Catalysing new reactions during evolution: economy of residues and mechanism (Q47612525)

4 February 2018

title

Catalysing new reactions during evolution: economy of residues and mechanism (English)

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4 February 2018

author

Janet Thornton

series ordinal

3

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4 February 2018

author name string

Gail J Bartlett

series ordinal

1

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4 February 2018

Neera Borkakoti

series ordinal

2

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4 February 2018

language of work or name

English

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publication date

1 August 2003

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4 February 2018

Journal of Molecular Biology

published in

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4 February 2018

volume

331

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4 February 2018

issue

4

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4 February 2018

page(s)

829-860

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4 February 2018

Understanding enzyme superfamilies. Chemistry As the fundamental determinant in the evolution of new catalytic activities

cites work

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Evolution of function in protein superfamilies, from a structural perspective.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Emergence of diverse biochemical activities in evolutionarily conserved structural scaffolds of proteins

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

On the origin of enzymatic species

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Mechanistically diverse enzyme superfamilies: the importance of chemistry in the evolution of catalysis

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

The enolase superfamily: a general strategy for enzyme-catalyzed abstraction of the alpha-protons of carboxylic acids

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Identification of non-heme diiron proteins that catalyze triple bond and epoxy group formation

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

The catalytic domain of the P-type ATPase has the haloacid dehalogenase fold

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Structural and mechanistic studies on 2-oxoglutarate-dependent oxygenases and related enzymes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Can homologous proteins evolve different enzymatic activities?

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Plasticity of enzyme active sites

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Analysis of catalytic residues in enzyme active sites

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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%2FS0022-2836%2803%2900734-4

7 January 2021

The Protein Data Bank

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Structure determination of the N-terminal thioredoxin-like domain of protein disulfide isomerase using multidimensional heteronuclear 13C/15N NMR spectroscopy

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Crystallographic investigation of the dependence of calcium and phosphate ions for notexin

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

X-ray structure at 1.76 A resolution of a polypeptide phospholipase A2 inhibitor

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Crystal structure of the second domain of the human copper chaperone for superoxide dismutase

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Heterodimeric structure of superoxide dismutase in complex with its metallochaperone

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

The structure of nucleotidylated histidine-166 of galactose-1-phosphate uridylyltransferase provides insight into phosphoryl group transfer

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

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1 reference

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1 reference

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1 reference

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1 reference

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Structure of isocitrate lyase, a persistence factor of Mycobacterium tuberculosis

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Mechanism for aldose-ketose interconversion by D-xylose isomerase involving ring opening followed by a 1,2-hydride shift

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Structure of cyclodextrin glycosyltransferase complexed with a maltononaose inhibitor at 2.6 angstrom resolution. Implications for product specificity

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

Crystal structures of L201A mutant of D-amino acid aminotransferase at 2.0 A resolution: implication of the structural role of Leu201 in transamination

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

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1 reference

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1 reference

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1 reference

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1 reference

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1 reference

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1 reference

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1 reference

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1 reference

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1 reference

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

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1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900734-4

inferred from DOI database lookup

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based on heuristic

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1 reference

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DOI

10.1016/S0022-2836(03)00734-4

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4 February 2018

release_yhjbvgrft5fgjkqciriziws6cu

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mapped directly with Wikidata item

24 November 2022

based on heuristic

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4 February 2018