Electron Microscopy Data Bank

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Mycobacterium tuberculosis CoaX Homohexamer

Release date: Nov. 13, 2024
Resolution: 2.59 Å
EM Method: Single-particle
Fitted PDBs: 9b78
Q-score: 0.579

Kahne SC, Yoo JH, Chen J, Nakedi K, Iyer LM, Putzel G, Samhadaneh NM, Pironti A, Aravind L, Ekiert DC, Bhabha G, Rhee KY, Darwin KH

PNAS (2024) 121 pp. e2407239121-e2407239121 [ DOI: doi:10.1073/pnas.2407239121 Pubmed: 39585979 ]

Sample:

Homohexameric assembly of m. tuberculosis coax (Complex from Mycobacterium tuberculosis)
Type iii pantothenate kinase (29 kDa, Protein from Mycobacterium tuberculosis)

EMD-44304

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Mycobacterium tuberculosis CoaX Homotetramer

Release date: Nov. 13, 2024
Resolution: 2.71 Å
EM Method: Single-particle
Fitted PDBs: 9b79
Q-score: 0.522

Kahne SC, Yoo JH, Chen J, Nakedi K, Iyer LM, Putzel G, Samhadaneh NM, Pironti A, Aravind L, Ekiert DC, Bhabha G, Rhee KY, Darwin KH

PNAS (2024) 121 pp. e2407239121-e2407239121 [ DOI: doi:10.1073/pnas.2407239121 Pubmed: 39585979 ]

Sample:

Type iii pantothenate kinase (29 kDa, Protein from Mycobacterium tuberculosis)
Homotetrameric assembly of m. tuberculosis coax (Complex from Mycobacterium tuberculosis)

EMD-45654

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Complex of M. smegmatis Dop with M. tuberculosis CoaX and Pup91 (Composite Map)

Release date: Nov. 13, 2024
Resolution: 2.04 Å
EM Method: Single-particle
Fitted PDBs: 9cku
Q-score: 0.733

Kahne SC, Yoo JH, Chen J, Nakedi K, Iyer LM, Putzel G, Samhadaneh NM, Pironti A, Aravind L, Ekiert DC, Bhabha G, Rhee KY, Darwin KH

PNAS (2024) 121 pp. e2407239121-e2407239121 [ DOI: doi:10.1073/pnas.2407239121 Pubmed: 39585979 ]

Sample:

Complex of m. smegmatis dop with m. tuberculosis coax and pup91 (Complex from Mycobacterium tuberculosis)
Pup deamidase/depupylase (54 kDa, Protein from Mycolicibacterium smegmatis)
Type iii pantothenate kinase (29 kDa, Protein from Mycobacterium tuberculosis)
Pup (7 kDa, Protein from Mycobacterium tuberculosis)
Water (18 Da, Ligand)

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EMD-40162

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E. coli MlaC bound to MlaFEDB

Release date: May 10, 2023
Resolution: 6.6 Å
EM Method: Single-particle

MacRae MR, Puvanendran D, Haase MAB, Coudray N, Kolich L, Lam C, Baek M, Bhabha G, Ekiert DC

J Biol Chem (2023) 299 pp. 104744-104744 [ Pubmed: 37100290 DOI: doi:10.1016/j.jbc.2023.104744 ]

Sample:

E. coli mlac bound to mlafedb (Complex from Escherichia coli K-12)
Mlaf (Protein from Escherichia coli K-12)
Mlab (Protein from Escherichia coli K-12)
Foldon-mlac (Protein from Escherichia coli K-12)
Mlad (Protein from Escherichia coli K-12)
Mlae (Protein from Escherichia coli K-12)

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EMD-29023

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Structure of Mce1-LucB complex from Mycobacterium smegmatis (Map1)

Release date: Feb. 22, 2023
Resolution: 2.76 Å
EM Method: Single-particle
Fitted PDBs: 8fed
Q-score: 0.524

Chen J, Fruhauf A, Fan C, Ponce J, Ueberheide B, Bhabha G, Ekiert DC

Nature (2023) 620 pp. 445-452 [ Pubmed: 37495693 DOI: doi:10.1038/s41586-023-06366-0 ]

Sample:

Abc-transporter integral membrane protein (30 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (58 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (37 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (42 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Conserved hypothetical integral membrane protein yrbe1a (27 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Mce-family protein mce1f (54 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (43 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Unknown ligand (Ligand)
Mce-family protein mce1c (54 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Transmembrane protein (20 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Abc transporter, atp-binding protein,green fluorescent protein chimera (71 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Mce1 lipid transporter composed of mce1 mce proteins (mce1abcdef) and an abc transporter (yrbe1a-b, 2 copies of mceg) bound to accessory factor lucb (Complex from Mycolicibacterium smegmatis MC2 155)

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EMD-29024

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Structure of Mce1 transporter from Mycobacterium smegmatis in the absence of LucB (Map2)

Release date: Feb. 22, 2023
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8fee
Q-score: 0.502

Chen J, Fruhauf A, Fan C, Ponce J, Ueberheide B, Bhabha G, Ekiert DC

Nature (2023) 620 pp. 445-452 [ Pubmed: 37495693 DOI: doi:10.1038/s41586-023-06366-0 ]

Sample:

Abc-transporter integral membrane protein (30 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (58 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (37 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (42 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Conserved hypothetical integral membrane protein yrbe1a (27 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Mce1 lipid transporter composed of mce1 mce proteins (mce1abcdef) and an abc transporter (yrbe1a-b, 2 copies of mceg) (Complex from Mycolicibacterium smegmatis MC2 155)
Mce-family protein mce1f (54 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (43 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Unknown ligand (Ligand)
Mce-family protein mce1c (54 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Abc transporter, atp-binding protein,green fluorescent protein chimera (71 kDa, Protein from Mycolicibacterium smegmatis MC2 155)

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EMD-29025

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Structure of Mce1 transporter from Mycobacterium smegmatis (Map0)

Release date: Feb. 22, 2023
Resolution: 2.71 Å
EM Method: Single-particle
Fitted PDBs: 8fef
Q-score: 0.564

Chen J, Fruhauf A, Fan C, Ponce J, Ueberheide B, Bhabha G, Ekiert DC

Nature (2023) 620 pp. 445-452 [ Pubmed: 37495693 DOI: doi:10.1038/s41586-023-06366-0 ]

Sample:

Abc-transporter integral membrane protein (30 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (58 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (37 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (42 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Conserved hypothetical integral membrane protein yrbe1a (27 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Mce1 lipid transporter composed of mce1 mce proteins (mce1abcdef) and an abc transporter (yrbe1a-b, 2 copies of mceg) (Complex from Mycolicibacterium smegmatis MC2 155)
Mce-family protein mce1f (54 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Virulence factor mce family protein (43 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Unknown ligand (Ligand)
Mce-family protein mce1c (54 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Abc transporter, atp-binding protein,green fluorescent protein chimera (71 kDa, Protein from Mycolicibacterium smegmatis MC2 155)

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EMD-29041

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E. coli MlaFEDB bound to MlaC

Release date: Jan. 18, 2023
Resolution: 7.8 Å
EM Method: Single-particle

MacRae MR, Puvanendran D, Haase MAB, Coudray N, Kolich L, Lam C, Baek M, Bhabha G, Ekiert DC

J Biol Chem (2023) 299 pp. 104744-104744 [ Pubmed: 37100290 DOI: doi:10.1016/j.jbc.2023.104744 ]

Sample:

E. coli mlafedb bound to mlac (Complex from Escherichia coli K-12)
Mlaf (Protein from Escherichia coli K-12)
Mlab (Protein from Escherichia coli K-12)
Mlad (Protein from Escherichia coli K-12)
Mlac-foldon (Protein from Escherichia coli K-12)
Mlae (Protein from Escherichia coli K-12)

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EMD-25066

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Structure of E. coli LetB delta (Ring6) mutant, Ring1 in the closed state (Model 1)

Release date: Feb. 9, 2022
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7see
Q-score: 0.433

Vieni C, Coudray N, Isom GL, Bhabha G, Ekiert DC

J Mol Biol (2022) 434 pp. 167463-167463 [ Pubmed: 35077766 DOI: doi:10.1016/j.jmb.2022.167463 ]

Sample:

Unknown atom or ion (Ligand)
Mce family protein, intermembrane transport protein yebt chimera (78 kDa, Protein from Escherichia coli)
Homohexameric complex of delta(ring6) mutant form of letb (473 kDa, Complex from Escherichia coli)

EMD-25067

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Structure of E. coli LetB delta (Ring6) mutant, Ring 1 in the open state (Model 2, Rings 1-3 only)

Release date: Feb. 9, 2022
Resolution: 3.55 Å
EM Method: Single-particle
Fitted PDBs: 7sef
Q-score: 0.383

Vieni C, Coudray N, Isom GL, Bhabha G, Ekiert DC

J Mol Biol (2022) 434 pp. 167463-167463 [ Pubmed: 35077766 DOI: doi:10.1016/j.jmb.2022.167463 ]

Sample:

Homohexameric complex of delta (ring6) mutant form of letb (473 kDa, Complex from Escherichia coli)
Mce family protein, intermembrane transport protein yebt chimera (78 kDa, Protein from Escherichia coli)

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