PMID: 8594579Jan 1, 1996Paper

The HSSP database of protein structure-sequence alignments

Nucleic Acids Research
R Schneider, C Sander

Abstract

HSSP is a derived database merging structural three dimensional (3-D) and sequence one dimensional(1-D) information. For each protein of known 3-D structure from the Protein Data Bank (PDB), the database has a multiple sequence alignment of all available homologues and a sequence profile characteristic of the family. The list of homologues is the result of a database search in Swissprot using a position-weighted dynamic programming method for sequence profile alignment (MaxHom). The database is updated frequently. The listed homologues are very likely to have the same 3-D structure as the PDB protein to which they have been aligned. As a result, the database is not only a database of aligned sequence families, but also a database of implied secondary and tertiary structures covering 27% of all Swissprot-stored sequences.

References

May 25, 1977·Journal of Molecular Biology·F C BernsteinM Tasumi
Mar 1, 1992·Protein Science : a Publication of the Protein Society·U HobohmC Sander
May 11, 1992·Nucleic Acids Research·A Bairoch, B Boeckmann
Mar 1, 1990·Journal of Molecular Graphics·G Vriend
Aug 24, 1995·Nature·G CasariC Sander
Feb 1, 1994·Computer Applications in the Biosciences : CABIOS·B RostR Schneider
Sep 5, 1993·Journal of Molecular Biology·L Holm, C Sander
Apr 1, 1993·Trends in Biochemical Sciences·B RostC Sander

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Citations

Mar 12, 2013·Molecules and Cells·Kiejung Park, Ki-Bong Kim
Sep 23, 2003·Journal of Molecular Biology·Patrick AloyRobert B Russell
Oct 22, 2003·Journal of Molecular Biology·Weidong Tian, Jeffrey Skolnick
Oct 7, 2003·Gene·Antonio RojasAntoni Romeu
Jun 1, 1996·Current Opinion in Structural Biology·S Henikoff
Jul 21, 1998·Journal of Biomolecular Structure & Dynamics·A S Kolaskar, R R Joshi
Jan 24, 2007·Bioinformatics·Yanay Ofran, Burkhard Rost
Jul 25, 2007·Bioinformatics·Yanay OfranBurkhard Rost
Jan 21, 2009·Bioinformatics·Xue-wen Chen, Jong Cheol Jeong
Dec 4, 2012·Bioinformatics·Orly Noivirt-BrikYanay Ofran
Jun 28, 2005·Nucleic Acids Research·Goran NeshichAdauto L Mancini
Nov 13, 2010·Nucleic Acids Research·Robbie P JoostenGert Vriend
Jun 30, 2009·BMC Bioinformatics·Ian WalshGianluca Pollastri
Dec 18, 2009·BMC Bioinformatics·Lei DengShuigeng Zhou
Jan 8, 2004·Genome Biology·Anton J EnrightDebora S Marks
Jul 17, 2007·PLoS Computational Biology·Yanay Ofran, Burkhard Rost
Aug 8, 2014·Bioinformatics·Nikolas PapanikolaouIoannis Iliopoulos
Sep 15, 2015·Nucleic Acids Research·Amita BarikRanjit Prasad Bahadur
Feb 26, 2015·Algorithms for Molecular Biology : AMB·Tristan T Aumentado-ArmstrongRobert A Murgita
Jan 1, 1997·Folding & Design·B Rost
Feb 24, 2009·Journal of Molecular Biology·Guy NimrodNir Ben-Tal
Oct 30, 2014·Nucleic Acids Research·Wouter G TouwGert Vriend
Jun 24, 1998·Journal of Molecular Biology·R Samudrala, J Moult
Jan 1, 1997·Proteins·K KarplusC Sander
May 3, 2019·Journal of Molecular Recognition : JMR·Smita P PillaRanjit P Bahadur
Aug 20, 2019·International Journal of Biological Macromolecules·Smita P Pilla, Ranjit Prasad Bahadur
Jan 15, 1998·Biochimica Et Biophysica Acta·T Dandekar, R König

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