Novel protein domains and repeats in Drosophila melanogaster: Insights into structure, function, and evolution

Genome Research

Volumn 11, Issue 12, 2001, Pages 1996-2008

  Ponting, Chris P ^a   Mott, Richard ^b   Bork, Peer ^c   Copley, Richard R ^c  

^a UNIVERSITY OF OXFORD   (United Kingdom)

^b UNIVERSITY OF OXFORD   (United Kingdom)

^c EUROPEAN MOLECULAR BIOLOGY LABORATORY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

CYSTINE; CYTOSKELETON PROTEIN; DYSFERLIN; GENE PRODUCT; GLYCOSIDASE; MICROTUBULE PROTEIN; POLYPEPTIDE; SIGNAL PEPTIDE; UBIQUITIN;

ALGORITHM; ARTICLE; CHEMICAL STRUCTURE; CONTROLLED STUDY; DATA BASE; DROSOPHILA; DROSOPHILA MELANOGASTER; EVOLUTION; EXON; GENE DUPLICATION; GENE FUNCTION; GENE MUTATION; GENE SEQUENCE; METHODOLOGY; MICROTUBULE ASSEMBLY; MOLECULAR DYNAMICS; MUSCULAR DYSTROPHY; NONHUMAN; PREDICTION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DOMAIN; RETINITIS PIGMENTOSA; SEQUENCE HOMOLOGY; TANDEM REPEAT; X CHROMOSOME LINKAGE;

AMINO ACID SEQUENCE; ANIMALS; ANTIGENS, DIFFERENTIATION, B-LYMPHOCYTE; ASPARTATE-TRNA LIGASE; CYSTINOSIS; DROSOPHILA MELANOGASTER; DROSOPHILA PROTEINS; EVOLUTION, MOLECULAR; EXONS; EYE PROTEINS; GENE DUPLICATION; GLYCOPROTEINS; GLYCOSIDE HYDROLASES; HISTOCOMPATIBILITY ANTIGENS CLASS II; HUMANS; INSECT PROTEINS; INTRACELLULAR SIGNALING PEPTIDES AND PROTEINS; MEMBRANE PROTEINS; MEMBRANE TRANSPORT PROTEINS; MOLECULAR SEQUENCE DATA; MUSCULAR DYSTROPHIES; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY; PROTEINS; REPETITIVE SEQUENCES, AMINO ACID; RETINITIS PIGMENTOSA; SIGNAL TRANSDUCTION; SPECIES SPECIFICITY; TANDEM REPEAT SEQUENCES;

DROSOPHILA MELANOGASTER; MELANOGASTER; PROSPERO;

EID: 0035215432     PISSN: 10889051     EISSN: None     Source Type: Journal    
DOI: 10.1101/gr.198701     Document Type: Article

References (91)

1. The genome sequence of Drosophila melanogaster
2. Congenital disorders of glycosylation: Genetic model systems lead the way
3. Evidence for a clade of nematodes, arthropods, and other moulting animals
4. Gapped BLAST and PSI-BLAST
5. Protein repeats: Structures, functions and evolution
6. The WWE domain: A common interaction module in protein ubiquitination and ADP ribosylation
7. The DNA-repair protein AlkB, EGL-9, and leprecan define new families of 2-oxoglutarate- and iron-dependent dioxygenases
8. Severity of phenotype in cystinosis varies with mutations in the CTNS gene: Predicted effect on the model of cystinosin
9. Ubiquitin-specific proteases of Saccharomyces cerevisiae. Cloning of UBP2 and UBP3, and functional analysis of the UBP gene family
10. A gene related to Caenorhabditis elegans spermatogenesis factor fer-1 is mutated in limb-girdle muscular dystrophy type 2B
11. The Pfam protein families database
12. Myosin-X, a novel myosin with pleckstrin homology domains, associates with regions of dynamic actin
13. Crystal structure of coagulogen, the clotting protein from horseshoe crab: A structural homologue of nerve growth factor
14. The Drosophila neurogenic gene neuralized encodes a novel protein and is expressed in precursors of larval and adult neurons
15. A classification of nucleotide-disphospho-sugar glycosyltransferases based on amino acid sequence similarities
16. The targeting of cystinosin to the lysosomal membrane requires a tyrosyl-based signal and a novel sorting motif
17. Fluoxetine-resistant mutants in C. elegans define a novel family of transmembrane proteins
18. The solution structure of VAT-N reveals a 'missing link' in the evolution of complex enzymes from a simple βαββ element
19. Chimaeric mice deficient in dystroglycans develop muscular dystrophy and have disrupted myoneural synapses
20. New mutations in MID1 provide support for loss of function as the cause of X-linked Opitz syndrome
21. Adf-1 is a nonmodular transcription factor that contains a TAF-binding Myb-like motif
22. A polypeptide with similarity to phycocyanin alpha-subunit phycocyanobilin lyase involved in degradation of phycobilisomes
23. The multiplicity of domains in proteins
24. 2+
25. Function of tubulin binding proteins in vivo
26. Repetitive segmental structure of the transducin beta subunit: Homology with the CDC4 gene and identification of related mRNAs
27. CAP is a bifunctional component of the Saccharomyces cerevisiae adenylyl cyclase complex
28. Functional genomic analysis of cell division in C. elegans using RNAi of genes on chromosome III
29. CHROMA
30. Pleckstrin domain homology
31. Identification and analysis of the dissimilatory nitrous oxide reduction genes, nosRZDFY, of Rhizobium meliloti
32. Cloning and characterization of Physarum polycephalum tectonins. Homologues of Limulus lectin L-6
33. Initial sequencing and analysis of the human genome
34. Crystal structure of N-acyl-D-glucosamine 2-epimerase from porcine kidney
35. 2 sensing
36. Molecular mechanism of hemolymph clotting system in Limulus
37. 2-regulated prolyl hydroxylation
38. Domains in proteins: Definitions, location, and structural principles
39. Structure and evolution of parallel β-helix proteins
40. The clip-domain family of serine proteases in arthropods
41. Identification of multiple proteins expressed in murine embryos as binding partners for the WW domains of the ubiquitin-protein ligase Nedd4
42. Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes
43. Identification of a novel mammalian endoplasmic reticulum-resident KDEL protein using an EST database motif search
44. Structural evidence for the evolution of the β/α barrel scaffold by gene duplication and fusion
45. Were protein internal repeats formed by 'bricolage?'
46. PER and TIM inhibit the DNA binding activity of a Drosophila CLOCK-CYC/dBMAL1 heterodimer without disrupting formation of the heterodimer: A basis for circadian transcription
47. Cloning and sequencing of a cDNA for the hemolymph juvenile hormone binding protein of larval Manduca sexta
48. Ovochymase, a Xenopus laevis egg extracellular protease, is translated as part of an unusual polyprotease
49. Dysferlin, a novel skeletal muscle gene, is mutated in Miyoshi myopathy and limb girdle muscular dystrophy
50. SCOP: A structural classification of proteins database
51. Predicting coiled coils from protein sequences
52. A census of protein repeats
53. Human deltex is a conserved regulator of Notch signaling
54. Protein-truncation mutations in the RP2 gene in a North American cohort of families with X-linked retinitis pigmentosa
55. Accurate formula for P-values of gapped local sequence and profile alignments
56. Approximate statistics of gapped alignments
57. A novel lipopolysaccharide-induced transcription factor regulating tumor necrosis factor α gene expression: Molecular cloning, sequencing, characterization, and chromosomal assignment
58. A link between blood coagulation and prophenol oxidase activation in arthropod host defense
59. Mutations in the novel membrane protein spinster interfere with programmed cell death and cause neural degeneration in Drosophila melanogaster
60. Barth syndrome may be due to an acyltransferase deficiency
61. HEAT repeats associated with condensins, cohesions, and other complexes involved in chromosome-related functions
62. Solution structure of a DNA-binding unit of Myb: A helix-turn-helix-related motif with conserved tryptophans forming a hydrophobic core
63. A model for p53-induced apoptosis
64. Evidence for PDZ domains in bacteria, yeast, and plants
65. Identification of distant homologues of fibroblast growth factors suggests a common ancestor for all β trefoil proteins
66. 2+-release channels)
67. Eukaryotic signalling domain homologues in archaea and bacteria. Ancient ancestry and horizontal gene transfer
68. Molecular cloning of an insect pheromone-binding protein
69. A systematic analysis of human disease-associated gene sequences in Drosophila melanogaster
70. Prediction of protein secondary structure at better than 70% accuracy
71. Comparative genomics of the eukaryotes
72. Asp
73. Multiple protein sequence alignment from tertiary structure comparison: Assignment of global and residue confidence levels
74. SMART: A web-based tool for the study of genetically mobile domains
75. Drosophila Dscam is an axon guidance receptor exhibiting extraordinary molecular diversity
76. Positional cloning of the gene for X-linked retinitis pigmentosa 2
77. Molecular characterization of the oafA locus responsible for acetylation of Salmonella typhimurium O-antigen: OafA is a membrane of a family of integral membrane trans-acylases
78. Limits of homology detection by pairwise sequence comparison
79. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
80. Pathway leading to correctly folded β-tubulin
81. A novel gene encoding an integral membrane protein is mutated in nephropathic cystinosis
82. Crystal structure of a class I α 1,2-mannosidase involved in N-glycan processing and endoplasmic reticulum quality control
83. Mammalian Cry1 and Cry2 are essential for maintenance of circadian rhythms
84. SEALS: A system for easy analysis of lots of sequences
85. Properties of the prophenoloxidase activating enzyme of the freshwater crayfish, Pacifastacus leniusculus
86. Expression cloning of a novel suppressor of the Lec15 and Lec35 glycosylation mutations of Chinese hamster ovary cells
87. Statistics of local complexity in amino acid sequences and sequence databases
88. A striking organization of a large family of human neural cadherin-like cell adhesion genes
89. deltex, a locus interacting with the neurogenic genes, Notch, Delta, and mastermind in Drosophila melanogaster
90. Two separate functions are encoded by the carboxy-terminal domains of the yeast cyclase-associated protein and its mammalian homologs. Dimerization and actin binding
91. Homologues of archaeal rhodopsins in plants, animals, and fungi: Structural and functional predictions for a putative fungal chaperone protein