Journal ArticleDOI
Predicting coiled coils from protein sequences
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TLDR
This method was used to delineate coiled-coil domains in otherwise globular proteins, such as the leucine zipper domains in transcriptional regulators, and to predict regions of discontinuity within coiled -coil structures,such as the hinge region in myosin.Abstract:
The probability that a residue in a protein is part of a coiled-coil structure was assessed by comparison of its flanking sequences with sequences of known coiled-coil proteins. This method was used to delineate coiled-coil domains in otherwise globular proteins, such as the leucine zipper domains in transcriptional regulators, and to predict regions of discontinuity within coiled-coil structures, such as the hinge region in myosin. More than 200 proteins that probably have coiled-coil domains were identified in GenBank, including alpha- and beta-tubulins, flagellins, G protein beta subunits, some bacterial transfer RNA synthetases, and members of the heat shock protein (Hsp70) family.read more
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Draft genome sequence of the rubber tree Hevea brasiliensis
Ahmad Yamin Abdul Rahman,Abhilash Othalathara Usharraj,Biswapriya B. Misra,Gincy P. Thottathil,Kandakumar Jayasekaran,Yun Feng,Shaobin Hou,Su Yean Ong,Fui Ling Ng,Ling Sze Lee,Hock Siew Tan,Muhd Khairul Luqman Muhd Sakaff,Beng Soon Teh,Bee Feong Khoo,Siti Suriawati Badai,Nurohaida Ab Aziz,Anton Yuryev,Bjarne Knudsen,Alexandre Dionne-Laporte,Alexandre Dionne-Laporte,Nokuthula Peace Mchunu,Qingyi Yu,Brennick J. Langston,Tracey Allen K. Freitas,Tracey Allen K. Freitas,Aaron G. Young,Rui Chen,Lei Wang,Nazalan Najimudin,Jennifer A. Saito,Maqsudul Alam,Maqsudul Alam +31 more
TL;DR: Most of the key genes associated with rubber biosynthesis, rubberwood formation, disease resistance, and allergenicity have been identified and will aid in the future development of high-yielding clones to keep up with the ever increasing need for natural rubber.
Journal ArticleDOI
Proteins connecting the nuclear pore complex with the nuclear interior.
TL;DR: Overexpression experiments indicate that Mlp1p can form large structures within the nucleus which exclude chromatin but appear highly permeable to proteins, and it is suggested that the Tpr filaments could provide chromatin-free conduits or tracks to guide the efficient translocation of macromolecules between the nucleoplasm and the NPC.
Journal ArticleDOI
Structural properties and evolutionary relationships of PspA, a surface protein of Streptococcus pneumoniae, as revealed by sequence analysis.
Janet Yother,David E. Briles +1 more
TL;DR: Analysis of the sequence for the gene encoding PspA (pneumococcal surface protein A) of Streptococcus pneumoniae revealed the presence of four distinct domains in the mature protein, suggesting that PSPA is attached to the cell by a mechanism unique among known surface proteins of gram-positive bacteria.
Journal ArticleDOI
Durable panicle blast-resistance gene Pb1 encodes an atypical CC-NBS-LRR protein and was generated by acquiring a promoter through local genome duplication.
Nagao Hayashi,Haruhiko Inoue,Takahiro Kato,Taketo Funao,Masaki Shirota,Takehiko Shimizu,Hiroyuki Kanamori,Hiroko Yamane,Yuriko Hayano-Saito,Takashi Matsumoto,Masahiro Yano,Hiroshi Takatsuji +11 more
TL;DR: Promoter:GUS analysis indicated that genome duplication played a crucial role in the generation of Pb1 by placing a promoter sequence upstream of its coding sequence, thereby conferring a Pb 1-characteristic expression pattern to a transcriptionally inactive 'sleeping' resistance gene.
Journal ArticleDOI
GP73, a novel Golgi-localized protein upregulated by viral infection
Raleigh D. Kladney,Gary A. Bulla,Linsheng Guo,Andrew Mason,Ann E. Tollefson,Daniela J. Simon,Zaher Koutoubi,Zaher Koutoubi,Claus J. Fimmel,Claus J. Fimmel +9 more
TL;DR: It is concluded that GP73 represents a novel, epithelial cell-specific integral membrane Golgi protein that can be upregulated in response to viral infection.
References
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Journal ArticleDOI
The leucine zipper: a hypothetical structure common to a new class of DNA binding proteins
TL;DR: A 30-amino-acid segment of C/EBP, a newly discovered enhancer binding protein, shares notable sequence similarity with a segment of the cellular Myc transforming protein, and may represent a characteristic property of a new category of DNA binding proteins.
Journal ArticleDOI
Evidence that the leucine zipper is a coiled coil
TL;DR: A peptide corresponding to the leucine zipper region of the yeast transcriptional activator GCN4 was synthesized and characterized and associates in the micromolar concentration range to form a very stable dimer of alpha helices with a parallel orientation.
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Cyclic AMP-responsive DNA-binding protein: structure based on a cloned placental cDNA.
TL;DR: The putative DNA-binding domain of CREB is structurally similar to the corresponding domains in the phorbol ester-responsive c-jun protein and the yeast transcription factor GCN4.
Journal ArticleDOI
α‐Helical coiled coils and bundles: How to design an α‐helical protein
Carolyn Cohen,David A.D. Parry +1 more
Journal ArticleDOI
A second class of synthetase structure revealed by X-ray analysis of Escherichia coli seryl-tRNA synthetase at 2.5 A.
TL;DR: The three-dimensional crystal structure of seryl-transfer RNA synthetase from Escherichia coli, refined at 2.5 Å resolution, is described, and is the first representative of a second class of aminoacyl-tRNA synthet enzyme structures.