Structural basis for DNA recognition and processing by UvrB

2006 ◽  
Vol 13 (4) ◽  
pp. 360-364 ◽  
Author(s):  
James J Truglio ◽  
Erkan Karakas ◽  
Benjamin Rhau ◽  
Hong Wang ◽  
Matthew J DellaVecchia ◽  
...  
Keyword(s):  
Dna Recognition ◽  
Structural Basis

scholarly journals Structural basis of cooperative DNA recognition by the plasmid conjugation factor, TraM

2011 ◽  
Vol 39 (15) ◽  
pp. 6775-6788 ◽  
Author(s):  
Joyce J. W. Wong ◽  
Jun Lu ◽  
Ross A. Edwards ◽  
Laura S. Frost ◽  
J. N. Mark Glover
Keyword(s):  
Dna Recognition ◽  
Structural Basis ◽  
Plasmid Conjugation

scholarly journals Thermodynamic and Structural Basis for Relaxation of Specificity in Protein–DNA Recognition

2014 ◽  
Vol 426 (1) ◽  
pp. 84-104 ◽  
Author(s):  
Paul J. Sapienza ◽  
Tianyi Niu ◽  
Michael R. Kurpiewski ◽  
Arabela Grigorescu ◽  
Linda Jen-Jacobson
Keyword(s):  
Dna Recognition ◽  
Structural Basis

Structural Basis for DNA Recognition by FOXG1 and the Characterization of Disease-causing FOXG1 Mutations

2020 ◽  
Vol 432 (23) ◽  
pp. 6146-6156
Author(s):  
Shuyan Dai ◽  
Jun Li ◽  
Huajun Zhang ◽  
Xiaojuan Chen ◽  
Ming Guo ◽  
...  
Keyword(s):  
Dna Recognition ◽  
Structural Basis

scholarly journals Structural basis of dimerization and dual W-box DNA recognition by rice WRKY domain

2019 ◽  
Vol 47 (8) ◽  
pp. 4308-4318 ◽  
Author(s):  
Xiankun Cheng ◽  
Yanxiang Zhao ◽  
Qingshan Jiang ◽  
Jun Yang ◽  
Wensheng Zhao ◽  
...  
Keyword(s):  
Dna Recognition ◽  
Structural Basis ◽  
Wrky Domain

scholarly journals Structural basis for DNA recognition by the transcription regulator MetR

2016 ◽  
Vol 72 (6) ◽  
pp. 417-426 ◽  
Author(s):  
Avinash S. Punekar ◽  
Jonathan Porter ◽  
Stephen B. Carr ◽  
Simon E. V. Phillips
Keyword(s):  
Molecular Level ◽  
Dna Recognition ◽  
Data Driven ◽  
Structural Basis ◽  
Methionine Biosynthesis ◽  
Dna Complexes ◽  
Winged Helix ◽  
Target Dna ◽  
Operator Sequence ◽  
Dna Complex

MetR, a LysR-type transcriptional regulator (LTTR), has been extensively studied owing to its role in the control of methionine biosynthesis in proteobacteria. A MetR homodimer binds to a 24-base-pair operator region of themetgenes and specifically recognizes the interrupted palindromic sequence 5′-TGAA-N5-TTCA-3′. Mechanistic details underlying the interaction of MetR with its target DNA at the molecular level remain unknown. In this work, the crystal structure of the DNA-binding domain (DBD) of MetR was determined at 2.16 Å resolution. MetR-DBD adopts a winged-helix–turn–helix (wHTH) motif and shares significant fold similarity with the DBD of the LTTR protein BenM. Furthermore, a data-driven macromolecular-docking strategy was used to model the structure of MetR-DBD bound to DNA, which revealed that a bent conformation of DNA is required for the recognition helix α3 and the wing loop of the wHTH motif to interact with the major and minor grooves, respectively. Comparison of the MetR-DBD–DNA complex with the crystal structures of other LTTR-DBD–DNA complexes revealed residues that may confer operator-sequence binding specificity for MetR. Taken together, the results show that MetR-DBD uses a combination of direct base-specific interactions and indirect shape recognition of the promoter to regulate the transcription ofmetgenes.

Structural basis for gate-DNA recognition and bending by type IIA topoisomerases

Nature ◽  
2007 ◽  
Vol 450 (7173) ◽  
pp. 1201-1205 ◽  
Author(s):  
Ken C. Dong ◽  
James M. Berger
Keyword(s):  
Dna Recognition ◽  
Structural Basis

scholarly journals Structural Basis for DNA Recognition by FoxO1 and Its Regulation by Posttranslational Modification

Structure ◽  
2008 ◽  
Vol 16 (9) ◽  
pp. 1407-1416 ◽  
Author(s):  
Michael M. Brent ◽  
Ruchi Anand ◽  
Ronen Marmorstein
Keyword(s):  
Posttranslational Modification ◽  
Dna Recognition ◽  
Structural Basis

scholarly journals Structural Basis for Dimerization in DNA Recognition by Gal4

Structure ◽  
2008 ◽  
Vol 16 (7) ◽  
pp. 1019-1026 ◽  
Author(s):  
Manqing Hong ◽  
Mary X. Fitzgerald ◽  
Sandy Harper ◽  
Cheng Luo ◽  
David W. Speicher ◽  
...  
Keyword(s):  
Dna Recognition ◽  
Structural Basis
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