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Cyrus Chothia

Research Profile

Chemicals & Drugs

Concepts & Ideas

Genes & Molecular Sequences

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Publications

TOP 3
Tony E Lewis; Federico Minneci; Alex Mitchell; Alexey G Murzin; Bernardo Ochoa-Montaño; Owen J L Rackham; Ian Sillitoe; James Smith; Michael J E Sternberg; Sameer Velankar; Corin Yeats; Antonina Andreeva; Tom L Blundell; Daniel W A Buchan; Cyrus Chothia; Alison Cuff; Jose M Dana; Ioannis Filippis; Julian Gough; Sarah Hunter; David T Jones; Lawrence A Kelley; Gerard J Kleywegt; Christine Orengo
Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains.
Tina Perica; Cyrus Chothia; Sarah A Teichmann
Evolution of oligomeric state through geometric coupling of protein interfaces.
David A de Lima Morais; Hai Fang; Owen J L Rackham; Derek Wilson; Ralph Pethica; Cyrus Chothia; Julian Gough
SUPERFAMILY 1.75 including a domain-centric gene ontology method.

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All Publications

2013: Tony E Lewis; Federico Minneci; Alex Mitchell; Alexey G Murzin; Bernardo Ochoa-Montaño; Owen J L Rackham; Ian Sillitoe; James Smith; Michael J E Sternberg; Sameer Velankar; Corin Yeats; Antonina Andreeva; Tom L Blundell; Daniel W A Buchan; Cyrus Chothia; Alison Cuff; Jose M Dana; Ioannis Filippis; Julian Gough; Sarah Hunter; David T Jones; Lawrence A Kelley; Gerard J Kleywegt; Christine Orengo
Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains.
Nucleic acids research 2013;41(Database issue):D499-507.
2012: Tina Perica; Cyrus Chothia; Sarah A Teichmann
Evolution of oligomeric state through geometric coupling of protein interfaces.
Proceedings of the National Academy of Sciences of the United States of America 2012;109(21):8127-32.
2011: David A de Lima Morais; Hai Fang; Owen J L Rackham; Derek Wilson; Ralph Pethica; Cyrus Chothia; Julian Gough
SUPERFAMILY 1.75 including a domain-centric gene ontology method.
Nucleic acids research 2011;39(Database issue):D427-34.
2010: Tina Perica; Cyrus Chothia
Ubiquitin--molecular mechanisms for recognition of different structures.
Current opinion in structural biology 2010;20(3):367-76.
2009: Cyrus Chothia; Julian Gough
Genomic and structural aspects of protein evolution.
The Biochemical journal 2009;419(1):15-28.
2008: Antonina Andreeva; Dave Howorth; John-Marc Chandonia; Steven E Brenner; Tim Hubbard; Cyrus Chothia; Alexey G Murzin
Data growth and its impact on the SCOP database: new developments.
Nucleic acids research 2008;36(Database issue):D419-25.
2007: Rajkumar Sasidharan; Cyrus Chothia
The selection of acceptable protein mutations.
Proceedings of the National Academy of Sciences of the United States of America 2007;104(24):10080-5.
2007: Matthew Bashton; Cyrus Chothia
The generation of new protein functions by the combination of domains.
Structure (London, England : 1993) 2007;15(1):85-99.
2007: Derek Wilson; Martin Madera; Christine Vogel; Cyrus Chothia; Julian Gough
The SUPERFAMILY database in 2007: families and functions.
Nucleic acids research 2007;35(Database issue):D308-13.
2006: emmanuel levy; Jose Pereira-Leal; Cyrus Chothia; Sarah A Teichmann
3D complex: a structural classification of protein complexes.
PLoS computational biology 2006;2(11):e155.
2006: Christine Vogel; Cyrus Chothia
Protein family expansions and biological complexity.
PLoS computational biology 2006;2(5):e48.
2006: Jung-Hoon Han; Nicola Kerrison; Cyrus Chothia; Sarah A Teichmann
Divergence of interdomain geometry in two-domain proteins.
Structure (London, England : 1993) 2006;14(5):935-45.
2004: Bernard de Bono; Martin Madera; Cyrus Chothia
VH gene segments in the mouse and human genomes.
Journal of molecular biology 2004;342(1):131-43.
2004: Julian Gough; Cyrus Chothia
The linked conservation of structure and function in a family of high diversity: the monomeric cupredoxins.
Structure (London, England : 1993) 2004;12(6):917-25.
2004: Christine Vogel; Matthew Bashton; Nicola D Kerrison; Cyrus Chothia; Sarah A Teichmann
Structure, function and evolution of multidomain proteins.
Current opinion in structural biology 2004;14(2):208-16.
2004: Martin Madera; Christine Vogel; Sarah K Kummerfeld; Cyrus Chothia; Julian Gough
The SUPERFAMILY database in 2004: additions and improvements.
Nucleic acids research 2004;32(Database issue):D235-9.
2004: Antonina Andreeva; Dave Howorth; Steven E Brenner; Tim Hubbard; Cyrus Chothia; Alexey G Murzin
SCOP database in 2004: refinements integrate structure and sequence family data.
Nucleic acids research 2004;32(Database issue):D226-9.
2003: Christine Vogel; Sarah A Teichmann; Cyrus Chothia
The immunoglobulin superfamily in Drosophila melanogaster and Caenorhabditis elegans and the evolution of complexity.
Development (Cambridge, England) 2003;130(25):6317-28.
2003: Bernard de Bono; Cyrus Chothia
Exegesis: a procedure to improve gene predictions and its use to find immunoglobulin superfamily proteins in the human and mouse genomes.
Nucleic acids research 2003;31(21):6096-103.
2003: Cyrus Chothia; Julian Gough; Christine Vogel; Sarah A Teichmann
Evolution of the protein repertoire.
Science (New York, N.Y.) 2003;300(5626):1701-3.
2002: Emma E Hill; Veronica Morea; Cyrus Chothia
Sequence conservation in families whose members have little or no sequence similarity: the four-helical cytokines and cytochromes.
Journal of molecular biology 2002;322(1):205-33.
2002: Oliver Jardine; Julian Gough; Cyrus Chothia; Sarah A Teichmann
Comparison of the small molecule metabolic enzymes of Escherichia coli and Saccharomyces cerevisiae.
Genome research 2002;12(6):916-29.
2002: Matthew Bashton; Cyrus Chothia
The geometry of domain combination in proteins.
Journal of molecular biology 2002;315(4):927-39.
2002: Julian Gough; Cyrus Chothia
SUPERFAMILY: HMMs representing all proteins of known structure. SCOP sequence searches, alignments and genome assignments.
Nucleic acids research 2002;30(1):268-72.
2002: Loredana Lo Conte; Steven E Brenner; Tim Hubbard; Cyrus Chothia; Alexey G Murzin
SCOP database in 2002: refinements accommodate structural genomics.
Nucleic acids research 2002;30(1):264-7.
2001: Sarah A Teichmann; Stuart C G Rison; Janet M Thornton; M Riley; J Gough; Cyrus Chothia
Small-molecule metabolism: an enzyme mosaic.
Trends in biotechnology 2001;19(12):482-6.
2001: Julian Gough; Kevin Karplus; Richard Hughey; Cyrus Chothia
Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure.
Journal of molecular biology 2001;313(4):903-19.
2001: Sarah A Teichmann; Stuart C G Rison; Janet M Thornton; M Riley; J Gough; Cyrus Chothia
The evolution and structural anatomy of the small molecule metabolic pathways in Escherichia coli.
Journal of molecular biology 2001;311(4):693-708.
2001: Sarah A Teichmann; Alexey G Murzin; Cyrus Chothia
Determination of protein function, evolution and interactions by structural genomics.
Current opinion in structural biology 2001;11(3):354-63.
2001: E Hill; Ian D Broadbent; Cyrus Chothia; Jonathan Pettitt
Cadherin superfamily proteins in Caenorhabditis elegans and Drosophila melanogaster.
Journal of molecular biology 2001;305(5):1011-24.
2000: Sarah A Teichmann; Cyrus Chothia
Immunoglobulin superfamily proteins in Caenorhabditis elegans.
Journal of molecular biology 2000;296(5):1367-83.
2000: Sarah A Teichmann; Cyrus Chothia; G M Church; J Park
Fast assignment of protein structures to sequences using the intermediate sequence library PDB-ISL.
Bioinformatics (Oxford, England) 2000;16(2):117-24.
2000: B Al-Lazikani; Arthur M Lesk; Cyrus Chothia
Canonical structures for the hypervariable regions of T cell alphabeta receptors.
Journal of molecular biology 2000;295(4):979-95.
2000: Loredana Lo Conte; B Ailey; Tim Hubbard; Steven E Brenner; Alexey G Murzin; Cyrus Chothia
SCOP: a structural classification of proteins database.
Nucleic acids research 2000;28(1):257-9.
1999: Sarah A Teichmann; Cyrus Chothia; M Gerstein
Advances in structural genomics.
Current opinion in structural biology 1999;9(3):390-9.
1999: Loredana Lo Conte; Cyrus Chothia; J Janin
The atomic structure of protein-protein recognition sites.
Journal of molecular biology 1999;285(5):2177-98.
1999: Tim Hubbard; B Ailey; Steven E Brenner; Alexey G Murzin; Cyrus Chothia
SCOP: a Structural Classification of Proteins database.
Nucleic acids research 1999;27(1):254-6.
1998: J Park; Kevin Karplus; C Barrett; Richard Hughey; David Haussler; Tim Hubbard; Cyrus Chothia
Sequence comparisons using multiple sequences detect three times as many remote homologues as pairwise methods.
Journal of molecular biology 1998;284(4):1201-10.
1998: Sarah A Teichmann; J Park; Cyrus Chothia
Structural assignments to the Mycoplasma genitalium proteins show extensive gene duplications and domain rearrangements.
Proceedings of the National Academy of Sciences of the United States of America 1998;95(25):14658-63.
1998: Tim Hubbard; B Ailey; Steven E Brenner; Alexey G Murzin; Cyrus Chothia
SCOP, Structural Classification of Proteins database: applications to evaluation of the effectiveness of sequence alignment methods and statistics of protein structural data.
Acta crystallographica. Section D, Biological crystallography 1998;54(Pt 6 Pt 1):1147-54.
1998: Steven E Brenner; Cyrus Chothia; Tim Hubbard
Assessing sequence comparison methods with reliable structurally identified distant evolutionary relationships.
Proceedings of the National Academy of Sciences of the United States of America 1998;95(11):6073-8.
1998: Cyrus Chothia; Israel M Gelfand; Alexander E Kister
Structural determinants in the sequences of immunoglobulin variable domain.
Journal of molecular biology 1998;278(2):457-79.
1998: Veronica Morea; Anna Tramontano; M Rustici; Cyrus Chothia; Arthur M Lesk
Conformations of the third hypervariable region in the VH domain of immunoglobulins.
Journal of molecular biology 1998;275(2):269-94.
1997: B Al-Lazikani; Arthur M Lesk; Cyrus Chothia
Standard conformations for the canonical structures of immunoglobulins.
Journal of molecular biology 1997;273(4):927-48.
1997: J Park; Sarah A Teichmann; Tim Hubbard; Cyrus Chothia
Intermediate sequences increase the detection of homology between sequences.
Journal of molecular biology 1997;273(1):349-54.
1997: Steven E Brenner; Cyrus Chothia; Tim Hubbard
Population statistics of protein structures: lessons from structural classifications.
Current opinion in structural biology 1997;7(3):369-76.
1997: Cyrus Chothia; Tim Hubbard; Steven E Brenner; H Barns; Alexey G Murzin
Protein folds in the all-beta and all-alpha classes.
Annual review of biophysics and biomolecular structure 1997;26():597-627.
1997: Tim Hubbard; Alexey G Murzin; Steven E Brenner; Cyrus Chothia
SCOP: a structural classification of proteins database.
Nucleic acids research 1997;25(1):236-9.
1996: A Bateman; M Jouet; J MacFarlane; JS Du; Sue Kenwrick; Cyrus Chothia
Outline structure of the human L1 cell adhesion molecule and the sites where mutations cause neurological disorders.
The EMBO journal 1996;15(22):6050-9.
1996: A Bateman; Sean R Eddy; Cyrus Chothia
Members of the immunoglobulin superfamily in bacteria.
Protein science : a publication of the Protein Society 1996;5(9):1939-41.
1996: Steven E Brenner; Cyrus Chothia; Tim Hubbard; Alexey G Murzin
Understanding protein structure: using scop for fold interpretation.
Methods in enzymology 1996;266():635-43.
1995: A Bateman; Cyrus Chothia
Outline structures for the extracellular domains of the fibroblast growth factor receptors.
Nature structural biology 1995;2(12):1068-74.
1995: Steven E Brenner; Tim Hubbard; Alexey G Murzin; Cyrus Chothia
Gene duplications in H. influenzae.
Nature 1995;378(6553):140.
1995: Ian M Tomlinson; J P Cox; Ermanno Gherardi; Arthur M Lesk; Cyrus Chothia
The structural repertoire of the human V kappa domain.
The EMBO journal 1995;14(18):4628-38.
1995: Alexey G Murzin; Steven E Brenner; Tim Hubbard; Cyrus Chothia
SCOP: a structural classification of proteins database for the investigation of sequences and structures.
Journal of molecular biology 1995;247(4):536-40.
1994: S Barré; A S Greenberg; Martin F Flajnik; Cyrus Chothia
Structural conservation of hypervariable regions in immunoglobulins evolution.
Nature structural biology 1994;1(12):915-20.
1994: Y Harpaz; M Gerstein; Cyrus Chothia
Volume changes on protein folding.
Structure (London, England : 1993) 1994;2(7):641-9.
1994: M Gerstein; Arthur M Lesk; Cyrus Chothia
Structural mechanisms for domain movements in proteins.
Biochemistry 1994;33(22):6739-49.
1994: Alexey G Murzin; Arthur M Lesk; Cyrus Chothia
Principles determining the structure of beta-sheet barrels in proteins. II. The observed structures.
Journal of molecular biology 1994;236(5):1382-400.
1994: Alexey G Murzin; Arthur M Lesk; Cyrus Chothia
Principles determining the structure of beta-sheet barrels in proteins. I. A theoretical analysis.
Journal of molecular biology 1994;236(5):1369-81.
1994: M Gerstein; E L Sonnhammer; Cyrus Chothia
Volume changes in protein evolution.
Journal of molecular biology 1994;236(4):1067-78.
1993: Cyrus Chothia; Alexey G Murzin
New folds for all-beta proteins.
Structure (London, England : 1993) 1993;1(4):217-22.
1993: M Gerstein; Bryan F Anderson; G E Norris; Edward N Baker; Arthur M Lesk; Cyrus Chothia
Domain closure in lactoferrin. Two hinges produce a see-saw motion between alternative close-packed interfaces.
Journal of molecular biology 1993;234(2):357-72.
1993: M Gerstein; G Schulz; Cyrus Chothia
Domain closure in adenylate kinase. Joints on either side of two helices close like neighboring fingers.
Journal of molecular biology 1993;229(2):494-501.
1992: Cyrus Chothia; Arthur M Lesk; Ermanno Gherardi; Ian M Tomlinson; G Walter; James D Marks; M B Llewelyn; Greg Winter
Structural repertoire of the human VH segments.
Journal of molecular biology 1992;227(3):799-817.
1992: Alexey G Murzin; Arthur M Lesk; Cyrus Chothia
beta-Trefoil fold. Patterns of structure and sequence in the Kunitz inhibitors interleukins-1 beta and 1 alpha and fibroblast growth factors.
Journal of molecular biology 1992;223(2):531-43.
1991: P Stein; Cyrus Chothia
Serpin tertiary structure transformation.
Journal of molecular biology 1991;221(2):615-21.
1991: M Gerstein; Cyrus Chothia
Analysis of protein loop closure. Two types of hinges produce one motion in lactate dehydrogenase.
Journal of molecular biology 1991;220(1):133-49.
1989: Cyrus Chothia; Arthur M Lesk; A Tramontano; M Levitt; S J Smith-Gill; G Air; S Sheriff; E A Padlan; David Davies; W R Tulip
Conformations of immunoglobulin hypervariable regions.
Nature 1989;342(6252):877-83.
1989: Arthur M Lesk; C I Brändén; Cyrus Chothia
Structural principles of alpha/beta barrel proteins: the packing of the interior of the sheet.
Proteins 1989;5(2):139-48.
1988: Cyrus Chothia; Ross Boswell; Arthur M Lesk
The outline structure of the T-cell alpha beta receptor.
The EMBO journal 1988;7(12):3745-55.
1988: Arthur M Lesk; Cyrus Chothia
Elbow motion in the immunoglobulins involves a molecular ball-and-socket joint.
Nature 1988;335(6186):188-90.
1987: Cyrus Chothia; Arthur M Lesk
Canonical structures for the hypervariable regions of immunoglobulins.
Journal of molecular biology 1987;196(4):901-17.
1987: D Bashford; Cyrus Chothia; Arthur M Lesk
Determinants of a protein fold. Unique features of the globin amino acid sequences.
Journal of molecular biology 1987;196(1):199-216.
1981: Cyrus Chothia; J Janin
Relative orientation of close-packed beta-pleated sheets in proteins.
Proceedings of the National Academy of Sciences of the United States of America 1981;78(7):4146-50.