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Pfam protein families database

by Robert D. Finn, John Tate, Jaina Mistry, Penny C. Coggill, Stephen John Sammut, Hans-rudolf Hotz, Goran Ceric, Kristoffer Forslund, Sean R. Eddy, Erik L. L. Sonnhammer, Alex Bateman - Nucleic Acids Research, 2008, 36(Database issue): D281–D288
"... Pfam is a comprehensive collection of protein domains and families, represented as multiple sequence alignments and as profile hidden Markov models. The current release of Pfam (22.0) contains 9318 protein families. Pfam is now based not only on the UniProtKB sequence database, but also on NCBI GenP ..."
Abstract - Cited by 771 (13 self) - Add to MetaCart
Pfam is a comprehensive collection of protein domains and families, represented as multiple sequence alignments and as profile hidden Markov models. The current release of Pfam (22.0) contains 9318 protein families. Pfam is now based not only on the UniProtKB sequence database, but also on NCBI Gen

The Pfam protein families database

by Alex Bateman, Lachlan Coin, Richard Durbin, Robert D. Finn, Volker Hollich, Ajay Khanna, Mhairi Marshall, Simon Moxon, Erik L. L. Sonnhammer, David J. Studholme, Corin Yeats, Sean R. Eddy - Nucleic Acids Res , 2002
"... Pfam is a large collection of protein families and domains. Over the past 2 years the number of families in Pfam has doubled and now stands at 6190 (version 10.0). Methodology improvements for searching the Pfam collection locally as well as via the web are described. Other recent innovations includ ..."
Abstract - Cited by 1070 (39 self) - Add to MetaCart
Pfam is a large collection of protein families and domains. Over the past 2 years the number of families in Pfam has doubled and now stands at 6190 (version 10.0). Methodology improvements for searching the Pfam collection locally as well as via the web are described. Other recent innovations

The Pfam protein families database

by Marco Punta, Penny C. Coggill, Ruth Y. Eberhardt, Jaina Mistry, John Tate, Chris Boursnell, Ningze Pang, Kristoffer Forslund, Goran Ceric, Jody Clements, Andreas Heger, Liisa Holm, Erik L. L. Sonnhammer, Sean R. Eddy, Alex Bateman, Robert D. Finn - Nucleic Acids Res , 2012
"... Pfam is a widely used database of protein families, currently containing more than 13 000 manually curated protein families as of release 26.0. Pfam is available via servers in the UK ..."
Abstract - Cited by 286 (9 self) - Add to MetaCart
Pfam is a widely used database of protein families, currently containing more than 13 000 manually curated protein families as of release 26.0. Pfam is available via servers in the UK

An evolutionary trace method defines binding surfaces common to protein families

by Olivier Lichtarge, Henry R. Bourne, Fred E. Cohen - J. Mol. Biol , 1996
"... 1Departments of Cellular and X-ray or NMR structures of proteins are often derived without their Molecular Pharmacology and ligands, and even when the structure of a full complex is available, the area Medicine and of contact that is functionally and energetically significant may be a 2Department of ..."
Abstract - Cited by 355 (31 self) - Add to MetaCart
1Departments of Cellular and X-ray or NMR structures of proteins are often derived without their Molecular Pharmacology and ligands, and even when the structure of a full complex is available, the area Medicine and of contact that is functionally and energetically significant may be a 2Department

Hidden Markov models in computational biology: applications to protein modeling

by Anders Krogh, Michael Brown, I. Saira Mian, Kimmen Sjölander, David Haussler - JOURNAL OF MOLECULAR BIOLOGY , 1994
"... Hidden.Markov Models (HMMs) are applied t.0 the problems of statistical modeling, database searching and multiple sequence alignment of protein families and protein domains. These methods are demonstrated the on globin family, the protein kinase catalytic domain, and the EF-hand calcium binding moti ..."
Abstract - Cited by 655 (39 self) - Add to MetaCart
Hidden.Markov Models (HMMs) are applied t.0 the problems of statistical modeling, database searching and multiple sequence alignment of protein families and protein domains. These methods are demonstrated the on globin family, the protein kinase catalytic domain, and the EF-hand calcium binding

Repeat Membrane Protein Family in

by Richard John, Characterisation Pq-loop, Phd Thesis, Arabidopsis Thaliana, Richard John Pattison , 2008
"... membrane protein family in arabidopsis thaliana. ..."
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membrane protein family in arabidopsis thaliana.

SCOP: a structural classification of proteins database for the investigation of sequences and structures.

by Tim J P Hubbard , Bart Ailey , Steven E Brenner , Alexey G Murzin , Cyrus Chothia - J. Mol. Biol. , 1995
"... ABSTRACT The Structural Classification of Proteins (SCOP) database provides a detailed and comprehensive description of the relationships of all known proteins structures. The classification is on hierarchical levels: the first two levels, family and superfamily, describe near and far evolutionary ..."
Abstract - Cited by 1552 (24 self) - Add to MetaCart
ABSTRACT The Structural Classification of Proteins (SCOP) database provides a detailed and comprehensive description of the relationships of all known proteins structures. The classification is on hierarchical levels: the first two levels, family and superfamily, describe near and far evolutionary

The complete genome sequence of Escherichia coli K-12

by Frederick R. Blattner, Guy Plunkett Iii, Craig A. Bloch, Nicole T. Perna, Valerie Burl, Monica Riley, Julio Collado-vides, Jeremy D. Glasner, Christopher K. Rode, George F. Mayhew, Jason Gregor, Nelson Wayne Davis, Heather A. Kirkpatrick, Michael A. Goeden, Debra J. Rose, Bob Mau, Ying Shao - Science , 1997
"... The 4,639,221–base pair sequence of Escherichia coli K-12 is presented. Of 4288 protein-coding genes annotated, 38 percent have no attributed function. Comparison with five other sequenced microbes reveals ubiquitous as well as narrowly distributed gene families; many families of similar genes withi ..."
Abstract - Cited by 1129 (39 self) - Add to MetaCart
The 4,639,221–base pair sequence of Escherichia coli K-12 is presented. Of 4288 protein-coding genes annotated, 38 percent have no attributed function. Comparison with five other sequenced microbes reveals ubiquitous as well as narrowly distributed gene families; many families of similar genes

CATH -- a hierarchic classification of protein domain structures

by C A Orengo, A D Michie, S Jones, D T Jones, M B Swindells, J M Thornton - STRUCTURE , 1997
"... Background: Protein evolution gives rise to families of structurally related proteins, within which sequence identities can be extremely low. As a result, structure-based classifications can be effective at identifying unanticipated relationships in known structures and in optimal cases function can ..."
Abstract - Cited by 470 (33 self) - Add to MetaCart
Background: Protein evolution gives rise to families of structurally related proteins, within which sequence identities can be extremely low. As a result, structure-based classifications can be effective at identifying unanticipated relationships in known structures and in optimal cases function

Rho GTPases and the actin cytoskeleton

by Alan Hall - Science , 1998
"... The actin cytoskeleton mediates a variety of essential biological functions in all eukaryotic cells. In addition to providing a structural framework around which cell shape and polarity are defined, its dynamic properties provide the driving force for cells to move and to divide. Understanding the b ..."
Abstract - Cited by 615 (4 self) - Add to MetaCart
the biochemical mechanisms that control the organization of actin is thus a major goal of contemporary cell biology, with implications for health and disease. Members of the Rho family of small guanosine triphosphatases have emerged as key regulators of the actin cytoskeleton, and furthermore, through
Results 1 - 10 of 25,554