Molecular basis for the ATPase-powered substrate translocation by the Lon AAA+ protease
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6wqh
Q-score: 0.431
Li S, Hsieh KY, Su SC, Pintilie GD, Zhang K, Chang CI
J Biol Chem (2021) 297 pp. 101239-101239 [ DOI: doi:10.1016/j.jbc.2021.101239 Pubmed: 34563541 ]
- Lon protease (88 kDa, Protein from Meiothermus taiwanensis)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Ig2 substrate (954 Da, Protein from Dictyostelium discoideum)
- Ig2 substrate (Complex from Dictyostelium discoideum)
- Meiothermus taiwanensis lona (mtalona) in a substrate-engaged state (360 kDa, Complex)
- Lon protease (Complex from Meiothermus taiwanensis)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- N-[(1r)-1-(dihydroxyboranyl)-2-phenylethyl]-nalpha-(pyrazin-2-ylcarbonyl)-l-phenylalaninamide (418 Da, Ligand)
LolCDE in complex with lipoprotein
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7arh
Q-score: 0.379
Tang X, Chang S, Zhang K, Luo Q, Zhang Z, Wang T, Qiao W, Wang C, Shen C, Zhang Z, Zhu X, Wei X, Dong C, Zhang X, Dong H
Nat Struct Mol Biol (2021) 28 pp. 347-355 [ Pubmed: 33782615 DOI: doi:10.1038/s41594-021-00573-x ]
- Lipoprotein-releasing abc transporter permease subunit lolc (43 kDa, Protein from Escherichia coli (strain K12))
- Lipoprotein-releasing system atp-binding protein lold (26 kDa, Protein from Escherichia coli (strain K12))
- Lipoprotein-releasing system transmembrane protein lole (45 kDa, Protein from Escherichia coli (strain K12))
- (2s)-3-hydroxypropane-1,2-diyl dihexadecanoate (568 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Lpp (1 kDa, Protein from Escherichia coli K-12)
- Lolcde in complex with a lipoprotein (Complex from Escherichia coli)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7ari
Q-score: 0.294
Tang X, Chang S, Zhang K, Luo Q, Zhang Z, Wang T, Qiao W, Wang C, Shen C, Zhang Z, Zhu X, Wei X, Dong C, Zhang X, Dong H
Nat Struct Mol Biol (2021) 28 pp. 347-355 [ Pubmed: 33782615 DOI: doi:10.1038/s41594-021-00573-x ]
- Lipoprotein-releasing system atp-binding protein lold (26 kDa, Protein from Escherichia coli (strain K12))
- Lipoprotein-releasing system transmembrane protein lole (45 kDa, Protein from Escherichia coli (strain K12))
- Lipoprotein-releasing abc transporter permease subunit lolc (43 kDa, Protein from Escherichia coli (strain K12))
- Lolcde apo structure (Complex from Escherichia coli)
LolCDE in complex with lipoprotein and AMPPNP complex undimerized form
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7arj
Q-score: 0.394
Tang X, Chang S, Zhang K, Luo Q, Zhang Z, Wang T, Qiao W, Wang C, Shen C, Zhang Z, Zhu X, Wei X, Dong C, Zhang X, Dong H
Nat Struct Mol Biol (2021) 28 pp. 347-355 [ Pubmed: 33782615 DOI: doi:10.1038/s41594-021-00573-x ]
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- (2s)-3-hydroxypropane-1,2-diyl dihexadecanoate (568 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Lipoprotein-releasing system transmembrane protein lole (45 kDa, Protein from Escherichia coli (strain K12))
- Lpp (1 kDa, Protein from Escherichia coli K-12)
- Lipoprotein-releasing abc transporter permease subunit lolc (43 kDa, Protein from Escherichia coli (strain K12))
- Lipoprotein-releasing system atp-binding protein lold (26 kDa, Protein from Escherichia coli (strain K12))
- Lolcde in complex with lipoprotein and amppnp complex undimerized form (Complex from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
LolCDE in complex with AMP-PNP in the closed NBD state
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 7ark
Q-score: 0.199
Tang X, Chang S, Zhang K, Luo Q, Zhang Z, Wang T, Qiao W, Wang C, Shen C, Zhang Z, Zhu X, Wei X, Dong C, Zhang X, Dong H
Nat Struct Mol Biol (2021) 28 pp. 347-355 [ Pubmed: 33782615 DOI: doi:10.1038/s41594-021-00573-x ]
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Lolcde in complex with amppnp dimerized form (Complex from Escherichia coli)
- Lipoprotein-releasing system transmembrane protein lole (45 kDa, Protein from Escherichia coli (strain K12))
- Lipoprotein-releasing abc transporter permease subunit lolc (43 kDa, Protein from Escherichia coli (strain K12))
- Lipoprotein-releasing system atp-binding protein lold (26 kDa, Protein from Escherichia coli (strain K12))
- Magnesium ion (24 Da, Ligand)
LolCDE in complex with lipoprotein and ADP
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7arl
Q-score: 0.408
Tang X, Chang S, Zhang K, Luo Q, Zhang Z, Wang T, Qiao W, Wang C, Shen C, Zhang Z, Zhu X, Wei X, Dong C, Zhang X, Dong H
Nat Struct Mol Biol (2021) 28 pp. 347-355 [ Pubmed: 33782615 DOI: doi:10.1038/s41594-021-00573-x ]
- Lipoprotein-releasing complex (Complex from Escherichia coli K-12)
- (2s)-3-hydroxypropane-1,2-diyl dihexadecanoate (568 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Lipoprotein-releasing system transmembrane protein lole (45 kDa, Protein from Escherichia coli (strain K12))
- Lpp (1 kDa, Protein from Escherichia coli K-12)
- Lolcde in complex with lipoprotein and adp (Complex)
- Lpp (Complex from Escherichia coli K-12)
- Lipoprotein-releasing abc transporter permease subunit lolc (43 kDa, Protein from Escherichia coli (strain K12))
- Lipoprotein-releasing system atp-binding protein lold (26 kDa, Protein from Escherichia coli (strain K12))
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
LolCDE in complex with lipoprotein and LolA
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7arm
Q-score: 0.339
Tang X, Chang S, Zhang K, Luo Q, Zhang Z, Wang T, Qiao W, Wang C, Shen C, Zhang Z, Zhu X, Wei X, Dong C, Zhang X, Dong H
Nat Struct Mol Biol (2021) 28 pp. 347-355 [ Pubmed: 33782615 DOI: doi:10.1038/s41594-021-00573-x ]
- Lpp (Complex from Escherichia coli BL21(DE3))
- (2s)-3-hydroxypropane-1,2-diyl dihexadecanoate (568 Da, Ligand)
- Lpp (1 kDa, Protein from Escherichia coli BL21(DE3))
- Lipoprotein-releasing system transmembrane protein lole (45 kDa, Protein from Escherichia coli (strain K12))
- Palmitic acid (256 Da, Ligand)
- Outer-membrane lipoprotein carrier protein (20 kDa, Protein from Escherichia coli (strain K12))
- Lipoprotein-releasing system (Complex from Escherichia coli (strain K12))
- Lipoprotein-releasing abc transporter permease subunit lolc (43 kDa, Protein from Escherichia coli (strain K12))
- Lipoprotein-releasing system atp-binding protein lold (26 kDa, Protein from Escherichia coli (strain K12))
- Lolcde in complex with lipoprotein and lola (Complex)
Cryo-EM structure of MlaFEDB in complex with phospholipid
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6zy3
Q-score: 0.431
Tang X, Chang S, Qiao W, Luo Q, Chen Y, Jia Z, Coleman J, Zhang K, Wang T, Zhang Z, Zhang C, Zhu X, Wei X, Dong C, Zhang X, Dong H
Nat Struct Mol Biol (2021) 28 pp. 81-91 [ Pubmed: 33199922 DOI: doi:10.1038/s41594-020-00532-y ]
- Abc transporter maintaining om lipid asymmetry, cytoplasmic stas component (Complex from Escherichia coli)
- Toluene tolerance protein ttg2a (29 kDa, Protein from Escherichia coli 909945-2)
- Yrbd protein (Complex from Escherichia coli B185)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Yrbd protein (19 kDa, Protein from Escherichia coli B185)
- Uncharacterized protein (27 kDa, Protein from Escherichia coli 2.3916)
- Uncharacterized protein (Complex from Escherichia coli 2.3916)
- Mlafedb (Complex)
- Toluene tolerance protein ttg2a (Complex from Escherichia coli 909945-2)
- Abc transporter maintaining om lipid asymmetry, cytoplasmic stas component (11 kDa, Protein from Escherichia coli)
Cryo-EM structure of MlaFEDB in complex with AMP-PNP
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6zy9
Q-score: 0.374
Tang X, Chang S, Qiao W, Luo Q, Chen Y, Jia Z, Coleman J, Zhang K, Wang T, Zhang Z, Zhang C, Zhu X, Wei X, Dong C, Zhang X, Dong H
Nat Struct Mol Biol (2021) 28 pp. 81-91 [ Pubmed: 33199922 DOI: doi:10.1038/s41594-020-00532-y ]
- Abc transporter maintaining om lipid asymmetry, cytoplasmic stas component (Complex from Escherichia coli)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Abc transporter maintaining om lipid asymmetry, cytoplasmic stas component (11 kDa, Protein from Escherichia coli)
- Toluene tolerance protein ttg2a (29 kDa, Protein from Escherichia coli 909945-2)
- Yrbd protein (19 kDa, Protein from Escherichia coli B185)
- Yrbd protein (Complex from Escherichia coli B185)
- Uncharacterized protein (Complex from Escherichia coli 2.3916)
- Toluene tolerance protein ttg2a (Complex from Escherichia coli 909945-2)
- Mlafedb (Complex)
- Magnesium ion (24 Da, Ligand)
- Uncharacterized protein (27 kDa, Protein from Escherichia coli 2.3916)
Cryo-EM structure of the P395-bound GPBAR-Gs complex
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7cfm
Q-score: 0.517
Yang F, Mao C, Guo L, Lin J, Ming Q, Xiao P, Wu X, Shen Q, Guo S, Shen DD, Lu R, Zhang L, Huang S, Ping Y, Zhang C, Ma C, Zhang K, Liang X, Shen Y, Nan F, Yi F, Luca VC, Zhou J, Jiang C, Sun JP, Xie X, Yu X, Zhang Y
Nature (2020) 587 pp. 499-504 [ Pubmed: 32698187 DOI: doi:10.1038/s41586-020-2569-1 ]
- Nanobody-35 (13 kDa, Protein from synthetic construct)
- 2-(ethylamino)-6-[3-(4-propan-2-ylphenyl)propanoyl]-7,8-dihydro-5h-pyrido[4,3-d]pyrimidine-4-carboxamide (395 Da, Ligand)
- Gs (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(s) subunit alpha isoforms short (45 kDa, Protein from Homo sapiens)
- G-protein coupled bile acid receptor 1 (35 kDa, Protein from Homo sapiens)
- P395-bound gpbar-gs complex (Complex)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (39 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (6 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Gpbar (Complex from Homo sapiens)
- P395 (Complex from synthetic construct)
- Cholesterol (386 Da, Ligand)