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)
Cryo-EM structure of heme A synthase trimer from Aquifex aeolicus
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8aw5
Q-score: 0.555
To Be Published
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
- Heme a synthase with cofactor heme b (Complex from Aquifex aeolicus VF5)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Heme o oxygenase (34 kDa, Protein from Aquifex aeolicus VF5)
CryoEM structure of pentameric MotA from Aquifex aeolicus
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8gqy
Q-score: 0.521
Nishikino T, Takekawa N, Tran DP, Kishikawa JI, Hirose M, Onoe S, Kojima S, Homma M, Kitao A, Kato T, Imada K
Biochem Biophys Res Commun (2022) 631 pp. 78-85 [ DOI: doi:10.1016/j.bbrc.2022.09.072 Pubmed: 36179499 ]
- Motility protein a (28 kDa, Protein from Aquifex aeolicus VF5)
- Pentameric mota from aquifex aeolicus (140 kDa, Complex from Aquifex aeolicus)
Lumazine Synthase from Aquifex aeolicus
Resolution: 2.33 Å
EM Method: Single-particle
Fitted PDBs: 7x7m
Q-score: 0.681
CryoEM structure of the A. aeolicus WzmWzt transporter bound to the native O antigen
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8dku
Q-score: 0.482
Spellmon N, Muszynski A, Gorniak I, Vlach J, Hahn D, Azadi P, Zimmer J
Nat Commun (2022) 13 pp. 5226-5226 [ Pubmed: 36064941 DOI: doi:10.1038/s41467-022-32597-2 ]
- Transport permease protein (30 kDa, Protein from Aquifex aeolicus VF5)
- O antigen abc transporter (Complex from Aquifex aeolicus)
- Abc transporter (46 kDa, Protein from Aquifex aeolicus VF5)
CryoEM structure of the nucleotide-free and open channel A.aeolicus WzmWzt transporter
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8dl0
Q-score: 0.307
Spellmon N, Muszynski A, Gorniak I, Vlach J, Hahn D, Azadi P, Zimmer J
Nat Commun (2022) 13 pp. 5226-5226 [ Pubmed: 36064941 DOI: doi:10.1038/s41467-022-32597-2 ]
- Transport permease protein (30 kDa, Protein from Aquifex aeolicus VF5)
- O antigen abc transporter (Complex from Aquifex aeolicus VF5)
- Abc transporter (46 kDa, Protein from Aquifex aeolicus VF5)
CryoEM structure of the A. aeolicus WzmWzt transporter bound to 3-O-methyl-D-mannose
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8dn8
Q-score: 0.394
Spellmon N, Muszynski A, Gorniak I, Vlach J, Hahn D, Azadi P, Zimmer J
Nat Commun (2022) 13 pp. 5226-5226 [ Pubmed: 36064941 DOI: doi:10.1038/s41467-022-32597-2 ]
- Transport permease protein (30 kDa, Protein from Aquifex aeolicus)
- 3-o-methyl-alpha-d-mannopyranose (194 Da, Ligand)
- O antigen abc transporter (Complex from Aquifex aeolicus)
- Abc transporter (46 kDa, Protein from Aquifex aeolicus)
CryoEM structure of the A. aeolicus WzmWzt transporter bound to the native O antigen and ADP
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8dnc
Q-score: 0.464
Spellmon N, Muszynski A, Gorniak I, Vlach J, Hahn D, Azadi P, Zimmer J
Nat Commun (2022) 13 pp. 5226-5226 [ Pubmed: 36064941 DOI: doi:10.1038/s41467-022-32597-2 ]
- Abc transporter (46 kDa, Protein from Aquifex aeolicus)
- O antigen abc transporter (Complex from Aquifex aeolicus)
- Transport permease protein (30 kDa, Protein from Aquifex aeolicus)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
CryoEM structure of the A.aeolicus WzmWzt transporter bound to ATP
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8dne
Q-score: 0.43
Spellmon N, Muszynski A, Gorniak I, Vlach J, Hahn D, Azadi P, Zimmer J
Nat Commun (2022) 13 pp. 5226-5226 [ Pubmed: 36064941 DOI: doi:10.1038/s41467-022-32597-2 ]
- Abc transporter (46 kDa, Protein from Aquifex aeolicus VF5)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- O antigen abc transporter (Complex from Aquifex aeolicus VF5)
- Transport permease protein (30 kDa, Protein from Aquifex aeolicus VF5)