[HTML][HTML] A glimpse of structural biology through X-ray crystallography
Y Shi - Cell, 2014 - cell.com
Since determination of the myoglobin structure in 1957, X-ray crystallography, as the
anchoring tool of structural biology, has played an instrumental role in deciphering the …
anchoring tool of structural biology, has played an instrumental role in deciphering the …
Protein–DNA binding: complexities and multi-protein codes
Binding of proteins to particular DNA sites across the genome is a primary determinant of
specificity in genome maintenance and gene regulation. DNA-binding specificity is encoded …
specificity in genome maintenance and gene regulation. DNA-binding specificity is encoded …
[HTML][HTML] The Protein Data Bank archive as an open data resource
HM Berman, GJ Kleywegt, H Nakamura… - Journal of computer …, 2014 - Springer
Abstract The Protein Data Bank archive was established in 1971, and recently celebrated its
40th anniversary (Berman et al. in Structure 20: 391, 2012). An analysis of interrelationships …
40th anniversary (Berman et al. in Structure 20: 391, 2012). An analysis of interrelationships …
[HTML][HTML] Making the bend: DNA tertiary structure and protein-DNA interactions
S Harteis, S Schneider - International journal of molecular sciences, 2014 - mdpi.com
DNA structure functions as an overlapping code to the DNA sequence. Rapid progress in
understanding the role of DNA structure in gene regulation, DNA damage recognition and …
understanding the role of DNA structure in gene regulation, DNA damage recognition and …
[HTML][HTML] Structural biology of DNA (6-4) photoproducts formed by ultraviolet radiation and interactions with their binding proteins
H Yokoyama, R Mizutani - International journal of molecular sciences, 2014 - mdpi.com
Exposure to the ultraviolet component of sunlight causes DNA damage, which subsequently
leads to mutations, cellular transformation, and cell death. DNA photoproducts with (6-4) …
leads to mutations, cellular transformation, and cell death. DNA photoproducts with (6-4) …
β-Arm flexibility of HU from Staphylococcus aureus dictates the DNA-binding and recognition mechanism
HU, one of the major nucleoid-associated proteins, interacts with the minor groove of DNA in
a nonspecific manner to induce DNA bending or to stabilize bent DNA. In this study, crystal …
a nonspecific manner to induce DNA bending or to stabilize bent DNA. In this study, crystal …
Bioinformatic analysis of the protein/DNA interface
To investigate the principles driving recognition between proteins and DNA, we analyzed
more than thousand crystal structures of protein/DNA complexes. We classified protein and …
more than thousand crystal structures of protein/DNA complexes. We classified protein and …
[HTML][HTML] A tale of chromatin and transcription in 100 structures
P Cramer - Cell, 2014 - cell.com
A Tale of Chromatin and Transcription in 100 Structures: Cell Skip to Main Content
Advertisement Cell This journal offers authors two options (open access or subscription) to …
Advertisement Cell This journal offers authors two options (open access or subscription) to …
Water dynamics at protein–protein interfaces: Molecular dynamics study of virus–host receptor complexes
The dynamical properties of water at protein–water interfaces are unlike those in the bulk.
Here we utilize molecular dynamics simulations to study water dynamics in interstitial …
Here we utilize molecular dynamics simulations to study water dynamics in interstitial …
Hydration of protein–RNA recognition sites
A Barik, RP Bahadur - Nucleic acids research, 2014 - academic.oup.com
We investigate the role of water molecules in 89 protein–RNA complexes taken from the
Protein Data Bank. Those with tRNA and single-stranded RNA are less hydrated than with …
Protein Data Bank. Those with tRNA and single-stranded RNA are less hydrated than with …