Structural Genomics of Minimal Organisms: Pipeline and Results (2008)
The initial objective of the Berkeley Structural Genomics Center was to obtain a near complete three-dimensional (3D) structural information of all soluble proteins of two minimal organisms, closely...
Capturing Hammerhead Ribozyme Structures in Action by Modulating General Base Catalysis (2008)
Young-In Chi, Monika Martick, Monica Lares, Rosalind Kim, William G. Scott, Sung-Hou Kim
We have obtained precatalytic (enzyme–substrate complex) and postcatalytic (enzyme–product complex) crystal structures of an active full-length hammerhead RNA that cleaves in the crystal. Using...
CHAPTER 4 Predicting Protein Structural Features With Artificial Neural Networks (2008)
Stephen R. Holbrook, Steven M. Muskal, Sung-hou Kim
The prediction of protein structure from amino acid sequence has become the Holy Grail of computational molecular biology. Since Anfinsen [1973] first noted that the information necessary for protein...
Target Selection and Deselection at the Berkeley Structural (2008)
John-marc Ch, Sung-hou Kim, Steven E. Brenner
Center (BSGC), our goal is to obtain a nearcomplete structural complement of proteins in the minimal organisms Mycoplasma genitalium and M. pneumoniae, two closely related pathogens. Current targets...
Chandonia, John-Marc, Kim, Sung-Hou
Abstract Background Determining the complete repertoire of protein structures for all soluble, globular proteins in a single organism has been one of the major goals of several structural genomics...
Chandonia, John-Marc, Kim, Sung-Hou
Background: Determining the complete repertoire of protein structures for all soluble, globular proteins in a single organism has been one of the major goals of several structural genomics projects...
Crystal structure of the DUF16 domain of MPN010 from Mycoplasma pneumoniae (2006)
Shin, Dong Hae, Kim, Jeong-Sun, Yokota, Hisao, Kim, Rosalind, Kim, Sung-Hou
We have determined the crystal structure of the DUF16 domain of unknown function encoded by the gene MPN010 of Mycoplasma pneumoniae at 1.8 Å resolution. The crystal structure revealed that this...
Crystal structure of the DUF16 domain of MPN010 from Mycoplasma pneumoniae (2006)
Shin, Dong Hae, Kim, Jeong-Sun, Yokota, Hisao, Kim, Rosalind, Kim, Sung-Hou
We have determined the crystal structure of the DUF16 domain of unknown function encoded by the gene MPN010 of Mycoplasma pneumoniae at 1.8 Å resolution. The crystal structure revealed that this...
Crystal structure of the DUF16 domain of MPN010 from Mycoplasma pneumoniae (2006)
Shin, Dong Hae, Kim, Jeong-Sun, Yokota, Hisao, Kim, Rosalind, Kim, Sung-Hou
We have determined the crystal structure of the DUF16 domain of unknown function encoded by the gene MPN010 of Mycoplasma pneumoniae at 1.8 Å resolution. The crystal structure revealed that this...
Structure of the hypothetical Mycoplasma protein, MPN555, suggests a chaperone function (2005)
Schulze-Gahmen, Ursula, Aono, Shelly, Chen, Shengfeng, Yokota, Hisao, Kim, Rosalind, Kim, Sung-Hou
The crystal structure of the hypothetical protein MPN555 from Mycoplasma pneumoniae (gi pbar 1673958) has been determined to a resolution of 2.8 Angstrom using anomalous diffraction data at the Se...
Target Selection and Deselection at the Berkeley Structural Genomics Center (2005)
Chandonia, John-Marc, Kim, Sung-Hou, Brenner, Steven E.
At the Berkeley Structural Genomics Center (BSGC), our goal is to obtain a near-complete structural complement of proteins in the minimal organisms Mycoplasma genitalium and M. pneumoniae, two...
DOI 10.1007/s10969-005-2651-9 Structural genomics of minimal organisms and protein fold space (2005)
Sung-hou Kim, Dong Hae Shin, Jinyu Liu, Vaheh Oganesyan, Shengfeng Chen, Qian Steven Xu, ...
space, structural genomics The initial aim of the Berkeley Structural Genomics Center is to obtain a near-complete structural complement of two minimal organisms, closely related pathogens Mycoplasma...
Access the most recent version at doi: 10.1110/ps.0302703 References (2003)
Dong Hae Shin, Anne Roberts, Jaru Jancarik, Hisao Yokota, Rosalind Kim, David E. Wemmer, ...
Crystal structure of a phosphatase with a unique substrate binding
A global representation of the protein fold space (2003)
Jingtong Hou, Gregory Sims, Chao Zhang, Sung-hou Kim
One of the principal goals of the structural genomics initiative is to identify the total repertoire of protein folds and to obtain a global view of the “protein structure universe”. Here, we...
Sims, Gregory E., Kim, Sung-Hou
A global conformational space of 6253 dinucleoside monophosphate (DMP) units consisting of RNA and DNA (free and protein/drug‐bound) was ‘mapped’ using high resolution crystal structures...
Exploiting Chemical Libraries, Structure, and Genomics in the Search for Kinase Inhibitors (1998)
Kim, Sung-Hou, Meijer, Laurent, LeClerc, Sophie, Barnes, Georjana, Morgan, David O., Espinoza, F. Hernan, ...
Selective protein kinase inhibitors were developed on the basis of the unexpected binding mode of 2,6,9-trisubstituted purines to the adenosine triphosphate-binding site of the human cyclin-dependent...
Exploiting Chemical Libraries, Structure, and Genomics in the Search for Kinase Inhibitors (1998)
Lockhart, David J., Kim, Sung-Hou, Meijer, Laurent, LeClerc, Sophie, Barnes, Georjana, Morgan, David O., ...
Selective protein kinase inhibitors were developed on the basis of the unexpected binding mode of 2,6,9-trisubstituted purines to the adenosine triphosphate-binding site of the human cyclin-dependent...
The Taste-active Regions of Monellin, a Potently Sweet Protein (1995)
Somoza, John R., Cho, Joong Myung, Kim, Sung-Hou
Monellin, a protein found in the berries of the West African plant Dioscoreophyllum cumminsii, is one of the most potently sweet compounds known. The native three-dimensional structure of monellin is...
Predicting surface exposure of amino acids from protein sequence (1990)
Holbrook, Stephen R., Muskal, Steven M., Kim, Sung-Hou
The amino acid residues on a protein surface play a key role in interaction with other molecules, determine many physical properties, and constrain the structure of the folded protein. A database of...
Prediction of the disulfide-bonding state of cysteine in proteins (1990)
Muskal, Steven M., Holbrook, Stephen R., Kim, Sung-Hou
The bonding states of cysteine play important functional and structural roles in proteins. In particular, disulfide bond formation is one of the most important factors influencing the...
Redesigning a sweet protein: increased stability and renaturability (1989)
Kim, Sung-Hou, Kang, Chui-Hee, Kim, Rosalind, Cho, Joong Myung, Lee, Yong-Beom, Lee, Tae-Kyu
Monellin is one of two natural proteins from African berries with potent sweet taste. Monellin is the smaller of the two, and consists of two peptides. The protein loses sweetness when heated above...
'Interactive' recognition in EcoRl restriction enzyme-DNA complex (1984)
Kim, Rosalind, Modrich, Paul, Kim, Sung-Hou
A solution study or interaction between DNA and EcoRI restriction enzyme snows that there is a definite distortion of DNA in the specific recognition complexes but no Measurable DNA distortion in the...
Kim, Sung-Hou, Robillard, George T., Boyle, John
Most folding studies on proteins and nucleic acids have been addressed to the transition between the folded and unfolded states of an intact molecule, where an entire residue sequence is present...
Robillard, George T., Boyle, John, Kim, Sung-Hou
Most folding studies on proteins and nucleic acids have been addressed to the transition between the folded and unfolded states of an intact molecule, where an entire residue sequence is present...
S. C. Abrahams, L. Sussman, Stephen R. Holbrook, George M. Church, Sung-hou Kim
A method of structure-factor least-squares refinement of constrained groups linked by distance restraints has been developed for the refinement of macromolecular structures. Each constrained group...
RNA - ligand interactions:(I) magnesium binding sites in yeast tRNAPhe (1977)
Holbrook, Stephen R., Sussman, Joel L., Warrant, R. Wade, Church, George M., Kim, Sung-Hou
X-ray crystallographic studies indicate that there are at least four site-specifically bound hydrated Mg2+ ions, [Mg(H2O)n]2+, in yeast tRNAPhe. The size and the octahedral coordination geometry,...
Environment-dependent residue contact energies for proteins
We examine the interactions between amino acid residues in the context of their secondary structural environments (helix, strand, and coil) in proteins. Effective contact energies for an expanded...
Crystal structure of an intracellular protease from Pyrococcus horikoshii at 2-Å resolution
Du, Xinlin, Choi, In-Geol, Kim, Rosalind, Wang, Weiru, Jancarik, Jaru, Yokota, Hisao, ...
The intracellular protease from Pyrococcus horikoshii (PH1704) and PfpI from Pyrococcus furiosus are members of a class of intracellular proteases that have no sequence homology to any other known...
Small heat shock protein of Methanococcus jannaschii, a hyperthermophile
Kim, Rosalind, Kim, Kyeong Kyu, Yokota, Hisao, Kim, Sung-Hou
Small heat shock proteins (sHSPs) belong to a family of 12- to 43-kDa proteins that are ubiquitous and are conserved in amino acid sequence among all organisms. A sHSP homologue of Methanococcus...
Structural basis for chemical inhibition of human blood coagulation factor Xa
Kamata, Kenji, Kawamoto, Hiroshi, Honma, Teruki, Iwama, Toshiharu, Kim, Sung-Hou
Factor Xa, the converting enzyme of prothrombin to thrombin, has emerged as an alternative (to thrombin) target for drug discovery for thromboembolic diseases. An inhibitor has been synthesized and...
A zinc finger directory for high-affinity DNA recognition
Jamieson, Andrew C., Wang, Hongming, Kim, Sung-Hou
We have used two monovalent phage display libraries containing variants of the Zif268 DNA-binding domain to obtain families of zinc fingers that bind to alterations in the last 4 bp of the DNA...
Detection of protein fold similarity based on correlation of amino acid properties
Grigoriev, Igor V., Kim, Sung-Hou
An increasing number of proteins with weak sequence similarity have been found to assume similar three-dimensional fold and often have similar or related biochemical or biophysical functions. We...
Kim, Kyeong Kyu, Hung, Li-Wei, Yokota, Hisao, Kim, Rosalind, Kim, Sung-Hou
Eukaryotic translation initiation factor 5A (eIF-5A) is a ubiquitous protein found in all eukaryotic cells. The protein is closely associated with cell proliferation in the G1–S stage of the cell...
Zarembinski, Thomas I., Hung, Li-Wei, Mueller-Dieckmann, Hans-Joachim, Kim, Kyeong-Kyu, Yokota, Hisao, Kim, Rosalind, ...
Many small bacterial, archaebacterial, and eukaryotic genomes have been sequenced, and the larger eukaryotic genomes are predicted to be completely sequenced within the next decade. In all genomes...
Cho, Ho, Wang, Weiru, Kim, Rosalind, Yokota, Hisao, Damo, Steven, Kim, Sung-Hou, ...
Protein phosphoaspartate bonds play a variety of roles. In response regulator proteins of two-component signal transduction systems, phosphorylation of an aspartate residue is coupled to a change...
Fold prediction of helical proteins using torsion angle dynamics and predicted restraints
Zhang, Chao, Hou, Jingtong, Kim, Sung-Hou
We describe a procedure for predicting the tertiary folds of α-helical proteins from their primary sequences. The central component of the procedure is a method for predicting interhelical contacts...
Crystal structure of conserved hypothetical protein Aq1575 from Aquifex aeolicus
Shin, Dong Hae, Yokota, Hisao, Kim, Rosalind, Kim, Sung-Hou
The crystal structure of a conserved hypothetical protein, Aq1575, from Aquifex aeolicus has been determined by using x-ray crystallography. The protein belongs to the domain of unknown function...
Kim, Sung-Hou, Wang, Weiru, Kim, Kyeong Kyu
Bacterial chemotaxis receptors can detect a small concentration gradient of attractants and repellents in the environment over a wide range of background concentration. The clustering of these...
A global representation of the protein fold space
Hou, Jingtong, Sims, Gregory E., Zhang, Chao, Kim, Sung-Hou
One of the principal goals of the structural genomics initiative is to identify the total repertoire of protein folds and obtain a global view of the “protein structure universe.” Here, we...
On the mechanism of chaperone activity of the small heat-shock protein of Methanococcus jannaschii
Kim, Rosalind, Lai, Luhua, Lee, Hi-Hong, Cheong, Gang-Won, Kim, Kyeong Kyu, Wu, Zheng, ...
The small heat-shock protein (sHSP) from Methanococcus jannaschii (Mj HSP16.5) forms a homomeric complex of 24 subunits and has an overall structure of a multiwindowed hollow sphere with an external...
Sims, Gregory E., Kim, Sung-Hou
A global conformational space of 6253 dinucleoside monophosphate (DMP) units consisting of RNA and DNA (free and protein/drug-bound) was ‘mapped’ using high resolution crystal structures...
Wang, Hongming, Boisvert, David, Kim, Kyeong Kyu, Kim, Rosalind, Kim, Sung-Hou
Fibrillarin is a phylogenetically conserved protein essential for efficient processing of pre-rRNA through its association with a class of small nucleolar RNAs during ribosomal biogenesis. The...
Local feature frequency profile: A method to measure structural similarity in proteins
Choi, In-Geol, Kwon, Jaimyoung, Kim, Sung-Hou
Measures of structural similarity between known protein structures provide an objective basis for classifying protein folds and for revealing a global view of the protein structure universe. Here, we...
Crystal structure of YjeQ from Thermotoga maritima contains a circularly permuted GTPase domain
Shin, Dong Hae, Lou, Yun, Jancarik, Jaru, Yokota, Hisao, Kim, Rosalind, Kim, Sung-Hou
We have determined the crystal structure of the GDP complex of the YjeQ protein from Thermotoga maritima (TmYjeQ), a member of the YjeQ GTPase subfamaily. TmYjeQ, a homologue of Escherichia coli...
Protein conformational space in higher order ϕ-Ψ maps
Sims, Gregory E., Choi, In-Geol, Kim, Sung-Hou
We have mapped protein conformational space from two to seven residue lengths by employing multidimensional scaling on a data matrix composed of pair-wise angular distances for multiple ϕ-Ψ values...
Crystal Structure of the “PhoU-Like” Phosphate Uptake Regulator from Aquifex aeolicus
Oganesyan, Vaheh, Oganesyan, Natalia, Adams, Paul D., Jancarik, Jaru, Yokota, Hisao A., Kim, Rosalind, ...
The phoU gene of Aquifex aeolicus encodes a protein called PHOU_AQUAE with sequence similarity to the PhoU protein of Escherichia coli. Despite the fact that there is a large number of family members...
Sims, Gregory E., Kim, Sung-Hou
A method is presented for scoring the model quality of experimental and theoretical protein structures. The structural model to be evaluated is dissected into small fragments via a sliding window,...
Environment-dependent residue contact energies for proteins
We examine the interactions between amino acid residues in the context of their secondary structural environments (helix, strand, and coil) in proteins. Effective contact energies for an expanded...
Crystal structure of an intracellular protease from Pyrococcus horikoshii at 2-Å resolution
Du, Xinlin, Choi, In-Geol, Kim, Rosalind, Wang, Weiru, Jancarik, Jaru, Yokota, Hisao, ...
The intracellular protease from Pyrococcus horikoshii (PH1704) and PfpI from Pyrococcus furiosus are members of a class of intracellular proteases that have no sequence homology to any other known...
Small heat shock protein of Methanococcus jannaschii, a hyperthermophile
Kim, Rosalind, Kim, Kyeong Kyu, Yokota, Hisao, Kim, Sung-Hou
Small heat shock proteins (sHSPs) belong to a family of 12- to 43-kDa proteins that are ubiquitous and are conserved in amino acid sequence among all organisms. A sHSP homologue of Methanococcus...
Structural basis for chemical inhibition of human blood coagulation factor Xa
Kamata, Kenji, Kawamoto, Hiroshi, Honma, Teruki, Iwama, Toshiharu, Kim, Sung-Hou
Factor Xa, the converting enzyme of prothrombin to thrombin, has emerged as an alternative (to thrombin) target for drug discovery for thromboembolic diseases. An inhibitor has been synthesized and...
A zinc finger directory for high-affinity DNA recognition
Jamieson, Andrew C., Wang, Hongming, Kim, Sung-Hou
We have used two monovalent phage display libraries containing variants of the Zif268 DNA-binding domain to obtain families of zinc fingers that bind to alterations in the last 4 bp of the DNA...
Detection of protein fold similarity based on correlation of amino acid properties
Grigoriev, Igor V., Kim, Sung-Hou
An increasing number of proteins with weak sequence similarity have been found to assume similar three-dimensional fold and often have similar or related biochemical or biophysical functions. We...
Kim, Kyeong Kyu, Hung, Li-Wei, Yokota, Hisao, Kim, Rosalind, Kim, Sung-Hou
Eukaryotic translation initiation factor 5A (eIF-5A) is a ubiquitous protein found in all eukaryotic cells. The protein is closely associated with cell proliferation in the G1–S stage of the cell...
Zarembinski, Thomas I., Hung, Li-Wei, Mueller-Dieckmann, Hans-Joachim, Kim, Kyeong-Kyu, Yokota, Hisao, Kim, Rosalind, ...
Many small bacterial, archaebacterial, and eukaryotic genomes have been sequenced, and the larger eukaryotic genomes are predicted to be completely sequenced within the next decade. In all genomes...
Cho, Ho, Wang, Weiru, Kim, Rosalind, Yokota, Hisao, Damo, Steven, Kim, Sung-Hou, ...
Protein phosphoaspartate bonds play a variety of roles. In response regulator proteins of two-component signal transduction systems, phosphorylation of an aspartate residue is coupled to a change...
Fold prediction of helical proteins using torsion angle dynamics and predicted restraints
Zhang, Chao, Hou, Jingtong, Kim, Sung-Hou
We describe a procedure for predicting the tertiary folds of α-helical proteins from their primary sequences. The central component of the procedure is a method for predicting interhelical contacts...
Crystal structure of conserved hypothetical protein Aq1575 from Aquifex aeolicus
Shin, Dong Hae, Yokota, Hisao, Kim, Rosalind, Kim, Sung-Hou
The crystal structure of a conserved hypothetical protein, Aq1575, from Aquifex aeolicus has been determined by using x-ray crystallography. The protein belongs to the domain of unknown function...
Kim, Sung-Hou, Wang, Weiru, Kim, Kyeong Kyu
Bacterial chemotaxis receptors can detect a small concentration gradient of attractants and repellents in the environment over a wide range of background concentration. The clustering of these...
A global representation of the protein fold space
Hou, Jingtong, Sims, Gregory E., Zhang, Chao, Kim, Sung-Hou
One of the principal goals of the structural genomics initiative is to identify the total repertoire of protein folds and obtain a global view of the “protein structure universe.” Here, we...
On the mechanism of chaperone activity of the small heat-shock protein of Methanococcus jannaschii
Kim, Rosalind, Lai, Luhua, Lee, Hi-Hong, Cheong, Gang-Won, Kim, Kyeong Kyu, Wu, Zheng, ...
The small heat-shock protein (sHSP) from Methanococcus jannaschii (Mj HSP16.5) forms a homomeric complex of 24 subunits and has an overall structure of a multiwindowed hollow sphere with an external...
Sims, Gregory E., Kim, Sung-Hou
A global conformational space of 6253 dinucleoside monophosphate (DMP) units consisting of RNA and DNA (free and protein/drug-bound) was ‘mapped’ using high resolution crystal structures...
Wang, Hongming, Boisvert, David, Kim, Kyeong Kyu, Kim, Rosalind, Kim, Sung-Hou
Fibrillarin is a phylogenetically conserved protein essential for efficient processing of pre-rRNA through its association with a class of small nucleolar RNAs during ribosomal biogenesis. The...
Local feature frequency profile: A method to measure structural similarity in proteins
Choi, In-Geol, Kwon, Jaimyoung, Kim, Sung-Hou
Measures of structural similarity between known protein structures provide an objective basis for classifying protein folds and for revealing a global view of the protein structure universe. Here, we...
Crystal structure of YjeQ from Thermotoga maritima contains a circularly permuted GTPase domain
Shin, Dong Hae, Lou, Yun, Jancarik, Jaru, Yokota, Hisao, Kim, Rosalind, Kim, Sung-Hou
We have determined the crystal structure of the GDP complex of the YjeQ protein from Thermotoga maritima (TmYjeQ), a member of the YjeQ GTPase subfamaily. TmYjeQ, a homologue of Escherichia coli...
Protein conformational space in higher order ϕ-Ψ maps
Sims, Gregory E., Choi, In-Geol, Kim, Sung-Hou
We have mapped protein conformational space from two to seven residue lengths by employing multidimensional scaling on a data matrix composed of pair-wise angular distances for multiple ϕ-Ψ values...
Hou, Jingtong, Jun, Se-Ran, Zhang, Chao, Kim, Sung-Hou
We have constructed a map of the “protein structure space” by using the pairwise structural similarity scores calculated for all nonredundant protein structures determined experimentally. As...
Kim, Jeong-Sun, DeGiovanni, Andy, Jancarik, Jaru, Adams, Paul D., Yokota, Hisao, Kim, Rosalind, ...
Type I restriction-modification enzymes are differentiated from type II and type III enzymes by their recognition of two specific dsDNA sequences separated by a given spacer and cleaving DNA randomly...
Crystal Structure of the “PhoU-Like” Phosphate Uptake Regulator from Aquifex aeolicus
Oganesyan, Vaheh, Oganesyan, Natalia, Adams, Paul D., Jancarik, Jaru, Yokota, Hisao A., Kim, Rosalind, ...
The phoU gene of Aquifex aeolicus encodes a protein called PHOU_AQUAE with sequence similarity to the PhoU protein of Escherichia coli. Despite the fact that there is a large number of family members...
Sims, Gregory E., Kim, Sung-Hou
A method is presented for scoring the model quality of experimental and theoretical protein structures. The structural model to be evaluated is dissected into small fragments via a sliding window,...
Evolution of protein structural classes and protein sequence families
In protein structure space, protein structures cluster into four elongated regions when mapped based solely on similarity among the 3D structures. These four regions correspond to the four major...
Structure of a NAD kinase from Thermotoga maritima at 2.3 Å resolution
Oganesyan, Vaheh, Huang, Candice, Adams, Paul D., Jancarik, Jaru, Yokota, Hisao A., Kim, Rosalind, ...
The expression, purification, crystallization, and structure determination of NAD-kinase from T. maritima are reported. Similarity to other NAD-kinases as well as homo-oligomrization state of the...
Global extent of horizontal gene transfer
Horizontal gene transfer (HGT) is thought to play an important role in the evolution of species and innovation of genomes. There have been many convincing evidences for HGT for specific genes or gene...
Crystal structure of the DUF16 domain of MPN010 from Mycoplasma pneumoniae
Shin, Dong Hae, Kim, Jeong-Sun, Yokota, Hisao, Kim, Rosalind, Kim, Sung-Hou
We have determined the crystal structure of the DUF16 domain of unknown function encoded by the gene MPN010 of Mycoplasma pneumoniae at 1.8 Å resolution. The crystal structure revealed that this...
Crystal structure of a phosphatase with a unique substrate binding domain from Thermotoga maritima
Shin, Dong Hae, Roberts, Anne, Jancarik, Jaru, Yokota, Hisao, Kim, Rosalind, Wemmer, David E., ...
We have determined the crystal structure of a phosphatase with a unique substrate binding domain from Thermotoga maritima, TM0651 (gi 4981173), at 2.2 Å resolution by selenomethionine...
Discovery of a selective inhibitor of oncogenic B-Raf kinase with potent antimelanoma activity
Tsai, James, Lee, John T., Wang, Weiru, Zhang, Jiazhong, Cho, Hanna, Mamo, Shumeye, ...
BRAFV600E is the most frequent oncogenic protein kinase mutation known. Furthermore, inhibitors targeting “active” protein kinases have demonstrated significant utility in the therapeutic...
Capturing Hammerhead Ribozyme Structures in Action by Modulating General Base Catalysis
Chi, Young-In, Martick, Monika, Lares, Monica, Kim, Rosalind, Scott, William G, Kim, Sung-Hou
We have obtained precatalytic (enzyme–substrate complex) and postcatalytic (enzyme–product complex) crystal structures of an active full-length hammerhead RNA that cleaves in the crystal. Using...
Chemicals that modulate stem cell differentiation
Hwang, Ki-Chul, Kim, Ji Young, Chang, Woochul, Kim, Dae-Sung, Lim, Soyeon, Kang, Sang-Moon, ...
Important cellular processes such as cell fate are likely to be controlled by an elaborate orchestration of multiple signaling pathways, many of which are still not well understood or known. Because...
Structure of O67745_AQUAE, a hypothetical protein from Aquifex aeolicus
Oganesyan, Vaheh, Adams, Paul D., Jancarik, Jarmila, Kim, Rosalind, Kim, Sung-Hou
Using single-wavelength anomalous dispersion data obtained from a gold-derivatized crystal, the X-ray crystal structure of the protein 067745_AQUAE from the prokaryotic organism Aquifex aeolicus has...
Alignment-free genome comparison with feature frequency profiles (FFP) and optimal resolutions
Sims, Gregory E., Jun, Se-Ran, Wu, Guohong A., Kim, Sung-Hou
For comparison of whole-genome (genic + nongenic) sequences, multiple sequence alignment of a few selected genes is not appropriate. One approach is to use an alignment-free method in which feature...