Barry Grant

Title(s)Senior Lecturer With Soe - Academic Year, Molecular Biology
SchoolVc-academic Affairs
Address9500 Gilman Drive #
La Jolla CA 92093
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. A multi-omics systems vaccinology resource to develop and test computational models of immunity. Cell Rep Methods. 2024 Mar 25; 4(3):100731. Shinde P, Soldevila F, Reyna J, Aoki M, Rasmussen M, Willemsen L, Kojima M, Ha B, Greenbaum JA, Overton JA, Guzman-Orozco H, Nili S, Orfield S, Gygi JP, da Silva Antunes R, Sette A, Grant B, Olsen LR, Konstorum A, Guan L, Ay F, Kleinstein SH, Peters B. PMID: 38490204; PMCID: PMC10985234.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    2. A systems vaccinology resource to develop and test computational models of immunity. bioRxiv. 2023 Aug 29. Shinde P, Soldevila F, Reyna J, Aoki M, Rasmussen M, Willemsen L, Kojima M, Ha B, Greenbaum JA, Overton JA, Guzman-Orozco H, Nili S, Orfield S, Gygi JP, da Silva Antunes R, Sette A, Grant B, Olsen LR, Konstorum A, Guan L, Ay F, Kleinstein SH, Peters B. PMID: 37693565; PMCID: PMC10491180.
      View in: PubMed   Mentions:
    3. The Bio3D packages for structural bioinformatics. Protein Sci. 2021 01; 30(1):20-30. Grant BJ, Skjaerven L, Yao XQ. PMID: 32734663; PMCID: PMC7737766.
      View in: PubMed   Mentions: 103     Fields:    Translation:Cells
    4. Author Correction: A structural model for microtubule minus-end recognition and protection by CAMSAP proteins. Nat Struct Mol Biol. 2020 Jun; 27(6):603. Atherton J, Jiang K, Stangier MM, Luo Y, Hua S, Houben K, van Hooff JJE, Joseph AP, Scarabelli G, Grant BJ, Roberts AJ, Topf M, Steinmetz MO, Baldus M, Moores CA, Akhmanova A. PMID: 32355336.
      View in: PubMed   Mentions:    Fields:    
    5. Comparative Protein Structure Analysis with Bio3D-Web. Methods Mol Biol. 2020; 2112:15-28. Grant BJ, Skjærven L, Yao XQ. PMID: 32006275.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    6. Neck linker docking is critical for Kinesin-1 force generation in cells but at a cost to motor speed and processivity. Elife. 2019 05 14; 8. Budaitis BG, Jariwala S, Reinemann DN, Schimert KI, Scarabelli G, Grant BJ, Sept D, Lang MJ, Verhey KJ. PMID: 31084716; PMCID: PMC6533058.
      View in: PubMed   Mentions: 16     Fields:    Translation:AnimalsCells
    7. Comparative structural dynamic analysis of GTPases. PLoS Comput Biol. 2018 11; 14(11):e1006364. Li H, Yao XQ, Grant BJ. PMID: 30412578; PMCID: PMC6249014.
      View in: PubMed   Mentions: 12     Fields:    Translation:Cells
    8. A posttranslational modification of the mitotic kinesin Eg5 that enhances its mechanochemical coupling and alters its mitotic function. Proc Natl Acad Sci U S A. 2018 02 20; 115(8):E1779-E1788. Muretta JM, Reddy BJN, Scarabelli G, Thompson AF, Jariwala S, Major J, Venere M, Rich JN, Willard B, Thomas DD, Stumpff J, Grant BJ, Gross SP, Rosenfeld SS. PMID: 29432173; PMCID: PMC5828613.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansCells
    9. Altered chemomechanical coupling causes impaired motility of the kinesin-4 motors KIF27 and KIF7. J Cell Biol. 2018 04 02; 217(4):1319-1334. Yue Y, Blasius TL, Zhang S, Jariwala S, Walker B, Grant BJ, Cochran JC, Verhey KJ. PMID: 29351996; PMCID: PMC5881503.
      View in: PubMed   Mentions: 13     Fields:    Translation:AnimalsCells
    10. A structural model for microtubule minus-end recognition and protection by CAMSAP proteins. Nat Struct Mol Biol. 2017 Nov; 24(11):931-943. Atherton J, Jiang K, Stangier MM, Luo Y, Hua S, Houben K, van Hooff JJE, Joseph AP, Scarabelli G, Grant BJ, Roberts AJ, Topf M, Steinmetz MO, Baldus M, Moores CA, Akhmanova A. PMID: 28991265; PMCID: PMC6134180.
      View in: PubMed   Mentions: 50     Fields:    Translation:AnimalsCells
    11. Navigating the conformational landscape of G protein-coupled receptor kinases during allosteric activation. J Biol Chem. 2017 09 29; 292(39):16032-16043. Yao XQ, Cato MC, Labudde E, Beyett TS, Tesmer JJG, Grant BJ. PMID: 28808053; PMCID: PMC5625036.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansAnimalsCells
    12. Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web. J Vis Exp. 2017 07 16; (125). Jariwala S, Skjærven L, Yao XQ, Grant BJ. PMID: 28745621; PMCID: PMC5612356.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    13. Structural and Molecular Mechanisms of Cytokine-Mediated Endocrine Resistance in Human Breast Cancer Cells. Mol Cell. 2017 Mar 16; 65(6):1122-1135.e5. Stender JD, Nwachukwu JC, Kastrati I, Kim Y, Strid T, Yakir M, Srinivasan S, Nowak J, Izard T, Rangarajan ES, Carlson KE, Katzenellenbogen JA, Yao XQ, Grant BJ, Leong HS, Lin CY, Frasor J, Nettles KW, Glass CK. PMID: 28306507; PMCID: PMC5546241.
      View in: PubMed   Mentions: 51     Fields:    Translation:HumansCells
    14. Computational and biochemical characterization of two partially overlapping interfaces and multiple weak-affinity K-Ras dimers. Sci Rep. 2017 01 09; 7:40109. Prakash P, Sayyed-Ahmad A, Cho KJ, Dolino DM, Chen W, Li H, Grant BJ, Hancock JF, Gorfe AA. PMID: 28067274; PMCID: PMC5220301.
      View in: PubMed   Mentions: 58     Fields:    Translation:Cells
    15. Systems Structural Biology Analysis of Ligand Effects on ERα Predicts Cellular Response to Environmental Estrogens and Anti-hormone Therapies. Cell Chem Biol. 2017 Jan 19; 24(1):35-45. Nwachukwu JC, Srinivasan S, Bruno NE, Nowak J, Wright NJ, Minutolo F, Rangarajan ES, Izard T, Yao XQ, Grant BJ, Kojetin DJ, Elemento O, Katzenellenbogen JA, Nettles KW. PMID: 28042045.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCells
    16. Online interactive analysis of protein structure ensembles with Bio3D-web. Bioinformatics. 2016 11 15; 32(22):3510-3512. Skjærven L, Jariwala S, Yao XQ, Grant BJ. PMID: 27423893; PMCID: PMC5181562.
      View in: PubMed   Mentions: 15     Fields:    
    17. Rapid Characterization of Allosteric Networks with Ensemble Normal Mode Analysis. J Phys Chem B. 2016 08 25; 120(33):8276-88. Yao XQ, Skjærven L, Grant BJ. PMID: 27056373; PMCID: PMC5553620.
      View in: PubMed   Mentions: 19     Fields:    Translation:HumansCells
    18. Dynamic Coupling and Allosteric Networks in the α Subunit of Heterotrimeric G Proteins. J Biol Chem. 2016 Feb 26; 291(9):4742-53. Yao XQ, Malik RU, Griggs NW, Skjærven L, Traynor JR, Sivaramakrishnan S, Grant BJ. PMID: 26703464; PMCID: PMC4813496.
      View in: PubMed   Mentions: 34     Fields:    Translation:HumansAnimalsCells
    19. Mapping the Processivity Determinants of the Kinesin-3 Motor Domain. Biophys J. 2015 Oct 20; 109(8):1537-40. Scarabelli G, Soppina V, Yao XQ, Atherton J, Moores CA, Verhey KJ, Grant BJ. PMID: 26488644; PMCID: PMC4624112.
      View in: PubMed   Mentions: 16     Fields:    Translation:Cells
    20. Enrichment of druggable conformations from apo protein structures using cosolvent-accelerated molecular dynamics. Biology (Basel). 2015 Apr 21; 4(2):344-66. Kalenkiewicz A, Grant BJ, Yang CY. PMID: 25906084; PMCID: PMC4498304.
      View in: PubMed   Mentions: 9  
    21. Integrating protein structural dynamics and evolutionary analysis with Bio3D. BMC Bioinformatics. 2014 Dec 10; 15:399. Skjærven L, Yao XQ, Scarabelli G, Grant BJ. PMID: 25491031; PMCID: PMC4279791.
      View in: PubMed   Mentions: 146     Fields:    Translation:HumansCells
    22. Kinesin-5 allosteric inhibitors uncouple the dynamics of nucleotide, microtubule, and neck-linker binding sites. Biophys J. 2014 Nov 04; 107(9):2204-13. Scarabelli G, Grant BJ. PMID: 25418105; PMCID: PMC4223232.
      View in: PubMed   Mentions: 28     Fields:    Translation:HumansCells
    23. Mapping the structural and dynamical features of kinesin motor domains. PLoS Comput Biol. 2013; 9(11):e1003329. Scarabelli G, Grant BJ. PMID: 24244137; PMCID: PMC3820509.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansCells
    24. Domain-opening and dynamic coupling in the α-subunit of heterotrimeric G proteins. Biophys J. 2013 Jul 16; 105(2):L08-10. Yao XQ, Grant BJ. PMID: 23870276; PMCID: PMC3714883.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansAnimalsCells
    25. Calcium binding and allosteric signaling mechanisms for the sarcoplasmic reticulum Ca²+ ATPase. Protein Sci. 2012 Oct; 21(10):1429-43. Kekenes-Huskey PM, Metzger VT, Grant BJ, Andrew McCammon J. PMID: 22821874; PMCID: PMC3526986.
      View in: PubMed   Mentions: 17     Fields:    Translation:Cells
    26. Identification of potential small molecule binding pockets on Rho family GTPases. PLoS One. 2012; 7(7):e40809. Ortiz-Sanchez JM, Nichols SE, Sayyah J, Brown JH, McCammon JA, Grant BJ. PMID: 22815826; PMCID: PMC3397943.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    27. LeuT conformational sampling utilizing accelerated molecular dynamics and principal component analysis. Biophys J. 2012 Jul 03; 103(1):L1-3. Thomas JR, Gedeon PC, Grant BJ, Madura JD. PMID: 22828348; PMCID: PMC3388204.
      View in: PubMed   Mentions: 18     Fields:    Translation:HumansAnimalsCells
    28. Drug hypersensitivity caused by alteration of the MHC-presented self-peptide repertoire. Proc Natl Acad Sci U S A. 2012 Jun 19; 109(25):9959-64. Ostrov DA, Grant BJ, Pompeu YA, Sidney J, Harndahl M, Southwood S, Oseroff C, Lu S, Jakoncic J, de Oliveira CA, Yang L, Mei H, Shi L, Shabanowitz J, English AM, Wriston A, Lucas A, Phillips E, Mallal S, Grey HM, Sette A, Hunt DF, Buus S, Peters B. PMID: 22645359; PMCID: PMC3382472.
      View in: PubMed   Mentions: 163     Fields:    Translation:Cells
    29. Electrostatically biased binding of kinesin to microtubules. PLoS Biol. 2011 Nov; 9(11):e1001207. Grant BJ, Gheorghe DM, Zheng W, Alonso M, Huber G, Dlugosz M, McCammon JA, Cross RA. PMID: 22140358; PMCID: PMC3226556.
      View in: PubMed   Mentions: 38     Fields:    Translation:Cells
    30. Induced fit or conformational selection? The role of the semi-closed state in the maltose binding protein. Biochemistry. 2011 Dec 06; 50(48):10530-9. Bucher D, Grant BJ, McCammon JA. PMID: 22050600; PMCID: PMC3226325.
      View in: PubMed   Mentions: 37     Fields:    Translation:Cells
    31. Novel allosteric sites on Ras for lead generation. PLoS One. 2011; 6(10):e25711. Grant BJ, Lukman S, Hocker HJ, Sayyah J, Brown JH, McCammon JA, Gorfe AA. PMID: 22046245; PMCID: PMC3201956.
      View in: PubMed   Mentions: 73     Fields:    Translation:HumansCells
    32. Large-scale conformational changes of Trypanosoma cruzi proline racemase predicted by accelerated molecular dynamics simulation. PLoS Comput Biol. 2011 Oct; 7(10):e1002178. de Oliveira CA, Grant BJ, Zhou M, McCammon JA. PMID: 22022240; PMCID: PMC3192803.
      View in: PubMed   Mentions: 15     Fields:    Translation:AnimalsCells
    33. Accessing a hidden conformation of the maltose binding protein using accelerated molecular dynamics. PLoS Comput Biol. 2011 Apr; 7(4):e1002034. Bucher D, Grant BJ, Markwick PR, McCammon JA. PMID: 21533070; PMCID: PMC3080849.
      View in: PubMed   Mentions: 53     Fields:    Translation:Cells
    34. Conformational sampling and nucleotide-dependent transitions of the GroEL subunit probed by unbiased molecular dynamics simulations. PLoS Comput Biol. 2011 Mar; 7(3):e1002004. Skjaerven L, Grant B, Muga A, Teigen K, McCammon JA, Reuter N, Martinez A. PMID: 21423709; PMCID: PMC3053311.
      View in: PubMed   Mentions: 10     Fields:    Translation:Cells
    35. Conformational selection in G-proteins: lessons from Ras and Rho. Biophys J. 2010 Dec 01; 99(11):L87-9. Grant BJ, McCammon JA, Gorfe AA. PMID: 21112273; PMCID: PMC2998626.
      View in: PubMed   Mentions: 33     Fields:    Translation:Cells
    36. The distinct conformational dynamics of K-Ras and H-Ras A59G. PLoS Comput Biol. 2010 Sep 09; 6(9). Lukman S, Grant BJ, Gorfe AA, Grant GH, McCammon JA. PMID: 20838576; PMCID: PMC2936511.
      View in: PubMed   Mentions: 43     Fields:    Translation:HumansCells
    37. Large conformational changes in proteins: signaling and other functions. Curr Opin Struct Biol. 2010 Apr; 20(2):142-7. Grant BJ, Gorfe AA, McCammon JA. PMID: 20060708; PMCID: PMC2866511.
      View in: PubMed   Mentions: 84     Fields:    Translation:HumansAnimalsCells
    38. A transition path ensemble study reveals a linchpin role for Mg(2+) during rate-limiting ADP release from protein kinase A. Biochemistry. 2009 Dec 08; 48(48):11532-45. Khavrutskii IV, Grant B, Taylor SS, McCammon JA. PMID: 19886670; PMCID: PMC2789581.
      View in: PubMed   Mentions: 29     Fields:    Translation:Cells
    39. Novel procedure for thermal equilibration in molecular dynamics simulation. Mol Simul. 2009 Apr 01; 35(5):349-357. Gallo MT, Grant BJ, Teodoro ML, Melton J, Cieplak P, Phillips GN, Stec B. PMID: 25125797; PMCID: PMC4128190.
      View in: PubMed   Mentions:
    40. Ras conformational switching: simulating nucleotide-dependent conformational transitions with accelerated molecular dynamics. PLoS Comput Biol. 2009 Mar; 5(3):e1000325. Grant BJ, Gorfe AA, McCammon JA. PMID: 19300489; PMCID: PMC2651530.
      View in: PubMed   Mentions: 89     Fields:    Translation:Cells
    41. Mapping the nucleotide and isoform-dependent structural and dynamical features of Ras proteins. Structure. 2008 Jun; 16(6):885-96. Gorfe AA, Grant BJ, McCammon JA. PMID: 18547521; PMCID: PMC2519881.
      View in: PubMed   Mentions: 116     Fields:    Translation:Cells
    42. The 2006 automated function prediction meeting. BMC Bioinformatics. 2007 May 22; 8 Suppl 4:S1-4. Rodrigues AP, Grant BJ, Godzik A, Friedberg I. PMID: 17570143; PMCID: PMC1892079.
      View in: PubMed   Mentions: 6     Fields:    
    43. Multivariate analysis of conserved sequence-structure relationships in kinesins: coupling of the active site and a tubulin-binding sub-domain. J Mol Biol. 2007 May 18; 368(5):1231-48. Grant BJ, McCammon JA, Caves LS, Cross RA. PMID: 17399740.
      View in: PubMed   Mentions: 26     Fields:    Translation:Cells
    44. Bio3d: an R package for the comparative analysis of protein structures. Bioinformatics. 2006 Nov 01; 22(21):2695-6. Grant BJ, Rodrigues AP, ElSawy KM, McCammon JA, Caves LS. PMID: 16940322.
      View in: PubMed   Mentions: 697     Fields:    Translation:Cells
    45. Targeted molecular dynamics study of C-loop closure and channel gating in nicotinic receptors. PLoS Comput Biol. 2006 Sep 29; 2(9):e134. Cheng X, Wang H, Grant B, Sine SM, McCammon JA. PMID: 17009865; PMCID: PMC1584325.
      View in: PubMed   Mentions: 63     Fields:    Translation:HumansAnimalsCells
    46. sgTarget: a target selection resource for structural genomics. Nucleic Acids Res. 2006 Jul 01; 34(Web Server issue):W225-30. Rodrigues AP, Grant BJ, Hubbard RE. PMID: 16844998; PMCID: PMC1538879.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    47. Channel opening motion of alpha7 nicotinic acetylcholine receptor as suggested by normal mode analysis. J Mol Biol. 2006 Jan 13; 355(2):310-24. Cheng X, Lu B, Grant B, Law RJ, McCammon JA. PMID: 16307758.
      View in: PubMed   Mentions: 61     Fields:    Translation:HumansCells
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