WO2002059715A3 - Prediction of functional and structural properties of polypeptides - Google Patents

Prediction of functional and structural properties of polypeptides Download PDF

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Publication number
WO2002059715A3
WO2002059715A3 PCT/US2001/050756 US0150756W WO02059715A3 WO 2002059715 A3 WO2002059715 A3 WO 2002059715A3 US 0150756 W US0150756 W US 0150756W WO 02059715 A3 WO02059715 A3 WO 02059715A3
Authority
WO
WIPO (PCT)
Prior art keywords
polypeptides
sequence
ligand
polypeptide
prediction
Prior art date
Application number
PCT/US2001/050756
Other languages
French (fr)
Other versions
WO2002059715A2 (en
WO2002059715A8 (en
Inventor
Daniel S Sem
Brian Baker
Mark R Hansen
Original Assignee
Triad Therapeutics Inc
Daniel S Sem
Brian Baker
Mark R Hansen
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Triad Therapeutics Inc, Daniel S Sem, Brian Baker, Mark R Hansen filed Critical Triad Therapeutics Inc
Priority to EP01994496A priority Critical patent/EP1354207A2/en
Priority to CA002433387A priority patent/CA2433387A1/en
Publication of WO2002059715A2 publication Critical patent/WO2002059715A2/en
Publication of WO2002059715A3 publication Critical patent/WO2002059715A3/en
Publication of WO2002059715A8 publication Critical patent/WO2002059715A8/en

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Classifications

    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B15/00—ICT specially adapted for analysing two-dimensional or three-dimensional molecular structures, e.g. structural or functional relations or structure alignment
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B15/00—ICT specially adapted for analysing two-dimensional or three-dimensional molecular structures, e.g. structural or functional relations or structure alignment
    • G16B15/30—Drug targeting using structural data; Docking or binding prediction

Abstract

The invention provides a method for identifying a polypeptide that binds a ligand. The method includes the steps of (a) comparing a sequence of a polypeptide to a sequence model for polypeptides that bind a ligand, wherein the sequence model comprises representations of amino acids consisting of a subset of amino acids, the subset of amino acids having one or more atom within a selected distance from a bound ligand in the polypeptides that bind the ligand; and (b) determining a relationship between the sequence and the sequence model, wherein a correspondence between the sequence and the sequence model identifies the polypeptide as a polypeptide that binds the ligand.
PCT/US2001/050756 2000-12-29 2001-12-28 Prediction of functional and structural properties of polypeptides WO2002059715A2 (en)

Priority Applications (2)

Application Number Priority Date Filing Date Title
EP01994496A EP1354207A2 (en) 2000-12-29 2001-12-28 Prediction of functional and structural properties of polypeptides
CA002433387A CA2433387A1 (en) 2000-12-29 2001-12-28 Prediction of functional and structural properties of polypeptides

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US75302000A 2000-12-29 2000-12-29
US09/753,020 2000-12-29

Publications (3)

Publication Number Publication Date
WO2002059715A2 WO2002059715A2 (en) 2002-08-01
WO2002059715A3 true WO2002059715A3 (en) 2003-07-31
WO2002059715A8 WO2002059715A8 (en) 2003-11-13

Family

ID=25028819

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2001/050756 WO2002059715A2 (en) 2000-12-29 2001-12-28 Prediction of functional and structural properties of polypeptides

Country Status (3)

Country Link
EP (1) EP1354207A2 (en)
CA (1) CA2433387A1 (en)
WO (1) WO2002059715A2 (en)

Families Citing this family (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN108267589B (en) * 2016-12-30 2020-10-23 首都医科大学附属北京胸科医院 Application of mycobacterium tuberculosis protein in preparing product for diagnosing latent tuberculosis infected person and/or active tuberculosis

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2000036096A1 (en) * 1998-12-16 2000-06-22 Vertex Pharmaceuticals Incorporated Crystallized p38 complexes
WO2001083717A2 (en) * 2000-05-03 2001-11-08 Glycodesign Inc. Designing modulators for alpha-1, 3 galactosyltransferases based on a structural model

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2000036096A1 (en) * 1998-12-16 2000-06-22 Vertex Pharmaceuticals Incorporated Crystallized p38 complexes
WO2001083717A2 (en) * 2000-05-03 2001-11-08 Glycodesign Inc. Designing modulators for alpha-1, 3 galactosyltransferases based on a structural model

Non-Patent Citations (5)

* Cited by examiner, † Cited by third party
Title
GRUNDY WILLIAM NOBLE ET AL: "Family pairwise search with embedded motif models.", BIOINFORMATICS (OXFORD), vol. 15, no. 6, June 1999 (1999-06-01), pages 463 - 470, XP002239702, ISSN: 1367-4803 *
JEZ JOSEPH M ET AL: "Comparative anatomy of the aldo-keto reductase superfamily.", BIOCHEMICAL JOURNAL, vol. 326, no. 3, 1997, pages 625 - 636, XP002239703, ISSN: 0264-6021 *
JOHNSON JASON M ET AL: "Predicting ligand-binding function in families of bacterial receptors.", PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES, vol. 97, no. 8, 11 April 2000 (2000-04-11), April 11, 2000, pages 3965 - 3970, XP002239701, ISSN: 0027-8424 *
LI JIAYAO ET AL: "Crystal structure of cholesterol oxidase complexed with a steroid substrate: Implications for flavin adenine dinucleotide dependent alcohol oxidases.", BIOCHEMISTRY, vol. 32, no. 43, 1993, pages 11507 - 11515, XP002239704, ISSN: 0006-2960 *
SIEZEN R J ET AL: "SUBTILASES: THE SUPERFAMILY OF SUBTILISIN-LIKE SERINE PROTEASES", PROTEIN SCIENCE, CAMBRIDGE UNIVERSITY PRESS, CAMBRIDGE, GB, vol. 6, no. 3, March 1997 (1997-03-01), pages 501 - 523, XP000856203, ISSN: 0961-8368 *

Also Published As

Publication number Publication date
CA2433387A1 (en) 2002-08-01
WO2002059715A2 (en) 2002-08-01
EP1354207A2 (en) 2003-10-22
WO2002059715A8 (en) 2003-11-13

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