1PT132 Development of a force field of backbone dihedral angles for each amino acid using Protein Data Bank(The 50th Annual Meeting of the Biophysical Society of Japan)

Yoshitake Sakae; Yuko Okamoto

doi:10.2142/biophys.52.s91_2

1PT132 Development of a force field of backbone dihedral angles for each amino acid using Protein Data Bank(The 50th Annual Meeting of the Biophysical Society of Japan)

Seibutsu Butsuri ◽

10.2142/biophys.52.s91_2 ◽

2012 ◽

Vol 52 (supplement) ◽

pp. S91

Author(s):

Yoshitake Sakae ◽

Yuko Okamoto

Keyword(s):

Amino Acid ◽

Force Field ◽

Annual Meeting ◽

Protein Data Bank ◽

Data Bank ◽

Dihedral Angles ◽

Biophysical Society

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Modifications to the Protein Data Bank : A new PDB format, Data Deposition, and Validation Report(PDBj: Protein Data Bank Japan,The 52nd Annual Meeting of the Biophysical Society of Japan(BSJ2014))

Seibutsu Butsuri ◽

10.2142/biophys.54.s330_1 ◽

2014 ◽

Vol 54 (supplement1-2) ◽

pp. S330

Author(s):

Genji KURISU

Keyword(s):

Annual Meeting ◽

Protein Data Bank ◽

Data Bank ◽

Biophysical Society

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PDBj-BMRB : Publishing NMR Spectroscopy Derived Data of BioMagResBank in Structured Data Formats, XML and RDF(PDBj: Protein Data Bank Japan,The 51st Annual Meeting of the Biophysical Society of Japan)

Seibutsu Butsuri ◽

10.2142/biophys.53.s286_3 ◽

2013 ◽

Vol 53 (supplement1-2) ◽

pp. S286

Author(s):

Masashi Yokochi

Keyword(s):

Nmr Spectroscopy ◽

Annual Meeting ◽

Protein Data Bank ◽

Data Bank ◽

Structured Data ◽

Data Formats ◽

Biophysical Society ◽

Derived Data

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1PT119 Similarity search system for low-resolutin 3D-EM strcutre data in EM Data Bank and Protein Data Bank(The 50th Annual Meeting of the Biophysical Society of Japan)

Seibutsu Butsuri ◽

10.2142/biophys.52.s88_5 ◽

2012 ◽

Vol 52 (supplement) ◽

pp. S88-S89

Author(s):

Hirofumi Suzuki ◽

Haruki Nakamura

Keyword(s):

Annual Meeting ◽

Protein Data Bank ◽

Similarity Search ◽

Data Bank ◽

Search System ◽

Biophysical Society ◽

3D Em

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2P008 Parameter dependency of an optimized force field for each amino acid(01A. Protein:Structure,Poster,The 52nd Annual Meeting of the Biophysical Society of Japan(BSJ2014))

Seibutsu Butsuri ◽

10.2142/biophys.54.s196_2 ◽

2014 ◽

Vol 54 (supplement1-2) ◽

pp. S196

Author(s):

Yoshitake Sakae ◽

Yuko Okamoto

Keyword(s):

Amino Acid ◽

Force Field ◽

Annual Meeting ◽

Biophysical Society ◽

Parameter Dependency

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The new PDBj web Interface : Customizable, Modern and User-friendly(PDBj: Protein Data Bank Japan,The 51st Annual Meeting of the Biophysical Society of Japan)

Seibutsu Butsuri ◽

10.2142/biophys.53.s286_2 ◽

2013 ◽

Vol 53 (supplement1-2) ◽

pp. S286

Author(s):

Gert-Jan Bekker

Keyword(s):

Annual Meeting ◽

Protein Data Bank ◽

Data Bank ◽

Web Interface ◽

Biophysical Society ◽

User Friendly

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2B1400 Improvement of the Single Amino Acid Potential Force Field and the Application to Structure Prediction of Short Peptides(Proteins:Structure & Function II:Theory, Aggregation,Oral Presentation,The 50th Annual Meeting of the Biophysical Society of Japan)

Seibutsu Butsuri ◽

10.2142/biophys.52.s40_1 ◽

2012 ◽

Vol 52 (supplement) ◽

pp. S40

Author(s):

Michio Iwaoka ◽

Kenichi Dedachi ◽

Taku Shimosato ◽

Toshiya Minezaki

Keyword(s):

Amino Acid ◽

Force Field ◽

Annual Meeting ◽

Structure Prediction ◽

Single Amino Acid ◽

Short Peptides ◽

Potential Force ◽

Potential Force Field ◽

Biophysical Society ◽

Acid Potential

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Tools for highly automated NMR analysis and applications using database(PDBj: Protein Data Bank Japan,The 52nd Annual Meeting of the Biophysical Society of Japan(BSJ2014))

Seibutsu Butsuri ◽

10.2142/biophys.54.s330_3 ◽

2014 ◽

Vol 54 (supplement1-2) ◽

pp. S330

Author(s):

Naohiro KOBAYASHI

Keyword(s):

Annual Meeting ◽

Protein Data Bank ◽

Data Bank ◽

Nmr Analysis ◽

Biophysical Society

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Activities of PDBj and wwPDB : A new PDB format, Data Deposition, Validation, and Data Integration(PDBj: Protein Data Bank Japan,The 51st Annual Meeting of the Biophysical Society of Japan)

Seibutsu Butsuri ◽

10.2142/biophys.53.s286_1 ◽

2013 ◽

Vol 53 (supplement1-2) ◽

pp. S286

Author(s):

Haruki Nakamura

Keyword(s):

Data Integration ◽

Annual Meeting ◽

Protein Data Bank ◽

Data Bank ◽

Biophysical Society

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Browsing searching, and Comparing 3D electron microscopy data(PDBJ: Protein Data Bank Japan,The 52nd Annual Meeting of the Biophysical Society of Japan(BSJ2014))

Seibutsu Butsuri ◽

10.2142/biophys.54.s330_2 ◽

2014 ◽

Vol 54 (supplement1-2) ◽

pp. S330

Author(s):

Hirofumi SUZUKI

Keyword(s):

Electron Microscopy ◽

Annual Meeting ◽

Protein Data Bank ◽

Data Bank ◽

Electron Microscopy Data ◽

3D Electron Microscopy ◽

Biophysical Society ◽

3D Electron ◽

Microscopy Data

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Contmann: A Tool to Calculate Contact Distances Between Amino Acid and Mannose Using Protein Data Bank File at Distance Cutoff

Bioscience Biotechnology Research Communications ◽

10.21786/bbrc/13.4/35 ◽

2020 ◽

Vol 13 (4) ◽

pp. 1868-1870

Author(s):

Afnan Abdalrhman Slama Alomrani

Keyword(s):

Amino Acid ◽

Protein Data Bank ◽

Data Bank ◽

Protein Data Bank File ◽

Distance Cutoff

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