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SARS-CoV-2 Spike RBD (dimer) in complex with two 2S-1244 nanobodies
Cryo-EM structure of C.crescentus bNY30a pilus complex
Resolution: 0.86 Å
EM Method: Helical reconstruction
Fitted PDBs: 8u2b
Q-score: 0.521
Wang Y, Theodore M, Xing Z, Narsaria U, Yu Z, Zeng L, Zhang J
Sci Adv (2024) 10 pp. eadl4450-eadl4450 [ DOI: doi:10.1126/sciadv.adl4450 Pubmed: 38701202 ]
- Flp family type ivb pilin (4 kDa, Protein from Caulobacter vibrioides)
- Caulobacter crescentus pili (170 kDa, Complex from Caulobacter vibrioides)
PhiCb5 maturation protein with Caulobacter crescentus bNY30a pili
Resolution: 6.45 Å
EM Method: Single-particle
Fitted PDBs: 8ucr
Q-score: 0.158
Wang Y, Theodore M, Xing Z, Narsaria U, Yu Z, Zeng L, Zhang J
Sci Adv (2024) 10 pp. eadl4450-eadl4450 [ DOI: doi:10.1126/sciadv.adl4450 Pubmed: 38701202 ]
- Maturation protein (40 kDa, Protein from Caulobacter phage phiCb5)
- A complex of pilus and phicb5 maturation protein (210 kDa, Complex from Caulobacter vibrioides)
- Flp family type ivb pilin (4 kDa, Protein from Caulobacter vibrioides)
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8uej
Q-score: 0.449
Wang Y, Theodore M, Xing Z, Narsaria U, Yu Z, Zeng L, Zhang J
Sci Adv (2024) 10 pp. eadl4450-eadl4450 [ DOI: doi:10.1126/sciadv.adl4450 Pubmed: 38701202 ]
- Maturation protein (40 kDa, Protein from Caulobacter phage phiCb5)
- Coat protein (13 kDa, Protein from Caulobacter phage phiCb5)
- A complex of phicb5 maturation protein and phicb5 shell (2 MDa, Complex from Caulobacter vibrioides)
- Calcium ion (40 Da, Ligand)
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 [ DOI: doi:10.1016/j.celrep.2023.113653 Pubmed: 38175758 ]
- Sars-cov-2 omicron spike in complex with 5817 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of 5817 fab (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (124 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Heavy chain of 5817 fab (13 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
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 [ DOI: doi:10.1016/j.celrep.2023.113653 Pubmed: 38175758 ]
- 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)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of the GPR34 receptor in complex with the antagonist YL-365
Resolution: 3.34 Å
EM Method: Single-particle
Fitted PDBs: 8iyx
Q-score: 0.448
Xia A, Yong X, Zhang C, Lin G, Jia G, Zhao C, Wang X, Hao Y, Wang Y, Zhou P, Yang X, Deng Y, Wu C, Chen Y, Zhu J, Tang X, Liu J, Zhang S, Zhang J, Xu Z, Hu Q, Zhao J, Yue Y, Yan W, Su Z, Wei Y, Zhou R, Dong H, Shao Z, Yang S
PNAS (2023) 120 pp. e2308435120-e2308435120 [ Pubmed: 37733739 DOI: doi:10.1073/pnas.2308435120 ]
- Probable g-protein coupled receptor 34,yl-365 (66 kDa, Protein from Homo sapiens)
- 1-[4-(3-chlorophenyl)phenyl]carbonyl-4-[2-(4-phenylmethoxyphenyl)ethanoylamino]piperidine-4-carboxylic acid (583 Da, Ligand)
- Cryo-em structure of the gpr34 receptor in complex with the antagonist yl-365 (Complex from Homo sapiens)
Acinetobacter GP16 Type IV pilus
Resolution: 3.14 Å
EM Method: Helical reconstruction
Fitted PDBs: 8tob
Q-score: 0.586
Meng R, Xing Z, Chang JY, Yu Z, Thongchol J, Xiao W, Wang Y, Chamakura K, Zeng Z, Wang F, Young R, Zeng L, Zhang J
Nat Commun (2024) 15 pp. 2746-2746 [ Pubmed: 38553443 DOI: doi:10.1038/s41467-024-47119-5 ]
- Fimbrial protein (7 kDa, Protein from Acinetobacter genomosp. 16BJ)
- Fimbrial protein (6 kDa, Protein from Acinetobacter genomosp. 16BJ)
- Acinetobacter genomosp.16 tyoe iv pilus (11 MDa, Complex from Acinetobacter genomosp. 16BJ)