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Dmitriy Chudakov

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Nadezhda Pletneva; Ekaterina Souslova; Alexander Wlodawer; Vladimir Pletnev; Svetlena Arhipova; Igor Artemyev; Dmitriy M Chudakov; Zbigniew Dauter; Sergey Lukyanov; Vladimir Martynov; Sergei Pletnev
Yellow fluorescent protein phiYFPv (Phialidium): structure and structure-based mutagenesis.
Dmitry A Bolotin; Olga Britanova; Yuri Lebedev; Sergey Lukyanov; Ilgar Z Mamedov; Dmitry A Shagin; Maria A Turchaninova; Svetlana Ustyugova; Ivan V Zvyagin; Dmitriy M Chudakov
Next generation sequencing for TCR repertoire profiling: platform-specific features and correction algorithms.
Olga Britanova; A G Bochkova; D A Bolotin; D A Fedorenko; A A Kotlobay; Yuri Lebedev; Sergey Lukyanov; Ilgar Z Mamedov; Andrei Novik; E V Putintseva; Dmitry B Staroverov; M A Turchaninova; Dmitriy M Chudakov
First autologous hematopoietic SCT for ankylosing spondylitis: a case report and clues to understanding the therapy.

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All Publications

2013: Nadezhda Pletneva; Ekaterina Souslova; Alexander Wlodawer; Vladimir Pletnev; Svetlena Arhipova; Igor Artemyev; Dmitriy M Chudakov; Zbigniew Dauter; Sergey Lukyanov; Vladimir Martynov; Sergei Pletnev
Yellow fluorescent protein phiYFPv (Phialidium): structure and structure-based mutagenesis.
Acta crystallographica. Section D, Biological crystallography 2013;69(Pt 6):1005-12.
2012: Dmitry A Bolotin; Olga Britanova; Yuri Lebedev; Sergey Lukyanov; Ilgar Z Mamedov; Dmitry A Shagin; Maria A Turchaninova; Svetlana Ustyugova; Ivan V Zvyagin; Dmitriy M Chudakov
Next generation sequencing for TCR repertoire profiling: platform-specific features and correction algorithms.
European journal of immunology 2012;42(11):3073-83.
2012: Olga Britanova; A G Bochkova; D A Bolotin; D A Fedorenko; A A Kotlobay; Yuri Lebedev; Sergey Lukyanov; Ilgar Z Mamedov; Andrei Novik; E V Putintseva; Dmitry B Staroverov; M A Turchaninova; Dmitriy M Chudakov
First autologous hematopoietic SCT for ankylosing spondylitis: a case report and clues to understanding the therapy.
Bone marrow transplantation 2012;47(11):1479-81.
2012: I I Shemiakina; Ekaterina A Souslova; Dmitry B Staroverov; L Strukova; Andrey G Zaraisky; M A Baird; Tatyana V Chepurnykh; Dmitriy M Chudakov; P J Cranfill; M W Davidson; Galina V Ermakova; R A Evans; T V Gorodnicheva; Andrey Yu Gorokhovatsky; Sergey Lukyanov; E V Putintseva; D Shcherbo
A monomeric red fluorescent protein with low cytotoxicity.
Nature communications 2012;3():1204.
2011: Olga Britanova; Anna V Chkalina; Alexei A Kotlobay; Dmitry B Staroverov; Ekaterina S Zvezdova; Anna G Bochkova; Dmitriy M Chudakov
Single high-dose treatment with glucosaminyl-muramyl dipeptide is ineffective in treating ankylosing spondylitis.
Rheumatology international 2011;31(8):1101-3.
2011: Nadezhda Pletneva; Irina I Shemiakina; Alexander Wlodawer; Vladimir Pletnev; Igor Artemyev; Dmitriy M Chudakov; Zbigniew Dauter; Sergei Pletnev
Crystallographic study of red fluorescent protein eqFP578 and its far-red variant Katushka reveals opposite pH-induced isomerization of chromophore.
Protein science : a publication of the Protein Society 2011;20(7):1265-74.
2011: Ilgar Z Mamedov; Olga Britanova; Dmitriy A Bolotin; Anna V Chkalina; Dmitry B Staroverov; Ivan V Zvyagin; Alexey A Kotlobay; Maria A Turchaninova; Denis A Fedorenko; Andrew A Novik; George Sharonov; Sergey Lukyanov; Dmitriy M Chudakov; Yuri B Lebedev
Quantitative tracking of T cell clones after haematopoietic stem cell transplantation.
EMBO molecular medicine 2011;3(4):201-7.
2011: Ekaterina O Serebrovskaya; Tatiana V Gorodnicheva; Galina V Ermakova; Elena A Solovieva; George V Sharonov; Elena V Zagaynova; Dmitriy M Chudakov; Sergey Lukyanov; Andrey G Zaraisky; Konstantin A Lukyanov
Light-induced blockage of cell division with a chromatin-targeted phototoxic fluorescent protein.
The Biochemical journal 2011;435(1):65-71.
2011: Qi Wang; Warren R Zipfel; Laura J Byrnes; Dmitriy M Chudakov; Michael I Kotlikoff; Sergey Lukyanov; Ute F Röhrig; Bo Shui; Avtar Singh; Holger Sondermann
Molecular mechanism of a green-shifted, pH-dependent red fluorescent protein mKate variant.
PloS one 2011;6(8):e23513.
2010: Ivan V Zvyagin; Ilgar Z Mamedov; Olga Britanova; Dmitry B Staroverov; Evgeni L Nasonov; Anna G Bochkova; Anna V Chkalina; Alexei A Kotlobay; Dmitriy O Korostin; Denis V Rebrikov; Sergey Lukyanov; Yuri B Lebedev; Dmitriy M Chudakov
Contribution of functional KIR3DL1 to ankylosing spondylitis.
Cellular & molecular immunology 2010;7(6):471-6.
2010: Konstantin A Lukyanov; Ekaterina O Serebrovskaya; Sergey Lukyanov; Dmitriy M Chudakov
Fluorescent proteins as light-inducible photochemical partners.
Photochemical & photobiological sciences : Official journal of the European Photochemistry Association and the European Society for Photobiology 2010;9(10):1301-6.
2010: Dmitry Shcherbo; Irina I Shemiakina; Anastasiya V Ryabova; Kathryn E Luker; Bradley T Schmidt; Ekaterina A Souslova; Tatiana V Gorodnicheva; Lydia Strukova; Konstantin M Shidlovskiy; Olga V Britanova; Andrey G Zaraisky; Konstantin A Lukyanov; Victor B Loschenov; Gary D Luker; Dmitriy M Chudakov
Near-infrared fluorescent proteins.
Nature methods 2010;7(10):827-9.
2010: Fang Guo; Beihui Liu; Feige Tang; Samantha Lane; Ekaterina A Souslova; Dmitriy M Chudakov; Julian F R Paton; Sergey Kasparov
Astroglia are a possible cellular substrate of angiotensin(1-7) effects in the rostral ventrolateral medulla.
Cardiovascular research 2010;87(3):578-84.
2010: Dmitriy M Chudakov; Mikhail V Matz; Sergey Lukyanov; Konstantin A Lukyanov
Fluorescent proteins and their applications in imaging living cells and tissues.
Physiological reviews 2010;90(3):1103-63.
2010: Olga S Koutsopoulos; David Laine; Laura Osellame; Dmitriy M Chudakov; Robert G Parton; Ann E Frazier; Michael T Ryan
Human Miltons associate with mitochondria and induce microtubule-dependent remodeling of mitochondrial networks.
Biochimica et biophysica acta 2010;1803(5):564-74.
2010: L Zhang; N G Gurskaia; E E Kopantseva; N N Mudrik; L L Vagner; K A Luk'ianov; Dmitriy M Chudakov
[Identification of the amino acid residues responsible for the reversible photoconversion of the monomeric red fluorescent protein TagRFP protein].
Bioorganicheskaia khimiia 2010;36(2):187-92.
2010: Lukas Leder; May Marsh; Lorenz M Mayr; Marco Meyerhofer; Olga V Britanova; Dmitriy M Chudakov; Felix Freuler; Wilhelm Stark; Thomas Stettler; Lydia A Strukova; Ekaterina A Souslova
The structure of Ca2+ sensor Case16 reveals the mechanism of reaction to low Ca2+ concentrations.
Sensors (Basel, Switzerland) 2010;10(9):8143-60.
2009: Alexey M Bogdanov; Ekaterina A Bogdanova; Dmitriy M Chudakov; Tatiana V Gorodnicheva; Sergey Lukyanov; Konstantin A Lukyanov
Cell culture medium affects GFP photostability: a solution.
Nature methods 2009;6(12):859-60.
2009: I Z Mamedov; O V Britanova; A V Chkalina; D B Staroverov; A L Amosova; A S Mishin; M A Kurnikova; I V Zvyagin; Z Y Mutovina; A V Gordeev; S V Khaidukov; George Sharonov; D A Shagin; Dmitriy M Chudakov; Y B Lebedev
Individual characterization of stably expanded T cell clones in ankylosing spondylitis patients.
Autoimmunity 2009;42(6):525-36.
2009: Maria Yu Zakharova; Nikita A Kuznetsov; Svetlana A Dubiley; Arina V Kozyr; Olga S Fedorova; Dmitriy M Chudakov; Dmitry G Knorre; Igor G Shemyakin; Alexander G Gabibov; Alexander V Kolesnikov
Substrate recognition of anthrax lethal factor examined by combinatorial and pre-steady-state kinetic approaches.
The Journal of biological chemistry 2009;284(27):17902-13.
2009: Alexey M Bogdanov; Alexander S Mishin; Ilia V Yampolsky; Vsevolod V Belousov; Dmitriy M Chudakov; Fedor V. Subach; Vladislav Verkhusha; Sergey Lukyanov; Konstantin A Lukyanov
Green fluorescent proteins are light-induced electron donors.
Nature chemical biology 2009;5(7):459-61.
2009: Dmitry Shcherbo; Ekaterina A Souslova; Joachim Goedhart; Tatyana V Chepurnykh; Anna Gaintzeva; Irina I Shemiakina; Theodorus W J Gadella; Sergey Lukyanov; Dmitriy M Chudakov
Practical and reliable FRET/FLIM pair of fluorescent proteins.
BMC biotechnology 2009;9():24.
2009: Hiroki Mutoh; Amelie Perron; Dimitar Dimitrov; Yuka Iwamoto; Walther Akemann; Dmitriy M Chudakov; Thomas Knöpfel
Spectrally-resolved response properties of the three most advanced FRET based fluorescent protein voltage probes.
PloS one 2009;4(2):e4555.
2008: Oksana M Subach; Illia S Gundorov; Masami Yoshimura; Fedor V. Subach; Jinghang Zhang; David Grüenwald; Ekaterina A Souslova; Dmitriy M Chudakov; Vladislav Verkhusha
Conversion of red fluorescent protein into a bright blue probe.
Chemistry & biology 2008;15(10):1116-24.
2008: M Yu Zakharova; S A Dubiley; Dmitriy M Chudakov; Alexander G Gabibov; I G Shemyakin; Alexander V Kolesnikov
Substrate specificity of the anthrax lethal factor.
Doklady. Biochemistry and biophysics 2008;418():14-7.
2007: Dmitry Shcherbo; Ekaterina M Merzlyak; Tatyana V Chepurnykh; Arkady F Fradkov; Galina V Ermakova; Elena A Solovieva; Konstantin A Lukyanov; Ekaterina A Bogdanova; Andrey G Zaraisky; Sergey Lukyanov; Dmitriy M Chudakov
Bright far-red fluorescent protein for whole-body imaging.
Nature methods 2007;4(9):741-6.
2007: Ekaterina A Souslova; Dmitriy M Chudakov
Genetically encoded intracellular sensors based on fluorescent proteins.
Biochemistry. Biokhimii͡a 2007;72(7):683-97.
2007: Ekaterina M Merzlyak; Joachim Goedhart; Dmitry Shcherbo; Maria E Bulina; Alexander S Shcheglov; Arkady F Fradkov; Anna Gaintzeva; Konstantin A Lukyanov; Sergey Lukyanov; Theodorus W J Gadella; Dmitriy M Chudakov
Bright monomeric red fluorescent protein with an extended fluorescence lifetime.
Nature methods 2007;4(7):555-7.
2007: Dmitriy M Chudakov; Sergey Lukyanov; Konstantin A Lukyanov
Using photoactivatable fluorescent protein Dendra2 to track protein movement.
BioTechniques 2007;42(5):553, 555, 557 passim.
2007: Dmitriy M Chudakov; Sergey Lukyanov; Konstantin A Lukyanov
Tracking intracellular protein movements using photoswitchable fluorescent proteins PS-CFP2 and Dendra2.
Nature protocols 2007;2(8):2024-32.
2007: Ekaterina A Souslova; Vsevolod V Belousov; John G Lock; Staffan Strömblad; Sergey Kasparov; Alexey P Bolshakov; Vsevolod G Pinelis; Yulii A Labas; Sergey Lukyanov; Lorenz M Mayr; Dmitriy M Chudakov
Single fluorescent protein-based Ca2+ sensors with increased dynamic range.
BMC biotechnology 2007;7():37.
2006: Artem G Evdokimov; Matthew Pokross; Nikolay S Egorov; Andrey G Zaraisky; Ilya V Yampolsky; Ekaterina M Merzlyak; Andrei Shkoporov; Ian Sander; Konstantin A Lukyanov; Dmitriy M Chudakov
Structural basis for the fast maturation of Arthropoda green fluorescent protein.
EMBO reports 2006;7(10):1006-12.
2006: Dmitriy M Chudakov; Tatyana V Chepurnykh; Vsevolod V Belousov; Sergey Lukyanov; Konstantin A Lukyanov
Fast and precise protein tracking using repeated reversible photoactivation.
Traffic (Copenhagen, Denmark) 2006;7(10):1304-10.
2006: Ekaterina A Souslova; Dmitriy M Chudakov
Photoswitchable cyan fluorescent protein as a FRET donor.
Microscopy research and technique 2006;69(3):207-9.
2006: Maria E Bulina; Konstantin A Lukyanov; Olga Britanova; Daria Onichtchouk; Sergey Lukyanov; Dmitriy M Chudakov
Chromophore-assisted light inactivation (CALI) using the phototoxic fluorescent protein KillerRed.
Nature protocols 2006;1(2):947-53.
2006: Maria E Bulina; Dmitriy M Chudakov; Olga Britanova; Yurii G Yanushevich; Dmitry B Staroverov; Tatyana V Chepurnykh; Ekaterina M Merzlyak; Maria A Shkrob; Sergey Lukyanov; Konstantin A Lukyanov
A genetically encoded photosensitizer.
Nature biotechnology 2006;24(1):95-9.
2006: Konstantin A Lukyanov; Dmitriy M Chudakov; Arkady F Fradkov; Yulii A Labas; Mikhail V Matz; Sergey Lukyanov
Discovery and properties of GFP-like proteins from nonbioluminescent anthozoa.
Methods of biochemical analysis 2006;47():121-38.
2005: Maria A Shkrob; Yurii G Yanushevich; Dmitriy M Chudakov; Nadya G Gurskaya; Yulii A Labas; Sergey Y Poponov; Nikolay N Mudrik; Sergey Lukyanov; Konstantin A Lukyanov
Far-red fluorescent proteins evolved from a blue chromoprotein from Actinia equina.
The Biochemical journal 2005;392(Pt 3):649-54.
2005: Dmitriy M Chudakov; Sergey Lukyanov; Konstantin A Lukyanov
Fluorescent proteins as a toolkit for in vivo imaging.
Trends in biotechnology 2005;23(12):605-13.
2005: Konstantin A Lukyanov; Dmitriy M Chudakov; Sergey Lukyanov; Vladislav Verkhusha
Innovation: Photoactivatable fluorescent proteins.
Nature reviews. Molecular cell biology 2005;6(11):885-91.
2005: Michael L Quillin; David M Anstrom; Xiaokun Shu; Shannon O'Leary; Karen Kallio; Dmitriy M Chudakov; S James Remington
Kindling fluorescent protein from Anemonia sulcata: dark-state structure at 1.38 A resolution.
Biochemistry 2005;44(15):5774-87.
2004: Dmitriy M Chudakov; Vladislav Verkhusha; Dmitry B Staroverov; Ekaterina A Souslova; Sergey Lukyanov; Konstantin A Lukyanov
Photoswitchable cyan fluorescent protein for protein tracking.
Nature biotechnology 2004;22(11):1435-9.
2004: Maria E Bulina; Konstantin A Lukyanov; Ilia V Yampolsky; Dmitriy M Chudakov; Dmitry B Staroverov; Alexander S Shcheglov; Nadya G Gurskaya; Sergey Lukyanov
New class of blue animal pigments based on Frizzled and Kringle protein domains.
The Journal of biological chemistry 2004;279(42):43367-70.
2004: Vladislav Verkhusha; Dmitriy M Chudakov; Nadya G Gurskaya; Sergey Lukyanov; Konstantin A Lukyanov
Common pathway for the red chromophore formation in fluorescent proteins and chromoproteins.
Chemistry & biology 2004;11(6):845-54.
2003: Dmitriy M Chudakov; Konstantin A Lukyanov
Use of green fluorescent protein (GFP) and its homologs for in vivo protein motility studies.
Biochemistry. Biokhimii͡a 2003;68(9):952-7.
2003: Maria E Bulina; Vladislav Verkhusha; Dmitry B Staroverov; Dmitriy M Chudakov; Konstantin A Lukyanov
Hetero-oligomeric tagging diminishes non-specific aggregation of target proteins fused with Anthozoa fluorescent proteins.
The Biochemical journal 2003;371(Pt 1):109-14.
2003: Dmitriy M Chudakov; Alexei V Feofanov; Nikolay N Mudrik; Sergey Lukyanov; Konstantin A Lukyanov
Chromophore environment provides clue to "kindling fluorescent protein" riddle.
The Journal of biological chemistry 2003;278(9):7215-9.
2003: Dmitriy M Chudakov; Vsevolod V Belousov; Andrey G Zaraisky; Vladimir V Novoselov; Dmitry B Staroverov; Dmitry B Zorov; Sergey Lukyanov; Konstantin A Lukyanov
Kindling fluorescent proteins for precise in vivo photolabeling.
Nature biotechnology 2003;21(2):191-4.
2002: Maria E Bulina; Dmitriy M Chudakov; Nikolay N Mudrik; Konstantin A Lukyanov
Interconversion of Anthozoa GFP-like fluorescent and non-fluorescent proteins by mutagenesis.
BMC biochemistry 2002;3():7.