CN105659087B - 筛选靶向靶生物实体的候选生物实体的方法 - Google Patents

筛选靶向靶生物实体的候选生物实体的方法 Download PDF

Info

Publication number
CN105659087B
CN105659087B CN201480045112.7A CN201480045112A CN105659087B CN 105659087 B CN105659087 B CN 105659087B CN 201480045112 A CN201480045112 A CN 201480045112A CN 105659087 B CN105659087 B CN 105659087B
Authority
CN
China
Prior art keywords
signal
shg
candidate
signal characteristic
target
Prior art date
Legal status (The legal status 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 status listed.)
Active
Application number
CN201480045112.7A
Other languages
English (en)
Chinese (zh)
Other versions
CN105659087A (zh
Inventor
约书亚·萨拉夫斯基
卡尔·本顿·莫里三世
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Blu ray therapy company
Original Assignee
Biodesy Inc
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 Biodesy Inc filed Critical Biodesy Inc
Publication of CN105659087A publication Critical patent/CN105659087A/zh
Application granted granted Critical
Publication of CN105659087B publication Critical patent/CN105659087B/zh
Active legal-status Critical Current
Anticipated expiration legal-status Critical

Links

Classifications

    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/68Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving proteins, peptides or amino acids
    • G01N33/6803General methods of protein analysis not limited to specific proteins or families of proteins
    • G01N33/6845Methods of identifying protein-protein interactions in protein mixtures
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/483Physical analysis of biological material
    • G01N33/487Physical analysis of biological material of liquid biological material
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/68Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving proteins, peptides or amino acids
    • G01N33/6893Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving proteins, peptides or amino acids related to diseases not provided for elsewhere
    • G01N33/6896Neurological disorders, e.g. Alzheimer's disease
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/94Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving narcotics or drugs or pharmaceuticals, neurotransmitters or associated receptors
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B15/00ICT specially adapted for analysing two-dimensional or three-dimensional molecular structures, e.g. structural or functional relations or structure alignment
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B15/00ICT specially adapted for analysing two-dimensional or three-dimensional molecular structures, e.g. structural or functional relations or structure alignment
    • G16B15/30Drug targeting using structural data; Docking or binding prediction
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2500/00Screening for compounds of potential therapeutic value
    • G01N2500/04Screening involving studying the effect of compounds C directly on molecule A (e.g. C are potential ligands for a receptor A, or potential substrates for an enzyme A)
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2500/00Screening for compounds of potential therapeutic value
    • G01N2500/20Screening for compounds of potential therapeutic value cell-free systems
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2800/00Detection or diagnosis of diseases
    • G01N2800/28Neurological disorders
    • G01N2800/2835Movement disorders, e.g. Parkinson, Huntington, Tourette

Landscapes

  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Chemical & Material Sciences (AREA)
  • Molecular Biology (AREA)
  • Biomedical Technology (AREA)
  • Physics & Mathematics (AREA)
  • Immunology (AREA)
  • Hematology (AREA)
  • Urology & Nephrology (AREA)
  • General Health & Medical Sciences (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • Medicinal Chemistry (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Pathology (AREA)
  • Food Science & Technology (AREA)
  • Analytical Chemistry (AREA)
  • Biochemistry (AREA)
  • General Physics & Mathematics (AREA)
  • Microbiology (AREA)
  • Biophysics (AREA)
  • Cell Biology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Pharmacology & Pharmacy (AREA)
  • Medical Informatics (AREA)
  • Theoretical Computer Science (AREA)
  • Evolutionary Biology (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Neurology (AREA)
  • Neurosurgery (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Peptides Or Proteins (AREA)
CN201480045112.7A 2013-06-13 2014-06-13 筛选靶向靶生物实体的候选生物实体的方法 Active CN105659087B (zh)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201361834782P 2013-06-13 2013-06-13
US61/834,782 2013-06-13
PCT/US2014/042428 WO2014201435A1 (en) 2013-06-13 2014-06-13 Method of screening candidate biochemical entities targeting a target biochemical entity

Publications (2)

Publication Number Publication Date
CN105659087A CN105659087A (zh) 2016-06-08
CN105659087B true CN105659087B (zh) 2019-09-17

Family

ID=52022828

Family Applications (1)

Application Number Title Priority Date Filing Date
CN201480045112.7A Active CN105659087B (zh) 2013-06-13 2014-06-13 筛选靶向靶生物实体的候选生物实体的方法

Country Status (6)

Country Link
US (1) US20150330990A1 (enExample)
EP (1) EP3008465B1 (enExample)
JP (2) JP6518656B2 (enExample)
CN (1) CN105659087B (enExample)
GB (1) GB2538216A (enExample)
WO (1) WO2014201435A1 (enExample)

Families Citing this family (50)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US9182406B2 (en) 2008-08-04 2015-11-10 Biodesy, Inc. Nonlinear optical detection of molecules comprising an unnatural amino acid possessing a hyperpolarizability
CA2831136A1 (en) 2011-03-21 2012-09-27 Biodesy, Llc Classification of kinase inhibitors using nonlinear optical techniques
US9395358B2 (en) 2012-02-05 2016-07-19 Biodesy, Inc. Methods for detecting allosteric modulators of protein
US20130288271A1 (en) 2012-04-25 2013-10-31 Biodesy, Llc Methods for detecting allosteric modulators of protein
WO2013115867A1 (en) 2012-02-05 2013-08-08 Biodesy, Llc Methods for identifying modulators of ras using nonlinear techniques
US9227978B2 (en) 2013-03-15 2016-01-05 Araxes Pharma Llc Covalent inhibitors of Kras G12C
JO3805B1 (ar) 2013-10-10 2021-01-31 Araxes Pharma Llc مثبطات كراس جي12سي
EP3161168B1 (en) 2014-06-30 2021-08-04 Bluelight Therapeutics, Inc. Systems and methods for high throughput analysis of conformation in biological entities
JO3556B1 (ar) 2014-09-18 2020-07-05 Araxes Pharma Llc علاجات مدمجة لمعالجة السرطان
WO2016049568A1 (en) 2014-09-25 2016-03-31 Araxes Pharma Llc Methods and compositions for inhibition of ras
WO2016049524A1 (en) 2014-09-25 2016-03-31 Araxes Pharma Llc Inhibitors of kras g12c mutant proteins
EP3237906B8 (en) 2014-12-23 2020-10-28 Bluelight Therapeutics, Inc. Attachment of proteins to interfaces for use in nonlinear optical detection
CN107615047A (zh) 2015-04-02 2018-01-19 比奥德赛公司 利用表面选择性非线性光学技术确定蛋白质结构的方法
EA201792214A1 (ru) 2015-04-10 2018-01-31 Араксис Фарма Ллк Соединения замещенного хиназолина
EP3283462B1 (en) 2015-04-15 2020-12-02 Araxes Pharma LLC Fused-tricyclic inhibitors of kras and methods of use thereof
US10144724B2 (en) 2015-07-22 2018-12-04 Araxes Pharma Llc Substituted quinazoline compounds and methods of use thereof
WO2017053567A1 (en) * 2015-09-22 2017-03-30 Delta Tm Technologies Designing customized protein-specific buffer systems
US10730867B2 (en) 2015-09-28 2020-08-04 Araxes Pharma Llc Inhibitors of KRAS G12C mutant proteins
US10875842B2 (en) 2015-09-28 2020-12-29 Araxes Pharma Llc Inhibitors of KRAS G12C mutant proteins
US10647703B2 (en) 2015-09-28 2020-05-12 Araxes Pharma Llc Inhibitors of KRAS G12C mutant proteins
WO2017058915A1 (en) 2015-09-28 2017-04-06 Araxes Pharma Llc Inhibitors of kras g12c mutant proteins
US10858343B2 (en) 2015-09-28 2020-12-08 Araxes Pharma Llc Inhibitors of KRAS G12C mutant proteins
WO2017058792A1 (en) 2015-09-28 2017-04-06 Araxes Pharma Llc Inhibitors of kras g12c mutant proteins
EP3356339A1 (en) 2015-09-28 2018-08-08 Araxes Pharma LLC Inhibitors of kras g12c mutant proteins
JP2018533939A (ja) 2015-10-19 2018-11-22 アラクセス ファーマ エルエルシー Rasの阻害剤をスクリーニングするための方法
TW201726656A (zh) 2015-11-16 2017-08-01 亞瑞克西斯製藥公司 包含經取代雜環基團之2-經取代喹唑啉化合物及其使用方法
WO2017100546A1 (en) 2015-12-09 2017-06-15 Araxes Pharma Llc Methods for preparation of quinazoline derivatives
US10822312B2 (en) 2016-03-30 2020-11-03 Araxes Pharma Llc Substituted quinazoline compounds and methods of use
EP3455628A4 (en) 2016-05-09 2019-12-04 Biodesy, Inc. METHOD AND DEVICES FOR DETECTING INTERACTIONS OF PERIPHERAL MEMBRANE PROTEINS USING NONLINEAR OPTICAL TECHNIQUES
US10646488B2 (en) 2016-07-13 2020-05-12 Araxes Pharma Llc Conjugates of cereblon binding compounds and G12C mutant KRAS, HRAS or NRAS protein modulating compounds and methods of use thereof
JP2019529484A (ja) 2016-09-29 2019-10-17 アラクセス ファーマ エルエルシー Kras g12c変異体タンパク質の阻害剤
CN106650209B (zh) * 2016-09-30 2020-07-07 中车南京浦镇车辆有限公司 一种车辆应用实时信息确定可靠性增长趋势及参数的方法
US10377743B2 (en) 2016-10-07 2019-08-13 Araxes Pharma Llc Inhibitors of RAS and methods of use thereof
CN106650317B (zh) * 2016-10-09 2019-04-16 南京双运生物技术有限公司 一种通过协同过滤公共数据库发现肿瘤潜在基因标靶的方法
WO2018140514A1 (en) 2017-01-26 2018-08-02 Araxes Pharma Llc 1-(6-(3-hydroxynaphthalen-1-yl)quinazolin-2-yl)azetidin-1-yl)prop-2-en-1-one derivatives and similar compounds as kras g12c inhibitors for the treatment of cancer
EP3573971A1 (en) 2017-01-26 2019-12-04 Araxes Pharma LLC 1-(3-(6-(3-hydroxynaphthalen-1-yl)benzofuran-2-yl)azetidin-1yl)prop-2-en-1-one derivatives and similar compounds as kras g12c modulators for treating cancer
CN110382482A (zh) 2017-01-26 2019-10-25 亚瑞克西斯制药公司 稠合的杂-杂二环化合物及其使用方法
US11274093B2 (en) 2017-01-26 2022-03-15 Araxes Pharma Llc Fused bicyclic benzoheteroaromatic compounds and methods of use thereof
WO2018140599A1 (en) 2017-01-26 2018-08-02 Araxes Pharma Llc Benzothiophene and benzothiazole compounds and methods of use thereof
WO2018195134A1 (en) * 2017-04-18 2018-10-25 X-Chem, Inc. Methods for identifying compounds
JP2020521740A (ja) 2017-05-25 2020-07-27 アラクセス ファーマ エルエルシー 変異体kras、hrasまたはnrasの調節因子としてのキナゾリン誘導体
WO2018218071A1 (en) 2017-05-25 2018-11-29 Araxes Pharma Llc Compounds and methods of use thereof for treatment of cancer
TW201900633A (zh) 2017-05-25 2019-01-01 美商亞瑞克西斯製藥公司 Kras之共價抑制劑
US10657525B2 (en) 2017-06-27 2020-05-19 Kasisto, Inc. Method and apparatus for determining expense category distance between transactions via transaction signatures
US12134620B2 (en) 2018-08-01 2024-11-05 Araxes Pharma Llc Heterocyclic spiro compounds and methods of use thereof for the treatment of cancer
US20230236170A1 (en) * 2019-10-15 2023-07-27 Jnana Therapeutics Inc. Reactive affinity probe-interaction discovery platform
CN112630444B (zh) * 2020-12-11 2024-05-24 深圳碳云智肽药物科技有限公司 基于靶点蛋白的多肽筛选方法
CN113963745A (zh) * 2021-12-07 2022-01-21 国际竹藤中心 一种构建植物发育分子调控网络的方法及其应用
CN114317669A (zh) * 2022-01-04 2022-04-12 北京大学 一种基于细胞内蛋白激酶c激活状态筛选药物的方法及高通量筛选装置
WO2024129721A1 (en) * 2022-12-13 2024-06-20 Lafond David Systems and methods to predict biological receptor signal response

Family Cites Families (19)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2000505798A (ja) * 1996-02-01 2000-05-16 ニューロクライン バイオサイエンシーズ,インコーポレイテッド コルチコトロピン放出因子の内因性レベルを上昇させる方法
CA2414572A1 (en) * 2000-07-12 2002-01-17 Karo Bio Usa, Inc. Method of identifying conformation-sensitive binding peptides and uses thereof
US20020094528A1 (en) * 2000-11-29 2002-07-18 Salafsky Joshua S. Method and apparatus using a surface-selective nonlinear optical technique for detection of probe-target interations
US20030129649A1 (en) * 2001-04-24 2003-07-10 Kobilka Brian K. Conformational assays to detect binding to G protein-coupled receptors
US7384773B1 (en) 2001-05-10 2008-06-10 Pfizer Inc Crystal of HIV protease-cleaved human beta secretase and method for crystallization thereof
GB0117326D0 (en) * 2001-07-16 2001-09-05 Univ Aberdeen Napthoquinone-type inhibitors of protein aggregation
US20030148391A1 (en) * 2002-01-24 2003-08-07 Salafsky Joshua S. Method using a nonlinear optical technique for detection of interactions involving a conformational change
US7358331B2 (en) * 2003-05-19 2008-04-15 Elan Pharmaceuticals, Inc. Truncated fragments of alpha-synuclein in Lewy body disease
US7342093B2 (en) * 2004-07-23 2008-03-11 University Of Massachusetts Compounds that inhibit Hsp90 protein-protein interactions with IAP proteins
EP1637885A1 (en) 2004-09-16 2006-03-22 Vivalis Method of screening by using conformation sensitive peptides
US7968091B2 (en) * 2005-02-16 2011-06-28 The General Hospital Corporation Methods and compositions to regulate iron metabolism
US20070238184A1 (en) * 2005-06-16 2007-10-11 The Regents Of The University Of California Amyloid beta protein channel structure and uses thereof in identifying potential drug molecules for neurodegenerative diseases
US20090010894A1 (en) * 2005-12-23 2009-01-08 The Parkinson's Institute Methods and systems for identifying compounds that modulate alpha-synuclein aggregation
AU2007277186B2 (en) * 2006-07-28 2014-01-30 Presympto, Inc. Peptide probes for diagnostics and therapeutics
EP2326728A1 (en) * 2008-07-24 2011-06-01 Max-Planck-Gesellschaft zur Förderung der Wissenschaften e.V. Fluorescently or spin-labeled kinases for rapid screening and identification of novel kinase inhibitor scaffolds
US9182406B2 (en) * 2008-08-04 2015-11-10 Biodesy, Inc. Nonlinear optical detection of molecules comprising an unnatural amino acid possessing a hyperpolarizability
WO2010031185A1 (en) * 2008-09-19 2010-03-25 Protox Therapeutics Inc. Treating cancer stem cells using targeted cargo proteins
CA2831136A1 (en) * 2011-03-21 2012-09-27 Biodesy, Llc Classification of kinase inhibitors using nonlinear optical techniques
CN106290917B (zh) * 2012-04-25 2020-06-05 比奥德赛公司 用于检测蛋白质的变构调节剂的方法

Also Published As

Publication number Publication date
EP3008465A4 (en) 2017-02-15
JP2016527486A (ja) 2016-09-08
JP6518656B2 (ja) 2019-05-22
GB2538216A (en) 2016-11-16
WO2014201435A8 (en) 2016-04-28
CN105659087A (zh) 2016-06-08
WO2014201435A1 (en) 2014-12-18
EP3008465A1 (en) 2016-04-20
JP2019135498A (ja) 2019-08-15
EP3008465B1 (en) 2019-08-07
US20150330990A1 (en) 2015-11-19

Similar Documents

Publication Publication Date Title
CN105659087B (zh) 筛选靶向靶生物实体的候选生物实体的方法
Engen et al. Developments in hydrogen/deuterium exchange mass spectrometry
Kirsch et al. Concepts and core principles of fragment-based drug design
Bernetti et al. Protein–ligand (un) binding kinetics as a new paradigm for drug discovery at the crossroad between experiments and modelling
Kaur et al. Proteome-wide structural biology: an emerging field for the structural analysis of proteins on the proteomic scale
Stockwell Exploring biology with small organic molecules
CN106290917A (zh) 用于检测蛋白质的变构调节剂的方法
González-Vera et al. Fluorescent reporters and biosensors for probing the dynamic behavior of protein kinases
Moree et al. Protein conformational changes are detected and resolved site specifically by second-harmonic generation
Fechner et al. Size does matter! Label-free detection of small molecule–protein interaction
Robson-Tull Biophysical screening in fragment-based drug design: a brief overview
Klein et al. Interferences of silica nanoparticles in green fluorescent protein folding processes
Wang et al. Amplification of nuclear Overhauser effect signals by hyperpolarization for screening of ligand binding to immobilized target proteins
Kalathiya et al. Interfaces with structure dynamics of the workhorses from cells revealed through cross-linking mass spectrometry (CLMS)
Teng et al. Exploring Ligand-Directed N-Acyl-N-Alkylsulfonamide-Based Acylation Chemistry for Potential Targeted Degrader Development
Bhogal et al. Translation of new technologies: from basic research to drug discovery and development
Zhao et al. Smart cutter: an efficient strategy for increasing the coverage of chemical cross-linking analysis
Reifs et al. High-throughput virtual search of small molecules for controlling the mechanical stability of human CD4
JP2004502130A (ja) 等温変性下で標的種に結合する化合物の同定方法
Jia et al. Crystal structure of the SH3 domain of ASAP1 in complex with the proline rich motif (PRM) of MICAL1 reveals a unique SH3/PRM interaction mode
Stangner et al. Determining the specificity of monoclonal antibody HPT-101 to tau-peptides with optical tweezers
Ong et al. Identifying cellular targets of small-molecule probes and drugs with biochemical enrichment and SILAC
Pastor et al. Information flow and protein dynamics: the interplay between nuclear magnetic resonance spectroscopy and molecular dynamics simulations
Kish et al. Transient Structural Dynamics of Glycogen Phosphorylase from Nonequilibrium Hydrogen/Deuterium-Exchange Mass Spectrometry
Mukherjee et al. Conformational dynamics of mCherry variants: a link between side-chain motions and fluorescence brightness

Legal Events

Date Code Title Description
C06 Publication
PB01 Publication
C10 Entry into substantive examination
SE01 Entry into force of request for substantive examination
GR01 Patent grant
GR01 Patent grant
CP01 Change in the name or title of a patent holder
CP01 Change in the name or title of a patent holder

Address after: California, USA

Patentee after: Blu ray therapy company

Address before: California, USA

Patentee before: BIODESY, Inc.