MoViES: molecular vibrations evaluation server for analysis of fluctuational dynamics of proteins and nucleic acids (Q35555734)

8 August 2017

title

MoViES: molecular vibrations evaluation server for analysis of fluctuational dynamics of proteins and nucleic acids (English)

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8 August 2017

Cao ZW

1

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8 August 2017

Xue Y

2

1 reference

8 August 2017

Han LY

3

1 reference

8 August 2017

Xie B

4

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8 August 2017

Zhou H

5

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8 August 2017

Zheng CJ

6

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8 August 2017

Lin HH

7

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8 August 2017

Chen YZ

8

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8 August 2017

language of work or name

English

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publication date

1 July 2004

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8 August 2017

published in

Nucleic Acids Research

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8 August 2017

volume

32

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8 August 2017

issue

Web Server issue

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8 August 2017

page(s)

W679-85

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Transconformations of the SERCA1 Ca-ATPase: A Normal Mode Study

8 August 2017

cites work

1 reference

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Vibrational frequency shifts and relaxation rates for a selected vibrational mode in cytochrome C.

12 July 2018

1 reference

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Normal mode analysis of macromolecular motions in a database framework: developing mode concentration as a useful classifying statistic

12 July 2018

1 reference

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Simplified normal mode analysis of conformational transitions in DNA-dependent polymerases: the elastic network model

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Conformational dynamics in a dipeptide after single-mode vibrational excitation.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Iron normal mode dynamics in (nitrosyl)iron(II)tetraphenylporphyrin from X-ray nuclear resonance data

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Collective vibrational modes in biological molecules investigated by terahertz time-domain spectroscopy

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Contribution of translational and rotational motions to molecular association in aqueous solution

12 July 2018

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The two-dimensional IR nonlinear spectroscopy of a cyclic penta-peptide in relation to its three-dimensional structure

12 July 2018

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Enzyme specificity under dynamic control: a normal mode analysis of alpha-lytic protease

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Polycyclic dinitriles: a novel class of potent GABAergic insecticides provides a new radioligand, [3H]BIDN.

12 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Melting points of lysozyme and ribonuclease A crystals correlated with protein unfolding: a Raman spectroscopic study.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Conformational change in the activation of lipase: an analysis in terms of low-frequency normal modes

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Ligand-induced conformational changes in ras p21: a normal mode and energy minimization analysis.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Pressure effects on the proximal heme pocket in myoglobin probed by Raman and near-infrared absorption spectroscopy

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Structural fluctuations of myoglobin from normal-modes, Mössbauer, Raman, and absorption spectroscopy

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Vibrational normal modes and dynamical stability of DNA triplex poly(dA). 2poly(dT): S-type structure is more stable and in better agreement with observations in solution

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Hydrogen bonding, hydrophobicity, packing, and protein folding

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Premelting base pair opening probability and drug binding constant of a daunomycin-poly d(GCAT).poly d(ATGC) complex

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Normal mode calculation of a netropsin-DNA complex: effect of structural deformation on vibrational spectrum.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Harmonic dynamics of proteins: normal modes and fluctuations in bovine pancreatic trypsin inhibitor

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Normal modes for specific motions of macromolecules: application to the hinge-bending mode of lysozyme

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Contributions of hydrogen bonds of Thr 157 to the thermodynamic stability of phage T4 lysozyme

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Protein normal-mode dynamics: trypsin inhibitor, crambin, ribonuclease and lysozyme

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

The normal modes of the gramicidin-A dimer channel

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Refinement of protein dynamic structure: normal mode refinement

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Normal mode analysis of human lysozyme: study of the relative motion of the two domains and characterization of the harmonic motion

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Dominant forces in protein folding

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Temperature dependence of the low frequency dynamics of myoglobin. Measurement of the vibrational frequency distribution by inelastic neutron scattering

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

The role of a minor groove spine of hydration in stabilizing poly(dA). poly(dT) against fuctuational interbase H-bond disruption in the premelting temperature regime

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Analyzing the normal mode dynamics of macromolecules by the component synthesis method

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Side-chain torsional potentials: effect of dipeptide, protein, and solvent environment

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Normal mode analysis of proteins: a comparison of rigid cluster modes with C(alpha) coarse graining.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Iron normal mode dynamics in a porphyrin-imidazole model for deoxyheme proteins

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Correlation between normal modes in the 20-200 cm-1 frequency range and localized torsion motions related to certain collective motions in proteins.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Raman spectroscopic study of the conformational changes of thyroxine induced by interactions with phospholipid

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Modified self-consistent harmonic approach to thermal fluctuational disruption of disulfide bonds in proteins.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Time-resolved FT-IR spectroscopic investigation of the pH-dependent proton transfer reactions in the E194Q mutant of bacteriorhodopsin

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Vibrational structure of GDP and GTP bound to RAS: an isotope-edited FTIR study

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Hydrogen-bond disruption probability in proteins by a modified self-consistent harmonic approach.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

gamma-phosphate protonation and pH-dependent unfolding of the Ras.GTP.Mg2+ complex: a vibrational spectroscopy study

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Domain motions in dihydrofolate reductase: a molecular dynamics study

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Analysis of the low frequency normal modes of the T-state of aspartate transcarbamylase.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

The contribution of cross‐links to protein stability: A normal mode analysis of the configurational entropy of the native state

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=441522

Normal mode analysis of G-actin

26 September 2018

1 reference

12 December 2020

Vibrational energy transfer in a protein molecule

1 reference

12 December 2020

Normal modes of vibration in bovine pancreatic trypsin inhibitor and its mechanical property

1 reference

12 December 2020

Contribution of hydrogen bonding to the conformational stability of ribonuclease T1

1 reference

12 December 2020

Binding sites of quinones in photosynthetic bacterial reaction centers investigated by light-induced FTIR difference spectroscopy: symmetry of the carbonyl interactions and close equivalence of the QB vibrations in Rhodobacter sphaeroides and Rhodop

1 reference

12 December 2020

Effects of cholesterol side-chain groups and adrenodoxin binding on the vibrational modes of carbon monoxide bound to cytochrome P-450scc: implications of the productive and nonproductive substrate bindings

1 reference

12 December 2020

Motions in hemoglobin studied by normal mode analysis and energy minimization: evidence for the existence of tertiary T-like, quaternary R-like intermediate structures

1 reference

12 December 2020

Vibrational analysis of peptides, polypeptides and proteins. XXVII. Structure of gramicidin S from normal mode analyses of low-energy conformations

1 reference

12 December 2020

Vibrational analysis of peptides, polypeptides, and proteins. XXX. Normal mode analyses of gamma-turns

1 reference

12 December 2020

Theory of pressure-dependent melting of the DNA double helix: Role of strained hydrogen bonds

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKH384

1 reference

journals/nar/CaoXHXZZLC04

8 August 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

8 August 2017

1 reference