中远程相互作用对不同结构类球状蛋白质的影响。
Influence of medium and long range interactions in different structural classes of globular proteins.
作者信息
Gromiha M M, Selvaraj S
机构信息
International Centre for Genetic Engineering and Biotechnology, Trieste, Italy.
出版信息
J Biol Phys. 1997 Sep;23(3):151-62. doi: 10.1023/A:1004981409616.
Abstract
An analysis of the dependence known three dimensional structure ofglobular proteins on their residue contacts and their interactions providesmuch information about their folding and stability. In this work, we analysethe residue-residue contacts and the role of medium and long rangeinteractions in globular proteins belonging to different structural classes.The results show that while medium range interactions predominate in allalpha class proteins, long range interactions predominate in all beta class.The residues Pro and Gly are found to have lowest medium range contacts,probably due to their helix breaking tendency. The hydrophobic residues Ile,Val and Tyr have higher long range contacts, and hence may serve as goodnucleation centres. Further, the role of charged residues and disulfidebridges in these interactions are also discussed.
摘要
对已知球状蛋白质三维结构对其残基接触及其相互作用的依赖性进行分析，可提供许多有关其折叠和稳定性的信息。在这项工作中，我们分析了不同结构类别的球状蛋白质中残基与残基的接触以及中远程相互作用的作用。结果表明，虽然中程相互作用在所有α类蛋白质中占主导地位，但远程相互作用在所有β类蛋白质中占主导地位。发现脯氨酸和甘氨酸残基的中程接触最少，这可能是由于它们的螺旋破坏倾向。疏水残基异亮氨酸、缬氨酸和酪氨酸具有较高的远程接触，因此可能是良好的成核中心。此外，还讨论了带电荷残基和二硫键在这些相互作用中的作用。
相似文献
1
Influence of medium and long range interactions in different structural classes of globular proteins.中远程相互作用对不同结构类球状蛋白质的影响。
J Biol Phys. 1997 Sep;23(3):151-62. doi: 10.1023/A:1004981409616.
2
Role of medium--and long-range interactions in discriminating globular and membrane proteins.中远程相互作用在区分球状蛋白和膜蛋白中的作用
Int J Biol Macromol. 2001 Jul 19;29(1):25-34. doi: 10.1016/s0141-8130(01)00150-7.
3
Influence of medium and long range interactions in protein folding.中长程相互作用在蛋白质折叠中的影响
Prep Biochem Biotechnol. 1999 Nov;29(4):339-51. doi: 10.1080/10826069908544933.
4
Influence of Medium and Long Range Interactions in (α/β)(8) Barrel Proteins.（α/β）8桶状蛋白中长程相互作用的影响
J Biol Phys. 1997 Dec;23(4):209-17. doi: 10.1023/A:1005071232497.
5
Importance of long-range interactions in protein folding.长程相互作用在蛋白质折叠中的重要性。
Biophys Chem. 1999 Mar 8;77(1):49-68. doi: 10.1016/s0301-4622(99)00010-1.
6
Influence of medium- and long-range interactions in different folding types of globular proteins.中远程相互作用对不同折叠类型球状蛋白的影响。
Biophys Chem. 2002 Oct 16;99(2):189-98. doi: 10.1016/s0301-4622(02)00183-7.
7
Inter-residue interactions in protein folding and stability.蛋白质折叠与稳定性中的残基间相互作用。
Prog Biophys Mol Biol. 2004 Oct;86(2):235-77. doi: 10.1016/j.pbiomolbio.2003.09.003.
8
Predicting protein structure from long-range contacts.从长程接触预测蛋白质结构。
Biophys Chem. 2003 Aug 1;105(1):11-21. doi: 10.1016/s0301-4622(03)00033-4.
9
Analysis of hydrophobic and charged patches and influence of medium- and long-range interactions in molecular chaperones.
Biophys Chem. 1998 Nov 16;75(2):105-13. doi: 10.1016/s0301-4622(98)00198-7.
10
Variation of amino acid properties in all-beta globular and outer membrane protein structures.全β球蛋白和外膜蛋白结构中氨基酸性质的变化。
Int J Biol Macromol. 2003 Sep;32(3-5):93-8. doi: 10.1016/s0141-8130(03)00042-4.
引用本文的文献
1
Molecular evolution and genetic diversity of defective chorion 1 in Anastrepha fraterculus and Anastrepha obliqua (Diptera, Tephritidae).小实蝇和斜带实蝇（双翅目：实蝇科）中绒毛蛋白缺陷1的分子进化与遗传多样性
Dev Genes Evol. 2024 Dec;234(2):153-171. doi: 10.1007/s00427-024-00723-3. Epub 2024 Nov 7.
2
ARIP: A Tool for Precise Interatomic Contact Area and Volume Calculation in Proteins.ARIP：用于精确计算蛋白质中原子间接触面积和体积的工具。
Int J Mol Sci. 2024 May 9;25(10):5176. doi: 10.3390/ijms25105176.
3
Importance of Inter-residue Contacts for Understanding Protein Folding and Unfolding Rates, Remote Homology, and Drug Design.残基间接触对于理解蛋白质折叠与解折叠速率、远程同源性及药物设计的重要性。
Mol Biotechnol. 2025 Mar;67(3):862-884. doi: 10.1007/s12033-024-01119-4. Epub 2024 Mar 18.
4
Artificial Proteins Designed from G3LEA Contribute to Enhancement of Oxidation Tolerance in in a Chaperone-like Manner.由G3LEA设计的人工蛋白质以伴侣样方式有助于增强氧化耐受性。
Antioxidants (Basel). 2023 May 24;12(6):1147. doi: 10.3390/antiox12061147.
5
Protein-protein interaction prediction with deep learning: A comprehensive review.基于深度学习的蛋白质-蛋白质相互作用预测：综述
Comput Struct Biotechnol J. 2022 Sep 19;20:5316-5341. doi: 10.1016/j.csbj.2022.08.070. eCollection 2022.
6
rsRNASP: A residue-separation-based statistical potential for RNA 3D structure evaluation.rsRNASP：一种基于残基分离的 RNA 三维结构评估统计势。
Biophys J. 2022 Jan 4;121(1):142-156. doi: 10.1016/j.bpj.2021.11.016. Epub 2021 Nov 17.
7
Dihedral angle preferences of amino acid residues forming various non-local interactions in proteins.在蛋白质中形成各种非局部相互作用的氨基酸残基的二面角偏好。
J Biol Phys. 2017 Jun;43(2):265-278. doi: 10.1007/s10867-017-9451-x. Epub 2017 Jun 2.
8
Accurate disulfide-bonding network predictions improve ab initio structure prediction of cysteine-rich proteins.准确的二硫键网络预测可改善富含半胱氨酸蛋白质的从头结构预测。
Bioinformatics. 2015 Dec 1;31(23):3773-81. doi: 10.1093/bioinformatics/btv459. Epub 2015 Aug 7.
9
Aromatic-aromatic interactions: analysis of π-π interactions in interleukins and TNF proteins.芳香-芳香相互作用：白细胞介素和肿瘤坏死因子蛋白中π-π相互作用的分析。
Bioinformation. 2013 Apr 30;9(8):432-9. doi: 10.6026/97320630009432. Print 2013.
10
Influence of Medium and Long Range Interactions in (α/β)(8) Barrel Proteins.（α/β）8桶状蛋白中长程相互作用的影响
J Biol Phys. 1997 Dec;23(4):209-17. doi: 10.1023/A:1005071232497.
本文引用的文献
1
Conformational study of angiotensin II.
Biopolymers. 1996 Feb;38(2):183-90. doi: 10.1002/(SICI)1097-0282(199602)38:2%3C183::AID-BIP5%3E3.0.CO;2-R.
2
Progress in protein structure prediction?蛋白质结构预测取得进展了吗？
Trends Biochem Sci. 1993 Apr;18(4):120-3. doi: 10.1016/0968-0004(93)90017-h.
3
Packing and hydrophobicity effects on protein folding and stability: effects of beta-branched amino acids, valine and isoleucine, on the formation and stability of two-stranded alpha-helical coiled coils/leucine zippers.包装和疏水性对蛋白质折叠与稳定性的影响：β-支链氨基酸、缬氨酸和异亮氨酸对双链α-螺旋卷曲螺旋/亮氨酸拉链形成及稳定性的影响。
Protein Sci. 1993 Mar;2(3):383-94. doi: 10.1002/pro.5560020310.
4
The role of local tight packing of hydrophobic groups in beta-structure.
Proteins. 1993 Jan;15(1):62-70. doi: 10.1002/prot.340150108.
5
Structural and genetic analysis of protein stability.蛋白质稳定性的结构与遗传分析
Annu Rev Biochem. 1993;62:139-60. doi: 10.1146/annurev.bi.62.070193.001035.
6
Correlated mutations and residue contacts in proteins.蛋白质中的相关突变和残基接触
Proteins. 1994 Apr;18(4):309-17. doi: 10.1002/prot.340180402.
7
Different sequence environments of amino acid residues involved and not involved in long-range interactions in proteins.
Int J Pept Protein Res. 1994 Feb;43(2):205-8. doi: 10.1111/j.1399-3011.1994.tb00524.x.
8
Measuring residue associations in protein structures. Possible implications for protein folding.测量蛋白质结构中的残基关联。对蛋白质折叠的潜在影响。
J Mol Biol. 1994 Jun 3;239(2):227-48. doi: 10.1006/jmbi.1994.1365.
9
Contribution of unusual arginine-arginine short-range interactions to stabilization and recognition in proteins.异常的精氨酸-精氨酸短程相互作用对蛋白质稳定性和识别的贡献。
J Protein Chem. 1994 Feb;13(2):195-215. doi: 10.1007/BF01891978.
10
Prediction of protein secondary structures from their hydrophobic characteristics.
Int J Pept Protein Res. 1995 Mar;45(3):225-40. doi: 10.1111/j.1399-3011.1995.tb01484.x.
Zotero 插件