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)
Structure of the RagAB peptide importer in the 'open-open' state
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 6sml
Q-score: 0.559
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 ]
- Ragab with putative peptide substrate (Complex from Porphyromonas gingivalis W83)
- Palmitic acid (256 Da, Ligand)
- Lipoprotein ragb (54 kDa, Protein from Porphyromonas gingivalis W83)
- (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)
- Raga protein (101 kDa, Protein from Porphyromonas gingivalis W83)
- Gly-thr-gly-gly-ser-thr-gly-thr-thr-ser-ala-gly (952 Da, Protein from Porphyromonas gingivalis W83)
Structure of the RagAB peptide importer in the 'open-closed' state
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6smq
Q-score: 0.587
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)
- Raga protein (101 kDa, Protein from Porphyromonas gingivalis (strain ATCC BAA-308 / W83))
- (hydroxyethyloxy)tri(ethyloxy)octane (306 Da, Ligand)
- Raga protein (100 kDa, Protein from Porphyromonas gingivalis (strain ATCC BAA-308 / W83))
- Ser-gly-ala-thr-thr-ala-thr-thr-thr-thr-ser-asn-ser (1 kDa, Protein from Porphyromonas gingivalis 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)