Works matching IS 08873585 AND DT 2008 AND VI 70 AND IP 3

Results: 47

Molecular basis of inhibitory peptide maurotoxin recognizing Kv1.2 channel explored by ZDOCK and molecular dynamic simulations.

Published in:

Proteins, 2008, v. 70, n. 3, p. 844, doi. 10.1002/prot.21706

By:

Yi, Hong;
Qiu, Su;
Cao, Zhijian;
Wu, Yingliang;
Li, Wenxin

Publication type:

Article

Structural characterization of the zinc binding domain in cytosolic PSD-95 interactor (cypin): Role of zinc binding in guanine deamination and dendrite branching.

Published in:

Proteins, 2008, v. 70, n. 3, p. 873, doi. 10.1002/prot.21683

By:

Fernández, José R.;
Welsh, William J.;
Firestein, Bonnie L.

Publication type:

Article

Solution structure of the β-subunit of the translation initiation factor aIF2 from archaebacteria Sulfolobus solfataricus.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1112, doi. 10.1002/prot.21797

By:

Vasile, Francesca;
Pechkova, Eugenia;
Nicolini, Claudio

Publication type:

Article

Epitope mapping and structural analysis of an anti-ErbB2 antibody A21: Molecular basis for tumor inhibitory mechanism.

Published in:

Proteins, 2008, v. 70, n. 3, p. 938, doi. 10.1002/prot.21551

By:

Hu, Siyi;
Zhu, Zhiqiang;
Li, Liangwei;
Chang, Liang;
Li, Weifang;
Cheng, Liansheng;
Teng, Maikun;
Liu, Jing

Publication type:

Article

Structural and enzymatic characterization of DR1281: A calcineurin-like phosphoesterase from Deinococcus radiodurans.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1000, doi. 10.1002/prot.21584

By:

Shin, Dong Hae;
Proudfoot, Michael;
Lim, Hyo Jin;
Choi, In-Kyu;
Yokota, Hisao;
Yakunin, Alexander F.;
Kim, Rosalind;
Kim, Sung-Hou

Publication type:

Article

A coarse-grained α-carbon protein model with anisotropic hydrogen-bonding.

Published in:

Proteins, 2008, v. 70, n. 3, p. 626, doi. 10.1002/prot.21515

By:

Yap, Eng-Hui;
Fawzi, Nicolas Lux;
Head-Gordon, Teresa

Publication type:

Article

Proton pathways in a [NiFe]-hydrogenase: A theoretical study.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1010, doi. 10.1002/prot.21588

By:

Teixeira, Vitor H.;
Soares, Cláudio M.;
Baptista, António M.

Publication type:

Article

Denatured state is critical in determining the properties of model proteins designed on different folds.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1047, doi. 10.1002/prot.21599

By:

Amatori, A.;
Tiana, G.;
Ferkinghoff-Borg, J.;
Broglia, R. A.

Publication type:

Article

A statistical rescoring scheme for protein-ligand docking: Consideration of entropic effect.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1074, doi. 10.1002/prot.21844

By:

Lee, Juyong;
Seok, Chaok

Publication type:

Article

New insight into long-range nonadditivity within protein double-mutant cycles.

Published in:

Proteins, 2008, v. 70, n. 3, p. 915, doi. 10.1002/prot.21620

By:

Istomin, Andrei Y.;
Gromiha, M. Michael;
Vorov, Oleg K.;
Jacobs, Donald J.;
Livesay, Dennis R.

Publication type:

Article

Conformational flexibility in mammalian 15S-lipoxygenase: Reinterpretation of the crystallographic data.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1023, doi. 10.1002/prot.21590

By:

Choi, Jongkeun;
Chon, Jae Kyung;
Kim, Sangsoo;
Shin, Whanchul

Publication type:

Article

Distance dependent centroid to centroid force fields using high resolution decoys.

Published in:

Proteins, 2008, v. 70, n. 3, p. 950, doi. 10.1002/prot.21561

By:

Rajgaria, R.;
McAllister, S. R.;
Floudas, C. A.

Publication type:

Article

Comment on probe-dependent and nonexponential relaxation kinetics: Unreliable signatures of downhill protein folding.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1099, doi. 10.1002/prot.21789

By:

Gruebele, Martin

Publication type:

Article

Electrospray ionization mass spectrometry of soybean lipoxygenases: N-terminal acetylation, chemical modification, and solution conformation.

Published in:

Proteins, 2008, v. 70, n. 3, p. 650, doi. 10.1002/prot.21543

By:

Peariso, Amber M.;
Nicholson, Kellie M.;
Benjamin Jones, R.;
Green-Church, Kari B.;
Funk, Max O.

Publication type:

Article

Computational design and experimental study of tighter binding peptides to an inactivated mutant of HIV-1 protease.

Published in:

Proteins, 2008, v. 70, n. 3, p. 678, doi. 10.1002/prot.21514

By:

Altman, Michael D.;
Nalivaika, Ellen A.;
Prabu-Jeyabalan, Moses;
Schiffer, Celia A.;
Tidor, Bruce

Publication type:

Article

An evolutionary and structure-based docking model for glucocerebrosidase-saposin C and glucocerebrosidase-substrate interactions-Relevance for Gaucher disease.

Published in:

Proteins, 2008, v. 70, n. 3, p. 882, doi. 10.1002/prot.21554

By:

Atrian, Sílvia;
López-Viñas, Eduardo;
Gómez-Puertas, Paulino;
Chabás, Amparo;
Vilageliu, Lluïsa;
Grinberg, Daniel

Publication type:

Article

Lattice simulations of cotranslational folding of single domain proteins.

Published in:

Proteins, 2008, v. 70, n. 3, p. 925, doi. 10.1002/prot.21547

By:

Wang, Peiyu;
Klimov, Dmitri K.

Publication type:

Article

Membrane-bound structure and energetics of α-synuclein.

Published in:

Proteins, 2008, v. 70, n. 3, p. 761, doi. 10.1002/prot.21558

By:

Mihajlovic, Maja;
Lazaridis, Themis

Publication type:

Article

Dopamine transporter comparative molecular modeling and binding site prediction using the LeuTAa leucine transporter as a template.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1033, doi. 10.1002/prot.21598

By:

Indarte, Martín;
Madura, Jeffry D.;
Surratt, Christopher K.

Publication type:

Article

Surface recognition elements of membrane protein oligomerization.

Published in:

Proteins, 2008, v. 70, n. 3, p. 786, doi. 10.1002/prot.21569

By:

Rath, Arianna;
Deber, Charles M.

Publication type:

Article

Loop modeling: Sampling, filtering, and scoring.

Published in:

Proteins, 2008, v. 70, n. 3, p. 834, doi. 10.1002/prot.21612

By:

Soto, Cinque S.;
Fasnacht, Marc;
Zhu, Jiang;
Forrest, Lucy;
Honig, Barry

Publication type:

Article

Mutagenesis study of rice nonspecific lipid transfer protein 2 reveals residues that contribute to structure and ligand binding.

Published in:

Proteins, 2008, v. 70, n. 3, p. 695, doi. 10.1002/prot.21520

By:

Cheng, Chao-Sheng;
Chen, Ming-Nan;
Lai, Yen-Ting;
Chen, Ting;
Lin, Ku-Feng;
Liu, Yaw-Jen;
Lyu, Ping-Chiang

Publication type:

Article

The role of Li+, Na+, and K+ in the ligand binding inside the human acetylcholinesterase gorge.

Published in:

Proteins, 2008, v. 70, n. 3, p. 779, doi. 10.1002/prot.21560

By:

Petraglio, Gabriele;
Bartolini, Manuela;
Branduardi, Davide;
Andrisano, Vincenza;
Recanatini, Maurizio;
Gervasio, Francesco Luigi;
Cavalli, Andrea;
Parrinello, Michele

Publication type:

Article

Native atomic burials, supplemented by physically motivated hydrogen bond constraints, contain sufficient information to determine the tertiary structure of small globular proteins.

Published in:

Proteins, 2008, v. 70, n. 3, p. 971, doi. 10.1002/prot.21571

By:

Pereira de Araújo, Antônio F.;
Gomes, Antonio L. C.;
Bursztyn, Alexandre A.;
Shakhnovich, Eugene I.

Publication type:

Article

Molecular determinants of sarco/endoplasmic reticulum calcium ATPase inhibition by hydroquinone-based compounds.

Published in:

Proteins, 2008, v. 70, n. 3, p. 639, doi. 10.1002/prot.21542

By:

Lape, Michael;
Elam, Christopher;
Versluis, Maria;
Kempton, Robert;
Paula, Stefan

Publication type:

Article

Residual structure in disordered peptides and unfolded proteins from multivariate analysis and ab initio simulation of Raman optical activity data.

Published in:

Proteins, 2008, v. 70, n. 3, p. 823, doi. 10.1002/prot.21593

By:

Zhu, Fujiang;
Kapitan, Josef;
Tranter, George E.;
Pudney, Paul D. A.;
Isaacs, Neil W.;
Hecht, Lutz;
Barron, Laurence D.

Publication type:

Article

TPR domain of NrfG mediates complex formation between heme lyase and formate-dependent nitrite reductase in Escherichia coli O157:H7.

Published in:

Proteins, 2008, v. 70, n. 3, p. 900, doi. 10.1002/prot.21597

By:

Han, Dohyun;
Kim, Kyunggon;
Oh, Jongkil;
Park, Jungeun;
Kim, Youngsoo

Publication type:

Article

MAAP: Malarial adhesins and adhesin-like proteins predictor.

Published in:

Proteins, 2008, v. 70, n. 3, p. 659, doi. 10.1002/prot.21568

By:

Ansari, Faraz Alam;
Kumar, Naveen;
Bala Subramanyam, Mekapati;
Gnanamani, Muthiah;
Ramachandran, Srinivasan

Publication type:

Article

Molecular dynamics simulations of HIV-1 protease monomer: Assembly of N-terminus and C-terminus into β-sheet in water solution.

Published in:

Proteins, 2008, v. 70, n. 3, p. 731, doi. 10.1002/prot.21539

By:

Yan, Mao-Cai;
Sha, Yu;
Wang, Jian;
Xiong, Xu-Qiong;
Ren, Jin-Hong;
Cheng, Mao-Sheng

Publication type:

Article

Energy minimization in low-frequency normal modes to efficiently allow for global flexibility during systematic protein-protein docking.

Published in:

Proteins, 2008, v. 70, n. 3, p. 794, doi. 10.1002/prot.21579

By:

May, Andreas;
Zacharias, Martin

Publication type:

Article

Solution structure and neutralizing antibody binding studies of domain III of the dengue-2 virus envelope protein.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1116, doi. 10.1002/prot.21806

By:

Huang, Kuo-Chun;
Lee, Ming-Che;
Wu, Chih-Wei;
Huang, Kao-Jean;
Lei, Huan-Yao;
Cheng, Jya-Wei

Publication type:

Article

Context shapes: Efficient complementary shape matching for protein-protein docking.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1056, doi. 10.1002/prot.21600

By:

Shentu, Zujun;
Al Hasan, Mohammad;
Bystroff, Christopher;
Zaki, Mohammed J.

Publication type:

Article

X-ray crystal structure of a hypothetical Sua5 protein from Sulfolobus tokodaii strain 7.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1108, doi. 10.1002/prot.21794

By:

Agari, Yoshihiro;
Sato, Shinya;
Wakamatsu, Taisuke;
Bessho, Yoshitaka;
Ebihara, Akio;
Yokoyama, Shigeyuki;
Kuramitsu, Seiki;
Shinkai, Akeo

Publication type:

Article

Crystal structure of TTHA0303 (TT2238), a four-helix bundle protein with an exposed histidine triad from Thermus thermophilus HB8 at 2.0 Å.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1103, doi. 10.1002/prot.21765

By:

Nagata, Koji;
Ohtsuka, Jun;
Takahashi, Mihoko;
Asano, Atsuko;
Iino, Hitoshi;
Ebihara, Akio;
Tanokura, Masaru

Publication type:

Article

Copper binding sites in the C-terminal domain of mouse prion protein: A hybrid (QM/MM) molecular dynamics study.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1084, doi. 10.1002/prot.21604

By:

Colombo, Maria Carola;
VandeVondele, Joost;
Van Doorslaer, Sabine;
Laio, Alessandro;
Guidoni, Leonardo;
Rothlisberger, Ursula

Publication type:

Article

Lipoprotein lipase: A bioinformatics criterion for assessment of mutations as a risk factor for cardiovascular disease.

Published in:

Proteins, 2008, v. 70, n. 3, p. 855, doi. 10.1002/prot.21581

By:

Glisic, Sanja;
Arrigo, Patrizio;
Alavantic, Dragan;
Perovic, Vladimir;
Prljic, Jelena;
Veljkovic, Nevena

Publication type:

Article

Conformational stability and DNA binding energetics of the rat thyroid transcription factor 1 homeodomain.

Published in:

Proteins, 2008, v. 70, n. 3, p. 748, doi. 10.1002/prot.21552

By:

Del Vecchio, Pompea;
Carullo, Paola;
Barone, Guido;
Pagano, Bruno;
Graziano, Giuseppe;
Iannetti, Alessio;
Acquaviva, Renato;
Leonardi, Antonio;
Formisano, Silvestro

Publication type:

Article

GRID-MD-A tool for massive simulation of protein channels.

Published in:

Proteins, 2008, v. 70, n. 3, p. 892, doi. 10.1002/prot.21592

By:

Carrillo, Oliver;
Orozco, Modesto

Publication type:

Article

Second step of hydrolytic dehalogenation in haloalkane dehalogenase investigated by QM/MM methods.

Published in:

Proteins, 2008, v. 70, n. 3, p. 707, doi. 10.1002/prot.21523

By:

Otyepka, Michal;
Banáš, Pavel;
Magistrato, Alessandra;
Carloni, Paolo;
Damborský, Jiří

Publication type:

Article

Crystal structure of the flavin reductase component (HpaC) of 4-hydroxyphenylacetate 3-monooxygenase from Thermus thermophilus HB8: Structural basis for the flavin affinity.

Published in:

Proteins, 2008, v. 70, n. 3, p. 718, doi. 10.1002/prot.21534

By:

Kim, Seong-Hoon;
Hisano, Tamao;
Iwasaki, Wakana;
Ebihara, Akio;
Miki, Kunio

Publication type:

Article

Computational studies of the structure, dynamics and native content of amyloid-like fibrils of ribonuclease A.

Published in:

Proteins, 2008, v. 70, n. 3, p. 863, doi. 10.1002/prot.21648

By:

Colombo, Giorgio;
Meli, Massimiliano;
De Simone, Alfonso

Publication type:

Article

Predicting transmembrane helix pair configurations with knowledge-based distance-dependent pair potentials.

Published in:

Proteins, 2008, v. 70, n. 3, p. 984, doi. 10.1002/prot.21574

By:

Wendel, Christina;
Gohlke, Holger

Publication type:

Article

Exploring the extremes of sequence/structure space with ensemble fold recognition in the program Phyre.

Published in:

Proteins, 2008, v. 70, n. 3, p. 611, doi. 10.1002/prot.21688

By:

Bennett-Lovsey, Riccardo M.;
Herbert, Alex D.;
Sternberg, Michael J. E.;
Kelley, Lawrence A.

Publication type:

Article

Electrostatic contribution to the thermodynamic and kinetic stability of the homotrimeric coiled coil Lpp-56: A computational study.

Published in:

Proteins, 2008, v. 70, n. 3, p. 810, doi. 10.1002/prot.21585

By:

Bjelić, Saša;
Wieninger, Silke;
Jelesarov, Ilian;
Karshikoff, Andrey

Publication type:

Article

A chirality index for investigating protein secondary structures and their time evolution.

Published in:

Proteins, 2008, v. 70, n. 3, p. 667, doi. 10.1002/prot.21578

By:

Pietropaolo, Adriana;
Muccioli, Luca;
Berardi, Roberto;
Zannoni, Claudio

Publication type:

Article

A complete library of amino acid alterations at R306 in Streptomyces clavuligerus deacetoxycephalosporin C synthase demonstrates its structural role in the ring-expansion activity.

Published in:

Proteins, 2008, v. 70, n. 3, p. 739, doi. 10.1002/prot.21549

By:

Sim Goo, Kian;
Song Chua, Chun;
Sim, Tiow-Suan

Publication type:

Article

Structure and biochemical analysis of Kokobera virus helicase.

Published in:

Proteins, 2008, v. 70, n. 3, p. 1120, doi. 10.1002/prot.21812

By:

Speroni, Silvia;
De Colibus, Luigi;
Mastrangelo, Eloise;
Gould, Ernest;
Coutard, Bruno;
Forrester, Naomi L.;
Blanc, Séverine;
Canard, Bruno;
Mattevi, Andrea

Publication type:

Article