Research Topics
Genomes and GenesSpecies
| Sung Hou KimSummaryAffiliation: University of California Country: USA Publications
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Publications
Structural proteomics of minimal organisms: conservation of protein fold usage and evolutionary implicationsJohn-Marc Chandonia
Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
BMC Struct Biol 6:7. 2006..Folds related to transcription and translation functional categories were also overrepresented in minimal organisms compared to other bacteria...- Dynamic and clustering model of bacterial chemotaxis receptors: structural basis for signaling and high sensitivitySung Hou Kim
Department of Chemistry and E O Lawrence Berkeley National Laboratory, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 99:11611-5. 2002..Taken together, the changes of the dynamic property of one receptor propagating mechanically to many others in the receptor patch provides a plausible, simple mechanism for the high sensitivity and the dynamic range of the receptors... - Structure-based functional inference in structural genomicsSung Hou Kim
Department of Chemistry, University of California, Berkeley, California 94720 5230, USA
J Struct Funct Genomics 4:129-35. 2003.... - Structural genomics of minimal organisms and protein fold spaceSung Hou Kim
Department of Chemistry, University of California, Berkeley, 94720 5230, USA
J Struct Funct Genomics 6:63-70. 2005..genitalium. Furthermore, about 1/2 of the structures of 'unique' protein sequences revealed new and novel folds, and over 2/3 of the structures of previously annotated 'hypothetical proteins' inferred their molecular functions... - Crystal structure of NusA from Thermotoga maritima and functional implication of the N-terminal domainDong Hae Shin
Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Biochemistry 42:13429-37. 2003..Structural comparison between TmNusA and Mycobacterium tuberculosis NusA reveals a possible hinge motion between NTD and RBD. In addition, a functional implication of the NTD in its interaction with RNA polymerase is discussed... - Crystal structure of a heat-inducible transcriptional repressor HrcA from Thermotoga maritima: structural insight into DNA binding and dimerizationJinyu Liu
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
J Mol Biol 350:987-96. 2005..Structural implication on how the inactive form of HrcA may be converted to the active form by GroEL binding to a conserved C-terminal sequence region of HrcA is discussed... - Structure of OsmC from Escherichia coli: a salt-shock-induced proteinDong Hae Shin
Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Acta Crystallogr D Biol Crystallogr 60:903-11. 2004..In addition, the molecular function of the OsmC sequence family is discussed based on structural comparisons among the subfamily members... - Crystal structures of a phosphotransacetylase from Bacillus subtilis and its complex with acetyl phosphateQian Steven Xu
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
J Struct Funct Genomics 6:269-79. 2005..These results suggest that the CoA is likely to bind to the interdomain cleft of Pta in a similar way as NADP+ binds to the other three enzymes... - Crystal structure of the "PhoU-like" phosphate uptake regulator from Aquifex aeolicusVaheh Oganesyan
Berkely Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, California 94720, USA
J Bacteriol 187:4238-44. 2005..Other proteins that share the PhoU domain fold include the coiled-coil domains of the STAT protein, the ribosome-recycling factor, and structural proteins like spectrin... - Crystal structures of an NAD kinase from Archaeoglobus fulgidus in complex with ATP, NAD, or NADPJinyu Liu
Berkeley Structural Genomics Center, Lawrence Berkeley National Laboratory, Physical Bioscience Division, Berkeley, CA 94720 5230, USA
J Mol Biol 354:289-303. 2005..A possible phosphate transfer mechanism is proposed on the basis of the structures presented... - Structure of the hypothetical protein AQ_1354 from Aquifex aeolicusVaheh Oganesyan
Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Acta Crystallogr D Biol Crystallogr 59:1219-23. 2003.... - Structural characterization of the reaction pathway in phosphoserine phosphatase: crystallographic "snapshots" of intermediate statesWeiru Wang
Department of Chemistry, University of California, Berkeley, CA 94720 5230, USA
J Mol Biol 319:421-31. 2002.... - Structural genomics of minimal organisms: pipeline and resultsSung Hou Kim
Berkeley Structural Genomics Center, Lawrence Berkeley National Laboratory, and Department of Chemistry, University of California, Berkeley, CA, USA
Methods Mol Biol 426:475-96. 2008..At the time of this writing, structural information of more than 93% of all soluble proteins of M. genitalium is avail able. This chapter summarizes the approaches taken by the authors' center... - Crystal structure of ScpB from Chlorobium tepidum, a protein involved in chromosome partitioningJeong Sun Kim
Department of Chemistry, University of California, Berkeley, California 94720, USA
Proteins 62:322-8. 2006.... - Crystal structure of DNA sequence specificity subunit of a type I restriction-modification enzyme and its functional implicationsJeong Sun Kim
Department of Chemistry, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 102:3248-53. 2005..Furthermore, the relative orientation of the two DNA binding clefts suggests kinking of bound dsDNA and exposing of target adenines from the recognized DNA sequences... - Crystal structure of a conserved hypothetical protein from Escherichia coliDong Hae Shin
Department of Chemistry, University of California, Berkeley, California 94720 5230, USA
J Struct Funct Genomics 2:53-66. 2002..There are several highly conserved residues including two possible functional cysteines in the putative active site. The possible molecular function of the protein is discussed... - Crystal structure of MJ1247 protein from M. jannaschii at 2.0 A resolution infers a molecular function of 3-hexulose-6-phosphate isomeraseLuis Alfonso Martinez-Cruz
Physical Biosciences Division, Lawrence Berkeley National Laboratory and Department of Chemistry, University of California, Berkeley, 94720, USA
Structure 10:195-204. 2002..The fold represents the nucleotide binding motif of a flavodoxin type. MJ1247 is a tetramer in the crystal and in solution and each monomer has a folding similar to the isomerase domain of glucosamine-6-phosphate synthase (GlmS)... - Global extent of horizontal gene transferIn Geol Choi
Physical Biosciences Division, Lawrence Berkeley National Laboratory and Department of Chemistry, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 104:4489-94. 2007.... - Structure of the hypothetical Mycoplasma protein MPN555 suggests a chaperone functionUrsula Schulze-Gahmen
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Acta Crystallogr D Biol Crystallogr 61:1343-7. 2005..The structural data and the homology to other chaperone proteins suggests an involvement in protein folding as a molecular chaperone for MPN555... - Crystal structure of a protein associated with cell division from Mycoplasma pneumoniae (GI: 13508053): a novel fold with a conserved sequence motifShengfeng Chen
Department of Chemistry, University of California, Berkeley, California 94720, USA
Proteins 55:785-91. 2004..The conserved protein residues, including a highly conserved DXXXR motif, are examined on the basis of crystal structure... - Structure of the putative DNA-binding protein SP_1288 from Streptococcus pyogenesVaheh Oganesyan
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Acta Crystallogr D Biol Crystallogr 60:1266-71. 2004..This suggests its possible involvement in the biochemical function of transcription initiation, which includes interaction with DNA... - Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma acidophilumDong Hae Shin
Berkeley Structural Genomics Center, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
J Biol Chem 280:18326-35. 2005..The structures of TaNAPRTase also provide valuable insight for other sequence subfamilies such as pre-B cell colony-enhancing factor, known to have nicotinamide phosphoribosyltransferase activity... - Crystal structure of conserved hypothetical protein Aq1575 from Aquifex aeolicusDong Hae Shin
Department of Chemistry, University of California, Berkeley, CA 94720 5230, USA
Proc Natl Acad Sci U S A 99:7980-5. 2002..There are several highly conserved residues in these putative active sites. The structure based molecular properties and thermostability of the protein are discussed... - Structural and functional characterization of a novel phosphodiesterase from Methanococcus jannaschiiShengfeng Chen
Department of Chemistry, University of California, Berkeley, California 94720, USA
J Biol Chem 279:31854-62. 2004..Thus, our structural and enzymatic studies have identified the biochemical function of MJ0936 as that of a novel phosphodiesterase... - Structure of O67745_AQUAE, a hypothetical protein from Aquifex aeolicusVaheh Oganesyan
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Acta Crystallogr Sect F Struct Biol Cryst Commun 63:369-74. 2007..Data are presented that provide the first insights into the structural organization of the proteins within this clan and a distal alternative GDP-binding domain outside the metal-binding active site is proposed... - Crystal structure of YjeQ from Thermotoga maritima contains a circularly permuted GTPase domainDong Hae Shin
Berkeley Structural Genomics Center, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 101:13198-203. 2004..The overall structural features of TmYjeQ make it a good candidate for an RNA-binding protein, which is consistent with the biochemical data of the YjeQ subfamily in binding to the ribosome... - Structural basis for CDK6 activation by a virus-encoded cyclinUrsula Schulze-Gahmen
Physical Bioscience Division at E O Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Nat Struct Biol 9:177-81. 2002.... - Whole-genome phylogeny of mammals: evolutionary information in genic and nongenic regionsGregory E Sims
Department of Chemistry, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 106:17077-82. 2009.... - Whole-proteome phylogeny of prokaryotes by feature frequency profiles: An alignment-free method with optimal feature resolutionSe Ran Jun
Department of Chemistry, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 107:133-8. 2010..We describe notable similarities and differences between our FFP trees and those based on other methods in grouping and phylogeny of prokaryotes... - Crystal structure of a PhoU protein homologue: a new class of metalloprotein containing multinuclear iron clustersJinyu Liu
Berkeley Structural Genomics Center, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
J Biol Chem 280:15960-6. 2005..Our structure reveals a new class of metalloprotein containing multinuclear iron clusters. The possible functional implication based on the structure are discussed... - Structural analyses of peptide release factor 1 from Thermotoga maritima reveal domain flexibility required for its interaction with the ribosomeDong Hae Shin
Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
J Mol Biol 341:227-39. 2004..The crystal structure of RF1 elucidates the intrinsic property of this family of having large domain movements for proper function with the ribosome... - Crystal structure of a hypothetical protein, TM841 of Thermotoga maritima, reveals its function as a fatty acid-binding proteinUrsula Schulze-Gahmen
Physical Biosciences Division, Lawrence Berkeley National Laboratory, University of California, Berkeley, CA 94720 5230, USA
Proteins 50:526-30. 2003..The structure indicates that TM841 has the molecular function of fatty-acid binding and may play a role in the cellular functions of fatty acid transport or metabolism... - Crystal structure of the multidrug efflux transporter AcrB at 3.1A resolution reveals the N-terminal region with conserved amino acidsDebanu Das
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, USA
J Struct Biol 158:494-502. 2007..We hope that the structural information provides a structural basis for others to design further biochemical investigation of the role of this portion of AcrB in mediating cytoplasmic ligand discrimination and uptake... - Crystallization and preliminary X-ray analysis of human Brn-5 transcription factor in complex with DNAJose Henrique Pereira
Department of Chemistry, University of California, Berkeley, California 94720, USA
Acta Crystallogr Sect F Struct Biol Cryst Commun 64:175-8. 2008..This paper describes several critical steps that allowed the production of high-quality crystals of the full-length Brn-5 protein complexed with its cognate DNA... - Crystal structure of a phosphatase with a unique substrate binding domain from Thermotoga maritimaDong Hae Shin
Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
Protein Sci 12:1464-72. 2003..From the crystal structure and NMR data, the protein likely undergoes a conformational change upon substrate binding... - Crystal structure of the conserved hypothetical protein MPN330 (GI: 1674200) from Mycoplasma pneumoniaeDebanu Das
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Proteins 58:504-8. 2005 - Expression of soluble recombinant proteins in a cell-free system using a 96-well formatDidier Busso
Department of Chemistry, University of California, Berkeley, 314 Calvin Lab MS5230, CA 94720 5230, USA
J Biochem Biophys Methods 55:233-40. 2003..The identification of soluble proteins is performed by the Dot Blot procedure using an anti-His tag antibody. The applications and the automation of this method are described... - Water polygons in high-resolution protein crystal structuresJonas Lee
Department of Chemistry, University of California, Berkeley, California 94720 5230, USA
Protein Sci 18:1370-6. 2009..The trigons are most commonly observed. We suggest that our observation provides an experimental basis for including these water polygon structures in correlating and predicting various water properties in liquid state... - Target selection and deselection at the Berkeley Structural Genomics CenterJohn-Marc Chandonia
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA
Proteins 62:356-70. 2006..Sequences and data on experimental progress on our targets are available in the public databases TargetDB and PEPCdb... - Purification of human transcription factors Nanog and Sox2, each in complex with Skp, an Escherichia coli periplasmic chaperoneSung Chul Ha
Department of Chemistry, University of California, Berkeley, CA 94720, USA
Protein Expr Purif 67:164-8. 2009..Purified Skp complexes of Nanog and Sox maintained DNA-binding activity toward its cognate DNA sequence. A similar approach may be applicable for some other mammalian proteins that are unstable or difficult to over-express in E. coli... - High-throughput T7 LIC vector for introducing C-terminal poly-histidine tags with variable lengths without extra sequencesJonas Lee
Department of Chemistry, University of California, Berkeley, California 94720 5230, USA
Protein Expr Purif 63:58-61. 2009..Unlike most LIC vectors available commercially, our vectors will not translate unwanted extra sequences by engineering the N-terminal linker to anneal before the open reading frame, and the C-terminal linker to anneal as a His-tag... - Structure of human Brn-5 transcription factor in complex with CRH gene promoterJose Henrique Pereira
Department of Chemistry, University of California, Berkeley, CA 94720, USA
J Struct Biol 167:159-65. 2009..Moreover, the structure also shows the role of the linker in allowing diverse configurations that can be assumed by the two subdomains... - On the mechanism of chaperone activity of the small heat-shock protein of Methanococcus jannaschiiRosalind Kim
Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 100:8151-5. 2003.... - Structure of a NAD kinase from Thermotoga maritima at 2.3 A resolutionVaheh Oganesyan
Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Acta Crystallograph Sect F Struct Biol Cryst Commun 61:640-6. 2005.... - Alignment-free genome comparison with feature frequency profiles (FFP) and optimal resolutionsGregory E Sims
Department of Chemistry, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 106:2677-82. 2009..The topology agrees with the established mammalian phylogeny revealing that intron regions contain a similar level of phylogenic signal as do coding regions... - PDB Editor: a user-friendly Java-based Protein Data Bank file editor with a GUIJonas Lee
Department of Chemistry, University of California, Berkeley, California 94720 5230, USA
Acta Crystallogr D Biol Crystallogr 65:399-402. 2009..PDB Editor can be downloaded from http://sourceforge.net/projects/pdbeditorjl/... - Crystal structure of a stress inducible protein from Mycoplasma pneumoniae at 2.85 A resolutionIn-Geol Choi
Department of Chemistry, University of California, Berkeley, California 94720-5230, USA
J Struct Funct Genomics 4:31-4. 2003 - A global representation of the protein fold spaceJingtong Hou
Department of Chemistry and Lawrence Berkeley National Laboratory, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 100:2386-90. 2003..Random coil-like structures of small proteins and peptides are mapped to a region where the three trends converge, offering an interesting perspective on both the demography of fold space and the evolution of protein structures... - Discovery of a selective inhibitor of oncogenic B-Raf kinase with potent antimelanoma activityJames Tsai
Plexxikon, Inc, 91 Bolivar Drive, Berkeley, CA 94710, USA
Proc Natl Acad Sci U S A 105:3041-6. 2008.... - Optimum solubility (OS) screening: an efficient method to optimize buffer conditions for homogeneity and crystallization of proteinsJarmila Jancarik
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Acta Crystallogr D Biol Crystallogr 60:1670-3. 2004..This screen can be configured to perform in an automated high-throughput mode and can be expanded for additional buffers and additives... - Crystal structure of methenyltetrahydrofolate synthetase from Mycoplasma pneumoniae (GI: 13508087) at 2.2 A resolutionShengfeng Chen
Department of Chemistry, University of California, Berkeley, California
Proteins 56:839-43. 2004 - Crystal structure of tRNA (m1G37) methyltransferase from Aquifex aeolicus at 2.6 A resolution: a novel methyltransferase foldJinyu Liu
Department of Chemistry, University of California, Berkeley, California, USA
Proteins 53:326-8. 2003 - A conserved hypothetical protein from Mycoplasma genitalium shows structural homology to nusb proteinsJinyu Liu
Department of Chemistry, University of California, Berkeley, California, USA
Proteins 55:1082-6. 2004 - Fold prediction of helical proteins using torsion angle dynamics and predicted restraintsChao Zhang
Department of Chemistry and E. O. Lawrence Berkeley National Laboratory, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 99:3581-5. 2002..When tested against 24 small to medium-sized proteins representing a wide range of helical folds, the completely automated procedure is able to generate native-like models within a limited number of trials consistently... - Crystal structure of a novel single-stranded DNA binding protein from Mycoplasma pneumoniaeDebanu Das
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Proteins 67:776-82. 2007 - Overview of structural genomics: from structure to functionChao Zhang
Department of Chemistry, Lawrence Berkeley National Laboratory, University of California at Berkeley, Berkeley, CA 94720, USA
Curr Opin Chem Biol 7:28-32. 2003..These new structures have revealed many unexpected functional and evolution relationships that were hidden at the sequence level... - Whole-proteome phylogeny of large dsDNA virus families by an alignment-free methodGuohong Albert Wu
Department of Chemistry, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 106:12826-31. 2009.... - Evolution of protein structural classes and protein sequence familiesIn-Geol Choi
Physical Biosciences Division, Lawrence Berkeley National Laboratory, and Department of Chemistry, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 103:14056-61. 2006.... - Using an Escherichia coli cell-free extract to screen for soluble expression of recombinant proteinsDidier Busso
Department of Chemistry, University of California, Berkeley, CA 94720-5230, USA
J Struct Funct Genomics 5:69-74. 2004..We designed a rapid method that allows the characterization of soluble candidates from a large number of genes or from a large number of variants that is highly compatible with structural genomics expectations... - Crystal structure of a phosphotransacetylase from Streptococcus pyogenesQian Steven Xu
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Proteins 55:479-81. 2004 - Protein conformational space in higher order phi-Psi mapsGregory E Sims
Biophysics Graduate Group and Department of Chemistry, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 102:618-21. 2005..Each map can be viewed as a higher order phi-Psi plot defining regions of space that are conformationally allowed... - Local feature frequency profile: a method to measure structural similarity in proteinsIn-Geol Choi
Department of Chemistry, University of California, and Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 101:3797-802. 2004..The LFF profile method efficiently maps complex protein structures into a common Euclidean space without prior assignment of secondary structure information or structural alignment... - A method for evaluating the structural quality of protein models by using higher-order phi-psi pairs scoringGregory E Sims
Berkeley Structural Genomics Center, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 103:4428-32. 2006..Reasonable models have higher-order phi-psi score fit values (m) > -1.00... - Crystal structure of a flavin-binding protein from Thermotoga maritimaWeiru Wang
Physical Biosciences Division of the Lawrence Berkeley National Laboratory, Berkeley, California, USA
Proteins 52:633-5. 2003 - Crystal structure of flavin binding to FAD synthetase of Thermotoga maritimaWeiru Wang
Berkeley Structural Genomics Center, Physical Biosciences Division of the Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Proteins 58:246-8. 2005 - Global mapping of the protein structure space and application in structure-based inference of protein functionJingtong Hou
Department of Chemistry and Graduate Program of Comparative Biochemistry, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 102:3651-6. 2005..We found that this scheme consistently outperformed other predictions made by using either the raw scores or normalized Z-scores of pairwise DALI structure alignment... - A glutamine switch mechanism for nucleotide selectivity by phosphodiesterasesKam Y J Zhang
Plexxikon Inc, 91 Bolivar Drive, Berkeley, CA 94710, USA
Mol Cell 15:279-86. 2004..The structural understanding of nucleotide binding enables the design of new PDE inhibitors that may treat diseases in which cyclic nucleotides play a critical role... - Structural basis for the activity of drugs that inhibit phosphodiesterasesGraeme L Card
Plexxikon, Inc, 91 Bolivar Drive, Berkeley, CA 94710, USA
Structure 12:2233-47. 2004..These structural insights will enable the design of isoform-selective inhibitors with improved binding affinity and should facilitate the discovery of more potent and selective PDE inhibitors for the treatment of a variety of diseases... - Structural and functional characterization of a 5,10-methenyltetrahydrofolate synthetase from Mycoplasma pneumoniae (GI: 13508087)Shengfeng Chen
Department of Chemistry, University of California, Berkeley, California 94720, USA
Proteins 61:433-43. 2005..2 A resolution; with ADP, phosphate, and 5-FTHF at 2.5 A resolution. These structures directly demonstrated that the role of Mg2+ in the reaction is to form the ATP--Mg2+-enzyme complex... - On-column protein refolding for crystallizationNatalia Oganesyan
Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, California 94720, USA
J Struct Funct Genomics 6:177-82. 2005..It can be easily automated and formatted for high-throughput process... - Crystal structure of the DUF16 domain of MPN010 from Mycoplasma pneumoniaeDong Hae Shin
College of Pharmacy, Ewha Womans Unversity, Seoul 120 750, Korea
Protein Sci 15:921-8. 2006..Based on the structural comparison with other coiled-coil structures, a probable molecular function of the DUF16 family is discussed... - Structural and enzymatic characterization of DR1281: A calcineurin-like phosphoesterase from Deinococcus radioduransDong Hae Shin
College of Pharmacy, Ewha Womans University, Seoul 120 750, Republic of Korea
Proteins 70:1000-9. 2008..Thus, our structural and enzymatic studies have identified the biochemical function of DR1281 as a novel phosphatase/phosphodiesterase and disclosed key conserved residues involved in metal binding and catalytic activity... - Structure-based inference of molecular functions of proteins of unknown function from Berkeley Structural Genomics CenterDong Hae Shin
College of Pharmacy, Ewha Womans University, Seoul, Korea
J Struct Funct Genomics 8:99-105. 2007..We present a brief summary of the process we used at the Berkeley Structural Genomics Center to infer molecular functions of proteins of unknown function... - Structure-based experimental confirmation of biochemical function to a methyltransferase, MJ0882, from hyperthermophile Methanococcus jannaschiiLan Huang
Dept of Cellular Biochemistry and Biophysics, Sloan Kettering Institute, 1275 York Ave, New York, NY 10021, USA
J Struct Funct Genomics 2:121-7. 2002..Preliminary biochemical experiments show that MJ0882 specifically binds to AdoMet, which is the essential co-factor for methyltransferases... - Crystal structure of TM1457 from Thermotoga maritimaDong Hae Shin
College of Pharmacy, Ewha Womans University, Seoul 120-750, Korea
J Struct Biol 152:113-7. 2005..Therefore, TM1457 still retains a unique topology and reveals a novel fold... - SU9516: biochemical analysis of cdk inhibition and crystal structure in complex with cdk2Deborah J Moshinsky
SUGEN, Inc, South San Francisco, CA 94080, USA
Biochem Biophys Res Commun 310:1026-31. 2003..This study should aid in the development of more potent and selective cdk inhibitors for potential therapeutic agents... - Protein production and purificationSusanne Gräslund
Karolinska Institutet, Scheeles vag 2, 171 77 Stockholm, Sweden
Nat Methods 5:135-46. 2008..This review presents methods that could be applied at the outset of any project, a prioritized list of alternate strategies and a list of pitfalls that trip many new investigators... - Effect of osmotic stress and heat shock in recombinant protein overexpression and crystallizationNatalia Oganesyan
Bio Rad Laboratories, Life Science Group, 2000 Alfred Nobel Drive, Hercules, CA 94547, USA
Protein Expr Purif 52:280-5. 2007..Our results suggest that by growing the cells under varied conditions one may be able to express targets as soluble proteins (from previously insoluble targets) and to improve the chances of their crystallization...
Research Grants
- STRUCTURE/FUNCTION IN MOLECULAR COMMUNICATIONSung Hou Kim; Fiscal Year: 2002..The objective of these studies is to resolve the conflicting evidence about the mechanism of transmembrane signaling in dimeric receptors. ..
- STRUCTURAL GENOMICS OF A MINIMAL GENOMESung Hou Kim; Fiscal Year: 2004....
- Atomic structures of chemotaxis receptors and complexesSung Hou Kim; Fiscal Year: 2010....