Cryo-EM structure of Mycobacterium tuberculosis OppABCD in the catalytic intermediate state
Resolution: 2.98 Å
EM Method: Single-particle
Fitted PDBs: 8j5t
Q-score: 0.572
Yang X, Hu T, Liang J, Xiong Z, Lin Z, Zhao Y, Zhou X, Gao Y, Sun S, Yang X, Guddat LW, Yang H, Rao Z, Zhang B
Nat Struct Mol Biol (2024) 31 pp. 1072-1082 [ DOI: doi:10.1038/s41594-024-01256-z Pubmed: 38548954 ]
- Magnesium ion (24 Da, Ligand)
- Putative peptide transport permease protein rv1283c (35 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Uncharacterized abc transporter atp-binding protein rv1281c (65 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Cryo-em structure of mycobacterium tuberculosis oppabcd in the catalytic intermediate state (Complex from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Uncharacterized protein rv1280c (64 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Iron/sulfur cluster (351 Da, Ligand)
- Putative peptide transport permease protein rv1282c (31 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7bvc
Q-score: 0.564
Zhang L, Zhao Y, Gao Y, Wu L, Gao R, Zhang Q, Wang Y, Wu C, Wu F, Gurcha SS, Veerapen N, Batt SM, Zhao W, Qin L, Yang X, Wang M, Zhu Y, Zhang B, Bi L, Zhang X, Yang H, Guddat LW, Xu W, Wang Q, Li J, Besra GS, Rao Z
Science (2020) 368 pp. 1211-1219 [ DOI: doi:10.1126/science.aba9102 Pubmed: 32327601 ]
- Phosphate ion (94 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Meromycolate extension acyl carrier protein (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Acpm (Complex from Mycolicibacterium smegmatis MC2 155)
- Mycobacterium smegmatis arabinosyltransferase emba-embb-acpm2 in complex with ethambutol (Complex)
- Integral membrane indolylacetylinositol arabinosyltransferase embb (119 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- [(2z,6e,10e,14z,18e,22z,26z)-3,7,11,15,19,23,27,31,35,39-decamethyltetraconta-2,6,10,14,18,22,26,30,34,38-decaenyl] [(2s,3s,4s,5r)-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl] hydrogen phosphate (911 Da, Ligand)
- Emba-embb (Complex from Mycolicibacterium smegmatis MC2 155)
- Calcium ion (40 Da, Ligand)
- Integral membrane indolylacetylinositol arabinosyltransferase emba (116 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Ethambutol (204 Da, Ligand)
- 4'-phosphopantetheine (358 Da, Ligand)
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 7bve
Q-score: 0.552
Zhang L, Zhao Y, Gao Y, Wu L, Gao R, Zhang Q, Wang Y, Wu C, Wu F, Gurcha SS, Veerapen N, Batt SM, Zhao W, Qin L, Yang X, Wang M, Zhu Y, Zhang B, Bi L, Zhang X, Yang H, Guddat LW, Xu W, Wang Q, Li J, Besra GS, Rao Z
Science (2020) 368 pp. 1211-1219 [ DOI: doi:10.1126/science.aba9102 Pubmed: 32327601 ]
- Phosphate ion (94 Da, Ligand)
- Mycobacterium smegmatis arabinosyltransferase embc2-acpm2 in complex with ethambutol (Complex)
- Meromycolate extension acyl carrier protein (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Embc (Complex from Mycolicibacterium smegmatis MC2 155)
- Acpm (Complex from Mycolicibacterium smegmatis MC2 155)
- N~3~-[(2s)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-n-(2-sulfanylethyl)-beta-alaninamide (358 Da, Ligand)
- Integral membrane indolylacetylinositol arabinosyltransferase embc (116 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Calcium ion (40 Da, Ligand)
- Ethambutol (204 Da, Ligand)
Resolution: 2.97 Å
EM Method: Single-particle
Fitted PDBs: 7bvf
Q-score: 0.58
Zhang L, Zhao Y, Gao Y, Wu L, Gao R, Zhang Q, Wang Y, Wu C, Wu F, Gurcha SS, Veerapen N, Batt SM, Zhao W, Qin L, Yang X, Wang M, Zhu Y, Zhang B, Bi L, Zhang X, Yang H, Guddat LW, Xu W, Wang Q, Li J, Besra GS, Rao Z
Science (2020) 368 pp. 1211-1219 [ DOI: doi:10.1126/science.aba9102 Pubmed: 32327601 ]
- Cardiolipin (1 kDa, Ligand)
- Meromycolate extension acyl carrier protein (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Acpm (Complex from Mycolicibacterium smegmatis MC2 155)
- Calcium ion (40 Da, Ligand)
- Probable arabinosyltransferase b (120 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Emba and embb (Complex from Mycobacterium tuberculosis H37Rv)
- Mycobacterium tuberculosis arabinosyltransferase emba-embb-acpm2 in complex with ethambutol (Complex)
- Probable arabinosyltransferase a (116 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Ethambutol (204 Da, Ligand)
- Mono-trans, octa-cis decaprenyl-phosphate (779 Da, Ligand)
SARS-Cov-2 RNA-dependent RNA polymerase in complex with cofactors in reduced conditions
Resolution: 2.95 Å
EM Method: Single-particle
Fitted PDBs: 7btf
Q-score: 0.569
Gao Y, Yan L, Huang Y, Liu F, Zhao Y, Cao L, Wang T, Sun Q, Ming Z, Zhang L, Ge J, Zheng L, Zhang Y, Wang H, Zhu Y, Zhu C, Hu T, Hua T, Zhang B, Yang X, Li J, Yang H, Liu Z, Xu W, Guddat LW, Wang Q, Lou Z, Rao Z
Science (2020) 368 pp. 779-782 [ Pubmed: 32277040 DOI: doi:10.1126/science.abb7498 ]
- Rna-directed rna polymerase (108 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Structure of sars-cov-2 rna-dependent rna polymerase in complex with cofactors in reduced condition (155 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- Non-structural protein 7 (9 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Non-structural protein 8 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-Cov-2 RNA-dependent RNA polymerase in complex with cofactors
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 6m71
Q-score: 0.519
Gao Y, Yan L, Huang Y, Liu F, Zhao Y, Cao L, Wang T, Sun Q, Ming Z, Zhang L, Ge J, Zheng L, Zhang Y, Wang H, Zhu Y, Zhu C, Hu T, Hua T, Zhang B, Yang X, Li J, Yang H, Liu Z, Xu W, Guddat LW, Wang Q, Lou Z, Rao Z
Science (2020) 368 pp. 779-782 [ Pubmed: 32277040 DOI: doi:10.1126/science.abb7498 ]
- Rna-directed rna polymerase (108 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Non-structural protein 7 (9 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 rna-dependent rna polymerase in complex with cofactors (155 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Non-structural protein 8 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)