Works matching IS 08873585 AND DT 2008 AND VI 71 AND IP 2

Results: 48

Combining the polymerase incomplete primer extension method for cloning and mutagenesis with microscreening to accelerate structural genomics efforts.

Published in:

Proteins, 2008, v. 71, n. 2, p. 982, doi. 10.1002/prot.21786

By:

Klock, Heath E.;
Koesema, Eric J.;
Knuth, Mark W.;
Lesley, Scott A.

Publication type:

Article

CLEMAPS: Multiple alignment of protein structures based on conformational letters.

Published in:

Proteins, 2008, v. 71, n. 2, p. 728, doi. 10.1002/prot.21739

By:

Liu, Xin;
Zhao, Ya-Pu;
Zheng, Wei-Mou

Publication type:

Article

Using scores derived from statistical coupling analysis to distinguish correct and incorrect folds in de-novo protein structure prediction.

Published in:

Proteins, 2008, v. 71, n. 2, p. 950, doi. 10.1002/prot.21779

By:

Bartlett, Gail J.;
Taylor, William R.

Publication type:

Article

Effect of bivalent cations on the interaction of transketolase with its donor substrate.

Published in:

Proteins, 2008, v. 71, n. 2, p. 541, doi. 10.1002/prot.21880

By:

Sevostyanova, Irina A.;
Yurshev, Vladimir A.;
Solovjeva, Olga N.;
Zabrodskaya, Svetlana V.;
Kochetov, German A.

Publication type:

Article

Solution structure of At3g28950 from Arabidopsis thaliana.

Published in:

Proteins, 2008, v. 71, n. 2, p. 546, doi. 10.1002/prot.21936

By:

de la Cruz, Norberto B.;
Peterson, Francis C.;
Volkman, Brian F.

Publication type:

Article

NMR structure of the peptidyl-tRNA hydrolase domain from Pseudomonas syringae expands the structural coverage of the hydrolysis domains of class 1 peptide chain release factors.

Published in:

Proteins, 2008, v. 71, n. 2, p. 1027, doi. 10.1002/prot.21947

By:

Singarapu, Kiran Kumar;
Xiao, Rong;
Acton, Thomas;
Rost, Burkhard;
Montelione, Gaetano T.;
Szyperski, Thomas

Publication type:

Article

Sequence-similar, structure-dissimilar protein pairs in the PDB.

Published in:

Proteins, 2008, v. 71, n. 2, p. 891, doi. 10.1002/prot.21770

By:

Kosloff, Mickey;
Kolodny, Rachel

Publication type:

Article

Probing ligand binding modes of human cytochrome P450 2J2 by homology modeling, molecular dynamics simulation, and flexible molecular docking.

Published in:

Proteins, 2008, v. 71, n. 2, p. 938, doi. 10.1002/prot.21778

By:

Li, Weihua;
Tang, Yun;
Liu, Hong;
Cheng, Jiagao;
Zhu, Weiliang;
Jiang, Hualiang

Publication type:

Article

Understanding the structural and functional differences between mouse thyrotropin-releasing hormone receptors 1 and 2.

Published in:

Proteins, 2008, v. 71, n. 2, p. 783, doi. 10.1002/prot.21763

By:

Deflorian, Francesca;
Engel, Stanislav;
Colson, Anny-Odile;
Raaka, Bruce M.;
Gershengorn, Marvin C.;
Costanzi, Stefano

Publication type:

Article

X-ray crystal structure of the B component of Hemolysin BL from Bacillus cereus.

Published in:

Proteins, 2008, v. 71, n. 2, p. 534, doi. 10.1002/prot.21888

By:

Madegowda, Mahendra;
Eswaramoorthy, Subramaniam;
Burley, Stephen K.;
Swaminathan, Subramanyam

Publication type:

Article

An alternate sucrose binding mode in the E203Q Arabidopsis invertase mutant: An X-ray crystallography and docking study.

Published in:

Proteins, 2008, v. 71, n. 2, p. 552, doi. 10.1002/prot.21700

By:

Mátrai, Janka;
Lammens, Willem;
Jonckheer, Abel;
Le Roy, Katrien;
Rabijns, Anja;
Van den Ende, Wim;
De Maeyer, Marc

Publication type:

Article

Exploring the molecular basis of heme coordination in human neuroglobin.

Published in:

Proteins, 2008, v. 71, n. 2, p. 695, doi. 10.1002/prot.21814

By:

Nadra, Alejandro D.;
Martí, Marcelo A.;
Pesce, Alessandra;
Bolognesi, Martino;
Estrin, Darío A.

Publication type:

Article

Evolution of binding sites for zinc and calcium ions playing structural roles.

Published in:

Proteins, 2008, v. 71, n. 2, p. 813, doi. 10.1002/prot.21741

By:

Torrance, James W.;
MacArthur, Malcolm W.;
Thornton, Janet M.

Publication type:

Article

Crystal structure of the dimeric Urm1 from the yeast Saccharomyces cerevisiae.

Published in:

Proteins, 2008, v. 71, n. 2, p. 1050, doi. 10.1002/prot.21975

By:

Yu, Jiang;
Zhou, Cong-Zhao

Publication type:

Article

Structural insight into the distinct properties of copper transport by the Helicobacter pylori CopP protein.

Published in:

Proteins, 2008, v. 71, n. 2, p. 1007, doi. 10.1002/prot.21957

By:

Park, Sung Jean;
Jung, Yu-Sun;
Kim, Ji-Sun;
Seo, Min-Duk;
Lee, Bong Jin

Publication type:

Article

Negative modulation of signal transduction via interleukin splice variation.

Published in:

Proteins, 2008, v. 71, n. 2, p. 751, doi. 10.1002/prot.21756

By:

Denessiouk, Konstantin A.;
Denesyuk, Alexander I.;
Johnson, Mark S.

Publication type:

Article

Crystal structure and functional analysis identify the P-loop containing protein YFH7 of Saccharomyces cerevisiae as an ATP-dependent kinase.

Published in:

Proteins, 2008, v. 71, n. 2, p. 804, doi. 10.1002/prot.21740

By:

Gueguen-Chaignon, Virginie;
Chaptal, Vincent;
Larivière, Laurent;
Costa, Narciso;
Lopes, Philippe;
Morera, Solange;
Nessler, Sylvie

Publication type:

Article

Cluster conservation as a novel tool for studying protein-protein interactions evolution.

Published in:

Proteins, 2008, v. 71, n. 2, p. 621, doi. 10.1002/prot.21749

By:

Rahat, Ofer;
Yitzhaky, Assif;
Schreiber, Gideon

Publication type:

Article

Binding similarity network of ligand.

Published in:

Proteins, 2008, v. 71, n. 2, p. 960, doi. 10.1002/prot.21780

By:

Park, Keunwan;
Kim, Dongsup

Publication type:

Article

A Mg2+-induced conformational switch rendering a competent DNA polymerase catalytic complex.

Published in:

Proteins, 2008, v. 71, n. 2, p. 565, doi. 10.1002/prot.21711

By:

Mendieta, Jesús;
Cases-González, Clara E.;
Matamoros, Tania;
Ramírez, Galo;
Menéndez-Arias, Luis

Publication type:

Article

Role of the IXI/V motif in oligomer assembly and function of StHsp14.0, a small heat shock protein from the acidothermophilic archaeon, Sulfolobus tokodaii strain 7.

Published in:

Proteins, 2008, v. 71, n. 2, p. 771, doi. 10.1002/prot.21762

By:

Saji, Hitoshi;
Iizuka, Ryo;
Yoshida, Takao;
Abe, Tetsuya;
Kidokoro, Shun-ichi;
Ishii, Noriyuki;
Yohda, Masafumi

Publication type:

Article

Structural disorder serves as a weak signal for intracellular protein degradation.

Published in:

Proteins, 2008, v. 71, n. 2, p. 903, doi. 10.1002/prot.21773

By:

Tompa, P.;
Prilusky, J.;
Silman, I.;
Sussman, J. L.

Publication type:

Article

Effects of glycerol on the compaction and stability of the wild type and mutated rabbit muscle creatine kinase.

Published in:

Proteins, 2008, v. 71, n. 2, p. 844, doi. 10.1002/prot.21744

By:

Feng, Shan;
Yan, Yong-Bin

Publication type:

Article

Molecular dynamics simulations of ethanol binding to the transmembrane domain of the glycine receptor: Implications for the channel potentiation mechanism.

Published in:

Proteins, 2008, v. 71, n. 2, p. 972, doi. 10.1002/prot.21784

By:

Cheng, Mary Hongying;
Coalson, Rob D.;
Cascio, Michael

Publication type:

Article

The differences in the microenvironment of the two tryptophan residues of the glutamine-binding protein from Escherichia coli shed light on the binding properties and the structural dynamics of the protein.

Published in:

Proteins, 2008, v. 71, n. 2, p. 743, doi. 10.1002/prot.21748

By:

D'Auria, Sabato;
Staiano, Maria;
Varriale, Antonio;
Gonnelli, Margherita;
Marabotti, Anna;
Rossi, Mose';
Strambini, Giovanni B.

Publication type:

Article

Human uroporphyrinogen III synthase: NMR-based mapping of the active site.

Published in:

Proteins, 2008, v. 71, n. 2, p. 855, doi. 10.1002/prot.21755

By:

Cunha, Luis;
Kuti, Miklos;
Bishop, David F.;
Mezei, Mihaly;
Zeng, Lei;
Zhou, Ming-Ming;
Desnick, Robert J.

Publication type:

Article

Factors affecting the use of 13Cα chemical shifts to determine, refine, and validate protein structures.

Published in:

Proteins, 2008, v. 71, n. 2, p. 641, doi. 10.1002/prot.21726

By:

Vila, Jorge A.;
Scheraga, Harold A.

Publication type:

Article

Structure-function relationships in the 2-oxo acid dehydrogenase family: Substrate-specific signatures and functional predictions for the 2-oxoglutarate dehydrogenase-like proteins.

Published in:

Proteins, 2008, v. 71, n. 2, p. 874, doi. 10.1002/prot.21766

By:

Bunik, Victoria I.;
Degtyarev, Dmitry

Publication type:

Article

Identification of GATC- and CCGG-recognizing Type II REases and their putative specificity-determining positions using Scan2S-A novel motif scan algorithm with optional secondary structure constraints.

Published in:

Proteins, 2008, v. 71, n. 2, p. 631, doi. 10.1002/prot.21777

By:

Niv, Masha Y.;
Skrabanek, Lucy;
Roberts, Richard J.;
Scheraga, Harold A.;
Weinstein, Harel

Publication type:

Article

The balance between the rates of incorporation and pyrophosphorolytic removal influences the HIV-1 reverse transcriptase bypass of an abasic site with deoxy-, dideoxy-, and ribonucleotides.

Published in:

Proteins, 2008, v. 71, n. 2, p. 715, doi. 10.1002/prot.21829

By:

Sharma, Bechan;
Crespan, Emmanuele;
Villani, Giuseppe;
Maga, Giovanni

Publication type:

Article

Structural analysis of protein dynamics by MD simulations and NMR spin-relaxation.

Published in:

Proteins, 2008, v. 71, n. 2, p. 684, doi. 10.1002/prot.21750

By:

Trbovic, Nikola;
Kim, Byungchan;
Friesner, Richard A.;
Palmer, Arthur G.

Publication type:

Article

Analysis of the protein kinome of Entamoeba histolytica.

Published in:

Proteins, 2008, v. 71, n. 2, p. 995, doi. 10.1002/prot.21790

By:

Anamika, K.;
Bhattacharya, A.;
Srinivasan, N.

Publication type:

Article

Modeling the accessible conformations of the intrinsically unstructured transactivation domain of p53.

Published in:

Proteins, 2008, v. 71, n. 2, p. 587, doi. 10.1002/prot.21721

By:

Lowry, David F.;
Stancik, Amber;
Shrestha, Ranjay Mann;
Daughdrill, Gary W.

Publication type:

Article

Characterization of local geometry of protein surfaces with the visibility criterion.

Published in:

Proteins, 2008, v. 71, n. 2, p. 670, doi. 10.1002/prot.21732

By:

Li, Bin;
Turuvekere, Srinivasan;
Agrawal, Manish;
La, David;
Ramani, Karthik;
Kihara, Daisuke

Publication type:

Article

Crystal structure of AICAR transformylase IMP cyclohydrolase (TM1249) from Thermotoga maritima at 1.88 Å resolution.

Published in:

Proteins, 2008, v. 71, n. 2, p. 1042, doi. 10.1002/prot.21967

By:

Axelrod, Herbert L.;
McMullan, Daniel;
Krishna, S. Sri;
Miller, Mitchell D.;
Elsliger, Marc-Andre;
Abdubek, Polat;
Ambing, Eileen;
Astakhova, Tamara;
Carlton, Dennis;
Chiu, Hsiu-Ju;
Clayton, Thomas;
Duan, Lian;
Feuerhelm, Julie;
Grzechnik, Slawomir K.;
Hale, Joanna;
Han, Gye Won;
Haugen, Justin;
Jaroszewski, Lukasz;
Jin, Kevin K.;
Klock, Heath E.

Publication type:

Article

The 1.38 Å crystal structure of DmsD protein from Salmonella typhimurium, a proofreading chaperone on the Tat pathway.

Published in:

Proteins, 2008, v. 71, n. 2, p. 525, doi. 10.1002/prot.21828

By:

Qiu, Yang;
Zhang, Rongguang;
Binkowski, T. Andrew;
Tereshko, Valentina;
Joachimiak, Andrzej;
Kossiakoff, Anthony

Publication type:

Article

The blind search for the closed states of hinge-bending proteins.

Published in:

Proteins, 2008, v. 71, n. 2, p. 831, doi. 10.1002/prot.21743

By:

Yesylevskyy, Semen O.;
Kharkyanen, Valery N.;
Demchenko, Alexander P.

Publication type:

Article

Protein structure mining using a structural alphabet.

Published in:

Proteins, 2008, v. 71, n. 2, p. 920, doi. 10.1002/prot.21776

By:

Tyagi, M.;
de Brevern, A. G.;
Srinivasan, N.;
Offmann, B.

Publication type:

Article

Crystal structure of Bacillus subtilis CodW, a noncanonical HslV-like peptidase with an impaired catalytic apparatus.

Published in:

Proteins, 2008, v. 71, n. 2, p. 1020, doi. 10.1002/prot.21758

By:

Rho, Seong-Hwan;
Park, Hyun Ho;
Kang, Gil Bu;
Im, Young Jun;
Kang, Min Suk;
Lim, Byung Kook;
Seong, Ihn Sik;
Seol, Jaehong;
Chung, Chin Ha;
Wang, Jimin;
Eom, Soo Hyun

Publication type:

Article

Influence of oligomerization on the dynamics of G-protein coupled receptors as assessed by normal mode analysis.

Published in:

Proteins, 2008, v. 71, n. 2, p. 575, doi. 10.1002/prot.21787

By:

Niv, Masha Y.;
Filizola, Marta

Publication type:

Article

Thermodynamic and kinetic determinants of Thermotoga maritima cold shock protein stability: A structural and dynamic analysis.

Published in:

Proteins, 2008, v. 71, n. 2, p. 655, doi. 10.1002/prot.21729

By:

Motono, Chie;
Gromiha, M. Michael;
Kumar, Sandeep

Publication type:

Article

A novel mode of dimerization via formation of a glutamate anhydride crosslink in a protein crystal structure.

Published in:

Proteins, 2008, v. 71, n. 2, p. 1038, doi. 10.1002/prot.21962

By:

Agarwal, Rakhi;
Burley, Stephen K.;
Swaminathan, Subramanyam

Publication type:

Article

Crystal structure of UDP- N-acetylglucosamine enolpyruvyl transferase from Haemophilus influenzae in complex with UDP- N-acetylglucosamine and fosfomycin.

Published in:

Proteins, 2008, v. 71, n. 2, p. 1032, doi. 10.1002/prot.21959

By:

Yoon, Hye-Jin;
Lee, Sang Jae;
Mikami, Bunzo;
Park, Hyun-Ju;
Yoo, Jakyung;
Suh, Se Won

Publication type:

Article

Analyzing the catalytic mechanism of MPtpA: A low molecular weight protein tyrosine phosphatase from Mycobacterium tuberculosis through site-directed mutagenesis.

Published in:

Proteins, 2008, v. 71, n. 2, p. 706, doi. 10.1002/prot.21816

By:

Madhurantakam, Chaithanya;
Chavali, Venkata Ramana Murthy;
Das, Amit Kumar

Publication type:

Article

The confirmation of the denatured structure of pyrrolidone carboxyl peptidase under nondenaturing conditions: Difference in helix propensity of two synthetic peptides with single amino acid substitution.

Published in:

Proteins, 2008, v. 71, n. 2, p. 737, doi. 10.1002/prot.21742

By:

Umezaki, Taro;
Iimura, Satoshi;
Noda, Yasuo;
Segawa, Shin-ichi;
Yutani, Katsuhide

Publication type:

Article

Molecular modeling of the second extracellular loop of G-protein coupled receptors and its implication on structure-based virtual screening.

Published in:

Proteins, 2008, v. 71, n. 2, p. 599, doi. 10.1002/prot.21724

By:

de Graaf, Chris;
Foata, Nicolas;
Engkvist, Ola;
Rognan, Didier

Publication type:

Article

Evolution of the β-propeller fold.

Published in:

Proteins, 2008, v. 71, n. 2, p. 795, doi. 10.1002/prot.21764

By:

Chaudhuri, Indronil;
Söding, Johannes;
Lupas, Andrei N.

Publication type:

Article

Context-specific amino acid substitution matrices and their use in the detection of protein homologs.

Published in:

Proteins, 2008, v. 71, n. 2, p. 910, doi. 10.1002/prot.21775

By:

Goonesekere, Nalin C. W.;
Lee, Byungkook

Publication type:

Article