The Pfam protein families database

被引：76
|
作者：
Bateman, A
Birney, E
Durbin, R
Eddy, SR
Howe, KL
Sonnhammer, ELL
机构：
[1] Sanger Ctr, Cambridge CB10 1SA, England
[2] Washington Univ, Sch Med, Dept Genet, St Louis, MO 63110 USA
[3] Karolinska Inst, Ctr Genom Res, S-17177 Stockholm, Sweden
来源：
NUCLEIC ACIDS RESEARCH | 2000年 / 28卷 / 01期
关键词：
D O I：
10.1093/nar/28.1.263
中图分类号：
Q5 [生物化学]; Q7 [分子生物学];
学科分类号：
071010 ; 081704 ;
摘要：
Pfam is a large collection of protein multiple sequence alignments and profile hidden Markov models. Pfam is available on the WWW in the UK at http://www.sanger.ac.uk/Software/Pfam/, in Sweden at http://www.cgr.ki.se/Pfam/ and in the US at http:// pfam.wustl.edu/. The latest version (4.3) of Pfam contains 1815 families. These Pfam families match 63% of proteins in SWISS-PROT 37 and TrEMBL 9, For complete genomes Pfam currently matches up to half of the proteins. Genomic DNA can be directly searched against the Pfam library using the Wise2 package.
引用
收藏
页码：263 / 266
页数：4
相关论文
共 50 条
  • [1] The Pfam protein families database
    Punta, Marco
    Coggill, Penny C.
    Eberhardt, Ruth Y.
    Mistry, Jaina
    Tate, John
    Boursnell, Chris
    Pang, Ningze
    Forslund, Kristoffer
    Ceric, Goran
    Clements, Jody
    Heger, Andreas
    Holm, Liisa
    Sonnhammer, Erik L. L.
    Eddy, Sean R.
    Bateman, Alex
    Finn, Robert D.
    NUCLEIC ACIDS RESEARCH, 2012, 40 (D1) : D290 - D301
  • [2] The Pfam protein families database
    Finn, Robert D.
    Mistry, Jaina
    Tate, John
    Coggill, Penny
    Heger, Andreas
    Pollington, Joanne E.
    Gavin, O. Luke
    Gunasekaran, Prasad
    Ceric, Goran
    Forslund, Kristoffer
    Holm, Liisa
    Sonnhammer, Erik L. L.
    Eddy, Sean R.
    Bateman, Alex
    NUCLEIC ACIDS RESEARCH, 2010, 38 : D211 - D222
  • [3] The Pfam protein families database
    Bateman, A
    Coin, L
    Durbin, R
    Finn, RD
    Hollich, V
    Griffiths-Jones, S
    Khanna, A
    Marshall, M
    Moxon, S
    Sonnhammer, ELL
    Studholme, DJ
    Yeats, C
    Eddy, SR
    NUCLEIC ACIDS RESEARCH, 2004, 32 : D138 - D141
  • [4] The Pfam protein families database
    Finn, Robert D.
    Tate, John
    Mistry, Jaina
    Coggill, Penny C.
    Sammut, Stephen John
    Hotz, Hans-Rudolf
    Ceric, Goran
    Forslund, Kristoffer
    Eddy, Sean R.
    Sonnhammer, Erik L. L.
    Bateman, Alex
    NUCLEIC ACIDS RESEARCH, 2008, 36 : D281 - D288
  • [5] The Pfam Protein Families Database
    Bateman, A
    Birney, E
    Cerruti, L
    Durbin, R
    Etwiller, L
    Eddy, SR
    Griffiths-Jones, S
    Howe, KL
    Marshall, M
    Sonnhammer, ELL
    NUCLEIC ACIDS RESEARCH, 2002, 30 (01) : 276 - 280
  • [6] Pfam: the protein families database
    Finn, Robert D.
    Bateman, Alex
    Clements, Jody
    Coggill, Penelope
    Eberhardt, Ruth Y.
    Eddy, Sean R.
    Heger, Andreas
    Hetherington, Kirstie
    Holm, Liisa
    Mistry, Jaina
    Sonnhammer, Erik L. L.
    Tate, John
    Punta, Marco
    NUCLEIC ACIDS RESEARCH, 2014, 42 (D1) : D222 - D230
  • [7] Pfam: The protein families database in 2021
    Mistry, Jaina
    Chuguransky, Sara
    Williams, Lowri
    Qureshi, Matloob
    Salazar, Gustavo A.
    Sonnhammer, Erik L. L.
    Tosatto, Silvio C. E.
    Paladin, Lisanna
    Raj, Shriya
    Richardson, Lorna J.
    Finn, Robert D.
    Bateman, Alex
    NUCLEIC ACIDS RESEARCH, 2021, 49 (D1) : D412 - D419
  • [8] The Pfam protein families database in 2019
    El-Gebali, Sara
    Mistry, Jaina
    Bateman, Alex
    Eddy, Sean R.
    Luciani, Aurelien
    Potter, Simon C.
    Qureshi, Matloob
    Richardson, Lorna J.
    Salazar, Gustavo A.
    Smart, Alfredo
    Sonnhammer, Erik L. L.
    Hirsh, Layla
    Paladin, Lisanna
    Piovesan, Damiano
    Tosatto, Silvio C. E.
    Finn, Robert D.
    NUCLEIC ACIDS RESEARCH, 2019, 47 (D1) : D427 - D432
  • [9] The Pfam protein families database: embracing AI/ML
    Paysan-Lafosse, Typhaine
    Andreeva, Antonina
    Blum, Matthias
    Chuguransky, Sara Rocio
    Grego, Tiago
    Pinto, Beatriz Lazaro
    Salazar, Gustavo A.
    Bileschi, Maxwell L.
    Llinares-Lopez, Felipe
    Meng-Papaxanthos, Laetitia
    Colwell, Lucy J.
    Grishin, Nick, V
    Schaeffer, R. Dustin
    Clementel, Damiano
    Tosatto, Silvio C. E.
    Sonhammer, Erik
    Wood, Valerie
    Bateman, Alex
    NUCLEIC ACIDS RESEARCH, 2024, 53 (D1) : D523 - D534
  • [10] The Pfam protein families database: towards a more sustainable future
    Finn, Robert D.
    Coggill, Penelope
    Eberhardt, Ruth Y.
    Eddy, Sean R.
    Mistry, Jaina
    Mitchell, Alex L.
    Potter, Simon C.
    Punta, Marco
    Qureshi, Matloob
    Sangrador-Vegas, Amaia
    Salazar, Gustavo A.
    Tate, John
    Bateman, Alex
    NUCLEIC ACIDS RESEARCH, 2016, 44 (D1) : D279 - D285
12345