Annotating nucleic acid-binding function based on protein structure. (Q30332504)

18 June 2017

title

Annotating nucleic acid-binding function based on protein structure. (English)

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18 June 2017

Eric W Stawiski

1

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18 June 2017

Lydia M Gregoret

series ordinal

2

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18 June 2017

Yael Mandel-Gutfreund

series ordinal

3

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18 June 2017

language of work or name

English

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publication date

1 February 2003

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Journal of Molecular Biology

18 June 2017

published in

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18 June 2017

volume

326

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18 June 2017

issue

4

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18 June 2017

page(s)

1065-1079

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100,000 protein structures for the biologist

18 June 2017

cites work

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

7 January 2021

The Protein Data Bank

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Completeness in structural genomics

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

From structure to function: approaches and limitations

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Basic local alignment search tool

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

The PROSITE database, its status in 1999

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Common fold, common function, common origin?

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Characterization of novel proteins based on known protein structures 1 1Edited by R. Huber

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

The relationship between protein structure and function: a comprehensive survey with application to the yeast genome

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Divergent evolution of enzymatic function: mechanistically diverse superfamilies and functionally distinct suprafamilies

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

An evolutionary trace method defines binding surfaces common to protein families

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Three-dimensional cluster analysis identifies interfaces and functional residue clusters in proteins

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

ConSurf: an algorithmic tool for the identification of functional regions in proteins by surface mapping of phylogenetic information

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Prediction and confirmation of a site critical for effector regulation of RGS domain activity

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Sequence and structure-based prediction of eukaryotic protein phosphorylation sites

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Mapping of protein surface cavities and prediction of enzyme class by a self-organizing neural network

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Analysis of protein-protein interaction sites using surface patches

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

A fast method to predict protein interaction sites from sequences

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Derivation of 3D coordinate templates for searching structural databases: application to Ser-His-Asp catalytic triads in the serine proteinases and lipases

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

TESS: a geometric hashing algorithm for deriving 3D coordinate templates for searching structural databases. Application to enzyme active sites

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Method for prediction of protein function from sequence using the sequence-to-structure-to-function paradigm with application to glutaredoxins/thioredoxins and T1 ribonucleases

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

THEMATICS: a simple computational predictor of enzyme function from structure

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Predicting protein function from structure: unique structural features of proteases

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Electrostatics and flexibility in protein-DNA interactions

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

A role for CH…O interactions in protein-DNA recognition

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Transcription factors: structural families and principles of DNA recognition

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Comprehensive analysis of hydrogen bonds in regulatory protein DNA-complexes: in search of common principles

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Protein-DNA interactions: A structural analysis

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Implication of tubby proteins as transcription factors by structure-based functional analysis

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Membrane binding of peptides containing both basic and aromatic residues. Experimental studies with peptides corresponding to the scaffolding region of caveolin and the effector region of MARCKS.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

The relaxin receptor-binding site geometry suggests a novel gripping mode of interaction

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Electrostatic aspects of protein-protein interactions.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Crystal structure of yeast TATA-binding protein and model for interaction with DNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

The cytochrome P-450cam binding surface as defined by site-directed mutagenesis and electrostatic modeling

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Crystal structures at 2.5 angstrom resolution of seryl-tRNA synthetase complexed with two analogs of seryl adenylate

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

From protein sequence to function

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

An overview of the structures of protein-DNA complexes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Electrostatics and diffusion of molecules in solution: simulations with the University of Houston Brownian dynamics program

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Structural features of protein-nucleic acid recognition sites

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Do salt bridges stabilize proteins? A continuum electrostatic analysis.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Fractal surfaces of proteins.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Protein-RNA interactions: a structural analysis

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

SURFNET: a program for visualizing molecular surfaces, cavities, and intermolecular interactions

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

On the conservation of protein sequences in evolution

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Structural clusters of evolutionary trace residues are statistically significant and common in proteins

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Evolutionary predictions of binding surfaces and interactions.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Protein-DNA interactions: amino acid conservation and the effects of mutations on binding specificity

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Comparison of the predicted and observed secondary structure of T4 phage lysozyme

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Geometric analysis and comparison of protein-DNA interfaces: why is there no simple code for recognition?

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

A framework for the DNA-protein recognition code of the probe helix in transcription factors: the chemical and stereochemical rules

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

The nucleic acid database. A comprehensive relational database of three-dimensional structures of nucleic acids

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Enlarged representative set of protein structures

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Satisfying hydrogen bonding potential in proteins

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

The OPLS [optimized potentials for liquid simulations] potential functions for proteins, energy minimizations for crystals of cyclic peptides and crambin

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

The interpretation of protein structures: Estimation of static accessibility

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

Structure-based functional motif identifies a potential disulfide oxidoreductase active site in the serine/threonine protein phosphatase-1 subfamily

7 January 2021

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)50031-7

inferred from DOI database lookup

7 January 2021

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Identifiers

DOI

10.1016/S0022-2836(03)00031-7

1 reference

18 June 2017

1 reference