scholarly journals Identification of a Second, Non-conserved Amino Acid That Contributes to the Unique Sugar Binding Properties of the Nematode Galectin LEC-1

2008 ◽  
Vol 31 (6) ◽  
pp. 1254-1257 ◽  
Author(s):  
Mayumi Tamura ◽  
Ken-ichi Kasai ◽  
Takashi Itagaki ◽  
Takamasa Nonaka ◽  
Yoichiro Arata
Keyword(s):  
Amino Acid ◽  
Binding Properties ◽  
Sugar Binding

Partial Amino Acid Sequence of a Cellulase-Like Component with IgE-Binding Properties from Stachybotrys chartarum

2004 ◽  
Vol 133 (2) ◽  
pp. 136-144 ◽  
Author(s):  
Marja Kärkkäinen ◽  
Päivi Raunio ◽  
Jaakko Rautiainen ◽  
Seppo Auriola ◽  
Kaj Hinke ◽  
...  
Keyword(s):  
Amino Acid ◽  
Amino Acid Sequence ◽  
Stachybotrys Chartarum ◽  
Partial Amino Acid Sequence ◽  
Binding Properties ◽  
Ige Binding

Structural studies of hemoglobin from two flightless birds, ostrich and turkey: insights into their differing oxygen-binding properties

2021 ◽  
Vol 77 (5) ◽  
pp. 690-702
Author(s):  
Pandian Ramesh ◽  
Selvarajan Sigamani Sundaresan ◽  
Nagaraj Shobana ◽  
Thangaraj Vinuchakkaravarthy ◽  
Kandasamy Sivakumar ◽  
...  
Keyword(s):  
Amino Acid ◽  
Structural Features ◽  
Crystal Structure Analysis ◽  
Oxygen Molecule ◽  
Amino Acid Sequences ◽  
Physical Parameters ◽  
Oxygen Binding ◽  
Binding Properties ◽  
Form Analysis ◽  
Inverse Transition

Crystal structures of hemoglobin (Hb) from two flightless birds, ostrich (Struthio camelus) and turkey (Meleagris gallopova), were determined. The ostrich Hb structure was solved to a resolution of 2.22 Å, whereas two forms of turkey Hb were solved to resolutions of 1.66 Å (turkey monoclinic structure; TMS) and 1.39 Å (turkey orthorhombic structure; TOS). Comparison of the amino-acid sequences of ostrich and turkey Hb with those from other avian species revealed no difference in the number of charged residues, but variations were observed in the numbers of hydrophobic and polar residues. Amino-acid-composition-based computation of various physical parameters, in particular their lower inverse transition temperatures and higher average hydrophobicities, indicated that the structures of ostrich and turkey Hb are likely to be highly ordered when compared with other avian Hbs. From the crystal structure analysis, the liganded state of ostrich Hb was confirmed by the presence of an oxygen molecule between the Fe atom and the proximal histidine residue in all four heme regions. In turkey Hb (both TMS and TOS), a water molecule was bound instead of an oxygen molecule in all four heme regions, thus confirming that they assumed the aqua-met form. Analysis of tertiary- and quaternary-structural features led to the conclusion that ostrich oxy Hb and turkey aqua-met Hb adopt the R-/RH-state conformation.

scholarly journals Sugar-Binding Properties of the Two Lectin Domains of LEC-1 with Respect to the Galβ1-4Fuc Disaccharide Unit Present in Protostomia Glycoconjugates

2011 ◽  
Vol 34 (7) ◽  
pp. 1134-1138 ◽  
Author(s):  
Tomoharu Takeuchi ◽  
Ken-ichi Sugiura ◽  
Kazusa Nishiyama ◽  
Hideyo Takahashi ◽  
Hideaki Natsugari ◽  
...  
Keyword(s):  
Binding Properties ◽  
Sugar Binding

scholarly journals Amino acid residues conferring the nucleotide binding properties of N-acetyl-D-glucosamine 2-epimerase (renin binding protein)

2005 ◽  
Vol 26 (3) ◽  
pp. 117-121 ◽  
Author(s):  
Saori TAKAHASHI ◽  
Hironobu OGASAWARA ◽  
Kazuyuki HIWATASHI ◽  
Keishi HATA ◽  
Kazuyuki HORI ◽  
...  
Keyword(s):  
Amino Acid ◽  
Binding Protein ◽  
Nucleotide Binding ◽  
Amino Acid Residues ◽  
Binding Properties

Synthesis, characterization and DNA binding properties of oligopyridine-ruthenium(II)-amino acid conjugates

2007 ◽  
Vol 101 (10) ◽  
pp. 1483-1491 ◽  
Author(s):  
Konstantina Karidi ◽  
Jan Reedijk ◽  
Nick Hadjiliadis ◽  
Achilleas Garoufis
Keyword(s):  
Amino Acid ◽  
Dna Binding ◽  
Binding Properties ◽  
Amino Acid Conjugates ◽  
Dna Binding Properties

scholarly journals The DNA-binding specificity of the hepatocyte nuclear factor 3/forkhead domain is influenced by amino-acid residues adjacent to the recognition helix.

1994 ◽  
Vol 14 (4) ◽  
pp. 2755-2766 ◽  
Author(s):  
D G Overdier ◽  
A Porcella ◽  
R H Costa
Keyword(s):  
Amino Acid ◽  
Dna Binding ◽  
Hepatocyte Nuclear Factor ◽  
Binding Properties ◽  
Winged Helix ◽  
Amino Acid Region ◽  
Dna Binding Specificity ◽  
Recognition Helix ◽  
Dna Binding Properties ◽  
Acid Region

Three distinct hepatocyte nuclear factor 3 (HNF-3) proteins (HNF-3 alpha, -3 beta, and -3 gamma) are known to regulate the transcription of liver-specific genes. The HNF-3 proteins bind to DNA as a monomer through a modified helix-turn-helix, known as the winged helix motif, which is also utilized by a number of developmental regulators, including the Drosophila homeotic forkhead (fkh) protein. We have previously described the isolation, from rodent tissue, of an extensive family of tissue-specific HNF-3/fkh homolog (HFH) genes sharing homology in their winged helix motifs. In this report, we have determined the preferred DNA-binding consensus sequence for the HNF-3 beta protein as well as for two divergent family members, HFH-1 and HFH-2. We show that these HNF-3/fkh proteins bind to distinct DNA sites and that the specificity of protein recognition is dependent on subtle nucleotide alterations in the site. The HNF-3, HFH-1, and HFH-2 consensus binding sequences were also used to search DNA regulatory regions to identify potential target genes. Furthermore, an analysis of the DNA-binding properties of a series of HFH-1/HNF-3 beta protein chimeras has allowed us to identify a 20-amino-acid region, located adjacent to the DNA recognition helix, which contributes to DNA-binding specificity. These sequences are not involved in base-specific contacts and include residues which diverge within the HNF-3/fkh family. Replacement of this 20-amino-acid region in HNF-3 beta with corresponding residues from HFH-1 enabled the HNF-3 beta recognition helix to bind only HFH-1-specific DNA-binding sites. We propose a model in which this 20-amino-acid flanking region influences the DNA-binding properties of the recognition helix.

scholarly journals The −10 Region Is a Key Promoter Specificity Determinant for the Bacillus subtilis Extracytoplasmic-Function ς Factors ςX and ςW

2001 ◽  
Vol 183 (6) ◽  
pp. 1921-1927 ◽  
Author(s):  
Jian Qiu ◽  
John D. Helmann
Keyword(s):  
Bacillus Subtilis ◽  
Amino Acid ◽  
Rna Polymerase ◽  
Context Effects ◽  
Promoter Strength ◽  
Binding Properties ◽  
Promoter Specificity ◽  
Dna Binding Properties

ABSTRACT Transcriptional selectivity derives, in large part, from the sequence-specific DNA-binding properties of the ς subunit of RNA polymerase. There are 17 ς factors in Bacillus subtilis which, in general, recognize distinct sets of promoters. However, some ς factors have overlapping promoter selectivity. We hypothesize that the overlap between the regulons activated by the ςX and ςW factors can be explained by overlapping specificity for the −10 region: ςX recognizes −10 elements with the sequence CGAC and ςW recognizes CGTA, while both can potentially recognize CGTC. To test this model, we mutated the ςX-specific autoregulatory site (PX), containing the −10 element CGAC, to either CGTC or GCTA. Conversely, the ςW autoregulatory site (PW) was altered from CGTA to CGTC or CGAC. Transcriptional analyses, both in vitro and in vivo, indicate that changes to the −10 element are sufficient to switch a promoter from the ςX to the ςW regulon or, conversely, from the ςW to the ςX regulon, but context effects clearly play an important role in determining promoter strength. It seems likely that these subtle differences in promoter selectivity derive from amino acid differences in conserved region 2 of ς, which contacts the −10 element. However, we were unable to alter promoter selectivity by replacements of two candidate recognition residues in ςW.

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