W, Liang L, Zhang Z, Tang H, Peng Y, Ke C, Ma X, Cai W, Pan T, Liu B, Deng K, Chen J, Zhao J, Wei X, Chen R, Zhang Y, Zhang H
Nat Immunol (2024) 25 pp. 622-632 [ DOI: doi:10.1038/s41590-024-01776-2 Pubmed: 38454157 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Angiotensin-converting enzyme 2 (70 kDa, Protein from Homo sapiens)
- Rbd complexed with human ace2 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
Cryo-EM structure of yeast Ribonuclease P
Resolution: 3.48 Å
EM Method: Single-particle
Fitted PDBs: 6agb
Q-score: 0.311
Lan P, Tan M, Zhang Y, Niu S, Chen J, Shi S, Qiu S, Wang X, Peng X, Cai G, Cheng H, Wu J, Li G, Lei M
Science (2018) 362 [ DOI: doi:10.1126/science.aat6678 Pubmed: 30262633 ]
- Ribonuclease p protein subunit rpr2 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Rnase p (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ribonucleases p/mrp protein subunit pop3 (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Zinc ion (65 Da, Ligand)
- Ribonuclease p/mrp protein subunit pop5 (19 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ribonucleases p/mrp protein subunit pop8 (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Rnases mrp/p 32.9 kda subunit (32 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ribonuclease p rna (118 kDa, RNA from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ribonucleases p/mrp protein subunit pop1 (100 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ribonucleases p/mrp protein subunit pop7 (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ribonucleases p/mrp protein subunit pop6 (18 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ribonuclease p/mrp protein subunit rpp1 (32 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Cryo-EM structure of yeast Ribonuclease P with pre-tRNA substrate
Resolution: 3.48 Å
EM Method: Single-particle
Fitted PDBs: 6ah3
Q-score: 0.259
Lan P, Tan M, Zhang Y, Niu S, Chen J, Shi S, Qiu S, Wang X, Peng X, Cai G, Cheng H, Wu J, Li G, Lei M
Science (2018) 362 [ DOI: doi:10.1126/science.aat6678 Pubmed: 30262633 ]
- Ribonuclease p protein subunit rpr2 (16 kDa, Protein from Baker's yeast)
- Rnase p (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ribonucleases p/mrp protein subunit pop3 (22 kDa, Protein from Baker's yeast)
- Pre-trna (25 kDa, RNA from Saccharomyces cerevisiae S288c)
- Rnases mrp/p 32.9 kda subunit (32 kDa, Protein from Baker's yeast)
- Ribonucleases p/mrp protein subunit pop1 (100 kDa, Protein from Baker's yeast)
- Ribonucleases p/mrp protein subunit pop6 (18 kDa, Protein from Baker's yeast)
- Ribonuclease p rna (118 kDa, RNA from Baker's yeast)
- Rnase p with pre-trna substrate (Complex)
- Ribonuclease p/mrp protein subunit rpp1 (32 kDa, Protein from Baker's yeast)
- Ribonuclease p/mrp protein subunit pop5 (19 kDa, Protein from Baker's yeast)
- Ribonucleases p/mrp protein subunit pop7 (15 kDa, Protein from Baker's yeast)
- Pre-trna (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ribonucleases p/mrp protein subunit pop8 (15 kDa, Protein from Baker's yeast)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)