NDLI: Assigning folds to the proteins encoded by the genome of Mycoplasma genitalium

Content Provider	PubMed Central
Author	Fischer, Daniel Eisenberg, David
Copyright Year	1997
Abstract	A crucial step in exploiting the information inherent in genome sequences is to assign to each protein sequence its three-dimensional fold and biological function. Here we describe fold assignment for the proteins encoded by the small genome of Mycoplasma genitalium. The assignment was carried out by our computer server (http://www.doe-mbi.ucla.edu/people/frsvr/frsvr.html), which assigns folds to amino acid sequences by comparing sequence-derived predictions with known structures. Of the total of 468 protein ORFs, 103 (22%) can be assigned a known protein fold with high confidence, as cross-validated with tests on known structures. Of these sequences, 75 (16%) show enough sequence similarity to proteins of known structure that they can also be detected by traditional sequence–sequence comparison methods. That is, the difference of 28 sequences (6%) are assignable by the sequence–structure method of the server but not by current sequence–sequence methods. Of the remaining 78% of sequences in the genome, 18% belong to membrane proteins and the remaining 60% cannot be assigned either because these sequences correspond to no presently known fold or because of insensitivity of the method. At the current rate of determination of new folds by x-ray and NMR methods, extrapolation suggests that folds will be assigned to most soluble proteins in the next decade.
Starting Page	11929
File Format	PDF
ISSN	10916490
e-ISSN	10916490
Journal	Proceedings of the National Academy of Sciences of the United States of America
Issue Number	22
Volume Number	94
Language	English
Publisher	The National Academy of Sciences of the USA
Publisher Date	1997-10-28
Access Restriction	Open
Rights Holder	The National Academy of Sciences of the USA
Subject Keyword	Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Multidisciplinary

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Assigning folds to the proteins encoded by the genome of Mycoplasma genitalium.

Functional Analysis of the Superfamily 1 DNA Helicases Encoded by Mycoplasma pneumoniae and Mycoplasma genitalium

Structural assignments to the Mycoplasma genitalium proteins show extensive gene duplications and domain rearrangements

Ab initio protein structure prediction on a genomic scale: Application to the Mycoplasma genitalium genome

One-step assembly in yeast of 25 overlapping DNA fragments to form a complete synthetic Mycoplasma genitalium genome.

Ab initio protein structure prediction on a genomic scale: application to the Mycoplasma genitalium genome.

A survey of the Mycoplasma genitalium genome by using random sequencing.

Characterization of repetitive DNA in the Mycoplasma genitalium genome: possible role in the generation of antigenic variation.

One-step assembly in yeast of 25 overlapping DNA fragments to form a complete synthetic Mycoplasma genitalium genome

Assigning folds to the proteins encoded by the genome of Mycoplasma genitalium

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Assigning folds to the proteins encoded by the genome of Mycoplasma genitalium.

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