4NMJ
 
 | | Thermostable aldehyde dehydrogenase from Pyrobaculum sp. complexed with NADP+ at 2 A resolution | | Descriptor: | Aldehyde dehydrogenase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE | | Authors: | Petrova, T, Boyko, K.M, Bezsudnova, E.Y, Mardanov, A.V, Gumerov, V.M, Ravin, N.V, Popov, V.O. | | Deposit date: | 2013-11-15 | | Release date: | 2014-11-19 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (2.002 Å) | | Cite: | Thermostable aldehyde dehydrogenase from Pyrobaculum sp. complexed with NADP+ at 2 A resolution
To be Published
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4NMK
 | | Thermostable aldehyde dehydrogenase from Pyrobaculum sp. crystallized in microgravity (complex with NADP+) | | Descriptor: | Aldehyde dehydrogenase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE | | Authors: | Petrova, T, Boyko, K.M, Bezsudnova, E.Y, Mardanov, A.V, Gumerov, V.M, Ravin, N.V, Popov, V.O. | | Deposit date: | 2013-11-15 | | Release date: | 2014-11-19 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (1.898 Å) | | Cite: | Thermostable aldehyde dehydrogenase from Pyrobaculum sp. crystallized in microgravity (complex with NADP+)
To be Published
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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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8AHU
 | | Crystal structure of D-amino acid aminotrensferase from Haliscomenobacter hydrossis complexed with D-cycloserine | | Descriptor: | Aminotransferase class IV, GLYCEROL, [5-hydroxy-6-methyl-4-({[(4E)-3-oxo-1,2-oxazolidin-4-ylidene]amino}methyl)pyridin-3-yl]methyl dihydrogen phosphate | | Authors: | Matyuta, I.O, Boyko, K.M, Nikolaeva, A.Y, Bakunova, A.K, Popov, V.O, Bezsudnova, E.Y. | | Deposit date: | 2022-07-22 | | Release date: | 2022-08-31 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (1.41 Å) | | Cite: | Mechanism of D-Cycloserine Inhibition of D-Amino Acid Transaminase from Haliscomenobacter hydrossis.
Biochemistry Mosc., 88, 2023
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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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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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8AIE
 | | Crystal structure of D-amino acid aminotransferase from Aminobacterium colombiense complexed with D-cycloserine | | Descriptor: | 3-azanyloxy-2-[(~{E})-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]propanoic acid, 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE, Aminotransferase class IV, ... | | Authors: | Matyuta, I.O, Boyko, K.M, Nikolaeva, A.Y, Shilova, S.A, Popov, V.O, Bezsudnova, E.Y. | | Deposit date: | 2022-07-26 | | Release date: | 2022-11-16 | | Last modified: | 2024-03-06 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | 3D Structure of D-Аmino Acid Тransaminase from Aminobacterium colombiense in Complex with D-Cycloserine
Crystallography Reports, 68, 2023
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8AAQ
 | | Crystal structure of the carotenoid-binding protein domain from silkworm Bombyx mori (BmCBP), CRT-416 form | | Descriptor: | Carotenoid-binding protein | | Authors: | Varfolomeeva, L.A, Slonimskiy, Y.B, Egorkin, N.A, Minyaev, M.E, Faletrov, Y.V, Boyko, K.M, Sluchanko, N.N. | | Deposit date: | 2022-07-01 | | Release date: | 2023-02-01 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Preparation and Structural Studies of the Silkworm Carotenoid-Binding Protein Complexed with a New Pigment
Crystallography Reports, 2022
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8BPN
 | | The structure of thiocyanate dehydrogenase mutant form with Phe 436 replaced by Gln from Thioalkalivibrio paradoxus | | Descriptor: | COPPER (II) ION, DI(HYDROXYETHYL)ETHER, Twin-arginine translocation signal domain-containing protein | | Authors: | Varfolomeeva, L.A, Solovieva, A.Y, Shipkov, N.S, Kulikova, O.G, Dergousova, N.I, Rakitina, T.V, Boyko, K.M, Tikhonova, T.V, Popov, V.O. | | Deposit date: | 2023-01-09 | | Release date: | 2023-01-18 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (1.99 Å) | | Cite: | Probing the Role of a Conserved Phenylalanine in the Active Site of Thiocyanate Dehydrogenase
Crystals, 12, 2022
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7ZTQ
 | | Crystal structure of the carotenoid-binding protein domain from silkworm Bombyx mori (BmCBP) in the apoform | | Descriptor: | Carotenoid-binding protein, GLYCEROL | | Authors: | Sluchanko, N.N, Boyko, K.M, Varfolomeeva, L.A, Slonimskiy, Y.B, Egorkin, N.A, Maksimov, E.G, Popov, V.O. | | Deposit date: | 2022-05-11 | | Release date: | 2022-10-26 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (1.45 Å) | | Cite: | Silkworm carotenoprotein as an efficient carotenoid extractor, solubilizer and transporter.
Int.J.Biol.Macromol., 223, 2022
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7ZTU
 | | Crystal structure of the carotenoid-binding protein domain from silkworm Bombyx mori (BmCBP) in the apoform, D162L mutant | | Descriptor: | Carotenoid-binding protein | | Authors: | Sluchanko, N.N, Boyko, K.M, Varfolomeeva, L.A, Slonimskiy, Y.B, Egorkin, N.A, Maksimov, E.G, Popov, V.O. | | Deposit date: | 2022-05-11 | | Release date: | 2022-10-26 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Silkworm carotenoprotein as an efficient carotenoid extractor, solubilizer and transporter.
Int.J.Biol.Macromol., 223, 2022
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7ZVQ
 | | Crystal structure of the carotenoid-binding protein domain from silkworm Bombyx mori (BmCBP) in the apoform, S206V mutant | | Descriptor: | Carotenoid-binding protein | | Authors: | Sluchanko, N.N, Boyko, K.M, Varfolomeeva, L.A, Slonimskiy, Y.B, Egorkin, N.A, Maksimov, E.G, Popov, V.O. | | Deposit date: | 2022-05-17 | | Release date: | 2022-10-26 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structural basis for the carotenoid binding and transport function of a START domain.
Structure, 30, 2022
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7ZTR
 | | Crystal structure of the carotenoid-binding protein domain from silkworm Bombyx mori (BmCBP) in the apoform, W232F mutant | | Descriptor: | Carotenoid-binding protein | | Authors: | Sluchanko, N.N, Boyko, K.M, Varfolomeeva, L.A, Slonimskiy, Y.B, Egorkin, N.A, Maksimov, E.G, Popov, V.O. | | Deposit date: | 2022-05-11 | | Release date: | 2022-10-26 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (1.75 Å) | | Cite: | Silkworm carotenoprotein as an efficient carotenoid extractor, solubilizer and transporter.
Int.J.Biol.Macromol., 223, 2022
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7ZVR
 | | Crystal structure of the carotenoid-binding protein domain from silkworm Bombyx mori (BmCBP) complexed with zeaxanthin | | Descriptor: | (1R,2S)-4-{(1E,3E,5E,7E,9E,11E,13E,15E,17E)-18-[(4S)-4-hydroxy-2,6,6-trimethylcyclohex-1-en-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaen-1-yl}-2,5,5-trimethylcyclohex-3-en-1-ol, Carotenoid-binding protein | | Authors: | Sluchanko, N.N, Boyko, K.M, Varfolomeeva, L.A, Slonimskiy, Y.B, Egorkin, N.A, Maksimov, E.G, Popov, V.O. | | Deposit date: | 2022-05-17 | | Release date: | 2022-10-26 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structural basis for the carotenoid binding and transport function of a START domain.
Structure, 30, 2022
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8OSI
 | | Genetically encoded green ratiometric calcium indicator FNCaMP in calcium-bound state | | Descriptor: | CALCIUM ION, mNeonGreen,Calmodulin,Protein kinase domain-containing protein, {(4Z)-2-(aminomethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid | | Authors: | Varfolomeeva, L.A, Boyko, K.M, Nikolaeva, A.Y, Subach, O.M, Subach, F.V. | | Deposit date: | 2023-04-19 | | Release date: | 2023-05-24 | | Method: | X-RAY DIFFRACTION (2.42 Å) | | Cite: | FNCaMP, ratiometric green calcium indicator based on mNeonGreen protein.
Biochem.Biophys.Res.Commun., 665, 2023
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8OQ0
 | | Crystal structure of tailspike depolymerase (APK09_gp48) from Acinetobacter phage APK09 | | Descriptor: | DI(HYDROXYETHYL)ETHER, Tailspike protein | | Authors: | Matyuta, I.O, Boyko, K.M, Nikolaeva, A.Y, Shneider, M.M, Timoshina, O.Y, Popova, A.V, Miroshnikov, K.A, Popov, V.O. | | Deposit date: | 2023-04-10 | | Release date: | 2023-05-31 | | Last modified: | 2023-06-07 | | Method: | X-RAY DIFFRACTION (2.59 Å) | | Cite: | Friunavirus Phage-Encoded Depolymerases Specific to Different Capsular Types of Acinetobacter baumannii .
Int J Mol Sci, 24, 2023
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8OPZ
 | | Crystal structure of a tailspike depolymerase (APK16_gp47) from Acinetobacter phage APK16 | | Descriptor: | GLYCEROL, Tailspike depolymerase (APK16_gp47) from Acinetobacter phage APK16 | | Authors: | Matyuta, I.O, Boyko, K.M, Nikolaeva, A.Y, Shneider, M.M, Timoshina, O.Y, Miroshnikov, K.A, Popov, V.O. | | Deposit date: | 2023-04-10 | | Release date: | 2023-05-31 | | Last modified: | 2023-06-07 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | Friunavirus Phage-Encoded Depolymerases Specific to Different Capsular Types of Acinetobacter baumannii .
Int J Mol Sci, 24, 2023
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8OQ1
 | | Crystal structure of tailspike depolymerase (APK14_gp49) from Acinetobacter phage vB_AbaP_APK14 | | Descriptor: | CHLORIDE ION, DI(HYDROXYETHYL)ETHER, GLYCEROL, ... | | Authors: | Matyuta, I.O, Boyko, K.M, Nikolaeva, A.Y, Shneider, M.M, Timoshina, O.Y, Miroshnikov, K.A, Popov, V.O. | | Deposit date: | 2023-04-10 | | Release date: | 2023-06-07 | | Method: | X-RAY DIFFRACTION (1.55 Å) | | Cite: | Friunavirus Phage-Encoded Depolymerases Specific to Different Capsular Types of Acinetobacter baumannii.
Int J Mol Sci, 24, 2023
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8ONJ
 | | Crystal structure of D-amino acid aminotransferase from Aminobacterium colombiense point mutant R88L | | Descriptor: | Aminotransferase class IV, DI(HYDROXYETHYL)ETHER, PYRIDOXAL-5'-PHOSPHATE | | Authors: | Matyuta, I.O, Boyko, K.M, Minyaev, M.E, Shilova, S.A, Bezsudnova, E.Y, Popov, V.O. | | Deposit date: | 2023-04-03 | | Release date: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (1.8 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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8ONL
 | | Crystal structure of D-amino acid aminotransferase from Aminobacterium colombiense point mutant E113A | | Descriptor: | Aminotransferase class IV, PYRIDOXAL-5'-PHOSPHATE | | Authors: | Matyuta, I.O, Boyko, K.M, Minyaev, M.E, Shilova, S.A, Bezsudnova, E.Y, Popov, V.O. | | Deposit date: | 2023-04-03 | | Release date: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (1.9 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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8ONN
 | | Crystal structure of D-amino acid aminotransferase from Aminobacterium colombiense point mutant E113A complexed with 3-aminooxypropionic acid | | Descriptor: | 3-[(~{E})-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]oxypropanoic acid, Aminotransferase class IV | | Authors: | Matyuta, I.O, Boyko, K.M, Minyaev, M.E, Shilova, S.A, Bezsudnova, E.Y, Popov, V.O. | | Deposit date: | 2023-04-03 | | Release date: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (2.1 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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8ONM
 | | Crystal structure of D-amino acid aminotransferase from Aminobacterium colombiense point mutant E113A complexed with D-glutamate | | Descriptor: | (~{Z})-2-[[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylamino]pent-2-enedioic acid, 1,2-ETHANEDIOL, 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE, ... | | Authors: | Matyuta, I.O, Boyko, K.M, Minyaev, M.E, Shilova, S.A, Bezsudnova, E.Y, Popov, V.O. | | Deposit date: | 2023-04-03 | | Release date: | 2024-04-10 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Probing of the structural and catalytic roles of the residues in the active site of transaminase from Aminobacterium colombiense
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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8ONO
 | | Modified oligopeptidase B from S. proteamaculans in intermediate conformation with 5 spermine molecule at 1.65 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: | 2023-04-03 | | Release date: | 2023-05-31 | | Method: | X-RAY DIFFRACTION (1.65 Å) | | Cite: | Modified oligopeptidase B from S. proteomaculans in intermediate conformation with 5 spermine molecule at 1.65 A resolution
To Be Published
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7O45
 | | Crystal structure of ADD domain of the human DNMT3B methyltransferase | | Descriptor: | BROMIDE ION, Isoform 6 of DNA (cytosine-5)-methyltransferase 3B, ZINC ION | | Authors: | Boyko, K.M, Nikolaeva, A.Y, Bonchuk, A.N, Georgiev, P.G, Popov, V.O. | | Deposit date: | 2021-04-05 | | Release date: | 2022-04-13 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Structure of the DNMT3B ADD domain suggests the absence of a DNMT3A-like autoinhibitory mechanism.
Biochem.Biophys.Res.Commun., 619, 2022
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