Minor structural changes in a mutated human melanoma antigen correspond to dramatically enhanced stimulation of a CD4+ tumor-infiltrating lymphocyte line.

Abstract:

:While most immunotherapies for cancer have focused on eliciting specific CD8+ cytotoxic T lymphocyte killing of tumor cells, a mounting body of evidence suggests that stimulation of anti-tumor CD4+ T cell help may be required for highly effective therapy. Several MHC class II-restricted tumor antigens that specifically activate such CD4+ helper T lymphocytes have now been identified, including one from a melanoma tumor that is caused by a single base-pair mutation in the glycolytic enzyme triosephosphate isomerase. This mutation results in the conversion of a threonine residue to isoleucine within the antigenic epitope, concomitant with a greater than five log-fold increase in stimulation of a CD4+ tumor-infiltrating lymphocyte line. Here, we present the crystal structures of HLA-DR1 in complex with both wild-type and mutant TPI peptide antigens, the first structures of tumor peptide antigen/MHC class II complexes recognized by CD4+ T cells to be reported. These structures show that very minor changes in the binding surface for T cell receptor correspond to the dramatic differences in T cell stimulation. Defining the structural basis by which CD4+ T cell help is invoked in an anti-tumor immune response will likely aid the design of more effective cancer immunotherapies.

journal_name

J Mol Biol

authors

Sundberg EJ,Sawicki MW,Southwood S,Andersen PS,Sette A,Mariuzza RA

doi

10.1016/S0022-2836(02)00370-4

keywords:

subject

Has Abstract

pub_date

2002-05-31 00:00:00

pages

449-61

issue

2

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(02)00370-4

journal_volume

319

pub_type

杂志文章
  • Domain structure and subunit interactions in the type I DNA methyltransferase M.EcoR124I.

    abstract::The type IC DNA methyltransferase M.EcoR124I is a trimeric enzyme of 162 kDa consisting of two modification subunits, HsdM, and a single specificity subunit, HsdS. Studies have been largely restricted to the HsdM subunit or to the intact methyltransferase since the HsdS subunit is insoluble when over-expressed indepen...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.5123

    authors: Smith MA,Read CM,Kneale GG

    更新日期:2001-11-16 00:00:00

  • Direct visualization of dynamics and co-operative conformational changes within RecA filaments that appear to be associated with the hydrolysis of adenosine 5'-O-(3-thiotriphosphate).

    abstract::Highly co-operative structural transitions and conformational changes can be directly observed in bundles of filaments formed by the RecA protein of Escherichia coli. These filaments have been formed with RecA protein, DNA and the ATP analog adenosine 5'-O-(3-thiotriphosphate) (ATP-gamma-S). We show that while ATP-gam...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(92)91036-o

    authors: Yu X,Egelman EH

    更新日期:1992-05-05 00:00:00

  • Ligand-induced conformational changes via flexible linkers in the amino-terminal region of the inositol 1,4,5-trisphosphate receptor.

    abstract::Cytoplasmic Ca2+ signals are highly regulated by various ion transporters, including the inositol 1,4,5-trisphosphate (IP(3)) receptor (IP(3)R), which functions as a Ca2+ release channel on the endoplasmic reticulum membrane. Crystal structures of the two N-terminal regulatory regions from type 1 IP(3)R have been repo...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.08.057

    authors: Chan J,Whitten AE,Jeffries CM,Bosanac I,Mal TK,Ito J,Porumb H,Michikawa T,Mikoshiba K,Trewhella J,Ikura M

    更新日期:2007-11-09 00:00:00

  • Partially folded conformation of the (30-51) intermediate in the disulphide folding pathway of bovine pancreatic trypsin inhibitor. 1H and 15N resonance assignments and determination of backbone dynamics from 15N relaxation measurements.

    abstract::An analogue of the important folding intermediate of BPTI with only the disulphide bond between Cys30 and Cys51 has been characterized by 1H and 15N NMR techniques. In particular, the dynamics of the polypeptide backbone were characterized using (1H)-15N NOE and 15N T1 and T2 relaxation data. The intermediate is parti...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1993.1108

    authors: van Mierlo CP,Darby NJ,Keeler J,Neuhaus D,Creighton TE

    更新日期:1993-02-20 00:00:00

  • Sequence and structure-based prediction of eukaryotic protein phosphorylation sites.

    abstract::Protein phosphorylation at serine, threonine or tyrosine residues affects a multitude of cellular signaling processes. How is specificity in substrate recognition and phosphorylation by protein kinases achieved? Here, we present an artificial neural network method that predicts phosphorylation sites in independent seq...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1999.3310

    authors: Blom N,Gammeltoft S,Brunak S

    更新日期:1999-12-17 00:00:00

  • The role of DNA structure and dynamics in the recognition of bovine papillomavirus E2 protein target sequences.

    abstract::The papillomavirus E2 transcription and replication factors bind to the DNA consensus ACCGN(4)CGGT sequence (E2-BS), through both direct and indirect readout mechanisms. The two symmetric half-sites ACCG.CGGT are highly conserved in the genomes and are hydrogen bound with E2. Although E2 does not contact the N4 spacer...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2004.03.078

    authors: Djuranovic D,Oguey C,Hartmann B

    更新日期:2004-06-11 00:00:00

  • Reversible and irreversible changes in nucleosome structure along the c-fos and c-myc oncogenes following inhibition of transcription.

    abstract::A new affinity chromatographic procedure for the separation of transcriptionally active nucleosomes has been used to study the changes that take place in chromatin structure along the c-fos and c-myc genes when RNA synthesis is inhibited. Mercury-affinity chromatography separates the sulfhydryl-reactive nucleosomes of...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(90)90327-I

    authors: Chen TA,Sterner R,Cozzolino A,Allfrey VG

    更新日期:1990-04-05 00:00:00

  • Repression and activation of promoter-bound RNA polymerase activity by Gal repressor.

    abstract::By binding to the DNA site OE at position -60.5 in the gal operon, the GalR protein activates transcription from the P2 promoter located on the opposite face of DNA (position -5) and represses transcription from the P1 promoter located on the same face (position +1). GalR increases RNA polymerase binding at P2 and inh...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1997.1221

    authors: Choy HE,Hanger RR,Aki T,Mahoney M,Murakami K,Ishihama A,Adhya S

    更新日期:1997-09-26 00:00:00

  • Control of expression of the Tn10-encoded tetracycline resistance operon. II. Interaction of RNA polymerase and TET repressor with the tet operon regulatory region.

    abstract::The promoter and operator sequences of the Tn10-encoded tetracycline resistance operon are determined in vitro by transcription studies of purified DNA restriction fragments, protection of guanosine from methylation by dimethylsulphate, and DNase I footprinting employing the purified TET repressor protein. In vitro tr...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(84)80037-6

    authors: Hillen W,Schollmeier K,Gatz C

    更新日期:1984-01-15 00:00:00

  • Static disorder and librational motions of the purine bases in films of oriented Li-DNA.

    abstract::Solid-state 2H nuclear magnetic resonance line shapes have been obtained from folded films of oriented Li-DNA molecules with the purine bases selectively labeled with deuterium at the 8-position. From line shape simulations, the static base tilts as well as the anisotropic motional amplitudes were determined as a func...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(88)90461-5

    authors: Brandes R,Vold RR,Kearns DR,Rupprecht A

    更新日期:1988-07-20 00:00:00

  • The type I restriction endonuclease R.EcoR124I: over-production and biochemical properties.

    abstract::In this paper we describe a two-plasmid system which allows over-production of the R.EcoR124I restriction endonuclease. The endonuclease has been purified to homogeneity in milligram amounts and has been shown to be fully active for both restriction and modification. Unexpectedly, the enzyme was found to require only ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1996.0217

    authors: Janscak P,Abadjieva A,Firman K

    更新日期:1996-04-19 00:00:00

  • The structure of Antirrhinum centroradialis protein (CEN) suggests a role as a kinase regulator.

    abstract::Expression of the plant protein centroradialis (CEN) leads to a morphological switch between shoot growth and the development of flower structures (inflorescence). We have determined the crystal structure of Antirrhinum CEN to 1.9 A resolution. This structure confirms the CEN proteins as a subset of the family of phos...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2000.3619

    authors: Banfield MJ,Brady RL

    更新日期:2000-04-14 00:00:00

  • The Isoniazid Paradigm of Killing, Resistance, and Persistence in Mycobacterium tuberculosis.

    abstract::Isoniazid (INH) was the first synthesized drug that mediated bactericidal killing of the bacterium Mycobacterium tuberculosis, a major clinical breakthrough. To this day, INH remains a cornerstone of modern tuberculosis (TB) chemotherapy. This review describes the serendipitous discovery of INH, its effectiveness on T...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1016/j.jmb.2019.02.016

    authors: Vilchèze C,Jacobs WR Jr

    更新日期:2019-08-23 00:00:00

  • In vitro analysis of the dominant negative effect of p53 mutants.

    abstract::Missense mutations of the p53 tumour suppressor gene induce the formation of proteins with an altered affinity for DNA. These mutant proteins have either a wild-type or a mutant conformation. It has been established that, on association with wild-type protein, molecules with mutant conformation can drive the wild-type...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.1897

    authors: Chène P

    更新日期:1998-08-14 00:00:00

  • Interplay between metal binding and cis/trans isomerization in legume lectins: structural and thermodynamic study of P. angolensis lectin.

    abstract::The interplay between metal binding, carbohydrate binding activity, stability and structure of the lectin from Pterocarpus angolensis was investigated. Removal of the metals leads to a more flexible form of the protein with significantly less conformational stability. Crystal structures of this metal-free form show si...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.06.006

    authors: Garcia-Pino A,Buts L,Wyns L,Loris R

    更新日期:2006-08-04 00:00:00

  • Rigidification of a flexible protease inhibitor variant upon binding to trypsin.

    abstract::The Tyr35-->Gly replacement in bovine pancreatic trypsin inhibitor (BPTI) has previously been shown to dramatically enhance the flexibility of the trypsin-binding region of the free inhibitor and to destabilize the interaction with the protease by about 3 kcal/mol. The effects of this replacement on the enzyme-inhibit...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.11.003

    authors: Hanson WM,Domek GJ,Horvath MP,Goldenberg DP

    更新日期:2007-02-09 00:00:00

  • Ketoconazole-induced conformational changes in the active site of cytochrome P450eryF.

    abstract::The azole-based P450 inhibitor ketoconazole is used to treat fungal infections and functions by blocking ergosterol biosynthesis in yeast. Ketoconazole binds to mammalian P450 enzymes and this can result in drug-drug interactions and lead to liver damage. To identify protein-drug interactions that contribute to bindin...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.4803

    authors: Cupp-Vickery JR,Garcia C,Hofacre A,McGee-Estrada K

    更新日期:2001-08-03 00:00:00

  • Intermonomer hydrogen bonds enhance GxxxG-driven dimerization of the BNIP3 transmembrane domain: roles for sequence context in helix-helix association in membranes.

    abstract::We determined the sequence dependence of human BNIP3 transmembrane domain dimerization using the biological assay TOXCAT. Mutants in which intermonomer hydrogen bonds between Ser172 and His173 are abolished show moderate interaction, indicating that side-chain hydrogen bonds contribute to dimer stability but are not e...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2009.12.023

    authors: Lawrie CM,Sulistijo ES,MacKenzie KR

    更新日期:2010-03-05 00:00:00

  • Effect of pseudorepeat rearrangement on alpha-synuclein misfolding, vesicle binding, and micelle binding.

    abstract::The pathological and physiological hallmarks of the protein alpha-synuclein (aS) are its misfolding into cytotoxic aggregates and its binding to synaptic vesicles, respectively. Both events are mediated by seven 11-residue amphiphilic pseudorepeats and, most generally, involve a transition from intrinsically unstructu...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2009.05.058

    authors: Rao JN,Kim YE,Park LS,Ulmer TS

    更新日期:2009-07-17 00:00:00

  • Internalizing cancer antibodies from phage libraries selected on tumor cells and yeast-displayed tumor antigens.

    abstract::A number of approaches have been utilized to generate antibodies to cancer cell surface receptors that can be used as potential therapeutics. A number of these therapeutic approaches, including antibody-drug conjugates, immunotoxins, and targeted nucleic acid delivery, require antibodies that not only bind receptor bu...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2010.09.006

    authors: Zhou Y,Zou H,Zhang S,Marks JD

    更新日期:2010-11-19 00:00:00

  • Tandemly repeated DNA sequences from Xenopus laevis. II. Dispersed clusters of a 388 base-pair repeating unit.

    abstract::A repetitive DNA sequence family from Xenopus laevis that has an unusual genomic organization has been identified. It has been shown by blot-hybridization that this sequence occurs in clusters containing variable numbers of the 388 base-pair repeating unit. There are approximately 500 such clusters in the genome, and ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(83)80268-x

    authors: Lam BS,Carroll D

    更新日期:1983-04-25 00:00:00

  • Structural comparisons of some small spherical plant viruses.

    abstract::The structures of tomato bushy stunt virus, southern bean mosaic virus and satellite tobacco necrosis virus have been compared quantitatively. The organization of the shell domains of tomato bushy stunt virus and southern bean mosaic virus within the icosahedral envelope is identical. The wedge-shaped end of the subun...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(83)80276-9

    authors: Rossmann MG,Abad-Zapatero C,Murthy MR,Liljas L,Jones TA,Strandberg B

    更新日期:1983-04-25 00:00:00

  • RecA protein assisted selection reveals a low fidelity of recognition of homology in a duplex DNA by an oligonucleotide.

    abstract::We have developed an in vitro selection procedure to elucidate the specificity of RecA assisted oligonucleotide recognition of double stranded DNA. The procedure was based on formation of a synaptic complex between an oligonucleotide-RecA filament and a supercoiled plasmid bearing a homologous partially degenerate reg...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1997.1164

    authors: Malkov VA,Sastry L,Camerini-Otero RD

    更新日期:1997-08-15 00:00:00

  • Conformational changes during the assembly of factor B from its domains by (1)H NMR spectroscopy and molecular modelling: their relevance to the regulation of factor B activity.

    abstract::Factor B is a key component of the alternative pathway of complement and is cleaved by factor D into the Ba and Bb fragments in the presence of activated C3 (C3b or C3(H(2)O)). The Ba fragment contains three short consensus/complement repeat domains, while the Bb fragment contains a von Willebrand factor type A (vWF-A...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2000.4044

    authors: Hinshelwood J,Perkins SJ

    更新日期:2000-09-01 00:00:00

  • Integration host factor binds specifically to sites in the ilvGMEDA operon in Escherichia coli.

    abstract::Integration host factor (IHF) of Escherichia coli is a histone-like protein that is involved both in site-specific recombination and in regulating the expression of a number of phage and bacterial genes. We have shown previously that transcription of the ilvGMEDA operon in E. coli is greatly reduced in IHF mutants. We...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(88)90212-4

    authors: Tsui P,Freundlich M

    更新日期:1988-10-05 00:00:00

  • A molecular model for the redox potential difference between thioredoxin and DsbA, based on electrostatics calculations.

    abstract::The disulphide active sites of thioredoxin and DsbA are known to possess a high degree of structural homology. However, DsbA is a much stronger oxidant than thioredoxin. The redox potential difference between DsbA and thioredoxin has been measured to be 160 mV, equivalent to a shift of 15.4 kJ/mol in the reduced/oxidi...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1995.0303

    authors: Gane PJ,Freedman RB,Warwicker J

    更新日期:1995-06-02 00:00:00

  • Molecular and structural basis for redox regulation of beta-actin.

    abstract::An essential consequence of growth factor-mediated signal transduction is the generation of intracellular H(2)O(2). It operates as a second messenger in the control of actin microfilament dynamics, causing rapid and dramatic changes in the morphology and motile activity of stimulated cells. Little is understood about ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.04.056

    authors: Lassing I,Schmitzberger F,Björnstedt M,Holmgren A,Nordlund P,Schutt CE,Lindberg U

    更新日期:2007-07-06 00:00:00

  • A natural grouping of motifs with an aspartate or asparagine residue forming two hydrogen bonds to residues ahead in sequence: their occurrence at alpha-helical N termini and in other situations.

    abstract::Examination of the ways side-chain carboxylate and amide groups in high-resolution protein crystal structures form hydrogen bonds with main-chain atoms reveals that the most common category is a two-hydrogen-bond four to five residue motif with an aspartate or asparagine (Asx) at the first residue, for which we propos...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1999.2552

    authors: Wan WY,Milner-White EJ

    更新日期:1999-03-12 00:00:00

  • A conserved insertion in protein-primed DNA polymerases is involved in primer terminus stabilisation.

    abstract::Protein-primed DNA polymerases form a subgroup of the eukaryotic-type DNA polymerases family, also called family B or alpha-like. A multiple amino acid sequence alignment of this subgroup of DNA polymerases led to the identification of two insertions, TPR-1 and TPR-2, in the polymerisation domain. We showed previously...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(03)00788-5

    authors: Dufour E,Rodríguez I,Lázaro JM,de Vega M,Salas M

    更新日期:2003-08-22 00:00:00

  • Alanine scanning mutagenesis identifies an asparagine-arginine-lysine triad essential to assembly of the shell of the Pdu microcompartment.

    abstract::Bacterial microcompartments (MCPs) are the simplest organelles known. They function to enhance metabolic pathways by confining several related enzymes inside an all-protein envelope called the shell. In this study, we investigated the factors that govern MCP assembly by performing scanning mutagenesis on the surface r...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2014.04.012

    authors: Sinha S,Cheng S,Sung YW,McNamara DE,Sawaya MR,Yeates TO,Bobik TA

    更新日期:2014-06-12 00:00:00