Ramachandran plot on the web

被引:70
|
作者
Sheik, SS [1 ]
Sundararajan, P [1 ]
Hussain, ASZ [1 ]
Sekar, K [1 ]
机构
[1] Indian Inst Sci, Supercomp Educ & Res Ctr, Bioinformat Ctr, Bangalore 560012, Karnataka, India
关键词
D O I
10.1093/bioinformatics/18.11.1548
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
A graphics package has been developed to display the main chain torsion angles phi, psi (phi, Psi); (Ramachandran angles) in a protein of known structure. In addition, the package calculates the Ramachandran angles at the central residue in the stretch of three amino acids having specified the flanking residue types. The package displays the Ramachandran angles along with a detailed analysis output. This software is incorporated with all the protein structures available in the Protein Databank.
引用
收藏
页码:1548 / 1549
页数:2
相关论文
共 50 条
  • [21] Alternatingly twisted β-hairpins and nonglycine residues in the disallowed II' region of the Ramachandran plot
    Torshin, Ivan Yu.
    Esipova, Natalya G.
    Tumanyan, Vladimir G.
    JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS, 2014, 32 (02): : 198 - 208
  • [22] Importance of mutant position in Ramachandran plot for predicting protein stability of surface mutations
    Gromiha, MM
    Oobatake, M
    Kono, H
    Uedaira, H
    Sarai, A
    BIOPOLYMERS, 2002, 64 (04) : 210 - 220
  • [23] Unfavorable Regions in the Ramachandran Plot: Is It Really Steric Hindrance? The Interacting Quantum Atoms Perspective
    Maxwell, Peter I.
    Popelier, Paul L. A.
    JOURNAL OF COMPUTATIONAL CHEMISTRY, 2017, 38 (29) : 2459 - 2474
  • [24] dRama: Differential Ramachandran Plot as a Tool to Analyze Subtle Changes in Protein Secondary Structure
    Batys, Piotr
    Krzemien, Leszek
    Barbasz, Jakub
    PROTEOMICS CLINICAL APPLICATIONS, 2025, 19 (01)
  • [25] Revisiting the Ramachandran plot based on statistical analysis of static and dynamic characteristics of protein structures
    Park, Soon Woo
    Lee, Byung Ho
    Song, Seung Hun
    Kim, Moon Ki
    JOURNAL OF STRUCTURAL BIOLOGY, 2023, 215 (01)
  • [26] Thermodynamic and structural characterization of Asn and Ala residues in the disallowed II′ region of the Ramachandran plot
    Vega, MC
    Martínez, JC
    Serrano, L
    PROTEIN SCIENCE, 2000, 9 (12) : 2322 - 2328
  • [27] Following Ramachandran 2: exit vector plot (EVP) analysis of disubstituted saturated rings
    Grygorenko, Oleksandr O.
    Demenko, Daryna
    Volochnyuk, Dmitry M.
    Komarov, Igor V.
    NEW JOURNAL OF CHEMISTRY, 2018, 42 (11) : 8355 - 8365
  • [28] Integration of deep learning with Ramachandran plot molecular dynamics simulation for genetic variant classification
    Tam, Benjamin
    Qin, Zixin
    Zhao, Bojin
    Wang, San Ming
    Lei, Chon Lok
    ISCIENCE, 2023, 26 (03)
  • [29] Accurate geometries for "Mountain pass" regions of the Ramachandran plot using quantum chemical calculations
    Jiang, Zhongming
    Biczysko, Malgorzata
    Moriarty, Nigel W.
    PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2018, 86 (03) : 273 - 278