Cryo-EM structure of MraY in complex with analogue 2
Resolution: 2.88 Å
EM Method: Single-particle
Fitted PDBs: 9b70
Q-score: 0.561
Yamamoto K, Sato T, Hao A, Asao K, Kaguchi R, Kusaka S, Ruddarraju RR, Kazamori D, Seo K, Takahashi S, Horiuchi M, Yokota SI, Lee SY, Ichikawa S
Nat Commun (2024) 15 pp. 5085-5085 [ DOI: doi:10.1038/s41467-024-49484-7 Pubmed: 38877016 ]
- (2~{s},3~{s})-3-[(2~{s},3~{r},4~{s},5~{r})-5-(aminomethyl)-3,4-bis(oxidanyl)oxolan-2-yl]oxy-2-[[3-[[[(2~{s})-6-azanyl-2-(hexadecanoylamino)hexanoyl]amino]methyl]phenyl]methylamino]-3-[(2~{s},3~{s},4~{r},5~{r})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]propanoic acid (934 Da, Ligand)
- Complex of mray aa dimer with nanobody bound (200 kDa, Complex from Aquifex aeolicus VF5)
- Water (18 Da, Ligand)
- Phospho-n-acetylmuramoyl-pentapeptide-transferase (40 kDa, Protein from Aquifex aeolicus VF5)
- Mrayaa nanobody (15 kDa, Protein from Lama glama)
Cryo-EM structure of MraY in complex with analogue 3
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 9b71
Q-score: 0.585
Yamamoto K, Sato T, Hao A, Asao K, Kaguchi R, Kusaka S, Ruddarraju RR, Kazamori D, Seo K, Takahashi S, Horiuchi M, Yokota SI, Lee SY, Ichikawa S
Nat Commun (2024) 15 pp. 5085-5085 [ DOI: doi:10.1038/s41467-024-49484-7 Pubmed: 38877016 ]
- Complex of mray aa dimer with nanobody bound (200 kDa, Complex from Aquifex aeolicus VF5)
- Water (18 Da, Ligand)
- Phospho-n-acetylmuramoyl-pentapeptide-transferase (40 kDa, Protein from Aquifex aeolicus VF5)
- (2~{s},3~{s})-3-[(2~{s},3~{r},4~{s},5~{r})-5-(aminomethyl)-3,4-bis(oxidanyl)oxolan-2-yl]oxy-3-[(2~{s},3~{s},4~{r},5~{r})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]-2-[[4-[[[(2~{s})-5-carbamimidamido-2-(hexadecanoylamino)pentanoyl]amino]methyl]phenyl]methylamino]propanoic acid (962 Da, Ligand)
- Mrayaa nanobody (15 kDa, Protein from Lama glama)
Hao A, Mao Q, Chen Z, Huang J, Sun L
To Be Published
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Gw01 fv (26 kDa, Protein from Homo sapiens)
- Xbb spike protein (s) in complex with bispecific antibody g7-fc (Complex from Homo sapiens)
- 7f3 fv (27 kDa, Protein from Homo sapiens)
XBB spike protein (S) in complex with monoclonal antibody 6I18
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8jio
Q-score: 0.225
To Be Published
- 6i18 heavy chain (49 kDa, Protein from Homo sapiens)
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Xbb spike protein (s) in complex with monoclonal antibody 6i18 (Complex from Severe acute respiratory syndrome coronavirus 2)
- 6i18 light chain (23 kDa, Protein from Homo sapiens)
Omicron spike variant BA.1 with Bn03
Resolution: 3.81 Å
EM Method: Single-particle
Fitted PDBs: 8i4h
Q-score: 0.201
Hao A, Song W, Li C, Zhang X, Tu C, Wang X, Wang P, Wu Y, Ying T, Sun L
Signal Transduct Target Ther (2023) 8 pp. 269-269 [ DOI: doi:10.1038/s41392-023-01534-0 Pubmed: 37422451 ]
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Omicron ba.1 spike with bn03 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Bn03 (Complex)
- Ba.1 (Complex from Homo sapiens)
- Bn03 (27 kDa, Protein from Homo sapiens)
Omicron spike variant XBB with Bn03
Resolution: 3.98 Å
EM Method: Single-particle
Fitted PDBs: 8i4e
Q-score: 0.181
Hao A, Song W, Li C, Zhang X, Tu C, Wang X, Wang P, Wu Y, Ying T, Sun L
Signal Transduct Target Ther (2023) 8 pp. 269-269 [ DOI: doi:10.1038/s41392-023-01534-0 Pubmed: 37422451 ]
- Omicron spike with 6m6 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Bn03 (Complex)
- Xbb (Complex from Homo sapiens)
- Bn03 (27 kDa, Protein from Homo sapiens)
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Omicron spike variant XBB with n3130v-Fc
Resolution: 3.44 Å
EM Method: Single-particle
Fitted PDBs: 8i4f
Q-score: 0.302
Hao A, Song W, Li C, Zhang X, Tu C, Wang X, Wang P, Wu Y, Ying T, Sun L
Signal Transduct Target Ther (2023) 8 pp. 269-269 [ Pubmed: 37422451 DOI: doi:10.1038/s41392-023-01534-0 ]
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Omicron spike with 6m6 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Xbb (Complex from Homo sapiens)
- N3130v-fc (42 kDa, Protein from Homo sapiens)
- Bn03 (Complex)
Omicron spike variant BQ.1.1 with n3130v-Fc
Resolution: 3.68 Å
EM Method: Single-particle
Fitted PDBs: 8i4g
Q-score: 0.266
Hao A, Song W, Li C, Zhang X, Tu C, Wang X, Wang P, Wu Y, Ying T, Sun L
Signal Transduct Target Ther (2023) 8 pp. 269-269 [ Pubmed: 37422451 DOI: doi:10.1038/s41392-023-01534-0 ]
- N3130v-fc (Complex)
- Omicron spike with 6m6 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Bq.1.1 (Complex from Homo sapiens)
- N3130v-fc (42 kDa, Protein from Homo sapiens)
Cryo-EM structure of Vibrio cholerae FtsE/FtsX complex
Resolution: 3.51 Å
EM Method: Single-particle
Fitted PDBs: 8tzj
Q-score: 0.471
Structure (2024) 32 pp. 188-199.e5 [ Pubmed: 38070498 DOI: doi:10.1016/j.str.2023.11.007 ]
- Magnesium ion (24 Da, Ligand)
- Cell division protein ftsx (36 kDa, Protein from Vibrio cholerae)
- Ftsex (200 kDa, Complex from Vibrio cholerae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Cell division atp-binding protein ftse (25 kDa, Protein from Vibrio cholerae)
Cryo-EM structure of Vibrio cholerae FtsE/FtsX/EnvC complex, shortened
Resolution: 3.55 Å
EM Method: Single-particle
Fitted PDBs: 8tzk
Q-score: 0.461
Structure (2024) 32 pp. 188-199.e5 [ Pubmed: 38070498 DOI: doi:10.1016/j.str.2023.11.007 ]
- Peptidase m23 (43 kDa, Protein from Vibrio cholerae)
- Cell division atp-binding protein ftse (25 kDa, Protein from Vibrio cholerae)
- Magnesium ion (24 Da, Ligand)
- Cell division protein ftsx (36 kDa, Protein from Vibrio cholerae)
- Ftsex (200 kDa, Complex from Vibrio cholerae)
- Adenosine-5'-diphosphate (427 Da, Ligand)