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PDB: 228 results

1Y8R
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BU of 1y8r by Molmil
SUMO E1 ACTIVATING ENZYME SAE1-SAE2-SUMO1-MG-ATP COMPLEX
Descriptor: ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, Ubiquitin-like 1 activating enzyme E1A, ...
Authors:Lois, L.M, Lima, C.D.
Deposit date:2004-12-13
Release date:2005-01-25
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (2.75 Å)
Cite:Structures of the SUMO E1 provide mechanistic insights into SUMO activation and E2 recruitment to E1
Embo J., 24, 2005
1Y23
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BU of 1y23 by Molmil
Crystal structure of a member of HIT family of proteins from bacillus subtilis
Descriptor: Histidine triad protein, MAGNESIUM ION, ZINC ION
Authors:Rajashankar, K.R, Lima, C.D, Burley, S.K, New York SGX Research Center for Structural Genomics (NYSGXRC)
Deposit date:2004-11-19
Release date:2004-12-07
Last modified:2024-04-03
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystal structure of a member of HIT family of proteins from bacillus subtilis
To be Published
1Y8Q
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BU of 1y8q by Molmil
SUMO E1 ACTIVATING ENZYME SAE1-SAE2-MG-ATP COMPLEX
Descriptor: ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, Ubiquitin-like 1 activating enzyme E1A, ...
Authors:Lois, L.M, Lima, C.D.
Deposit date:2004-12-13
Release date:2005-01-25
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:Structures of the SUMO E1 provide mechanistic insights into SUMO activation and E2 recruitment to E1
Embo J., 24, 2005
1KNC
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BU of 1knc by Molmil
Structure of AhpD from Mycobacterium tuberculosis, a novel enzyme with thioredoxin-like activity.
Descriptor: AhpD protein, SULFATE ION
Authors:Bryk, R, Lima, C.D, Erdjument-Bromage, H, Tempst, P, Nathan, C.
Deposit date:2001-12-18
Release date:2002-01-23
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (2 Å)
Cite:Metabolic enzymes of mycobacteria linked to antioxidant defense by a thioredoxin-like protein.
Science, 295, 2002
2IO2
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BU of 2io2 by Molmil
Crystal structure of human Senp2 in complex with RanGAP1-SUMO-1
Descriptor: Ran GTPase-activating protein 1, Sentrin-specific protease 2, Small ubiquitin-related modifier 1
Authors:Reverter, D, Lima, C.D.
Deposit date:2006-10-09
Release date:2006-11-21
Last modified:2023-08-30
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Structural basis for SENP2 protease interactions with SUMO precursors and conjugated substrates.
Nat.Struct.Mol.Biol., 13, 2006
1Y8C
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BU of 1y8c by Molmil
Crystal structure of a S-adenosylmethionine-dependent methyltransferase from Clostridium acetobutylicum ATCC 824
Descriptor: S-adenosylmethionine-dependent methyltransferase, SULFATE ION
Authors:Rajashankar, K.R, Kniewel, R, Lee, K, Lima, C.D, Burley, S.K, New York SGX Research Center for Structural Genomics (NYSGXRC)
Deposit date:2004-12-11
Release date:2004-12-28
Last modified:2024-04-03
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal structure of a S-adenosylmethionine-dependent methyltransferase from Clostridium acetobutylicum ATCC 824
To be Published
1YCO
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BU of 1yco by Molmil
Crystal structure of a branched-chain phosphotransacylase from Enterococcus faecalis V583
Descriptor: PHOSPHATE ION, branched-chain phosphotransacylase
Authors:Rajashankar, K.R, Kniewel, R, Lee, K, Lima, C.D, Burley, S.K, New York SGX Research Center for Structural Genomics (NYSGXRC)
Deposit date:2004-12-22
Release date:2005-01-18
Last modified:2024-04-03
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of a branched-chain phosphotransacylase from Enterococcus faecalis V583
To be Published
2IO1
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BU of 2io1 by Molmil
Crystal structure of human Senp2 in complex with preSUMO-3
Descriptor: Sentrin-specific protease 2, Small ubiquitin-related modifier 3 precursor
Authors:Reverter, D, Lima, C.D.
Deposit date:2006-10-09
Release date:2006-11-14
Last modified:2023-08-30
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structural basis for SENP2 protease interactions with SUMO precursors and conjugated substrates.
Nat.Struct.Mol.Biol., 13, 2006
2IO0
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BU of 2io0 by Molmil
Crystal structure of human Senp2 in complex with preSUMO-2
Descriptor: SULFATE ION, Sentrin-specific protease 2, Small ubiquitin-related modifier 2 precursor
Authors:Reverter, D, Lima, C.D.
Deposit date:2006-10-09
Release date:2006-11-14
Last modified:2023-08-30
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structural basis for SENP2 protease interactions with SUMO precursors and conjugated substrates.
Nat.Struct.Mol.Biol., 13, 2006
6D6R
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BU of 6d6r by Molmil
Human nuclear exosome-MTR4 RNA complex - composite map after focused reconstruction
Descriptor: DNA/RNA (62-MER), Exosome RNA helicase MTR4, Exosome complex component CSL4, ...
Authors:Weick, E.-M, Lima, C.D.
Deposit date:2018-04-22
Release date:2018-06-20
Last modified:2024-03-13
Method:ELECTRON MICROSCOPY (3.45 Å)
Cite:Helicase-Dependent RNA Decay Illuminated by a Cryo-EM Structure of a Human Nuclear RNA Exosome-MTR4 Complex.
Cell, 173, 2018
6D6Q
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BU of 6d6q by Molmil
Human nuclear exosome-MTR4 RNA complex - overall reconstruction
Descriptor: DNA/RNA (62-MER), Exosome RNA helicase MTR4, Exosome complex component CSL4, ...
Authors:Weick, E.-M, Lima, C.D.
Deposit date:2018-04-22
Release date:2018-06-20
Last modified:2024-03-13
Method:ELECTRON MICROSCOPY (3.45 Å)
Cite:Helicase-Dependent RNA Decay Illuminated by a Cryo-EM Structure of a Human Nuclear RNA Exosome-MTR4 Complex.
Cell, 173, 2018
9B5G
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BU of 9b5g by Molmil
Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (doubly Ub-loaded) - cluster 2 map and model (Ub(A)/ATP/Mg)
Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, Large ribosomal subunit protein eL40B, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-08-28
Method:ELECTRON MICROSCOPY (2.67 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 2024
9B5W
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BU of 9b5w by Molmil
Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (singly Ub-loaded) - Ub(T) class 1 map and model from cluster 5 (ATP/Mg)
Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-09-04
Method:ELECTRON MICROSCOPY (3.96 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 2024
9B56
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BU of 9b56 by Molmil
Ubiquitin E2-Ub-E3 HECT tetrahedral transthiolation intermediate mimic - state 2
Descriptor: 4-aminobutanenitrile, E3 ubiquitin-protein ligase pub2, Ubiquitin, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-09-11
Method:ELECTRON MICROSCOPY (3.35 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 633, 2024
9B5J
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BU of 9b5j by Molmil
Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (doubly Ub-loaded) - cluster 5 map and model (Ub(A)-AMP)
Descriptor: 4-aminobutanenitrile, ADENOSINE MONOPHOSPHATE, Large ribosomal subunit protein eL40B, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-08-28
Method:ELECTRON MICROSCOPY (2.86 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 2024
9B5P
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BU of 9b5p by Molmil
Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (singly Ub-loaded) - cluster 1 map and model (ATP/Mg)
Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-09-04
Method:ELECTRON MICROSCOPY (3.08 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 2024
9B5E
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BU of 9b5e by Molmil
Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (doubly Ub-loaded) - Ub(T) class 10 map and model from consensus
Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, Large ribosomal subunit protein eL40B, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-08-28
Method:ELECTRON MICROSCOPY (2.81 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 2024
9B5R
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BU of 9b5r by Molmil
Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (singly Ub-loaded) - cluster 3 map and model (ATP/Mg)
Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-09-04
Method:ELECTRON MICROSCOPY (2.95 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 2024
9B58
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BU of 9b58 by Molmil
Ubiquitin E2-Ub-E3 HECT tetrahedral transthiolation intermediate mimic - state 4
Descriptor: 4-aminobutanenitrile, E3 ubiquitin-protein ligase pub2, Ubiquitin, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-09-11
Method:ELECTRON MICROSCOPY (3.39 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 633, 2024
9B5I
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BU of 9b5i by Molmil
Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (doubly Ub-loaded) - cluster 4 map and model (Ub(A)-AMP/PPi/Mg)
Descriptor: 4-aminobutanenitrile, ADENOSINE MONOPHOSPHATE, MAGNESIUM ION, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-08-28
Method:ELECTRON MICROSCOPY (2.7 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 2024
9B5D
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BU of 9b5d by Molmil
Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (doubly Ub-loaded) - Ub(T) class 1 map and model from consensus
Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, Large ribosomal subunit protein eL40B, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-08-28
Method:ELECTRON MICROSCOPY (2.8 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 2024
9B5T
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BU of 9b5t by Molmil
Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (singly Ub-loaded) - cluster 5 map and model (ATP/Mg)
Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-09-04
Method:ELECTRON MICROSCOPY (3.16 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 2024
9B57
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BU of 9b57 by Molmil
Ubiquitin E2-Ub-E3 HECT tetrahedral transthiolation intermediate mimic - state 3
Descriptor: 4-aminobutanenitrile, E3 ubiquitin-protein ligase pub2, Ubiquitin, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-09-11
Method:ELECTRON MICROSCOPY (3.37 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 633, 2024
9B5K
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BU of 9b5k by Molmil
Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (doubly Ub-loaded) - Ub(T) class 1 map and model from cluster 1 (Ub(A)/ATP/Mg)
Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, Large ribosomal subunit protein eL40B, ...
Authors:Kochanczyk, T, Lima, C.D.
Deposit date:2024-03-22
Release date:2024-06-05
Last modified:2024-08-28
Method:ELECTRON MICROSCOPY (3.16 Å)
Cite:Structural basis for transthiolation intermediates in the ubiquitin pathway.
Nature, 2024
6O82
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BU of 6o82 by Molmil
S. pombe ubiquitin E1 complex with a ubiquitin-AMP mimic
Descriptor: 1,2-ETHANEDIOL, 5'-deoxy-5'-(sulfamoylamino)adenosine, MAGNESIUM ION, ...
Authors:Olsen, S.K, Lima, C.D.
Deposit date:2019-03-08
Release date:2019-06-19
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.604 Å)
Cite:Structural basis for adenylation and thioester bond formation in the ubiquitin E1.
Proc.Natl.Acad.Sci.USA, 116, 2019

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