Li Y, Shao K, Li Z, Zhu K, Gan BK, Shi J, Xiao Y, Luo M
Nat Commun (2024) 15 pp. 7090-7090 [ DOI: doi:10.1038/s41467-024-51600-6 Pubmed: 39154050 ]
- Dimeric structure of class iii lanthipeptide modification enzyme pnekc with one protomer in complex with substrate pnea and gtp (210 kDa, Complex from Streptococcus pneumoniae)
- Phosphate ion (94 Da, Ligand)
- Pnea lp (1 kDa, Protein from Streptococcus pneumoniae)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Protein kinase domain-containing protein (100 kDa, Protein from Streptococcus pneumoniae)
Li Y, Shao K, Li Z, Zhu K, Gan BK, Shi J, Xiao Y, Luo M
Nat Commun (2024) 15 pp. 7090-7090 [ DOI: doi:10.1038/s41467-024-51600-6 Pubmed: 39154050 ]
- Phosphate ion (94 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Dimeric structure of class iii lanthipeptide modification pnekc with gsp and pnea bound to one protomer. (210 kDa, Complex from Streptococcus pneumoniae)
- 5'-guanosine-diphosphate-monothiophosphate (539 Da, Ligand)
- Sapb/amfs family lantipeptide (4 kDa, Protein from Streptococcus pneumoniae)
- Protein kinase domain-containing protein (100 kDa, Protein from Streptococcus pneumoniae)
Cryo-EM structure of ComA bound to its mature substrate CSP peptide
Cryo-EM structure of nucleotide-bound ComA with ZinC ion
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8k4b
Q-score: 0.297
Yu L, Xu X, Chua WZ, Feng H, Ser Z, Shao K, Shi J, Wang Y, Li Z, Sobota RM, Sham LT, Luo M
Nat Commun (2023) 14 pp. 7178-7178 [ Pubmed: 37935699 DOI: doi:10.1038/s41467-023-42852-9 ]
- Coma (Complex from Streptococcus pneumoniae)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Competence factor transporting atp-binding protein/permease coma (80 kDa, Protein from Streptococcus pneumoniae D39)
- Zinc ion (65 Da, Ligand)
Cryo-EM structure of nucleotide-bound ComA E647Q mutant with Mg2+
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 8k7a
Q-score: 0.235
Yu L, Xu X, Chua WZ, Feng H, Ser Z, Shao K, Shi J, Wang Y, Li Z, Sobota RM, Sham LT, Luo M
Nat Commun (2023) 14 pp. 7178-7178 [ Pubmed: 37935699 DOI: doi:10.1038/s41467-023-42852-9 ]
- Transport/processing atp-binding protein coma (80 kDa, Protein from Streptococcus pneumoniae R6)
- Coma (Complex from Streptococcus pneumoniae)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
Cryo-EM structure of nucleotide-bound ComA at outward-facing state with EC gate closed conformation
Cryo-EM structure of nucleotide-bound ComA at outward-facing state with EC gate open conformation
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8hf5
Q-score: 0.501
Yu L, Xu X, Chua WZ, Feng H, Ser Z, Shao K, Shi J, Wang Y, Li Z, Sobota RM, Sham LT, Luo M
Nat Commun (2023) 14 pp. 7178-7178 [ Pubmed: 37935699 DOI: doi:10.1038/s41467-023-42852-9 ]
- Magnesium ion (24 Da, Ligand)
- Coma (Complex from Streptococcus pneumoniae D39)
- Transport/processing atp-binding protein coma (80 kDa, Protein from Streptococcus pneumoniae D39)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
SARS-CoV-2 Omicron BA.1 spike trimer (6P) in complex with 1 YB9-258 Fab (1 RBD up)
Resolution: 6.21 Å
EM Method: Single-particle
Fitted PDBs: 8hc2
Q-score: 0.154
Yu H, Liu B, Zhang Y, Gao X, Wang Q, Xiang H, Peng X, Xie C, Wang Y, Hu P, Shi J, Shi Q, Zheng P, Feng C, Tang G, Liu X, Guo L, Lin X, Li J, Liu C, Huang Y, Yang N, Chen Q, Li Z, Su M, Yan Q, Pei R, Chen X, Liu L, Hu F, Liang D, Ke B, Ke C, Li F, He J, Wang M, Chen L, Xiong X, Tang X
Nat Commun (2023) 14 pp. 1058-1058 [ DOI: doi:10.1038/s41467-023-36761-0 Pubmed: 36828833 ]
- Light chain of yb9-258 fab (23 kDa, Protein from Homo sapiens)
- Heavy chain of yb9-258 fab (23 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron ba.1 spike trimer with one rbd up in complex with one yb9-258 fab (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Yb9-258 fab (Complex from Homo sapiens)
- Sars-cov-2 omicron ba.1 spike trimer (Complex from Severe acute respiratory syndrome coronavirus 2)