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Rui Sousa

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Jennifer R Morgan; Paul A Oliphint; Rui Sousa; Yue Zhuo; David J Busch; Andrea E Foldes; Luis E Gimenez; Jianwen Jiang; Suping Jin; Eileen M Lafer
A role for an hsp70 nucleotide exchange factor in the regulation of synaptic vesicle endocytosis.
Rui Sousa
A dancer caught midstep: the structure of ATP-bound Hsp70.
Yifeng Li; Rui Sousa
Novel system for in vivo biotinylation and its application to crab antimicrobial protein scygonadin.

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2013: Jennifer R Morgan; Paul A Oliphint; Rui Sousa; Yue Zhuo; David J Busch; Andrea E Foldes; Luis E Gimenez; Jianwen Jiang; Suping Jin; Eileen M Lafer
A role for an hsp70 nucleotide exchange factor in the regulation of synaptic vesicle endocytosis.
The Journal of neuroscience : the official journal of the Society for Neuroscience 2013;33(18):8009-21.
2012: Rui Sousa
A dancer caught midstep: the structure of ATP-bound Hsp70.
Molecular cell 2012;48(6):821-3.
2012: Yifeng Li; Rui Sousa
Novel system for in vivo biotinylation and its application to crab antimicrobial protein scygonadin.
Biotechnology letters 2012;34(9):1629-35.
2012: Gilberto Velazquez; Liping Wang; Luis G Brieba; Qing Guo; Rui Sousa
Conservation of promoter melting mechanisms in divergent regions of the single-subunit RNA polymerases.
Biochemistry 2012;51(18):3901-10.
2012: Rui Sousa; Alexander B Taylor; Liping Wang; Andrew Hinck; Jianwen Jiang; Eileen M Lafer; E Guy Maes
Evaluation of competing J domain:Hsp70 complex models in light of existing mutational and NMR data.
Proceedings of the National Academy of Sciences of the United States of America 2012;109(13):E734; author reply E735.
2012: Yifeng Li; Rui Sousa
Expression and purification of E. coli BirA biotin ligase for in vitro biotinylation.
Protein expression and purification 2012;82(1):162-7.
2010: Yue Zhuo; Udayar Ilangovan; Virgil Schirf; Borries Demeler; Rui Sousa; Andrew Hinck; Eileen M Lafer
Dynamic interactions between clathrin and locally structured elements in a disordered protein mediate clathrin lattice assembly.
Journal of molecular biology 2010;404(2):274-90.
2009: Hyung-June Woo; Jean Jiang; Eileen M Lafer; Rui Sousa
ATP-induced conformational changes in Hsp70: molecular dynamics and experimental validation of an in silico predicted conformation.
Biochemistry 2009;48(48):11470-7.
2009: Rui Sousa
Comment on "Xeno's paradox".
EMBO reports 2009;10(8):800.
2009: Dhananjaya nayak; Qing Guo; Rui Sousa
A promoter recognition mechanism common to yeast mitochondrial and phage t7 RNA polymerases.
The Journal of biological chemistry 2009;284(20):13641-7.
2008: Hyung-June Woo; Yuemin Liu; Rui Sousa
Molecular dynamics studies of the energetics of translocation in model T7 RNA polymerase elongation complexes.
Proteins 2008;73(4):1021-36.
2008: Rui Sousa
Research funding: less should be more.
Science (New York, N.Y.) 2008;322(5906):1324-5.
2008: Rui Sousa
Tie me up, tie me down: inhibiting RNA polymerase.
Cell 2008;135(2):205-7.
2008: Jorge Cuéllar; Jaime Martín-Benito; Sjors H W Scheres; Rui Sousa; Fernando Moro; Eduardo López-Viñas; Paulino Gómez-Puertas; Arturo Muga; José L Carrascosa; José M Valpuesta
The structure of CCT-Hsc70 NBD suggests a mechanism for Hsp70 delivery of substrates to the chaperonin.
Nature structural & molecular biology 2008;15(8):858-64.
2008: Jonathan P Schuermann; Jianwen Jiang; Jorge Cuellar; Oscar Llorca; Liping Wang; Luis E Gimenez; Suping Jin; Alexander B Taylor; Borries Demeler; Kevin A Morano; Peter Hart; Jose M Valpuesta; Eileen M Lafer; Rui Sousa
Structure of the Hsp110:Hsc70 nucleotide exchange machine.
Molecular cell 2008;31(2):232-43.
2008: Dhananjaya nayak; Sylvester Siller; Qing Guo; Rui Sousa
Mechanism of T7 RNAP pausing and termination at the T7 concatemer junction: a local change in transcription bubble structure drives a large change in transcription complex architecture.
Journal of molecular biology 2008;376(2):541-53.
2007: Jianwen Jiang; E Guy Maes; Alexander B Taylor; Liping Wang; Andrew Hinck; Eileen M Lafer; Rui Sousa
Structural basis of J cochaperone binding and regulation of Hsp70.
Molecular cell 2007;28(3):422-33.
2007: Rui Sousa
Comment on Frank Gannon's EMBO reports editorial "address bias".
EMBO reports 2007;8(10):887.
2007: Dhananjaya nayak; Qing Guo; Rui Sousa
Functional architecture of T7 RNA polymerase transcription complexes.
Journal of molecular biology 2007;371(2):490-500.
2006: Lance Shaner; Rui Sousa; Kevin A Morano
Characterization of Hsp70 binding and nucleotide exchange by the yeast Hsp110 chaperone Sse1.
Biochemistry 2006;45(50):15075-84.
2006: Rui Sousa; Eileen M Lafer
Keep the traffic moving: mechanism of the Hsp70 motor.
Traffic (Copenhagen, Denmark) 2006;7(12):1596-603.
2006: Qing Guo; Rui Sousa
Translocation by T7 RNA polymerase: a sensitively poised Brownian ratchet.
Journal of molecular biology 2006;358(1):241-54.
2006: Jianwen Jiang; Eileen M Lafer; Rui Sousa
Crystallization of a functionally intact Hsc70 chaperone.
Acta crystallographica. Section F, Structural biology and crystallization communications 2006;62(Pt 1):39-43.
2005: Jianwen Jiang; Kondury Prasad; Eileen M Lafer; Rui Sousa
Structural basis of interdomain communication in the Hsc70 chaperone.
Molecular cell 2005;20(4):513-24.
2005: Qing Guo; Dhananjaya nayak; Luis G Brieba; Rui Sousa
Major conformational changes during T7RNAP transcription initiation coincide with, and are required for, promoter release.
Journal of molecular biology 2005;353(2):256-70.
2005: Qing Guo; Rui Sousa
Weakening of the T7 promoter-polymerase interaction facilitates promoter release.
The Journal of biological chemistry 2005;280(15):14956-61.
2005: Qing Guo; Rui Sousa
Multiple roles for the T7 promoter nontemplate strand during transcription initiation and polymerase release.
The Journal of biological chemistry 2005;280(5):3474-82.
2005: Rui Sousa
Machinations of a maxwellian demon.
Cell 2005;120(2):155-6.
2003: Srabani Mukherjee; Luis G Brieba; Rui Sousa
Discontinuous movement and conformational change during pausing and termination by T7 RNA polymerase.
The EMBO journal 2003;22(24):6483-93.
2003: Jianwen Jiang; Alexander B Taylor; Kondury Prasad; Yumiko Ishikawa-Brush; Peter Hart; Eileen M Lafer; Rui Sousa
Structure-function analysis of the auxilin J-domain reveals an extended Hsc70 interaction interface.
Biochemistry 2003;42(19):5748-53.
2003: Rui Sousa
On models and methods for studying polymerase translocation.
Methods in enzymology 2003;371():3-13.
2003: Rui Sousa; Srabani Mukherjee
T7 RNA polymerase.
Progress in nucleic acid research and molecular biology 2003;73():1-41.
2002: Robert Padilla; Rui Sousa
A Y639F/H784A T7 RNA polymerase double mutant displays superior properties for synthesizing RNAs with non-canonical NTPs.
Nucleic acids research 2002;30(24):e138.
2002: Srabani Mukherjee; Luis G Brieba; Rui Sousa
Structural transitions mediating transcription initiation by T7 RNA polymerase.
Cell 2002;110(1):81-91.
2002: Luis G Brieba; Robert Padilla; Rui Sousa
Role of T7 RNA polymerase His784 in start site selection and initial transcription.
Biochemistry 2002;41(16):5144-9.
2001: Luis G Brieba; Rui Sousa
T7 promoter release mediated by DNA scrunching.
The EMBO journal 2001;20(23):6826-35.
2001: Rui Sousa
A new level of regulation in transcription elongation?
Trends in biochemical sciences 2001;26(12):695-7.
2001: Rui Sousa
T 7 RNA polymerase.
Uirusu 2001;51(1):81-94.
2001: Luis G Brieba; Rui Sousa
The T7 RNA polymerase intercalating hairpin is important for promoter opening during initiation but not for RNA displacement or transcription bubble stability during elongation.
Biochemistry 2001;40(13):3882-90.
2001: Luis G Brieba; V Gopal; Rui Sousa
Scanning mutagenesis reveals roles for helix n of the bacteriophage T7 RNA polymerase thumb subdomain in transcription complex stability, pausing, and termination.
The Journal of biological chemistry 2001;276(13):10306-13.
2000: J Huang; Rui Sousa
T7 RNA polymerase elongation complex structure and movement.
Journal of molecular biology 2000;303(3):347-58.
2000: P E Mentesana; S T Chin-Bow; Rui Sousa; William T McAllister
Characterization of halted T7 RNA polymerase elongation complexes reveals multiple factors that contribute to stability.
Journal of molecular biology 2000;302(5):1049-62.
2000: J Huang; Luis G Brieba; Rui Sousa
Misincorporation by wild-type and mutant T7 RNA polymerases: identification of interactions that reduce misincorporation rates by stabilizing the catalytically incompetent open conformation.
Biochemistry 2000;39(38):11571-80.
2000: Luis G Brieba; Rui Sousa
Roles of histidine 784 and tyrosine 639 in ribose discrimination by T7 RNA polymerase.
Biochemistry 2000;39(5):919-23.
2000: Rui Sousa
Use of T7 RNA polymerase and its mutants for incorporation of nucleoside analogs into RNA.
Methods in enzymology 2000;317():65-74.
1999: J Huang; J Villemain; Robert Padilla; Rui Sousa
Mechanisms by which T7 lysozyme specifically regulates T7 RNA polymerase during different phases of transcription.
Journal of molecular biology 1999;293(3):457-75.
1999: V Gopal; Luis G Brieba; R Guajardo; W T McAllister; Rui Sousa
Characterization of structural features important for T7 RNAP elongation complex stability reveals competing complex conformations and a role for the non-template strand in RNA displacement.
Journal of molecular biology 1999;290(2):411-31.
1999: R Guajardo; Rui Sousa
Characterization of the effects of Escherichia coli replication terminator protein (Tus) on transcription reveals dynamic nature of the tus block to transcription complex progression.
Nucleic acids research 1999;27(13):2814-24.
1999: Robert Padilla; Rui Sousa
Efficient synthesis of nucleic acids heavily modified with non-canonical ribose 2'-groups using a mutantT7 RNA polymerase (RNAP).
Nucleic acids research 1999;27(6):1561-3.
1998: J Villemain; Rui Sousa
Specificity in transcriptional regulation in the absence of specific DNA binding sites: the case of T7 lysozyme.
Journal of molecular biology 1998;281(5):793-802.
1998: R Guajardo; Pascal Jean Lopez; M Dreyfus; Rui Sousa
NTP concentration effects on initial transcription by T7 RNAP indicate that translocation occurs through passive sliding and reveal that divergent promoters have distinct NTP concentration requirements for productive initiation.
Journal of molecular biology 1998;281(5):777-92.
1998: Pascal Jean Lopez; Jean Guillerez; Rui Sousa; Marc Dreyfus
On the mechanism of inhibition of phage T7 RNA polymerase by lac repressor.
Journal of molecular biology 1998;276(5):861-75.
1997: J Villemain; R Guajardo; Rui Sousa
Role of open complex instability in kinetic promoter selection by bacteriophage T7 RNA polymerase.
Journal of molecular biology 1997;273(5):958-77.
1997: Y Huang; A Beaudry; J McSwiggen; Rui Sousa
Determinants of ribose specificity in RNA polymerization: effects of Mn2+ and deoxynucleoside monophosphate incorporation into transcripts.
Biochemistry 1997;36(44):13718-28.
1997: Y Huang; F Eckstein; Robert Padilla; Rui Sousa
Mechanism of ribose 2'-group discrimination by an RNA polymerase.
Biochemistry 1997;36(27):8231-42.
1997: Pascal Jean Lopez; Jean Guillerez; Rui Sousa; Marc Dreyfus
The low processivity of T7 RNA polymerase over the initially transcribed sequence can limit productive initiation in vivo.
Journal of molecular biology 1997;269(1):41-51.
1997: R Guajardo; Rui Sousa
A model for the mechanism of polymerase translocation.
Journal of molecular biology 1997;265(1):8-19.
1996: Rui Sousa
Structural and mechanistic relationships between nucleic acid polymerases.
Trends in biochemical sciences 1996;21(5):186-90.
1995: O V Makarova; E M Makarov; Rui Sousa; M Dreyfus
Transcribing of Escherichia coli genes with mutant T7 RNA polymerases: stability of lacZ mRNA inversely correlates with polymerase speed.
Proceedings of the National Academy of Sciences of the United States of America 1995;92(26):12250-4.
1995: Rui Sousa; Robert Padilla
A mutant T7 RNA polymerase as a DNA polymerase.
The EMBO journal 1995;14(18):4609-21.
1995: Rui Sousa
Use of glycerol, polyols and other protein structure stabilizing agents in protein crystallization.
Acta crystallographica. Section D, Biological crystallography 1995;51(Pt 3):271-7.
1994: Rui Sousa; J Rose; Bi-Cheng Wang
The thumb's knuckle. Flexibility in the thumb subdomain of T7 RNA polymerase is revealed by the structure of a chimeric T7/T3 RNA polymerase.
Journal of molecular biology 1994;244(1):6-12.
1994: G Bonner; Eileen M Lafer; Rui Sousa
Characterization of a set of T7 RNA polymerase active site mutants.
The Journal of biological chemistry 1994;269(40):25120-8.
1994: G Bonner; Eileen M Lafer; Rui Sousa
The thumb subdomain of T7 RNA polymerase functions to stabilize the ternary complex during processive transcription.
The Journal of biological chemistry 1994;269(40):25129-36.
1993: Rui Sousa; Y J Chung; John P Rose; Bi-Cheng Wang
Crystal structure of bacteriophage T7 RNA polymerase at 3.3 A resolution.
Nature 1993;364(6438):593-9.
1992: G Bonner; D Patra; Eileen M Lafer; Rui Sousa
Mutations in T7 RNA polymerase that support the proposal for a common polymerase active site structure.
The EMBO journal 1992;11(10):3767-75.
1992: Shibin Zhou; Rui Sousa; Nancy Tannery; Eileen M Lafer
Characterization of a novel synapse-specific protein. II. cDNA cloning and sequence analysis of the F1-20 protein.
The Journal of neuroscience : the official journal of the Society for Neuroscience 1992;12(6):2144-55.
1992: Rui Sousa; Nancy Tannery; Shibin Zhou; Eileen M Lafer
Characterization of a novel synapse-specific protein. I. Developmental expression and cellular localization of the F1-20 protein and mRNA.
The Journal of neuroscience : the official journal of the Society for Neuroscience 1992;12(6):2130-43.
1992: Rui Sousa; D Patra; Eileen M Lafer
Model for the mechanism of bacteriophage T7 RNAP transcription initiation and termination.
Journal of molecular biology 1992;224(2):319-34.
1992: D Patra; Eileen M Lafer; Rui Sousa
Isolation and characterization of mutant bacteriophage T7 RNA polymerases.
Journal of molecular biology 1992;224(2):307-18.
1990: Rui Sousa; Y J Chung; W T McAllister; Bi-Cheng Wang; Eileen M Lafer
Single crystals of a chimeric T7/T3 RNA polymerase with T3 promoter specificity and a nonprocessive T7 RNAP mutant.
The Journal of biological chemistry 1990;265(35):21430-2.
1990: Rui Sousa; N Hrinya Tannery; Eileen M Lafer
Two new monoclonal antibodies provide immunohistochemical evidence for the unique biochemical similarity of the mouse globus pallidus, entopeduncular nucleus and substantia nigra pars reticulata.
Neuroscience 1990;34(2):403-10.
1989: Rui Sousa; Nancy Tannery; Eileen M Lafer
In situ hybridization mapping of glucocorticoid receptor messenger ribonucleic acid in rat brain.
Molecular endocrinology (Baltimore, Md.) 1989;3(3):481-94.
1989: Rui Sousa; John P Rose; Y J Chung; Eileen M Lafer; Bi-Cheng Wang
Single crystals of bacteriophage T7 RNA polymerase.
Proteins 1989;5(4):266-70.
1988: Eileen M Lafer; Rui Sousa; Alexander Rich
Z-DNA-binding proteins in Escherichia coli purification, generation of monoclonal antibodies and gene isolation.
Journal of molecular biology 1988;203(2):511-6.
1986: Eileen M Lafer; Rui Sousa; R Ali; Alexander Rich; B D Stollar
The effect of anti-Z-DNA antibodies on the B-DNA-Z-DNA equilibrium.
The Journal of biological chemistry 1986;261(14):6438-43.
1985: Eileen M Lafer; Rui Sousa; Alexander Rich
Anti-Z-DNA antibody binding can stabilize Z-DNA in relaxed and linear plasmids under physiological conditions.
The EMBO journal 1985;4(13B):3655-60.
1985: Eileen M Lafer; Rui Sousa; Barry P Rosen; A Hsu; Alexander Rich
Isolation and characterization of Z-DNA binding proteins from wheat germ.
Biochemistry 1985;24(19):5070-6.