Tainer, John

TitleVisiting Faculty Non-UC
InstitutionLawrence Berkeley National Lab
DepartmentMolecular Biophys & Integ Bio
Address1 Cyclotron Road
Berkeley CA 94720
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    Collapse Research 
    Collapse Research Activities and Funding
    NIH/NCI R01CA200231Mar 7, 2016 - Feb 28, 2021
    Role: Principal Investigator
    MINOS (Macromolecular Insights on Nucleic acids Optimized by Scattering)
    NIH/NIGMS R01GM105404Jun 1, 2012 - Apr 30, 2016
    Role: Principal Investigator
    Structural Biology of XPB and XPD Helicases
    NIH/NCI R01CA112093Apr 1, 2006 - Dec 31, 2015
    Role: Principal Investigator
    Mre11/Rad50/Nbs1 Structural Biology for DNA Damage Responses
    NIH/NCI R01CA117638Aug 1, 2005 - Apr 30, 2020
    Role: Co-Principal Investigator
    Structural Biochemistry of RecQ Helicase Interactions
    NIH/NCI R01CA104660Jul 1, 2004 - Apr 30, 2010
    Role: Principal Investigator
    Structural Biochemistry of Metalloprotein Biosensors
    NIH/NIAID R01AI054945Mar 1, 2003 - Feb 28, 2009
    Role: Principal Investigator
    Structural Biochemistry of DNA Dealkylation
    NIH/NCI R01CA097209Jul 1, 2002 - Oct 31, 2014
    Role: Principal Investigator
    Structural Cell Biology of DNA Repair Machines
    NIH/NCI P01CA092584Sep 27, 2001 - Aug 31, 2021
    Role: Principal Investigator
    FEN-1 and PCNA Complexes and Human Genome Stability
    NIH/NCI R01CA081967Mar 1, 1999 - May 31, 2014
    Role: Principal Investigator
    NIH/NCI R01CA076431Dec 18, 1997 - Nov 30, 2003
    Role: Principal Investigator
    NIH/NIGMS P01GM048495Aug 1, 1993 - May 31, 2003
    Role: Co-Principal Investigator
    Structural Biochemistry of DNA Base Repair
    NIH/NIGMS R01GM046312Jul 1, 1991 - Dec 30, 2013
    Role: Principal Investigator
    Superoxide Dismutase Structures and Lou Gehrigs Disease
    NIH/NIGMS R01GM039345Sep 20, 1988 - Jul 31, 2014
    Role: Principal Investigator
    Structure and Assembly of Type IV Pili &Related Systems
    NIH/NIAID R01AI022160Jul 1, 1985 - Feb 28, 2011
    Role: Principal Investigator

    Collapse Bibliographic 
    Collapse Publications
    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.
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    1. Wang JL, Duboc C, Wu Q, Ochi T, Liang S, Tsutakawa SE, Lees-Miller SP, Nadal M, Tainer J, Blundell TL, Strick TR. Dissection of DNA double-strand-break repair using novel single-molecule forceps. Nat Struct Mol Biol. 2018 May 21. PMID: 29786079.
      View in: PubMed
    2. Syed A, Tainer J. The MRE11-RAD50-NBS1 Complex Conducts the Orchestration of Damage Signaling and Outcomes to Stress in DNA Replication and Repair. Annu Rev Biochem. 2018 Apr 25. PMID: 29709199.
      View in: PubMed
    3. Moiani D, Ronato DA, Brosey CA, Arvai AS, Syed A, Masson JY, Petricci E, Tainer J. Targeting Allostery with Avatars to Design Inhibitors Assessed by Cell Activity: Dissecting MRE11 Endo- and Exonuclease Activities. Methods Enzymol. 2018; 601:205-241. PMID: 29523233.
      View in: PubMed
    4. Guo HF, Tsai CL, Terajima M, Tan X, Banerjee P, Miller MD, Liu X, Yu J, Byemerwa J, Alvarado S, Kaoud TS, Dalby KN, Bota-Rabassedas N, Chen Y, Yamauchi M, Tainer J, Phillips GN, Kurie JM. Pro-metastatic collagen lysyl hydroxylase dimer assemblies stabilized by Fe2+-binding. Nat Commun. 2018 02 06; 9(1):512. PMID: 29410444.
      View in: PubMed
    5. Ogorzalek TL, Hura GL, Belsom A, Burnett KH, Kryshtafovych A, Tainer J, Rappsilber J, Tsutakawa SE, Fidelis K. Small angle X-ray scattering and cross-linking for data assisted protein structure prediction in CASP 12 with prospects for improved accuracy. Proteins. 2018 Jan 04. PMID: 29314274.
      View in: PubMed
    6. Tsai CL, Tainer J. Robust Production, Crystallization, Structure Determination, and Analysis of [Fe-S] Proteins: Uncovering Control of Electron Shuttling and Gating in the Respiratory Metabolism of Molybdopterin Guanine Dinucleotide Enzymes. Methods Enzymol. 2018; 599:157-196. PMID: 29746239.
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    7. Hura GL, Tainer J. Coiled coils unspring protein origami. Nat Biotechnol. 2017 Nov 09; 35(11):1044-1045. PMID: 29121029.
      View in: PubMed
    8. Trewhella J, Duff AP, Durand D, Gabel F, Guss JM, Hendrickson WA, Hura GL, Jacques DA, Kirby NM, Kwan AH, Pérez J, Pollack L, Ryan TM, Sali A, Schneidman-Duhovny D, Schwede T, Svergun DI, Sugiyama M, Tainer J, Vachette P, Westbrook J, Whitten AE. 2017 publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution: an update. Acta Crystallogr D Struct Biol. 2017 Sep 01; 73(Pt 9):710-728. PMID: 28876235.
      View in: PubMed
    9. Tainer J. Uncovering the secrets of protein interactions with the DNA enforcing genomic stability. Prog Biophys Mol Biol. 2017 08; 127:89-92. PMID: 28709479.
      View in: PubMed
    10. Tsutakawa SE, Thompson MJ, Arvai AS, Neil AJ, Shaw SJ, Algasaier SI, Kim JC, Finger LD, Jardine E, Gotham VJB, Sarker AH, Her MZ, Rashid F, Hamdan SM, Mirkin SM, Grasby JA, Tainer J. Phosphate steering by Flap Endonuclease 1 promotes 5'-flap specificity and incision to prevent genome instability. Nat Commun. 2017 Jun 27; 8:15855. PMID: 28653660.
      View in: PubMed
    11. Aceytuno RD, Piett CG, Havali-Shahriari Z, Edwards RA, Rey M, Ye R, Javed F, Fang S, Mani R, Weinfeld M, Hammel M, Tainer J, Schriemer DC, Lees-Miller SP, Glover JNM. Structural and functional characterization of the PNKP-XRCC4-LigIV DNA repair complex. Nucleic Acids Res. 2017 Jun 02; 45(10):6238-6251. PMID: 28453785.
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    12. Brosey CA, Ahmed Z, Lees-Miller SP, Tainer J. What Combined Measurements From Structures and Imaging Tell Us About DNA Damage Responses. Methods Enzymol. 2017; 592:417-455. PMID: 28668129.
      View in: PubMed
    13. Gradia SD, Ishida JP, Tsai MS, Jeans C, Tainer J, Fuss JO. MacroBac: New Technologies for Robust and Efficient Large-Scale Production of Recombinant Multiprotein Complexes. Methods Enzymol. 2017; 592:1-26. PMID: 28668116.
      View in: PubMed
    14. Dutta A, Eckelmann B, Adhikari S, Ahmed KM, Sengupta S, Pandey A, Hegde PM, Tsai MS, Tainer J, Weinfeld M, Hegde ML, Mitra S. Microhomology-mediated end joining is activated in irradiated human cells due to phosphorylation-dependent formation of the XRCC1 repair complex. Nucleic Acids Res. 2017 Mar 17; 45(5):2585-2599. PMID: 27994036.
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    15. Rashid F, Harris PD, Zaher MS, Sobhy MA, Joudeh LI, Yan C, Piwonski H, Tsutakawa SE, Ivanov I, Tainer J, Habuchi S, Hamdan SM. Single-molecule FRET unveils induced-fit mechanism for substrate selectivity in flap endonuclease 1. Elife. 2017 02 23; 6. PMID: 28230529.
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    16. Wallen JR, Zhang H, Weis C, Cui W, Foster BM, Ho CMW, Hammel M, Tainer J, Gross ML, Ellenberger T. Hybrid Methods Reveal Multiple Flexibly Linked DNA Polymerases within the Bacteriophage T7 Replisome. Structure. 2017 01 03; 25(1):157-166. PMID: 28052235.
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    17. Tang HYH, Tainer J, Hura GL. High Resolution Distance Distributions Determined by X-Ray and Neutron Scattering. Adv Exp Med Biol. 2017; 1009:167-181. PMID: 29218559.
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    18. Lai YT, Hura GL, Dyer KN, Tang HY, Tainer J, Yeates TO. Designing and defining dynamic protein cage nanoassemblies in solution. Sci Adv. 2016 Dec; 2(12):e1501855. PMID: 27990489.
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    19. Hammel M, Yu Y, Radhakrishnan SK, Chokshi C, Tsai MS, Matsumoto Y, Kuzdovich M, Remesh SG, Fang S, Tomkinson AE, Lees-Miller SP, Tainer J. An Intrinsically Disordered APLF Links Ku, DNA-PKcs, and XRCC4-DNA Ligase IV in an Extended Flexible Non-homologous End Joining Complex. J Biol Chem. 2016 12 30; 291(53):26987-27006. PMID: 27875301.
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    20. Brosey CA, Ho C, Long WZ, Singh S, Burnett K, Hura GL, Nix JC, Bowman GR, Ellenberger T, Tainer J. Defining NADH-Driven Allostery Regulating Apoptosis-Inducing Factor. Structure. 2016 12 06; 24(12):2067-2079. PMID: 27818101.
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    21. Tsai CL, Tainer J. The ATPase Motor Turns for Type IV Pilus Assembly. Structure. 2016 11 01; 24(11):1857-1859. PMID: 27806257.
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    22. Stingele J, Bellelli R, Alte F, Hewitt G, Sarek G, Maslen SL, Tsutakawa SE, Borg A, Kjær S, Tainer J, Skehel JM, Groll M, Boulton SJ. Mechanism and Regulation of DNA-Protein Crosslink Repair by the DNA-Dependent Metalloprotease SPRTN. Mol Cell. 2016 Nov 17; 64(4):688-703. PMID: 27871365.
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    23. Susa AC, Xia Z, Tang HYH, Tainer J, Williams ER. Charging of Proteins in Native Mass Spectrometry. J Am Soc Mass Spectrom. 2017 Feb; 28(2):332-340. PMID: 27734326.
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    24. Hammel M, Amlanjyoti D, Reyes FE, Chen JH, Parpana R, Tang HY, Larabell CA, Tainer J, Adhya S. HU multimerization shift controls nucleoid compaction. Sci Adv. 2016 07; 2(7):e1600650. PMID: 27482541; PMCID: PMC4966879.
    25. Lees-Miller SP, Beattie TL, Tainer J. Noncoding RNA joins Ku and DNA-PKcs for DNA-break resistance in breast cancer. Nat Struct Mol Biol. 2016 06 07; 23(6):509-10. PMID: 27273637.
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    26. Schneidman-Duhovny D, Hammel M, Tainer J, Sali A. FoXS, FoXSDock and MultiFoXS: Single-state and multi-state structural modeling of proteins and their complexes based on SAXS profiles. Nucleic Acids Res. 2016 Jul 08; 44(W1):W424-9. PMID: 27151198; PMCID: PMC4987932.
    27. Bacolla A, Tainer J, Vasquez KM, Cooper DN. Translocation and deletion breakpoints in cancer genomes are associated with potential non-B DNA-forming sequences. Nucleic Acids Res. 2016 07 08; 44(12):5673-88. PMID: 27084947; PMCID: PMC4937311.
    28. Deshpande RA, Williams GJ, Limbo O, Williams RS, Kuhnlein J, Lee JH, Classen S, Guenther G, Russell P, Tainer J, Paull TT. ATP-driven Rad50 conformations regulate DNA tethering, end resection, and ATM checkpoint signaling. EMBO J. 2016 Apr 01; 35(7):791. PMID: 27037288; PMCID: PMC4818762.
    29. Youngblut MD, Tsai CL, Clark IC, Carlson HK, Maglaqui AP, Gau-Pan PS, Redford SA, Wong A, Tainer J, Coates JD. Perchlorate Reductase Is Distinguished by Active Site Aromatic Gate Residues. J Biol Chem. 2016 Apr 22; 291(17):9190-202. PMID: 26940877; PMCID: PMC4861485 [Available on 04/22/17].
    30. Hodge CD, Ismail IH, Edwards RA, Hura GL, Xiao AT, Tainer J, Hendzel MJ, Glover JN. RNF8 E3 Ubiquitin Ligase Stimulates Ubc13 E2 Conjugating Activity That Is Essential for DNA Double Strand Break Signaling and BRCA1 Tumor Suppressor Recruitment. J Biol Chem. 2016 Apr 29; 291(18):9396-410. PMID: 26903517; PMCID: PMC4850281 [Available on 04/29/17].
    31. Brunette TJ, Parmeggiani F, Huang PS, Bhabha G, Ekiert DC, Tsutakawa SE, Hura GL, Tainer J, Baker D. Exploring the repeat protein universe through computational protein design. Nature. 2015 Dec 24; 528(7583):580-4. PMID: 26675729.
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    32. Chaudhury P, Neiner T, D'Imprima E, Banerjee A, Reindl S, Ghosh A, Arvai AS, Mills DJ, van der Does C, Tainer J, Vonck J, Albers SV. The nucleotide-dependent interaction of FlaH and FlaI is essential for assembly and function of the archaellum motor. Mol Microbiol. 2016 Feb; 99(4):674-85. PMID: 26508112; PMCID: PMC5019145.
    33. Shin DS, Tainer J. Molecular biology: DNA repair without flipping out. Nature. 2015 Nov 12; 527(7577):168-9. PMID: 26524524.
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    34. Pratt AJ, DiDonato M, Shin DS, Cabelli DE, Bruns CK, Belzer CA, Gorringe AR, Langford PR, Tabatabai LB, Kroll JS, Tainer J, Getzoff ED. Structural, Functional, and Immunogenic Insights on Cu,Zn Superoxide Dismutase Pathogenic Virulence Factors from Neisseria meningitidis and Brucella abortus. J Bacteriol. 2015 Dec; 197(24):3834-47. PMID: 26459556; PMCID: PMC4652047.
    35. He W, Scharadin TM, Saldana M, Gellner C, Hoang-Phou S, Takanishi C, Hura GL, Tainer J, Carraway KL, Henderson PT, Coleman MA. Cell-free expression of functional receptor tyrosine kinases. Sci Rep. 2015 Aug 14; 5:12896. PMID: 26274523; PMCID: PMC4929682.
    36. Tsai CL, Williams GJ, Perry JJ, Tainer J. An AAA+ ATPase Clamshell Targets Transposition. Cell. 2015 Aug 13; 162(4):701-3. PMID: 26276624.
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    37. Kukshal V, Kim IK, Hura GL, Tomkinson AE, Tainer J, Ellenberger T. Human DNA ligase III bridges two DNA ends to promote specific intermolecular DNA end joining. Nucleic Acids Res. 2015 Aug 18; 43(14):7021-31. PMID: 26130724; PMCID: PMC4538836.
    38. Tsutakawa SE, Tainer J. Bending Forks and Wagging Dogs--It's about the DNA 3' Tail. Mol Cell. 2015 Jun 18; 58(6):972-3. PMID: 26091346.
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    39. Rambo RP, Tainer J. Modeling macromolecular motions by x-ray-scattering-constrained molecular dynamics. Biophys J. 2015 May 19; 108(10):2421-2423. PMID: 25992719; PMCID: PMC4457040.
    40. Banerjee A, Tsai CL, Chaudhury P, Tripp P, Arvai AS, Ishida JP, Tainer J, Albers SV. FlaF Is a ß-Sandwich Protein that Anchors the Archaellum in the Archaeal Cell Envelope by Binding the S-Layer Protein. Structure. 2015 May 05; 23(5):863-872. PMID: 25865246; PMCID: PMC4425475.
    41. Tsutakawa SE, Yan C, Xu X, Weinacht CP, Freudenthal BD, Yang K, Zhuang Z, Washington MT, Tainer J, Ivanov I. Structurally distinct ubiquitin- and sumo-modified PCNA: implications for their distinct roles in the DNA damage response. Structure. 2015 Apr 07; 23(4):724-733. PMID: 25773143; PMCID: PMC4394044.
    42. Tainer J. Dynamic structures in DNA damage responses & cancer. Prog Biophys Mol Biol. 2015 Mar; 117(2-3):129-133. PMID: 25934179.
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    43. Fuss JO, Tsai CL, Ishida JP, Tainer J. Emerging critical roles of Fe-S clusters in DNA replication and repair. Biochim Biophys Acta. 2015 Jun; 1853(6):1253-71. PMID: 25655665; PMCID: PMC4576882.
    44. Lafrance-Vanasse J, Williams GJ, Tainer J. Envisioning the dynamics and flexibility of Mre11-Rad50-Nbs1 complex to decipher its roles in DNA replication and repair. Prog Biophys Mol Biol. 2015 Mar; 117(2-3):182-193. PMID: 25576492.
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    45. Tsai CL, Burkinshaw BJ, Strynadka NC, Tainer J. The Salmonella type III secretion system virulence effector forms a new hexameric chaperone assembly for export of effector/chaperone complexes. J Bacteriol. 2015 Feb 15; 197(4):672-5. PMID: 25488302; PMCID: PMC4334186.
    46. Lai YT, Reading E, Hura GL, Tsai KL, Laganowsky A, Asturias FJ, Tainer J, Robinson CV, Yeates TO. Structure of a designed protein cage that self-assembles into a highly porous cube. Nat Chem. 2014 Dec; 6(12):1065-71. PMID: 25411884; PMCID: PMC4239666.
    47. Pratt AJ, Shin DS, Merz GE, Rambo RP, Lancaster WA, Dyer KN, Borbat PP, Poole FL, Adams MW, Freed JH, Crane BR, Tainer J, Getzoff ED. Aggregation propensities of superoxide dismutase G93 hotspot mutants mirror ALS clinical phenotypes. Proc Natl Acad Sci U S A. 2014 Oct 28; 111(43):E4568-76. PMID: 25316790; PMCID: PMC4217430.
    48. Holton JM, Classen S, Frankel KA, Tainer J. The R-factor gap in macromolecular crystallography: an untapped potential for insights on accurate structures. FEBS J. 2014 Sep; 281(18):4046-60. PMID: 25040949; PMCID: PMC4282448.
    49. Tsai CL, Shi Y, Tainer J. How substrate specificity is imposed on a histone demethylase--lessons from KDM2A. Genes Dev. 2014 Aug 15; 28(16):1735-8. PMID: 25128493; PMCID: PMC4197959.
    50. McTernan PM, Chandrayan SK, Wu CH, Vaccaro BJ, Lancaster WA, Yang Q, Fu D, Hura GL, Tainer J, Adams MW. Intact functional fourteen-subunit respiratory membrane-bound [NiFe]-hydrogenase complex of the hyperthermophilic archaeon Pyrococcus furiosus. J Biol Chem. 2014 Jul 11; 289(28):19364-72. PMID: 24860091.
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    51. Mason AC, Rambo RP, Greer B, Pritchett M, Tainer J, Cortez D, Eichman BF. A structure-specific nucleic acid-binding domain conserved among DNA repair proteins. Proc Natl Acad Sci U S A. 2014 May 27; 111(21):7618-23. PMID: 24821763; PMCID: PMC4040553.
    52. Tsutakawa SE, Lafrance-Vanasse J, Tainer J. The cutting edges in DNA repair, licensing, and fidelity: DNA and RNA repair nucleases sculpt DNA to measure twice, cut once. DNA Repair (Amst). 2014 Jul; 19:95-107. PMID: 24754999; PMCID: PMC4051888.
    53. Groocock LM, Nie M, Prudden J, Moiani D, Wang T, Cheltsov A, Rambo RP, Arvai AS, Hitomi C, Tainer J, Luger K, Perry JJ, Lazzerini-Denchi E, Boddy MN. RNF4 interacts with both SUMO and nucleosomes to promote the DNA damage response. EMBO Rep. 2014 May; 15(5):601-8. PMID: 24714598; PMCID: PMC4210088.
    54. Seeger F, Quintyn R, Tanimoto A, Williams GJ, Tainer J, Wysocki VH, Garcin ED. Interfacial residues promote an optimal alignment of the catalytic center in human soluble guanylate cyclase: heterodimerization is required but not sufficient for activity. Biochemistry. 2014 Apr 08; 53(13):2153-65. PMID: 24669844; PMCID: PMC3985721.
    55. Williams GJ, Hammel M, Radhakrishnan SK, Ramsden D, Lees-Miller SP, Tainer J. Structural insights into NHEJ: building up an integrated picture of the dynamic DSB repair super complex, one component and interaction at a time. DNA Repair (Amst). 2014 May; 17:110-20. PMID: 24656613; PMCID: PMC4102006.
    56. Shin DS, Pratt AJ, Tainer J. Archaeal genome guardians give insights into eukaryotic DNA replication and damage response proteins. Archaea. 2014; 2014:206735. PMID: 24701133; PMCID: PMC3950489.
    57. Roset R, Inagaki A, Hohl M, Brenet F, Lafrance-Vanasse J, Lange J, Scandura JM, Tainer J, Keeney S, Petrini JH. The Rad50 hook domain regulates DNA damage signaling and tumorigenesis. Genes Dev. 2014 Mar 01; 28(5):451-62. PMID: 24532689; PMCID: PMC3950343.
    58. Deshpande RA, Williams GJ, Limbo O, Williams RS, Kuhnlein J, Lee JH, Classen S, Guenther G, Russell P, Tainer J, Paull TT. ATP-driven Rad50 conformations regulate DNA tethering, end resection, and ATM checkpoint signaling. EMBO J. 2014 Mar 03; 33(5):482-500. PMID: 24493214.
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    59. Reyes FE, Schwartz CR, Tainer J, Rambo RP. Methods for using new conceptual tools and parameters to assess RNA structure by small-angle X-ray scattering. Methods Enzymol. 2014; 549:235-63. PMID: 25432752.
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    60. Dyer KN, Hammel M, Rambo RP, Tsutakawa SE, Rodic I, Classen S, Tainer J, Hura GL. High-throughput SAXS for the characterization of biomolecules in solution: a practical approach. Methods Mol Biol. 2014; 1091:245-58. PMID: 24203338; PMCID: PMC4057279.
    61. Tsai CL, Tainer J. Probing DNA by 2-OG-dependent dioxygenase. Cell. 2013 Dec 19; 155(7):1448-50. PMID: 24360270; PMCID: PMC3916139.
    62. Shibata A, Moiani D, Arvai AS, Perry J, Harding SM, Genois MM, Maity R, van Rossum-Fikkert S, Kertokalio A, Romoli F, Ismail A, Ismalaj E, Petricci E, Neale MJ, Bristow RG, Masson JY, Wyman C, Jeggo PA, Tainer J. DNA double-strand break repair pathway choice is directed by distinct MRE11 nuclease activities. Mol Cell. 2014 Jan 09; 53(1):7-18. PMID: 24316220; PMCID: PMC3909494.
    63. Pieper U, Webb BM, Dong GQ, Schneidman-Duhovny D, Fan H, Kim SJ, Khuri N, Spill YG, Weinkam P, Hammel M, Tainer J, Nilges M, Sali A. ModBase, a database of annotated comparative protein structure models and associated resources. Nucleic Acids Res. 2014 Jan; 42(Database issue):D336-46. PMID: 24271400; PMCID: PMC3965011.
    64. Crown KN, Savytskyy OP, Malik SB, Logsdon J, Williams RS, Tainer J, Zolan ME. A mutation in the FHA domain of Coprinus cinereus Nbs1 Leads to Spo11-independent meiotic recombination and chromosome segregation. G3 (Bethesda). 2013 Nov 06; 3(11):1927-43. PMID: 24062528.
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    65. Zhao W, Saro D, Hammel M, Kwon Y, Xu Y, Rambo RP, Williams GJ, Chi P, Lu L, Pezza RJ, Camerini-Otero RD, Tainer J, Wang HW, Sung P. Mechanistic insights into the role of Hop2-Mnd1 in meiotic homologous DNA pairing. Nucleic Acids Res. 2014 Jan; 42(2):906-17. PMID: 24150939; PMCID: PMC3902922.
    66. Hura GL, Tsai CL, Claridge SA, Mendillo ML, Smith JM, Williams GJ, Mastroianni AJ, Alivisatos AP, Putnam CD, Kolodner RD, Tainer J. DNA conformations in mismatch repair probed in solution by X-ray scattering from gold nanocrystals. Proc Natl Acad Sci U S A. 2013 Oct 22; 110(43):17308-13. PMID: 24101514; PMCID: PMC3808630.
    67. Liu X, Hammel M, He Y, Tainer J, Jeng US, Zhang L, Wang S, Wang X. Structural insights into the interaction of IL-33 with its receptors. Proc Natl Acad Sci U S A. 2013 Sep 10; 110(37):14918-23. PMID: 23980170; PMCID: PMC3773798.
    68. Schneidman-Duhovny D, Hammel M, Tainer J, Sali A. Accurate SAXS profile computation and its assessment by contrast variation experiments. Biophys J. 2013 Aug 20; 105(4):962-74. PMID: 23972848; PMCID: PMC3752106.
    69. Trewhella J, Hendrickson WA, Kleywegt GJ, Sali A, Sato M, Schwede T, Svergun DI, Tainer J, Westbrook J, Berman HM. Report of the wwPDB Small-Angle Scattering Task Force: data requirements for biomolecular modeling and the PDB. Structure. 2013 Jun 04; 21(6):875-81. PMID: 23747111.
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    70. Hura GL, Budworth H, Dyer KN, Rambo RP, Hammel M, McMurray CT, Tainer J. Comprehensive macromolecular conformations mapped by quantitative SAXS analyses. Nat Methods. 2013 Jun; 10(6):453-4. PMID: 23624664; PMCID: PMC3728378.
    71. Rambo RP, Tainer J. Accurate assessment of mass, models and resolution by small-angle scattering. Nature. 2013 Apr 25; 496(7446):477-81. PMID: 23619693; PMCID: PMC3714217.
    72. Hegde ML, Tsutakawa SE, Hegde PM, Holthauzen LM, Li J, Oezguen N, Hilser VJ, Tainer J, Mitra S. The disordered C-terminal domain of human DNA glycosylase NEIL1 contributes to its stability via intramolecular interactions. J Mol Biol. 2013 Jul 10; 425(13):2359-71. PMID: 23542007; PMCID: PMC3779128.
    73. Rambo RP, Tainer J. Super-resolution in solution X-ray scattering and its applications to structural systems biology. Annu Rev Biophys. 2013; 42:415-41. PMID: 23495971.
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    74. Reindl S, Ghosh A, Williams GJ, Lassak K, Neiner T, Henche AL, Albers SV, Tainer J. Insights into FlaI functions in archaeal motor assembly and motility from structures, conformations, and genetics. Mol Cell. 2013 Mar 28; 49(6):1069-82. PMID: 23416110; PMCID: PMC3615136.
    75. Mahaney BL, Hammel M, Meek K, Tainer J, Lees-Miller SP. XRCC4 and XLF form long helical protein filaments suitable for DNA end protection and alignment to facilitate DNA double strand break repair. Biochem Cell Biol. 2013 Feb; 91(1):31-41. PMID: 23442139; PMCID: PMC3725335.
    76. Perry JJ, Tainer J. Developing advanced X-ray scattering methods combined with crystallography and computation. Methods. 2013 Mar; 59(3):363-71. PMID: 23376408; PMCID: PMC3684416.
    77. Tsutakawa SE, Shin DS, Mol CD, Izumi T, Arvai AS, Mantha AK, Szczesny B, Ivanov IN, Hosfield DJ, Maiti B, Pique ME, Frankel KA, Hitomi K, Cunningham RP, Mitra S, Tainer J. Conserved structural chemistry for incision activity in structurally non-homologous apurinic/apyrimidinic endonuclease APE1 and endonuclease IV DNA repair enzymes. J Biol Chem. 2013 Mar 22; 288(12):8445-55. PMID: 23355472; PMCID: PMC3605660.
    78. Classen S, Hura GL, Holton JM, Rambo RP, Rodic I, McGuire PJ, Dyer K, Hammel M, Meigs G, Frankel KA, Tainer J. Implementation and performance of SIBYLS: a dual endstation small-angle X-ray scattering and macromolecular crystallography beamline at the Advanced Light Source. J Appl Crystallogr. 2013 Feb 01; 46(Pt 1):1-13. PMID: 23396808.
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    79. Brosey CA, Yan C, Tsutakawa SE, Heller WT, Rambo RP, Tainer J, Ivanov I, Chazin WJ. A new structural framework for integrating replication protein A into DNA processing machinery. Nucleic Acids Res. 2013 Feb 01; 41(4):2313-27. PMID: 23303776; PMCID: PMC3575853.
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    164. Pebernard S, Perry JJ, Tainer J, Boddy MN. Nse1 RING-like domain supports functions of the Smc5-Smc6 holocomplex in genome stability. Mol Biol Cell. 2008 Oct; 19(10):4099-109. PMID: 18667531; PMCID: PMC2555936.
    165. Fan L, Fuss JO, Cheng QJ, Arvai AS, Hammel M, Roberts VA, Cooper PK, Tainer J. XPD helicase structures and activities: insights into the cancer and aging phenotypes from XPD mutations. Cell. 2008 May 30; 133(5):789-800. PMID: 18510924; PMCID: PMC3055247.
    166. Chrencik JE, Brooun A, Zhang H, Mathews II, Hura GL, Foster SA, Perry JJ, Streiff M, Ramage P, Widmer H, Bokoch GM, Tainer J, Weckbecker G, Kuhn P. Structural basis of guanine nucleotide exchange mediated by the T-cell essential Vav1. J Mol Biol. 2008 Jul 25; 380(5):828-43. PMID: 18589439; PMCID: PMC2620086.
    167. Garcin ED, Hosfield DJ, Desai SA, Haas BJ, Björas M, Cunningham RP, Tainer J. DNA apurinic-apyrimidinic site binding and excision by endonuclease IV. Nat Struct Mol Biol. 2008 May; 15(5):515-22. PMID: 18408731.
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    170. Roberts BR, Tainer J, Getzoff ED, Malencik DA, Anderson SR, Bomben VC, Meyers KR, Karplus PA, Beckman JS. Structural characterization of zinc-deficient human superoxide dismutase and implications for ALS. J Mol Biol. 2007 Nov 02; 373(4):877-90. PMID: 17888947; PMCID: PMC2175016.
    171. Putnam CD, Hammel M, Hura GL, Tainer J. X-ray solution scattering (SAXS) combined with crystallography and computation: defining accurate macromolecular structures, conformations and assemblies in solution. Q Rev Biophys. 2007 Aug; 40(3):191-285. PMID: 18078545.
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    174. Williams R, Sengerová B, Osborne S, Syson K, Ault S, Kilgour A, Chapados BR, Tainer J, Sayers JR, Grasby JA. Comparison of the catalytic parameters and reaction specificities of a phage and an archaeal flap endonuclease. J Mol Biol. 2007 Aug 03; 371(1):34-48. PMID: 17559871; PMCID: PMC1993357.
    175. Williams RS, Tainer J. Learning our ABCs: Rad50 directs MRN repair functions via adenylate kinase activity from the conserved ATP binding cassette. Mol Cell. 2007 Mar 23; 25(6):789-91. PMID: 17386254.
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    176. Barondeau DP, Kassmann CJ, Tainer J, Getzoff ED. The case of the missing ring: radical cleavage of a carbon-carbon bond and implications for GFP chromophore biosynthesis. J Am Chem Soc. 2007 Mar 21; 129(11):3118-26. PMID: 17326633.
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    177. Vijayakumar S, Chapados BR, Schmidt KH, Kolodner RD, Tainer J, Tomkinson AE. The C-terminal domain of yeast PCNA is required for physical and functional interactions with Cdc9 DNA ligase. Nucleic Acids Res. 2007; 35(5):1624-37. PMID: 17308348; PMCID: PMC1865074.
    178. Yamagata A, Tainer J. Hexameric structures of the archaeal secretion ATPase GspE and implications for a universal secretion mechanism. EMBO J. 2007 Feb 07; 26(3):878-90. PMID: 17255937; PMCID: PMC1794398.
    179. Ivanov I, Tainer J, McCammon JA. Unraveling the three-metal-ion catalytic mechanism of the DNA repair enzyme endonuclease IV. Proc Natl Acad Sci U S A. 2007 Jan 30; 104(5):1465-70. PMID: 17242363; PMCID: PMC1780068.
    180. Hitomi K, Iwai S, Tainer J. The intricate structural chemistry of base excision repair machinery: implications for DNA damage recognition, removal, and repair. DNA Repair (Amst). 2007 Apr 01; 6(4):410-28. PMID: 17208522.
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    181. Tsutakawa SE, Hura GL, Frankel KA, Cooper PK, Tainer J. Structural analysis of flexible proteins in solution by small angle X-ray scattering combined with crystallography. J Struct Biol. 2007 May; 158(2):214-23. PMID: 17182256.
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    182. Ivanov I, Chapados BR, McCammon JA, Tainer J. Proliferating cell nuclear antigen loaded onto double-stranded DNA: dynamics, minor groove interactions and functional implications. Nucleic Acids Res. 2006; 34(20):6023-33. PMID: 17071716; PMCID: PMC1635319.
    183. Pascal JM, Tsodikov OV, Hura GL, Song W, Cotner EA, Classen S, Tomkinson AE, Tainer J, Ellenberger T. A flexible interface between DNA ligase and PCNA supports conformational switching and efficient ligation of DNA. Mol Cell. 2006 Oct 20; 24(2):279-91. PMID: 17052461.
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    184. Craig L, Volkmann N, Arvai AS, Pique ME, Yeager M, Egelman EH, Tainer J. Type IV pilus structure by cryo-electron microscopy and crystallography: implications for pilus assembly and functions. Mol Cell. 2006 Sep 01; 23(5):651-62. PMID: 16949362.
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    185. Sundheim O, Vågbø CB, Bjørås M, Sousa MM, Talstad V, Aas PA, Drabløs F, Krokan HE, Tainer J, Slupphaug G. Human ABH3 structure and key residues for oxidative demethylation to reverse DNA/RNA damage. EMBO J. 2006 Jul 26; 25(14):3389-97. PMID: 16858410; PMCID: PMC1523172.
    186. Perry JJ, Yannone SM, Holden LG, Hitomi C, Asaithamby A, Han S, Cooper PK, Chen DJ, Tainer J. WRN exonuclease structure and molecular mechanism imply an editing role in DNA end processing. Nat Struct Mol Biol. 2006 May; 13(5):414-22. PMID: 16622405.
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    187. Barondeau DP, Kassmann CJ, Tainer J, Getzoff ED. Understanding GFP posttranslational chemistry: structures of designed variants that achieve backbone fragmentation, hydrolysis, and decarboxylation. J Am Chem Soc. 2006 Apr 12; 128(14):4685-93. PMID: 16594705.
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    188. Fan L, Arvai AS, Cooper PK, Iwai S, Hanaoka F, Tainer J. Conserved XPB core structure and motifs for DNA unwinding: implications for pathway selection of transcription or excision repair. Mol Cell. 2006 Apr 07; 22(1):27-37. PMID: 16600867.
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    189. Doi Y, Katafuchi A, Fujiwara Y, Hitomi K, Tainer J, Ide H, Iwai S. Synthesis and characterization of oligonucleotides containing 2'-fluorinated thymidine glycol as inhibitors of the endonuclease III reaction. Nucleic Acids Res. 2006; 34(5):1540-51. PMID: 16547199; PMCID: PMC1409675.
    190. Fan L, Kim S, Farr CL, Schaefer KT, Randolph KM, Tainer J, Kaguni LS. A novel processive mechanism for DNA synthesis revealed by structure, modeling and mutagenesis of the accessory subunit of human mitochondrial DNA polymerase. J Mol Biol. 2006 May 19; 358(5):1229-43. PMID: 16574152; PMCID: PMC4703138.
    191. Barondeau DP, Tainer J, Getzoff ED. Structural evidence for an enolate intermediate in GFP fluorophore biosynthesis. J Am Chem Soc. 2006 Mar 15; 128(10):3166-8. PMID: 16522096.
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    192. Wood TI, Barondeau DP, Hitomi C, Kassmann CJ, Tainer J, Getzoff ED. Defining the role of arginine 96 in green fluorescent protein fluorophore biosynthesis. Biochemistry. 2005 Dec 13; 44(49):16211-20. PMID: 16331981.
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    193. Ayala P, Wilbur JS, Wetzler LM, Tainer J, Snyder A, So M. The pilus and porin of Neisseria gonorrhoeae cooperatively induce Ca(2+) transients in infected epithelial cells. Cell Microbiol. 2005 Dec; 7(12):1736-48. PMID: 16309460.
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    194. Sarker AH, Tsutakawa SE, Kostek S, Ng C, Shin DS, Peris M, Campeau E, Tainer J, Nogales E, Cooper PK. Recognition of RNA polymerase II and transcription bubbles by XPG, CSB, and TFIIH: insights for transcription-coupled repair and Cockayne Syndrome. Mol Cell. 2005 Oct 28; 20(2):187-98. PMID: 16246722.
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    195. Putnam CD, Tainer J. Protein mimicry of DNA and pathway regulation. DNA Repair (Amst). 2005 Dec 08; 4(12):1410-20. PMID: 16226493.
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    196. Williams RS, Tainer J. A nanomachine for making ends meet: MRN is a flexing scaffold for the repair of DNA double-strand breaks. Mol Cell. 2005 Sep 16; 19(6):724-6. PMID: 16168369.
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    197. Simeoni F, Arvai A, Bello P, Gondeau C, Hopfner KP, Neyroz P, Heitz F, Tainer J, Divita G. Biochemical characterization and crystal structure of a Dim1 family associated protein: Dim2. Biochemistry. 2005 Sep 13; 44(36):11997-2008. PMID: 16142897.
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    198. Ayala I, Perry JJ, Szczepanski J, Tainer J, Vala MT, Nick HS, Silverman DN. Hydrogen bonding in human manganese superoxide dismutase containing 3-fluorotyrosine. Biophys J. 2005 Dec; 89(6):4171-9. PMID: 16150974; PMCID: PMC1366982.
    199. Huffman JL, Sundheim O, Tainer J. DNA base damage recognition and removal: new twists and grooves. Mutat Res. 2005 Sep 04; 577(1-2):55-76. PMID: 15941573.
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    200. Tubbs JL, Tainer J, Getzoff ED. Crystallographic structures of Discosoma red fluorescent protein with immature and mature chromophores: linking peptide bond trans-cis isomerization and acylimine formation in chromophore maturation. Biochemistry. 2005 Jul 26; 44(29):9833-40. PMID: 16026155.
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    201. Crowther LJ, Yamagata A, Craig L, Tainer J, Donnenberg MS. The ATPase activity of BfpD is greatly enhanced by zinc and allosteric interactions with other Bfp proteins. J Biol Chem. 2005 Jul 01; 280(26):24839-48. PMID: 15866879; PMCID: PMC1224739.
    202. Barondeau DP, Kassmann CJ, Tainer J, Getzoff ED. Understanding GFP chromophore biosynthesis: controlling backbone cyclization and modifying post-translational chemistry. Biochemistry. 2005 Feb 15; 44(6):1960-70. PMID: 15697221.
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    203. Doi Y, Hitomi K, Tainer J, Iwai S. Synthesis of oligonucleotides containing 2'-fluorinated thymidine glycol as mechanism-based inhibitors of endonuclease III. Nucleic Acids Symp Ser (Oxf). 2005; (49):195-6. PMID: 17150700.
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    204. Manuel RC, Hitomi K, Arvai AS, House PG, Kurtz AJ, Dodson ML, McCullough AK, Tainer J, Lloyd RS. Reaction intermediates in the catalytic mechanism of Escherichia coli MutY DNA glycosylase. J Biol Chem. 2004 Nov 05; 279(45):46930-9. PMID: 15326180.
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    205. Shin DS, Chahwan C, Huffman JL, Tainer J. Structure and function of the double-strand break repair machinery. DNA Repair (Amst). 2004 Aug-Sep; 3(8-9):863-73. PMID: 15279771.
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    206. Barondeau DP, Kassmann CJ, Bruns CK, Tainer J, Getzoff ED. Nickel superoxide dismutase structure and mechanism. Biochemistry. 2004 Jun 29; 43(25):8038-47. PMID: 15209499.
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    207. Daniels DS, Woo TT, Luu KX, Noll DM, Clarke ND, Pegg AE, Tainer J. DNA binding and nucleotide flipping by the human DNA repair protein AGT. Nat Struct Mol Biol. 2004 Aug; 11(8):714-20. PMID: 15221026.
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    208. Garcin ED, Bruns CM, Lloyd SJ, Hosfield DJ, Tiso M, Gachhui R, Stuehr DJ, Tainer J, Getzoff ED. Structural basis for isozyme-specific regulation of electron transfer in nitric-oxide synthase. J Biol Chem. 2004 Sep 03; 279(36):37918-27. PMID: 15208315.
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    209. de Jager M, Trujillo KM, Sung P, Hopfner KP, Carney JP, Tainer J, Connelly JC, Leach DR, Kanaar R, Wyman C. Differential arrangements of conserved building blocks among homologs of the Rad50/Mre11 DNA repair protein complex. J Mol Biol. 2004 Jun 11; 339(4):937-49. PMID: 15165861.
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    210. Greenleaf WB, Perry JJ, Hearn AS, Cabelli DE, Lepock JR, Stroupe ME, Tainer J, Nick HS, Silverman DN. Role of hydrogen bonding in the active site of human manganese superoxide dismutase. Biochemistry. 2004 Jun 08; 43(22):7038-45. PMID: 15170341.
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    211. Connolly S, Aberg A, Arvai A, Beaton HG, Cheshire DR, Cook AR, Cooper S, Cox D, Hamley P, Mallinder P, Millichip I, Nicholls DJ, Rosenfeld RJ, St-Gallay SA, Tainer J, Tinker AC, Wallace AV. 2-aminopyridines as highly selective inducible nitric oxide synthase inhibitors. Differential binding modes dependent on nitrogen substitution. J Med Chem. 2004 Jun 03; 47(12):3320-3. PMID: 15163211.
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    212. Craig L, Pique ME, Tainer J. Type IV pilus structure and bacterial pathogenicity. Nat Rev Microbiol. 2004 May; 2(5):363-78. PMID: 15100690.
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    213. Arthur LM, Gustausson K, Hopfner KP, Carson CT, Stracker TH, Karcher A, Felton D, Weitzman MD, Tainer J, Carney JP. Structural and functional analysis of Mre11-3. Nucleic Acids Res. 2004; 32(6):1886-93. PMID: 15047855; PMCID: PMC390353.
    214. Qiu J, Liu R, Chapados BR, Sherman M, Tainer J, Shen B. Interaction interface of human flap endonuclease-1 with its DNA substrates. J Biol Chem. 2004 Jun 04; 279(23):24394-402. PMID: 15037610.
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    215. Moncalian G, Lengsfeld B, Bhaskara V, Hopfner KP, Karcher A, Alden E, Tainer J, Paull TT. The rad50 signature motif: essential to ATP binding and biological function. J Mol Biol. 2004 Jan 23; 335(4):937-51. PMID: 14698290.
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    216. Chapados BR, Hosfield DJ, Han S, Qiu J, Yelent B, Shen B, Tainer J. Structural basis for FEN-1 substrate specificity and PCNA-mediated activation in DNA replication and repair. Cell. 2004 Jan 09; 116(1):39-50. PMID: 14718165.
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    217. Hearn AS, Fan L, Lepock JR, Luba JP, Greenleaf WB, Cabelli DE, Tainer J, Nick HS, Silverman DN. Amino acid substitution at the dimeric interface of human manganese superoxide dismutase. J Biol Chem. 2004 Feb 13; 279(7):5861-6. PMID: 14638684.
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    218. Barondeau DP, Putnam CD, Kassmann CJ, Tainer J, Getzoff ED. Mechanism and energetics of green fluorescent protein chromophore synthesis revealed by trapped intermediate structures. Proc Natl Acad Sci U S A. 2003 Oct 14; 100(21):12111-6. PMID: 14523232; PMCID: PMC218721.
    219. DiDonato M, Craig L, Huff ME, Thayer MM, Cardoso RM, Kassmann CJ, Lo TP, Bruns CK, Powers ET, Kelly JW, Getzoff ED, Tainer J. ALS mutants of human superoxide dismutase form fibrous aggregates via framework destabilization. J Mol Biol. 2003 Sep 19; 332(3):601-15. PMID: 12963370.
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    220. Shin DS, Pellegrini L, Daniels DS, Yelent B, Craig L, Bates D, Yu DS, Shivji MK, Hitomi C, Arvai AS, Volkmann N, Tsuruta H, Blundell TL, Venkitaraman AR, Tainer J. Full-length archaeal Rad51 structure and mutants: mechanisms for RAD51 assembly and control by BRCA2. EMBO J. 2003 Sep 01; 22(17):4566-76. PMID: 12941707; PMCID: PMC202371.
    221. Huffman JL, Li H, White RH, Tainer J. Structural basis for recognition and catalysis by the bifunctional dCTP deaminase and dUTPase from Methanococcus jannaschii. J Mol Biol. 2003 Aug 22; 331(4):885-96. PMID: 12909016.
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    222. McMurray CT, Tainer J. Cancer, cadmium and genome integrity. Nat Genet. 2003 Jul; 34(3):239-41. PMID: 12833042.
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    223. Wang M, Howell JM, Libbey JE, Tainer J, Fujinami RS. Manganese superoxide dismutase induction during measles virus infection. J Med Virol. 2003 Jul; 70(3):470-4. PMID: 12767013.
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    224. Craig L, Taylor RK, Pique ME, Adair BD, Arvai AS, Singh M, Lloyd SJ, Shin DS, Getzoff ED, Yeager M, Forest KT, Tainer J. Type IV pilin structure and assembly: X-ray and EM analyses of Vibrio cholerae toxin-coregulated pilus and Pseudomonas aeruginosa PAK pilin. Mol Cell. 2003 May; 11(5):1139-50. PMID: 12769840.
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    225. Cardoso RM, Daniels DS, Bruns CM, Tainer J. Characterization of the electrophile binding site and substrate binding mode of the 26-kDa glutathione S-transferase from Schistosoma japonicum. Proteins. 2003 Apr 01; 51(1):137-46. PMID: 12596270.
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    226. Hopfner KP, Tainer J. Rad50/SMC proteins and ABC transporters: unifying concepts from high-resolution structures. Curr Opin Struct Biol. 2003 Apr; 13(2):249-55. PMID: 12727520.
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    227. Hearn AS, Stroupe ME, Cabelli DE, Ramilo CA, Luba JP, Tainer J, Nick HS, Silverman DN. Catalytic and structural effects of amino acid substitution at histidine 30 in human manganese superoxide dismutase: insertion of valine C gamma into the substrate access channel. Biochemistry. 2003 Mar 18; 42(10):2781-9. PMID: 12627943.
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    228. Aoyagi M, Arvai AS, Tainer J, Getzoff ED. Structural basis for endothelial nitric oxide synthase binding to calmodulin. EMBO J. 2003 Feb 17; 22(4):766-75. PMID: 12574113; PMCID: PMC145438.
    229. Brudler R, Hitomi K, Daiyasu H, Toh H, Kucho K, Ishiura M, Kanehisa M, Roberts VA, Todo T, Tainer J, Getzoff ED. Identification of a new cryptochrome class. Structure, function, and evolution. Mol Cell. 2003 Jan; 11(1):59-67. PMID: 12535521.
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    230. Rosenfeld RJ, Garcin ED, Panda K, Andersson G, Aberg A, Wallace AV, Morris GM, Olson AJ, Stuehr DJ, Tainer J, Getzoff ED. Conformational changes in nitric oxide synthases induced by chlorzoxazone and nitroindazoles: crystallographic and computational analyses of inhibitor potency. Biochemistry. 2002 Nov 26; 41(47):13915-25. PMID: 12437348.
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    231. Cardoso RM, Thayer MM, DiDonato M, Lo TP, Bruns CK, Getzoff ED, Tainer J. Insights into Lou Gehrig's disease from the structure and instability of the A4V mutant of human Cu,Zn superoxide dismutase. J Mol Biol. 2002 Nov 22; 324(2):247-56. PMID: 12441104.
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    232. Abdalla AM, Bruns CM, Tainer J, Mannervik B, Stenberg G. Design of a monomeric human glutathione transferase GSTP1, a structurally stable but catalytically inactive protein. Protein Eng. 2002 Oct; 15(10):827-34. PMID: 12468717.
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    233. Hopfner KP, Craig L, Moncalian G, Zinkel RA, Usui T, Owen BA, Karcher A, Henderson B, Bodmer JL, McMurray CT, Carney JP, Petrini JH, Tainer J. The Rad50 zinc-hook is a structure joining Mre11 complexes in DNA recombination and repair. Nature. 2002 Aug 01; 418(6897):562-6. PMID: 12152085.
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    234. Morris MC, Gondeau C, Tainer J, Divita G. Kinetic mechanism of activation of the Cdk2/cyclin A complex. Key role of the C-lobe of the Cdk. J Biol Chem. 2002 Jun 28; 277(26):23847-53. PMID: 11959850.
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    235. Barondeau DP, Kassmann CJ, Tainer J, Getzoff ED. Structural chemistry of a green fluorescent protein Zn biosensor. J Am Chem Soc. 2002 Apr 10; 124(14):3522-4. PMID: 11929238.
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    236. Hopfner KP, Putnam CD, Tainer J. DNA double-strand break repair from head to tail. Curr Opin Struct Biol. 2002 Feb; 12(1):115-22. PMID: 11839498.
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    237. Han S, Tainer J. The ARTT motif and a unified structural understanding of substrate recognition in ADP-ribosylating bacterial toxins and eukaryotic ADP-ribosyltransferases. Int J Med Microbiol. 2002 Feb; 291(6-7):523-9. PMID: 11890553.
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    238. Mol CD, Arvai AS, Begley TJ, Cunningham RP, Tainer J. Structure and activity of a thermostable thymine-DNA glycosylase: evidence for base twisting to remove mismatched normal DNA bases. J Mol Biol. 2002 Jan 18; 315(3):373-84. PMID: 11786018.
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    239. Castagnetto JM, Hennessy SW, Roberts VA, Getzoff ED, Tainer J, Pique ME. MDB: the Metalloprotein Database and Browser at The Scripps Research Institute. Nucleic Acids Res. 2002 Jan 01; 30(1):379-82. PMID: 11752342; PMCID: PMC99158.
    240. Adak S, Bilwes AM, Panda K, Hosfield D, Aulak KS, McDonald JF, Tainer J, Getzoff ED, Crane BR, Stuehr DJ. Cloning, expression, and characterization of a nitric oxide synthase protein from Deinococcus radiodurans. Proc Natl Acad Sci U S A. 2002 Jan 08; 99(1):107-12. PMID: 11756668; PMCID: PMC117522.

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