PDB: 161444 resultsInfo pagesStatus searchChemie searchBIRD

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5ZFT	Crystal structure of beta-lactamase PenP mutant-E166Y in complex with cephaloridine as "pre-deacylation" intermediate Descriptor: 5-METHYL-2-[2-OXO-1-(2-THIOPHEN-2-YL-ACETYLAMINO)-ETHYL]-3,6-DIHYDRO-2H-[1,3]THIAZINE-4-CARBOXYLIC ACID, Beta-lactamase Authors: Pan, X, Zhao, Y. Deposit date: 2018-03-07 Release date: 2019-03-20 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (1.93 Å) Cite: The hydrolytic water molecule of Class A beta-lactamase relies on the acyl-enzyme intermediate ES* for proper coordination and catalysis. Sci Rep, 10, 2020
3HZQ	Structure of a tetrameric MscL in an expanded intermediate state Descriptor: Large-conductance mechanosensitive channel Authors: Liu, Z.F, Gandhi, C.S, Rees, D.C. Deposit date: 2009-06-24 Release date: 2009-08-25 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (3.82 Å) Cite: Structure of a tetrameric MscL in an expanded intermediate state. Nature, 461, 2009
7D84	34-fold symmetry Salmonella S ring formed by full-length FliF Descriptor: Flagellar M-ring protein Authors: Kawamoto, A, Miyata, T, Makino, F, Kinoshita, M, Minamino, T, Imada, K, Kato, T, Namba, K. Deposit date: 2020-10-07 Release date: 2021-05-19 Last modified: 2024-03-27 Method: ELECTRON MICROSCOPY (3.7 Å) Cite: Native flagellar MS ring is formed by 34 subunits with 23-fold and 11-fold subsymmetries. Nat Commun, 12, 2021
1N2L	Crystal structure of a covalent intermediate of endogenous human arylsulfatase A Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ARYLSULFATASE A, ... Authors: Chruszcz, M, Laidler, P, Monkiewicz, M, Ortlund, E, Lebioda, L, Lewinski, K. Deposit date: 2002-10-23 Release date: 2003-12-23 Last modified: 2023-11-15 Method: X-RAY DIFFRACTION (3.2 Å) Cite: Crystal structure of a covalent intermediate of endogenous human arylsulfatase A. J.Inorg.Biochem., 96, 2003
5ZG6	Crystal structure of beta-lactamase PenP mutant-E166Y in complex with cephaloridine as "post-acylation" intermediate Descriptor: 5-METHYL-2-[2-OXO-1-(2-THIOPHEN-2-YL-ACETYLAMINO)-ETHYL]-3,6-DIHYDRO-2H-[1,3]THIAZINE-4-CARBOXYLIC ACID, Beta-lactamase Authors: Pan, X, Zhao, Y. Deposit date: 2018-03-07 Release date: 2019-03-20 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2 Å) Cite: The hydrolytic water molecule of Class A beta-lactamase relies on the acyl-enzyme intermediate ES* for proper coordination and catalysis. Sci Rep, 10, 2020
1N2K	Crystal structure of a covalent intermediate of endogenous human arylsulfatase A Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ARYLSULFATASE A, ... Authors: Chruszcz, M, Laidler, P, Monkiewicz, M, Ortlund, E, Lebioda, L, Lewinski, K. Deposit date: 2002-10-23 Release date: 2003-12-23 Last modified: 2020-07-29 Method: X-RAY DIFFRACTION (2.75 Å) Cite: Crystal structure of a covalent intermediate of endogenous human arylsulfatase A. J.Inorg.Biochem., 96, 2003
4JXC	X-ray snapshots of possible intermediates in the time course of synthesis and degradation of protein-bound Fe4S4 clusters Descriptor: CHAPSO, CHLORIDE ION, FE2/S2 (INORGANIC) CLUSTER, ... Authors: Nicolet, Y, Rohac, R, Martin, L, Fontecilla-Camps, J.C. Deposit date: 2013-03-28 Release date: 2013-05-01 Last modified: 2023-12-06 Method: X-RAY DIFFRACTION (1.5 Å) Cite: X-ray snapshots of possible intermediates in the time course of synthesis and degradation of protein-bound Fe4S4 clusters. Proc.Natl.Acad.Sci.USA, 110, 2013
9B56	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: 2024-09-18 Method: ELECTRON MICROSCOPY (3.35 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B5J	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: 2024-09-18 Method: ELECTRON MICROSCOPY (2.86 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B5E	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: 2024-09-18 Method: ELECTRON MICROSCOPY (2.81 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B58	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: 2024-09-18 Method: ELECTRON MICROSCOPY (3.39 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B5I	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: 2024-09-18 Method: ELECTRON MICROSCOPY (2.7 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B5D	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: 2024-09-18 Method: ELECTRON MICROSCOPY (2.8 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B57	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: 2024-09-18 Method: ELECTRON MICROSCOPY (3.37 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B5K	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: 2024-09-18 Method: ELECTRON MICROSCOPY (3.16 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B55	Ubiquitin E2-Ub-E3 HECT tetrahedral transthiolation intermediate mimic - state 1 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: 2024-09-18 Method: ELECTRON MICROSCOPY (3.23 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B5F	Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (doubly Ub-loaded) - cluster 1 map and model (Ub(A)/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: 2024-09-18 Method: ELECTRON MICROSCOPY (2.78 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B5B	Ubiquitin E2-Ub-E3 HECT tetrahedral transthiolation intermediate mimic - state 7 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: 2024-09-18 Method: ELECTRON MICROSCOPY (3.31 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B5C	Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (doubly Ub-loaded) - consensus map and model 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: 2024-09-18 Method: ELECTRON MICROSCOPY (2.5 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B59	Ubiquitin E2-Ub-E3 HECT tetrahedral transthiolation intermediate mimic - state 5 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: 2024-09-18 Method: ELECTRON MICROSCOPY (3.49 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B5A	Ubiquitin E2-Ub-E3 HECT tetrahedral transthiolation intermediate mimic - state 6 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: 2024-09-18 Method: ELECTRON MICROSCOPY (3.65 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B5H	Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (doubly Ub-loaded) - cluster 3 map and model (Ub(A)-AMP/PPi/Mg) 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: 2024-09-18 Method: ELECTRON MICROSCOPY (2.69 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
9B5L	Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (doubly Ub-loaded) - Ub(T) class 10 map and model from cluster 5 (Ub(A)-AMP) Descriptor: 4-aminobutanenitrile, ADENOSINE MONOPHOSPHATE, Polyubiquitin, ... Authors: Kochanczyk, T, Lima, C.D. Deposit date: 2024-03-22 Release date: 2024-06-05 Last modified: 2024-09-18 Method: ELECTRON MICROSCOPY (3.3 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024
1EUA	SCHIFF BASE INTERMEDIATE IN KDPG ALDOLASE FROM ESCHERICHIA COLI Descriptor: ACETATE ION, KDPG ALDOLASE, PYRUVIC ACID, ... Authors: Allard, J, Grochulski, P, Sygusch, J. Deposit date: 2000-04-14 Release date: 2001-02-07 Last modified: 2023-11-15 Method: X-RAY DIFFRACTION (1.95 Å) Cite: Covalent intermediate trapped in 2-keto-3-deoxy-6- phosphogluconate (KDPG) aldolase structure at 1.95-A resolution. Proc.Natl.Acad.Sci.USA, 98, 2001
9B5G	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: 2024-09-18 Method: ELECTRON MICROSCOPY (2.67 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway. Nature, 633, 2024

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