These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

178 related articles for article (PubMed ID: 37491511)

  • 1. Pan-cancer structurome reveals overrepresentation of beta sandwiches and underrepresentation of alpha helical domains.
    Medvedev KE; Schaeffer RD; Chen KS; Grishin NV
    Sci Rep; 2023 Jul; 13(1):11988. PubMed ID: 37491511
    [TBL] [Abstract][Full Text] [Related]  

  • 2. DPAM: A domain parser for AlphaFold models.
    Zhang J; Schaeffer RD; Durham J; Cong Q; Grishin NV
    Protein Sci; 2023 Feb; 32(2):e4548. PubMed ID: 36539305
    [TBL] [Abstract][Full Text] [Related]  

  • 3. ECOD: new developments in the evolutionary classification of domains.
    Schaeffer RD; Liao Y; Cheng H; Grishin NV
    Nucleic Acids Res; 2017 Jan; 45(D1):D296-D302. PubMed ID: 27899594
    [TBL] [Abstract][Full Text] [Related]  

  • 4. ECOD: an evolutionary classification of protein domains.
    Cheng H; Schaeffer RD; Liao Y; Kinch LN; Pei J; Shi S; Kim BH; Grishin NV
    PLoS Comput Biol; 2014 Dec; 10(12):e1003926. PubMed ID: 25474468
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Macromolecular crowding: chemistry and physics meet biology (Ascona, Switzerland, 10-14 June 2012).
    Foffi G; Pastore A; Piazza F; Temussi PA
    Phys Biol; 2013 Aug; 10(4):040301. PubMed ID: 23912807
    [TBL] [Abstract][Full Text] [Related]  

  • 6. AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models.
    Varadi M; Anyango S; Deshpande M; Nair S; Natassia C; Yordanova G; Yuan D; Stroe O; Wood G; Laydon A; Žídek A; Green T; Tunyasuvunakool K; Petersen S; Jumper J; Clancy E; Green R; Vora A; Lutfi M; Figurnov M; Cowie A; Hobbs N; Kohli P; Kleywegt G; Birney E; Hassabis D; Velankar S
    Nucleic Acids Res; 2022 Jan; 50(D1):D439-D444. PubMed ID: 34791371
    [TBL] [Abstract][Full Text] [Related]  

  • 7. A Fifth of the Protein World: Rossmann-like Proteins as an Evolutionarily Successful Structural unit.
    Medvedev KE; Kinch LN; Dustin Schaeffer R; Pei J; Grishin NV
    J Mol Biol; 2021 Feb; 433(4):166788. PubMed ID: 33387532
    [TBL] [Abstract][Full Text] [Related]  

  • 8. High-accuracy protein structures by combining machine-learning with physics-based refinement.
    Heo L; Feig M
    Proteins; 2020 May; 88(5):637-642. PubMed ID: 31693199
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Rules for connectivity of secondary structure elements in protein: Two-layer αβ sandwiches.
    Minami S; Chikenji G; Ota M
    Protein Sci; 2017 Nov; 26(11):2257-2267. PubMed ID: 28856751
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Functional analysis of Rossmann-like domains reveals convergent evolution of topology and reaction pathways.
    Medvedev KE; Kinch LN; Schaeffer RD; Grishin NV
    PLoS Comput Biol; 2019 Dec; 15(12):e1007569. PubMed ID: 31869345
    [TBL] [Abstract][Full Text] [Related]  

  • 11. ECOD domain classification of 48 whole proteomes from AlphaFold Structure Database using DPAM2.
    Schaeffer RD; Zhang J; Medvedev KE; Kinch LN; Cong Q; Grishin NV
    PLoS Comput Biol; 2024 Feb; 20(2):e1011586. PubMed ID: 38416793
    [TBL] [Abstract][Full Text] [Related]  

  • 12. ECOD: identification of distant homology among multidomain and transmembrane domain proteins.
    Schaeffer RD; Kinch L; Medvedev KE; Pei J; Cheng H; Grishin N
    BMC Mol Cell Biol; 2019 Jun; 20(1):18. PubMed ID: 31226926
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Searching ECOD for Homologous Domains by Sequence and Structure.
    Schaeffer RD; Liao Y; Grishin NV
    Curr Protoc Bioinformatics; 2018 Mar; 61(1):e45. PubMed ID: 30040199
    [TBL] [Abstract][Full Text] [Related]  

  • 14. A sequence family database built on ECOD structural domains.
    Liao Y; Schaeffer RD; Pei J; Grishin NV
    Bioinformatics; 2018 Sep; 34(17):2997-3003. PubMed ID: 29659718
    [TBL] [Abstract][Full Text] [Related]  

  • 15. PTX3 structure determination using a hybrid cryoelectron microscopy and AlphaFold approach offers insights into ligand binding and complement activation.
    Noone DP; Dijkstra DJ; van der Klugt TT; van Veelen PA; de Ru AH; Hensbergen PJ; Trouw LA; Sharp TH
    Proc Natl Acad Sci U S A; 2022 Aug; 119(33):e2208144119. PubMed ID: 35939690
    [TBL] [Abstract][Full Text] [Related]  

  • 16. The structure of a glycoside hydrolase 29 family member from a rumen bacterium reveals unique, dual carbohydrate-binding domains.
    Summers EL; Moon CD; Atua R; Arcus VL
    Acta Crystallogr F Struct Biol Commun; 2016 Oct; 72(Pt 10):750-761. PubMed ID: 27710940
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Benchmarking the Accuracy of AlphaFold 2 in Loop Structure Prediction.
    Stevens AO; He Y
    Biomolecules; 2022 Jul; 12(7):. PubMed ID: 35883541
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Classification of proteins with shared motifs and internal repeats in the ECOD database.
    Schaeffer RD; Kinch LN; Liao Y; Grishin NV
    Protein Sci; 2016 Jul; 25(7):1188-203. PubMed ID: 26833690
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Membranome 3.0: Database of single-pass membrane proteins with AlphaFold models.
    Lomize AL; Schnitzer KA; Todd SC; Cherepanov S; Outeiral C; Deane CM; Pogozheva ID
    Protein Sci; 2022 May; 31(5):e4318. PubMed ID: 35481632
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Modeling protein-protein, protein-peptide, and protein-oligosaccharide complexes: CAPRI 7th edition.
    Lensink MF; Nadzirin N; Velankar S; Wodak SJ
    Proteins; 2020 Aug; 88(8):916-938. PubMed ID: 31886916
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 9.