This web page was produced as an assignment for Gen677 at UW-Madison Spring 2010
Protein Homologs
Homologs are genes that share many similarities between species descending from a common ancestor. This homology is often reflected in the protein. The use of homologs are important in the area of human disease research by providing a simpler organism to use as a model for the disease.
Homologene was used to determine the protein homologs of tyrosine-protein kinase ABL1 isoform b found in humans. Seven species were found to contain a protein homolog with humans. The E-value was determined using BLAST.
Homo sapien (Human)
Protein Name: Tyrosine-protein kinase ABL1 isoform b
Protein accession number: NP_009297.2
Protein Name: Tyrosine-protein kinase ABL1 isoform b
Protein accession number: NP_009297.2
| human_fasta_pro.rtf |
Pan troglodyles (Chimpanzee)
Protein Name: V-abl Abelson murine leukemia viral oncogene homolog 1 isoform 1
Protein accession number: XP_001166213.1
E-value: 0.0
Protein Name: V-abl Abelson murine leukemia viral oncogene homolog 1 isoform 1
Protein accession number: XP_001166213.1
E-value: 0.0
| chimp_fasta_pro.rtf |
Canis lupus familiaris (Dog)XP_548413.2
Protein name: similar to v-abl Abelson murine leukemia viral oncogene homolog 1 isoform a (predicted)
Protein accession number:
E-value: 0.0
Protein name: similar to v-abl Abelson murine leukemia viral oncogene homolog 1 isoform a (predicted)
Protein accession number:
E-value: 0.0
| dog_fasta_pro.rtf |
Bos taurus (Cow)
Protein name: arg tyrosine kinase (predicted)
Protein accession number: XP_613548.2
E-value: 0.0
Protein name: arg tyrosine kinase (predicted)
Protein accession number: XP_613548.2
E-value: 0.0
| cow_fasta_pro.rtf |
Mus musculus (Mouse)
Protein name: tyrosine-protein kinase ABL1 isoform b
Protein accession number: NP_033724
E-value: 0.0
Protein name: tyrosine-protein kinase ABL1 isoform b
Protein accession number: NP_033724
E-value: 0.0
| mouse_fasta_pro.rtf |
Rattus norvegicus (Rat)
Protein name: tyrosine-protein kinase ABL1
Protein accession number: NP_001094320
E-value: 0.0
Protein name: tyrosine-protein kinase ABL1
Protein accession number: NP_001094320
E-value: 0.0
| rat_fasta_pro.rtf |
Gallus gallus (Chicken)
Protein name: similar to proto-oncogene tyrosine-protein kinase isoform 1
Protein accession number: XP_001233812
E-value: 0.0
Protein name: similar to proto-oncogene tyrosine-protein kinase isoform 1
Protein accession number: XP_001233812
E-value: 0.0
| chicken_fasta_pro.rtf |
Danio rerio (Zebrafish)
Protein name: v-abl Abelson murine leukemia viral oncogene homolog 1 isoform a (predicted)
Protein accession number: XP_001337829
E-value: 0.0
Protein name: v-abl Abelson murine leukemia viral oncogene homolog 1 isoform a (predicted)
Protein accession number: XP_001337829
E-value: 0.0
| zebrafish_fasta_pro.rtf |
Alignments
Alignments were produced using the protein sequences found in Homologene. ClustalW, Muscle, and T-Coffee each produced a valid alignment. The T-Coffee alignment can be viewed below.
| t-coffee_alignment.pdf |
Analysis
The protein homology is similar to the gene homology with the chimpanzee having the most similarity with humans. The protein alignment, unlike the gene alignment, shows the specific sequence similarities and differences making it easier to compare the different species. T-Coffee alignment was the most beneficial due to its color coding, but all three had similar alignments.
References
1. Homologene http://www.ncbi.nlm.nih.gov/homologene
2. BLAST http://blast.ncbi.nlm.nih.gov/Blast.cgi
3. ClustalW http://www.phylogeny.fr/version2_cgi/one_task.cgi?task_type=clustalw
4. Muscle http://www.phylogeny.fr/version2_cgi/one_task.cgi?task_type=muscle
5. T-Coffee http://www.phylogeny.fr/version2_cgi/one_task.cgi?task_type=tcoffee
6. Treefam http://www.treefam.org/
2. BLAST http://blast.ncbi.nlm.nih.gov/Blast.cgi
3. ClustalW http://www.phylogeny.fr/version2_cgi/one_task.cgi?task_type=clustalw
4. Muscle http://www.phylogeny.fr/version2_cgi/one_task.cgi?task_type=muscle
5. T-Coffee http://www.phylogeny.fr/version2_cgi/one_task.cgi?task_type=tcoffee
6. Treefam http://www.treefam.org/
