Applicability of the nearest-neighbour model for pseudoknot RNAs

被引：3
|
作者：
Satpathi, Sagar [1 ]
Endoh, Tamaki [1 ]
Sugimoto, Naoki [1 ,2 ]
机构：
[1] Konan Univ, Frontier Inst Biomol Engn Res FIBER, 7-1-20 Minatojima Minamimachi, Kobe, Hyogo 6500047, Japan
[2] Konan Univ, Grad Sch Frontiers Innovat Res Sci & Technol FIRS, 7-1-20 Minatojima Minamimachi, Kobe, Hyogo 6500047, Japan
来源：
CHEMICAL COMMUNICATIONS | 2022年 / 58卷 / 40期
基金：
日本学术振兴会;
关键词：
THERMODYNAMIC PARAMETERS; SECONDARY STRUCTURE; STABILITY; PREDICTION; JUNCTION;
D O I：
10.1039/d1cc07094k
中图分类号：
O6 [化学];
学科分类号：
0703 ;
摘要：
The validity of the nearest-neighbour (NN) model was verified in an RNA pseudoknot (PK) structure. The thermodynamic parameters of the second hairpin stem (S2) region, which separates the PK from a hairpin structure, were monitored using CD and UV melting. Different PKs with identical NN base pairs in the S2 region exhibited similar thermodynamic parameters, highlighting the validity of the NN model in this RNA tertiary structure motif.
引用
收藏
页码：5952 / 5955
页数：5
相关论文
共 50 条
  • [21] THE TRIANGULAR ANTIFERROMAGNET WITH INFINITE NEAREST-NEIGHBOUR COUPLING
    EINEVOLL, G
    HEMMER, PC
    JOURNAL OF PHYSICS C-SOLID STATE PHYSICS, 1988, 21 (16): : L615 - L621
  • [22] PRINCIPLES, PRACTICE AND PITFALLS OF NEAREST-NEIGHBOUR ANALYSIS
    PINDER, DA
    WITHERIC.ME
    GEOGRAPHY, 1972, 57 (257) : 277 - 288
  • [23] Likelihood inference in nearest-neighbour classification models
    Holmes, CC
    Adams, NM
    BIOMETRIKA, 2003, 90 (01) : 99 - 112
  • [24] Superconductivity in the extended Hubbard model with more than nearest-neighbour contributions
    Szabo, Z
    Gulacsi, Z
    PHILOSOPHICAL MAGAZINE B-PHYSICS OF CONDENSED MATTER STATISTICAL MECHANICS ELECTRONIC OPTICAL AND MAGNETIC PROPERTIES, 1997, 76 (06): : 911 - 928
  • [25] Generation of permutations with nearest-neighbour interconnected switches
    Giglmayr, J
    Guther, J
    ICECS 96 - PROCEEDINGS OF THE THIRD IEEE INTERNATIONAL CONFERENCE ON ELECTRONICS, CIRCUITS, AND SYSTEMS, VOLS 1 AND 2, 1996, : 456 - 459
  • [26] Existence of 'nearest-neighbour' spatial Gibbs models
    Bertin, E
    Billiot, JM
    Drouilhet, R
    ADVANCES IN APPLIED PROBABILITY, 1999, 31 (04) : 895 - 909
  • [27] Multi-functional nearest-neighbour classification
    Yanpeng Qu
    Changjing Shang
    Neil Mac Parthaláin
    Wei Wu
    Qiang Shen
    Soft Computing, 2018, 22 : 2717 - 2730
  • [28] NEAREST-NEIGHBOUR SYSTEMS AND AUTO-LOGISTIC MODEL FOR BINARY DATA
    BESAG, JE
    JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY, 1972, 34 (01) : 75 - &
  • [29] The square lattice Ising model with frustrated nearest-neighbour inter-action
    Badehdah, M
    Benyoussef, A
    Touzani, M
    PHYSICA B, 1998, 254 (3-4): : 267 - 272
  • [30] Dynamics of Ising spin chains with nearest-neighbour and next-nearest-neighbour interactions in random fields
    Ismail, G
    Bannora, K
    Hassan, S
    PHYSICA STATUS SOLIDI B-BASIC SOLID STATE PHYSICS, 2004, 241 (15): : 3607 - 3623
12345