Comprehensive de novo structure prediction in a systems-biology context for the archaea Halobacterium sp. NRC-1

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Comprehensive de novo structure prediction in a systems-biology context for the archaea Halobacterium sp. NRC-1 is …
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scholarly articleQ13442814

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P6179Dimensions Publication ID1050518624
P356DOI10.1186/GB-2004-5-8-R52
P932PMC publication ID507877
P698PubMed publication ID15287974
P5875ResearchGate publication ID8422161

P50authorLeroy HoodQ1820381
Richard BonneauQ7324255
Nitin S BaligaQ61147359
Eric W DeutschQ53584947
P2093author name stringPaul Shannon
P2860cites workDe Novo Prediction of Three-dimensional Structures for Major Protein FamiliesQ56999399
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Rosetta in CASP4: progress in ab initio protein structure predictionQ28218074
Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteinsQ28291030
The protein-protein interaction map of Helicobacter pyloriQ28484787
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Detecting protein function and protein-protein interactions from genome sequencesQ29547473
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From protein structure to function.Q30322099
Evolution of function in protein superfamilies, from a structural perspective.Q30328084
Ab initio protein structure prediction: progress and prospects.Q30328183
Functional inferences from blind ab initio protein structure predictions.Q30328631
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CASP5 assessment of fold recognition target predictionsQ30336226
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Automated prediction of CASP-5 structures using the Robetta server.Q30336233
Protein structures sustain evolutionary driftQ30427746
SCOP: a structural classification of proteins databaseQ30826053
Snapshot of a large dynamic replicon in a halophilic archaeon: megaplasmid or minichromosome?Q31958293
Method for prediction of protein function from sequence using the sequence-to-structure-to-function paradigm with application to glutaredoxins/thioredoxins and T1 ribonucleasesQ32032853
An archaeal aerotaxis transducer combines subunit I core structures of eukaryotic cytochrome c oxidase and eubacterial methyl-accepting chemotaxis proteins.Q33727163
The cytoplasmic helical linker domain of receptor histidine kinase and methyl-accepting proteins is common to many prokaryotic signalling proteinsQ33868984
Protein function in the post-genomic era.Q33906809
Comparative phage genomics and the evolution of Siphoviridae: insights from dairy phagesQ33929777
Mapping protein family interactions: intramolecular and intermolecular protein family interaction repertoires in the PDB and yeastQ33939885
Evolution of protein structures and functionsQ33960329
Predictome: a database of putative functional links between proteinsQ34010645
Genomic evidence that the intracellular proteins of archaeal microbes contain disulfide bondsQ34075149
Intrinsic errors in genome annotationQ34085839
Understanding the adaptation of Halobacterium species NRC-1 to its extreme environment through computational analysis of its genome sequenceQ34094195
Systems level insights into the stress response to UV radiation in the halophilic archaeon Halobacterium NRC-1Q34342155
Fold change in evolution of protein structuresQ34364834
Coordinate regulation of energy transduction modules in Halobacterium sp. analyzed by a global systems approachQ34380369
Mutational analysis of a conserved signal-transducing element: the HAMP linker of the Escherichia coli nitrate sensor NarXQ34491912
When phage, plasmids, and transposons collide: genomic islands, and conjugative- and mobilizable-transposons as a mosaic continuumQ35013459
Repair of UV damage in Halobacterium salinarumQ35139426
Probing conservation of HAMP linker structure and signal transduction mechanism through analysis of hybrid sensor kinasesQ35172217
A novel mode of sensory transduction in archaea: binding protein-mediated chemotaxis towards osmoprotectants and amino acidsQ39644892
R391: a conjugative integrating mosaic comprised of phage, plasmid, and transposon elementsQ39680259
Structure of the gas vesicle plasmid in Halobacterium halobium inversion isomers, inverted repeats, and insertion sequencesQ39942068
Chemosensory responses of Halobacterium halobiumQ39972875
Proteomic analysis of an extreme halophilic archaeon, Halobacterium sp. NRC-1.Q40573693
Pitfalls of protein sequence analysisQ41080810
Comparison of sequence profiles. Strategies for structural predictions using sequence informationQ41724734
Structure classification-based assessment of CASP3 predictions for the fold recognition targetsQ42612067
Comparative genomics of the late gene cluster from Lactobacillus phagesQ42634331
HF2: a double-stranded DNA tailed haloarchaeal virus with a mosaic genomeQ42674794
Relationships between fuselloviruses infecting the extremely thermophilic archaeon Sulfolobus: SSV1 and SSV2.Q43033575
Transcription mapping as a tool in phage genomics: the case of the temperate Streptococcus thermophilus phage Sfi21.Q44010018
The CATH domain structure database.Q47614051
Protein folds and functionsQ47625259
IS421, a new insertion sequence in Escherichia coliQ48296695
A powerful non-homology method for the prediction of operons in prokaryotesQ48625522
MODBASE, a database of annotated comparative protein structure models.Q52593063
P4510describes a project that usesCytoscapeQ3699942
P433issue8
P407language of work or nameEnglishQ1860
P921main subjectArchaeaQ10872
systems biologyQ815297
P304page(s)R52
P577publication date2004-01-01
P1433published inGenome BiologyQ5533480
P1476titleComprehensive de novo structure prediction in a systems-biology context for the archaea Halobacterium sp. NRC-1
P478volume5

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