Substrate-free levan utilisation machinery (utilisome)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8a9y
Q-score: 0.458
White JBR, Silale A, Feasey M, Heunis T, Zhu Y, Zheng H, Gajbhiye A, Firbank S, Basle A, Trost M, Bolam DN, van den Berg B, Ranson NA
Nature (2023) 618 pp. 583-589 [ DOI: doi:10.1038/s41586-023-06146-w Pubmed: 37286596 ]
- Susc homolog (115 kDa, Protein from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50))
- Magnesium ion (24 Da, Ligand)
- Substrate-free levan utilisation machinery (utilisome) (Complex from Bacteroides thetaiotaomicron)
- Glycoside hydrolase family 32 (59 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
- Duf4960 domain-containing protein (50 kDa, Protein from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50))
Levan utilisation machinery (utilisome) with levan fructo-oligosaccharides DP 8-12
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8aa0
Q-score: 0.522
White JBR, Silale A, Feasey M, Heunis T, Zhu Y, Zheng H, Gajbhiye A, Firbank S, Basle A, Trost M, Bolam DN, van den Berg B, Ranson NA
Nature (2023) 618 pp. 583-589 [ DOI: doi:10.1038/s41586-023-06146-w Pubmed: 37286596 ]
- Levan utilisation machinery (utilisome) with levan fructo-oligosaccharides dp8-12 (Complex from Bacteroides thetaiotaomicron VPI-5482)
- Duf4960 domain-containing protein (50 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
- Susd homolog (66 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
- Magnesium ion (24 Da, Ligand)
- Susc homolog (115 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
- Glycoside hydrolase family 32 (59 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
Core SusCD transporter units from the levan utilisome with levan fructo-oligosaccharides DP 8-12
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8aa1
Q-score: 0.57
White JBR, Silale A, Feasey M, Heunis T, Zhu Y, Zheng H, Gajbhiye A, Firbank S, Basle A, Trost M, Bolam DN, van den Berg B, Ranson NA
Nature (2023) 618 pp. 583-589 [ DOI: doi:10.1038/s41586-023-06146-w Pubmed: 37286596 ]
- Magnesium ion (24 Da, Ligand)
- Levan utilisation machinery (utilisome) in the presence of levan fructo-oligosaccharides dp 8-12 (Complex from Bacteroides thetaiotaomicron VPI-5482)
- Susd homolog (66 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
- Susc homolog (115 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8aa2
Q-score: 0.529
White JBR, Silale A, Feasey M, Heunis T, Zhu Y, Zheng H, Gajbhiye A, Firbank S, Basle A, Trost M, Bolam DN, van den Berg B, Ranson NA
Nature (2023) 618 pp. 583-589 [ DOI: doi:10.1038/s41586-023-06146-w Pubmed: 37286596 ]
- Glycoside hydrolase family 32 (59 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
- Susd homolog (65 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
- Magnesium ion (24 Da, Ligand)
- Inactive levan utilisation machinery (utilisome) with levan fructo-oligosaccharides dp 15-25 (Complex from Bacteroides thetaiotaomicron VPI-5482)
- Susc homolog (115 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
- Duf4960 domain-containing protein (51 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8aa3
Q-score: 0.59
White JBR, Silale A, Feasey M, Heunis T, Zhu Y, Zheng H, Gajbhiye A, Firbank S, Basle A, Trost M, Bolam DN, van den Berg B, Ranson NA
Nature (2023) 618 pp. 583-589 [ DOI: doi:10.1038/s41586-023-06146-w Pubmed: 37286596 ]
- Inactive levan utilisation machinery (utilisome) in the presence of fructo-oligosaccharides dp 15-25 (Complex from Bacteroides thetaiotaomicron)
- Magnesium ion (24 Da, Ligand)
- Susd homolog (65 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
- Susc homolog (115 kDa, Protein from Bacteroides thetaiotaomicron VPI-5482)
Consensus reconstruction of the dextran utilisation system
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8aa4
Q-score: 0.541
White JBR, Silale A, Feasey M, Heunis T, Zhu Y, Zheng H, Gajbhiye A, Firbank S, Basle A, Trost M, Bolam DN, van den Berg B, Ranson NA
Nature (2023) 618 pp. 583-589 [ DOI: doi:10.1038/s41586-023-06146-w Pubmed: 37286596 ]
Open-open state of the Bt1762-Bt1763 levan transport system
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6zlt
Q-score: 0.451
Gray DA, White JBR, Oluwole AO, Rath P, Glenwright AJ, Mazur A, Zahn M, Basle A, Morland C, Evans SL, Cartmell A, Robinson CV, Hiller S, Ranson NA, Bolam DN, van den Berg B
Nat Commun (2021) 12 pp. 44-44 [ DOI: doi:10.1038/s41467-020-20285-y Pubmed: 33398001 ]
- Susc homolog (Complex from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Susd homolog (Complex from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Susc homolog (103 kDa, Protein from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Susd homolog (64 kDa, Protein from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Dimeric bt1762-bt1763 levan transporter complex (360 kDa, Complex)
Closed-closed state of the Bt1762-Bt1763 levan transport system
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 6zlu
Q-score: 0.2
Gray DA, White JBR, Oluwole AO, Rath P, Glenwright AJ, Mazur A, Zahn M, Basle A, Morland C, Evans SL, Cartmell A, Robinson CV, Hiller S, Ranson NA, Bolam DN, van den Berg B
Nat Commun (2021) 12 pp. 44-44 [ DOI: doi:10.1038/s41467-020-20285-y Pubmed: 33398001 ]
- Susc homolog (Complex from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Susd homolog (66 kDa, Protein from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Susd homolog (Complex from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Susc homolog (115 kDa, Protein from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Dimeric bt1762-bt1763 levan transporter complex (360 kDa, Complex)
Open-closed state of the Bt1762-Bt1763 levan transport system
Resolution: 4.7 Å
EM Method: Single-particle
Fitted PDBs: 6zm1
Q-score: 0.242
Gray DA, White JBR, Oluwole AO, Rath P, Glenwright AJ, Mazur A, Zahn M, Basle A, Morland C, Evans SL, Cartmell A, Robinson CV, Hiller S, Ranson NA, Bolam DN, van den Berg B
Nat Commun (2021) 12 pp. 44-44 [ DOI: doi:10.1038/s41467-020-20285-y Pubmed: 33398001 ]
- Susc homolog (Complex from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Susd homolog (66 kDa, Protein from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Susd homolog (Complex from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Susc homolog (115 kDa, Protein from Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482))
- Dimeric bt1762-bt1763 levan transporter complex (360 kDa, Complex)
Structure of the RagAB peptide importer in the 'closed-closed' state
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6sm3
Q-score: 0.585
Madej M, White JBR, Nowakowska Z, Rawson S, Scavenius C, Enghild JJ, Bereta GP, Pothula K, Kleinekathoefer U, Basle A, Ranson NA, Potempa J, van den Berg B
Nat Microbiol (2020) 5 pp. 1016-1025 [ Pubmed: 32393857 DOI: doi:10.1038/s41564-020-0716-y ]
- (1r,4s,6r)-6-({[2-(acetylamino)-2-deoxy-alpha-d-glucopyranosyl]oxy}methyl)-4-hydroxy-1-{[(15-methylhexadecanoyl)oxy]methyl}-4-oxido-7-oxo-3,5-dioxa-8-aza-4-phosphaheptacos-1-yl 15-methylhexadecanoate (1 kDa, Ligand)
- Gly-gly-ala-thr-thr-ala-thr-thr-thr-thr-ser-thr-ser (1 kDa, Protein from Porphyromonas gingivalis W83)
- Raga protein (100 kDa, Protein from Porphyromonas gingivalis (strain ATCC BAA-308 / W83))
- Palmitic acid (256 Da, Ligand)
- Lipoprotein ragb (54 kDa, Protein from Porphyromonas gingivalis (strain ATCC BAA-308 / W83))
- Ragab with putative peptide substrate (Complex from Porphyromonas gingivalis W83)