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Youngchang Kim

Research Profile

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Amino Acid Sequences

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Youngchang Kim; Patrick Videau; Zi Ye; Jasmine Young; Jindong Zhao; Sean M Callahan; Piotr Gornicki; Robert Haselkorn; Kathryn Hurd; Grazyna Joachimiak; Andrzej Joachimiak
Structures of complexes comprised of Fischerella transcription factor HetR with Anabaena DNA targets.
R Wu; Hendrik Szurmant; Rosemarie Wilton; György Babnigg; Minyi Gu; Andrzej Joachimiak; Youngchang Kim; P Raj Pokkuluri; Marianne Schiffer
Insight into the sporulation phosphorelay: Crystal structure of the sensor domain of Bacillus subtilis histidine kinase, KinD.
Youngchang Kim; Joseph Mire; James Sacchettini; Christine Tesar; Mark A Cunningham; Andrzej Joachimiak
NDM-1, the ultimate promiscuous enzyme: substrate recognition and catalytic mechanism.

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All Publications

2013: Youngchang Kim; Patrick Videau; Zi Ye; Jasmine Young; Jindong Zhao; Sean M Callahan; Piotr Gornicki; Robert Haselkorn; Kathryn Hurd; Grazyna Joachimiak; Andrzej Joachimiak
Structures of complexes comprised of Fischerella transcription factor HetR with Anabaena DNA targets.
Proceedings of the National Academy of Sciences of the United States of America 2013;110(19):E1716-23.
2013: R Wu; Hendrik Szurmant; Rosemarie Wilton; György Babnigg; Minyi Gu; Andrzej Joachimiak; Youngchang Kim; P Raj Pokkuluri; Marianne Schiffer
Insight into the sporulation phosphorelay: Crystal structure of the sensor domain of Bacillus subtilis histidine kinase, KinD.
Protein science : a publication of the Protein Society 2013;22(5):564-76.
2013: Youngchang Kim; Joseph Mire; James Sacchettini; Christine Tesar; Mark A Cunningham; Andrzej Joachimiak
NDM-1, the ultimate promiscuous enzyme: substrate recognition and catalytic mechanism.
FASEB journal : official publication of the Federation of American Societies for Experimental Biology 2013;27(5):1917-27.
2013: Vikas Chandra; Pengxiang Huang; Youngchang Kim; Nalini Potluri; Dalei Wu; Fraydoon Rastinejad
Multidomain integration in the structure of the HNF-4α nuclear receptor complex.
Nature 2013;495(7441):394-8.
2012: Andrei S Halavaty; Andrzej Joachimiak; Youngchang Kim; Keehwan Kwon; George Minasov; Olena Onopriyenko; Leka Papazisi; Scott N Peterson; Alexei Savchenko; Ludmilla Shuvalova; Tatiana Skarina; James Winsor; Min Zhou; Ievgeniia Dubrovska; Wayne F Anderson
Structural characterization and comparison of three acyl-carrier-protein synthases from pathogenic bacteria.
Acta crystallographica. Section D, Biological crystallography 2012;68(Pt 10):1359-70.
2012: Magdalena Makowska-Grzyska; Natalia Maltseva; Rory Mulligan; Ximi K Wang; Rosemarie Wilton; Ruiying Wu; Rongguang Zhang; Wayne F Anderson; T Andrew Binkowski; Deviprasad R Gollapalli; Piotr Gornicki; Lizbeth Hedstrom; Robert Jedrzejczak; Youngchang Kim; Misty L Kuhn; Jamey C Mack; Andrzej Joachimiak
Bacillus anthracis inosine 5'-monophosphate dehydrogenase in action: the first bacterial series of structures of phosphate ion-, substrate-, and product-bound complexes.
Biochemistry 2012;51(31):6148-63.
2012: Tyler D Nusca; Daniel Oves-Costales; Brian F Pfleger; Jamie B Scaglione; Michael M Schofield; Lucy Stols; Gregory L Challis; Shandee D Dixon; William Eschenfeldt; Philip C Hanna; Andrzej Joachimiak; Youngchang Kim; Jung Yeop Lee; Natalia Maltseva; David H Sherman
Functional and structural analysis of the siderophore synthetase AsbB through reconstitution of the petrobactin biosynthetic pathway from Bacillus anthracis.
The Journal of biological chemistry 2012;287(19):16058-72.
2011: Fumihiro Kawai; Youngchang Kim; Joseph W St Geme; Kyoung-Jae Choi; Susan Grass; Hye-Jeong Yeo
Structural insights into the glycosyltransferase activity of the Actinobacillus pleuropneumoniae HMW1C-like protein.
The Journal of biological chemistry 2011;286(44):38546-57.
2011: Youngchang Kim; Hui Li; Magdalena Makowska-Grzyska; Natalia Maltseva; Ruiying Wu; Hao An; Gyorgy Babnigg; Gekleng Chhor; William H Eschenfeldt; Minyi Gu; Catherine Hatzos-Skintges; Robert Jedrzejczak; Andrzej Joachimiak
High-throughput protein purification and quality assessment for crystallization.
Methods (San Diego, Calif.) 2011;55(1):12-28.
2011: Youngchang Kim; Zi Ye; Rongguang Zhang; Grazyna Joachimiak; T Andrew Binkowski; Sean M Callahan; Piotr Gornicki; Robert Haselkorn; Wolfgang R Hess; Andrzej Joachimiak
Structure of transcription factor HetR required for heterocyst differentiation in cyanobacteria.
Proceedings of the National Academy of Sciences of the United States of America 2011;108(25):10109-14.
2011: Youngchang Kim; Sarah Gelehrter; C G Fifer; J C Lu; Gabe E Owens; Deborah R Berman; J Williams; John Wilkinson; Kimberly Ives; Zhen Xu
Non-invasive pulsed cavitational ultrasound for fetal tissue ablation: feasibility study in a fetal sheep model.
Ultrasound in obstetrics & gynecology : the official journal of the International Society of Ultrasound in Obstetrics and Gynecology 2011;37(4):450-7.
2011: Youngchang Kim; Joseph Mire; James Sacchettini; Christine Tesar; Gyorgy Babnigg; Andrew Binkowski; Robert Jedrzejczak; Andrzej Joachimiak
Structure of apo- and monometalated forms of NDM-1--a highly potent carbapenem-hydrolyzing metallo-β-lactamase.
PloS one 2011;6(9):e24621.
2010: Youngchang Kim; Min Zhou; Shiu Moy; Jennifer Morales; Mark A Cunningham; Andrzej Joachimiak
High-resolution structure of the nitrile reductase QueF combined with molecular simulations provide insight into enzyme mechanism.
Journal of molecular biology 2010;404(1):127-37.
2010: Tatiana Petrova; Stephan L Ginell; Andre Mitschler; Youngchang Kim; Vladimir Y Lunin; Grazyna Joachimiak; Alexandra Cousido-Siah; Isabelle Hazemann; alberto podjarny; Krzysztof Lazarski; Andrzej Joachimiak
X-ray-induced deterioration of disulfide bridges at atomic resolution.
Acta crystallographica. Section D, Biological crystallography 2010;66(Pt 10):1075-91.
2010: William H Eschenfeldt; Natalia Maltseva; Lucy Stols; Mark I Donnelly; Minyi Gu; Bogi Nocek; Kemin Tan; Youngchang Kim; Andrzej Joachimiak
Cleavable C-terminal His-tag vectors for structure determination.
Journal of structural and functional genomics 2010;11(1):31-9.
2009: Anna M Zawadzka; Youngchang Kim; Natalia Maltseva; Rita Nichiporuk; Yao Fan; Andrzej Joachimiak; Kenneth N Raymond
Characterization of a Bacillus subtilis transporter for petrobactin, an anthrax stealth siderophore.
Proceedings of the National Academy of Sciences of the United States of America 2009;106(51):21854-9.
2009: Youngchang Kim; P Quartey; R Ng; T I Zarembinski; Andrzej Joachimiak
Crystal structure of YfeU protein from Haemophilus influenzae: a predicted etherase involved in peptidoglycan recycling.
Journal of structural and functional genomics 2009;10(2):151-6.
2009: Youngchang Kim; H Li; T A Binkowski; Denise Holzle; Andrzej Joachimiak
Crystal structure of fatty acid/phospholipid synthesis protein PlsX from Enterococcus faecalis.
Journal of structural and functional genomics 2009;10(2):157-63.
2009: Alexey E Granovsky; Matthew C Clark; Dan McElheny; Gary Heil; Jia Hong; Xuedong Liu; Youngchang Kim; Grazyna Joachimiak; Andrzej Joachimiak; Shohei Koide; Marsha Rich Rosner
Raf kinase inhibitory protein function is regulated via a flexible pocket and novel phosphorylation-dependent mechanism.
Molecular and cellular biology 2009;29(5):1306-20.
2008: Brian F Pfleger; Youngchang Kim; Tyler D Nusca; Natalia Maltseva; Jung Yeop Lee; Christopher M Rath; Jamie B Scaglione; Brian K Janes; Erica C Anderson; Nicholas H Bergman; Philip C Hanna; Andrzej Joachimiak; David H Sherman
Structural and functional analysis of AsbF: origin of the stealth 3,4-dihydroxybenzoic acid subunit for petrobactin biosynthesis.
Proceedings of the National Academy of Sciences of the United States of America 2008;105(44):17133-8.
2008: Youngchang Kim; Pearl Quartey; Hui Li; Lour Volkart; Catherine Hatzos; Changsoo Chang; Boguslaw Nocek; Marianne Cuff; Jerzy Osipiuk; Kemin Tan; Yao Fan; Lance Bigelow; Natalia Maltseva; Ruiying Wu; Maria Borovilos; Erika Duggan; Min Zhou; T Andrew Binkowski; Rong-guang Zhang; Andrzej Joachimiak
Large-scale evaluation of protein reductive methylation for improving protein crystallization.
Nature methods 2008;5(10):853-4.
2008: Greg Brown; Alex Singer; Michael Proudfoot; Tatiana Skarina; Youngchang Kim; Changsoo Chang; Irina Dementieva; Ekaterina Kuznetsova; Claudio F Gonzalez; Andrzej Joachimiak; Alexei Savchenko; Alexander F Yakunin
Functional and structural characterization of four glutaminases from Escherichia coli and Bacillus subtilis.
Biochemistry 2008;47(21):5724-35.
2008: Youngchang Kim; Lance Bigelow; Maria Borovilos; Irina Dementieva; Erika Duggan; William Eschenfeldt; Catherine Hatzos; Grazyna Joachimiak; Hui Li; Natalia Maltseva; Rory Mulligan; Pearl Quartey; Alicia Sather; Lucy Stols; Lour Volkart; Ruiying Wu; Min Zhou; Andrzej Joachimiak
Chapter 3. High-throughput protein purification for x-ray crystallography and NMR.
Advances in protein chemistry and structural biology 2008;75():85-105.
2007: Larissa M Podust; Jens P von Kries; Ali Nasser Eddine; Youngchang Kim; Liudmila V Yermalitskaya; Ronald Kuehne; Hugues Ouellet; Thulasi Warrier; Markus Alteköster; Jong-Seok Lee; Jörg Rademann; Hartmut Oschkinat; Stefan H E Kaufmann; Michael R Waterman
Small-molecule scaffolds for CYP51 inhibitors identified by high-throughput screening and defined by X-ray crystallography.
Antimicrobial agents and chemotherapy 2007;51(11):3915-23.
2007: Hyejeong Yeo; Takeshi Yokoyama; Katarzyna Walkiewicz; Youngchang Kim; Susan Grass; Joseph W St Geme
The structure of the Haemophilus influenzae HMW1 pro-piece reveals a structural domain essential for bacterial two-partner secretion.
The Journal of biological chemistry 2007;282(42):31076-84.
2007: Lucy Stols; Min Zhou; William H Eschenfeldt; Cynthia Sanville Millard; James Abdullah; Frank R Collart; Youngchang Kim; Mark I Donnelly
New vectors for co-expression of proteins: structure of Bacillus subtilis ScoAB obtained by high-throughput protocols.
Protein expression and purification 2007;53(2):396-403.
2007: Tatiana Petrova; Marianne E Cuff; Ruiying Wu; Youngchang Kim; Denise Holzle; Andrzej Joachimiak
Novel hexamerization motif is discovered in a conserved cytoplasmic protein from Salmonella typhimurium.
Journal of structural and functional genomics 2007;8(1):19-25.
2006: David H Sherman; Shengying Li; Liudmila V Yermalitskaya; Youngchang Kim; Jarrod A Smith; Michael R Waterman; Larissa M Podust
The structural basis for substrate anchoring, active site selectivity, and product formation by P450 PikC from Streptomyces venezuelae.
The Journal of biological chemistry 2006;281(36):26289-97.
2006: Youngchang Kim; Natalia Maltseva; Irina Dementieva; Frank Collart; Denise Holzle; Andrzej Joachimiak
Crystal structure of hypothetical protein YfiH from Shigella flexneri at 2 A resolution.
Proteins 2006;63(4):1097-101.
2006: David C Lamb; Youngchang Kim; Liudmila V Yermalitskaya; Valery N Yermalitsky; Galina I Lepesheva; Steven L Kelly; Michael R Waterman; Larissa M Podust
A second FMN binding site in yeast NADPH-cytochrome P450 reductase suggests a mechanism of electron transfer by diflavin reductases.
Structure (London, England : 1993) 2006;14(1):51-61.
2006: Yang Qiu; Valentina Tereshko; Youngchang Kim; Rongguang Zhang; Frank Collart; Mohammed Yousef; Anthony A Kossiakoff; Andrzej Joachimiak
The crystal structure of Aq_328 from the hyperthermophilic bacteria Aquifex aeolicus shows an ancestral histone fold.
Proteins 2006;62(1):8-16.
2005: John F Flanagan; Li-Zhi Mi; Maksymilian Chruszcz; Marcin Cymborowski; Katrina L Clines; Youngchang Kim; Wladek Minor; Fraydoon Rastinejad; Sepideh Khorasanizadeh
Double chromodomains cooperate to recognize the methylated histone H3 tail.
Nature 2005;438(7071):1181-5.
2005: Deepti Jain; Youngchang Kim; Karen L Maxwell; Steven Beasley; Rongguang Zhang; Gary N Gussin; Aled M Edwards; Seth A Darst
Crystal structure of bacteriophage lambda cII and its DNA complex.
Molecular cell 2005;19(2):259-69.
2004: Changwook Lee; BumSoo Hong; Jung Min Choi; Youngchang Kim; Saori Watanabe; Yukio Ishimi; Takemi Enomoto; Shusuke Tada; Youngchang Kim; Yunje Cho
Structural basis for inhibition of the replication licensing factor Cdt1 by geminin.
Nature 2004;430(7002):913-7.
2004: Youngchang Kim; Alexander F Yakunin; Ekaterina Kuznetsova; Xiaohui Xu; Micha Pennycooke; Jun Gu; Fred Cheung; Michael Proudfoot; Cheryl H Arrowsmith; Andrzej Joachimiak; Aled M Edwards; Dinesh Christendat
Structure- and function-based characterization of a new phosphoglycolate phosphatase from Thermoplasma acidophilum.
The Journal of biological chemistry 2004;279(1):517-26.
2004: Youngchang Kim; Irina Dementieva; Min Zhou; Ruiying Wu; Lour Lezondra; Pearl Quartey; Grazyna Joachimiak; Olga Korolev; Hui Li; Andrzej Joachimiak
Automation of protein purification for structural genomics.
Journal of structural and functional genomics 2004;5(1-2):111-8.
2004: Larissa M Podust; Horacio Bach; Youngchang Kim; David C Lamb; Miharu Arase; David H Sherman; Steven L Kelly; Michael R Waterman
Comparison of the 1.85 A structure of CYP154A1 from Streptomyces coelicolor A3(2) with the closely related CYP154C1 and CYPs from antibiotic biosynthetic pathways.
Protein science : a publication of the Protein Society 2004;13(1):255-68.
2003: Srikripa Devarakonda; Joel M Harp; Youngchang Kim; Andrzej Ozyhar; Fraydoon Rastinejad
Structure of the heterodimeric ecdysone receptor DNA-binding complex.
The EMBO journal 2003;22(21):5827-40.
2003: Wolfgang Fischle; Yanming Wang; Steven Jacobs; Youngchang Kim; C David Allis; Sepideh Khorasanizadeh
Molecular basis for the discrimination of repressive methyl-lysine marks in histone H3 by Polycomb and HP1 chromodomains.
Genes & development 2003;17(15):1870-81.
2003: Cynthia Sanville Millard; Lucy Stols; Pearl Quartey; Youngchang Kim; Irina Dementieva; Mark I Donnelly
A less laborious approach to the high-throughput production of recombinant proteins in Escherichia coli using 2-liter plastic bottles.
Protein expression and purification 2003;29(2):311-20.
2003: Larissa M Podust; Youngchang Kim; Miharu Arase; Benjamin A Neely; Brian J Beck; Horacio Bach; David H Sherman; David C Lamb; Steven L Kelly; Michael R Waterman
The 1.92-A structure of Streptomyces coelicolor A3(2) CYP154C1. A new monooxygenase that functionalizes macrolide ring systems.
The Journal of biological chemistry 2003;278(14):12214-21.
2003: Thomas I Zarembinski; Youngchang Kim; Kelly Peterson; Dinesh Christendat; Akil Dharamsi; Cheryl H Arrowsmith; Aled M Edwards; Andrzej Joachimiak
Deep trefoil knot implicated in RNA binding found in an archaebacterial protein.
Proteins 2003;50(2):177-83.
2002: Steven Jacobs; Joel M Harp; Srikripa Devarakonda; Youngchang Kim; Fraydoon Rastinejad; Sepideh Khorasanizadeh
The active site of the SET domain is constructed on a knot.
Nature structural biology 2002;9(11):833-8.
2002: Kyung Jin Kim; Youngchang Kim; Kyung Won Park; Dale A Webster; Andrew J Howard
Purification, crystallization and preliminary X-ray analysis of the soluble domain of the Na+-pumping cytochrome bo quinol oxidase from Vitreoscilla.
Acta crystallographica. Section D, Biological crystallography 2002;58(Pt 8):1329-31.
2002: Youngchang Kim; Tatiana Skarina; Steven Beasley; Roman Laskowski; Cheryl H Arrowsmith; Andrzej Joachimiak; Aled Edwards; Alexei Savchenko
Crystal structure of Escherichia coli EC1530, a glyoxylate induced protein YgbM.
Proteins 2002;48(2):427-30.
2002: Dinesh Christendat; Vivian Saridakis; Youngchang Kim; Ponni A Kumar; Xiaohui Xu; Anthony Semesi; Andrzej Joachimiak; Cheryl H Arrowsmith; Aled M Edwards
The crystal structure of hypothetical protein MTH1491 from Methanobacterium thermoautotrophicum.
Protein science : a publication of the Protein Society 2002;11(6):1409-14.
2002: Rong-Guang Zhang; Youngchang Kim; Tatiana Skarina; Steven Beasley; Roman Laskowski; Cheryl H Arrowsmith; Aled Edwards; Andrzej Joachimiak; Alexei Savchenko
Crystal structure of Thermotoga maritima 0065, a member of the IclR transcriptional factor family.
The Journal of biological chemistry 2002;277(21):19183-90.
2001: Ratna K Vadlamudi; Rui-An Wang; Abhijit Mazumdar; Youngchang Kim; J Shin; Aysegul Sahin; Rakesh Kumar
Molecular cloning and characterization of PELP1, a novel human coregulator of estrogen receptor alpha.
The Journal of biological chemistry 2001;276(41):38272-9.
2001: Larissa M Podust; Andrzej M Krezel; Youngchang Kim
Crystal structure of the CCAAT box/enhancer-binding protein beta activating transcription factor-4 basic leucine zipper heterodimer in the absence of DNA.
The Journal of biological chemistry 2001;276(1):505-13.
2000: Kathleen Gajewski; Cheol Yong Choi; Youngchang Kim; Robert A Schulz
Genetically distinct cardial cells within the Drosophila heart.
Genesis (New York, N.Y. : 2000) 2000;28(1):36-43.
2000: Kirk G Tanner; Michael R Langer; Youngchang Kim; John M Denu
Kinetic mechanism of the histone acetyltransferase GCN5 from yeast.
The Journal of biological chemistry 2000;275(29):22048-55.
2000: Youngchang Kim; Kirk G Tanner; John M Denu
A continuous, nonradioactive assay for histone acetyltransferases.
Analytical biochemistry 2000;280(2):308-14.
2000: Clark C Fjeld; Adrian E Rice; Youngchang Kim; K R Gee; John M Denu
Mechanistic basis for catalytic activation of mitogen-activated protein kinase phosphatase 3 by extracellular signal-regulated kinase.
The Journal of biological chemistry 2000;275(10):6749-57.
1998: Kathleen Gajewski; Youngchang Kim; Cheol Yong Choi; Robert A Schulz
Combinatorial control of Drosophila mef2 gene expression in cardiac and somatic muscle cell lineages.
Development genes and evolution 1998;208(7):382-92.
1997: Kathleen Gajewski; Youngchang Kim; Y M Lee; Eric N Olson; Robert A Schulz
D-mef2 is a target for Tinman activation during Drosophila heart development.
The EMBO journal 1997;16(3):515-22.