4NPO
 
 | | Crystal structure of protein with unknown function from Deinococcus radiodurans at P61 spacegroup | | Descriptor: | ACETATE ION, ACETYL GROUP, GLYCEROL, ... | | Authors: | Boyko, K.M, Gorbacheva, M.A, Rakitina, T.V, Korgenevsky, D.A, Shabalin, I.G, Shumilin, I.A, Dorovatovsky, P.V, Lipkin, A.V, Popov, V.O. | | Deposit date: | 2013-11-22 | | Release date: | 2013-12-11 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.47 Å) | | Cite: | Crystal structure of protein with unknown function at P61 spacegroup
To be Published
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5MWC
 | | Crystal structure of the genetically-encoded green calcium indicator NTnC in its calcium bound state | | Descriptor: | CALCIUM ION, genetically-encoded green calcium indicator NTnC | | Authors: | Boyko, K.M, Nikolaeva, A.Y, Korzhenevskiy, D.A, Rakitina, T.V, Popov, V.O, Subach, O.M, Barykina, N.V, Subach, F.V. | | Deposit date: | 2017-01-18 | | Release date: | 2018-02-14 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.45 Å) | | Cite: | Enchanced variant of genetically-encoded green calcium indicator NTnC
To Be Published
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5EKC
 | | Thermostable aldehyde dehydrogenase from Pyrobaculum sp.1860 complexed with NADP+ | | Descriptor: | Aldehyde dehydrogenase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE | | Authors: | Petrova, T, Bezsudnova, E.Y, Boyko, K.M, Nikolaeva, A.Y, Rakitina, T.V, Shabalin, I.G, Popov, V.O. | | Deposit date: | 2015-11-03 | | Release date: | 2016-11-16 | | Last modified: | 2024-01-10 | | Method: | X-RAY DIFFRACTION (1.895 Å) | | Cite: | Structure of thermostable aldehyde dehydrogenase from Pyrobaculum sp.1860 complexed with NADP+
To Be Published
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5EK6
 | | Thermostable aldehyde dehydrogenase from Pyrobaculum sp. 1860 complexed with NADP and isobutyraldehyde | | Descriptor: | 2-methylpropanal, Aldehyde dehydrogenase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE | | Authors: | Petrova, T.E, Bezsudnova, E.Y, Boyko, K.M, Polyakov, K.M, Rakitina, T.V, Popov, V.O. | | Deposit date: | 2015-11-03 | | Release date: | 2016-11-16 | | Last modified: | 2024-05-08 | | Method: | X-RAY DIFFRACTION (2.66 Å) | | Cite: | NADP-Dependent Aldehyde Dehydrogenase from ArchaeonPyrobaculum sp.1860: Structural and Functional Features.
Archaea, 2016, 2016
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5EXF
 | | Thermostable aldehyde dehydrogenase from Pyrobaculum sp.1860 complexed with NADP+ | | Descriptor: | Aldehyde dehydrogenase, GLYCEROL, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE | | Authors: | Petrova, T, Bezsudnova, E.Y, Boyko, K.M, Nikolaeva, A.Y, Rakitina, T.V, Popov, V.O. | | Deposit date: | 2015-11-23 | | Release date: | 2016-12-07 | | Last modified: | 2024-01-10 | | Method: | X-RAY DIFFRACTION (2.19 Å) | | Cite: | NADP-Dependent Aldehyde Dehydrogenase from ArchaeonPyrobaculum sp.1860: Structural and Functional Features.
Archaea, 2016, 2016
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5EUY
 | | Thermostable aldehyde dehydrogenase from Pyrobaculum sp.1860 complexed with NADP+ | | Descriptor: | Aldehyde dehydrogenase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE | | Authors: | Petrova, T, Bezsudnova, E.Y, Boyko, K.M, Nikolaeva, A.Y, Rakitina, T.V, Popov, V.O. | | Deposit date: | 2015-11-19 | | Release date: | 2016-11-30 | | Last modified: | 2024-01-10 | | Method: | X-RAY DIFFRACTION (2.06 Å) | | Cite: | NADP-Dependent Aldehyde Dehydrogenase from ArchaeonPyrobaculum sp.1860: Structural and Functional Features.
Archaea, 2016, 2016
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5OGU
 | | Structure of DNA-binding HU protein from micoplasma Spiroplasma melliferum | | Descriptor: | DNA-binding protein | | Authors: | Altukhov, D.A, Talyzina, A.A, Agapova, Y.K, Vlaskina, A.V, Korzhenevskiy, D.A, Bocharov, E.V, Rakitina, T.V, Timofeev, V.I. | | Deposit date: | 2017-07-13 | | Release date: | 2017-08-23 | | Last modified: | 2023-06-14 | | Method: | SOLUTION NMR | | Cite: | Structural plasticity and thermal stability of the histone-like protein from Spiroplasma melliferum are due to phenylalanine insertions into the conservative scaffold.
J.Biomol.Struct.Dyn., 36, 2018
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7Z79
 | | Crystal structure of aminotransferase-like protein from Variovorax paradoxus | | Descriptor: | Aminotransferase, class 4, DI(HYDROXYETHYL)ETHER, ... | | Authors: | Boyko, K.M, Matyuta, I.O, Nikolaeva, A.Y, Khrenova, M.G, Rakitina, T.V, Popov, V.O, Bezsudnova, E.Y. | | Deposit date: | 2022-03-15 | | Release date: | 2022-04-13 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | A Puzzling Protein from Variovorax paradoxus Has a PLP Fold Type IV Transaminase Structure and Binds PLP without Catalytic Lysine
Crystals, 12, 2022
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7YX7
 | | Modified oligopeptidase B from S. proteomaculans in intermediate conformation with 1 spermine molecule at 1.72 A resolution | | Descriptor: | Oligopeptidase B, SPERMINE | | Authors: | Petrenko, D.E, Boyko, K.M, Nikolaeva, A.Y, Vlaskina, A.V, Mikhailova, A.G, Timofeev, V.I, Rakitina, T.V. | | Deposit date: | 2022-02-15 | | Release date: | 2023-01-18 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (1.72 Å) | | Cite: | Elucidation of the Conformational Transition of Oligopeptidase B by an Integrative Approach Based on the Combination of X-ray, SAXS, and Essential Dynamics Sampling Simulation
Crystals, 12, 2022
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7YWS
 | | Modified oligopeptidase B from S. proteomaculans in intermediate conformation with 3 spermine molecules at 1.7 A resolution | | Descriptor: | Oligopeptidase B, SPERMINE | | Authors: | Petrenko, D.E, Boyko, K.M, Nikolaeva, A.Y, Vlaskina, A.V, Mikhailova, A.G, Timofeev, V.I, Rakitina, T.V. | | Deposit date: | 2022-02-14 | | Release date: | 2023-01-18 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Elucidation of the Conformational Transition of Oligopeptidase B by an Integrative Approach Based on the Combination of X-ray, SAXS, and Essential Dynamics Sampling Simulation
Crystals, 12, 2022
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7YWP
 | | Closed conformation of Oligopeptidase B from Serratia proteomaculans with covalently bound TCK | | Descriptor: | N-[(1S)-5-amino-1-(chloroacetyl)pentyl]-4-methylbenzenesulfonamide, Oligopeptidase B | | Authors: | Petrenko, D.E, Boyko, K.M, Nikolaeva, A.Y, Vlaskina, A.V, Mikhailova, A.G, Timofeev, V.I, Rakitina, T.V. | | Deposit date: | 2022-02-14 | | Release date: | 2023-02-22 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal Structure of Inhibitor-Bound Bacterial Oligopeptidase B in the Closed State: Similarity and Difference between Protozoan and Bacterial Enzymes.
Int J Mol Sci, 24, 2023
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7YWZ
 | | Modified oligopeptidase B from S. proteomaculans in intermediate conformation with 4 spermine molecules at 1.75 A resolution | | Descriptor: | GLYCEROL, Oligopeptidase B, SPERMINE | | Authors: | Petrenko, D.E, Boyko, K.M, Nikolaeva, A.Y, Vlaskina, A.V, Mikhailova, A.G, Timofeev, V.I, Rakitina, T.V. | | Deposit date: | 2022-02-15 | | Release date: | 2023-02-22 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (1.75 Å) | | Cite: | Modified oligopeptidase B from S. proteomaculans in intermediate conformation with 4 spermine molecules at 1.75 A resolution
To Be Published
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7ZJZ
 | | catalytically non active S532A mutant of oligopeptidase B from S. proteomaculans | | Descriptor: | Oligopeptidase B, SPERMINE | | Authors: | Petrenko, D.E, Boyko, K.M, Nikolaeva, A.Y, Vlaskina, A.V, Mikhailova, A.G, Timofeev, V.I, Rakitina, T.V. | | Deposit date: | 2022-04-12 | | Release date: | 2023-01-18 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Elucidation of the Conformational Transition of Oligopeptidase B by an Integrative Approach Based on the Combination of X-ray, SAXS, and Essential Dynamics Sampling Simulation
Crystals, 12, 2022
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8AHR
 | | Crystal structure of D-amino acid aminotransferase from Aminobacterium colombiense in holo form with PLP | | Descriptor: | Aminotransferase class IV, PYRIDOXAL-5'-PHOSPHATE | | Authors: | Matyuta, I.O, Boyko, K.M, Nikolaeva, A.Y, Shilova, S.A, Rakitina, T.V, Popov, V.O, Bezsudnova, E.Y. | | Deposit date: | 2022-07-22 | | Release date: | 2022-08-03 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | To the Understanding of Catalysis by D-Amino Acid Transaminases: A Case Study of the Enzyme from Aminobacterium colombiense.
Molecules, 28, 2023
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8AYK
 | | Crystal structure of D-amino acid aminotrensferase from Aminobacterium colombiense complexed with D-glutamate | | Descriptor: | (~{Z})-2-[[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylamino]pent-2-enedioic acid, 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE, Aminotransferase class IV | | Authors: | Matyuta, I.O, Boyko, K.M, Nikolaeva, A.Y, Shilova, S.A, Rakitina, T.V, Minyaev, M.E, Popov, V.O, Bezsudnova, E.Y. | | Deposit date: | 2022-09-02 | | Release date: | 2022-11-16 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | To the Understanding of Catalysis by D-Amino Acid Transaminases: A Case Study of the Enzyme from Aminobacterium colombiense.
Molecules, 28, 2023
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4RGZ
 | | Crystal structure of recombinant prolidase from Thermococcus sibiricus at P21221 spacegroup | | Descriptor: | PHOSPHATE ION, Xaa-Pro aminopeptidase, ZINC ION | | Authors: | Timofeev, V.I, Korgenevsky, D.A, Gorbacheva, M.A, Boyko, K.M, Slutsky, E, Rakitina, T.V, Lipkin, A.V, Popov, V.O. | | Deposit date: | 2014-10-01 | | Release date: | 2015-08-12 | | Last modified: | 2024-02-28 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Structure of recombinant prolidase from Thermococcus sibiricus in space group P21221.
Acta Crystallogr.,Sect.F, 71, 2015
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8AYJ
 | | Crystal structure of D-amino acid aminotransferase from Aminobacterium colombiens complexed with 3-aminooxypropionic acid | | Descriptor: | 1,2-ETHANEDIOL, 3-[(~{E})-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]oxypropanoic acid, Aminotransferase class IV, ... | | Authors: | Matyuta, I.O, Boyko, K.M, Nikolaeva, A.Y, Shilova, S.A, Rakitina, T.V, Popov, V.O, Bezsudnova, E.Y. | | Deposit date: | 2022-09-02 | | Release date: | 2022-11-16 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (1.75 Å) | | Cite: | In search for structural targets for engineering d-amino acid transaminase: modulation of pH optimum and substrate specificity.
Biochem.J., 480, 2023
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