Sequence alignments
Global pairwise alignment of homologous proteins using needle
| Protein Name | ID1 | ID2 | Score | % Identity | % Similarity | Gaps | Indels |
|---|---|---|---|---|---|---|---|
| Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha | ACCA_ECOLI | ACCA_BACSU | 814.5 | 51.1% | 66.0% | 14 | 4 |
| Glucokinase | GLK_ECOLI | GLK_BACSU | 89.0 | 22.1% | 32.8% | 164 | 26 |
| Serine--tRNA ligase | SYS_ECOLI | SYS_BACSU | 1093.5 | 51.6% | 67.1% | 9 | 4 |
Local pairwise alignment of homologous proteins using water
| Protein Name | ID1 | ID2 | Score | % Identity | % Similarity | Gaps | Indels | Coverage1 | Coverage2 |
|---|---|---|---|---|---|---|---|---|---|
| Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha | ACCA_ECOLI | ACCA_BACSU | 98.5 | 22.0% | 32.5% | 159 | 2 | 97.8% | 95.1% |
| Glucokinase | GLK_ECOLI | GLK_BACSU | 1359.0 | 64.1% | 77.2% | 7 | 22 | 93.5% | 92.5% |
| Serine--tRNA ligase | SYS_ECOLI | SYS_BACSU | 1095.5 | 52.1% | 67.5% | 8 | 3 | 99.3% | 99.1% |
Pairwise alignments of non-homologous proteins using needle
| Type | ID1 | ID2 | Score | % Identity | % Similarity | Gaps | Indels | Coverage1 | Coverage2 |
|---|---|---|---|---|---|---|---|---|---|
| Global | SUHB_ECOLI | RHO_BACSU | 41.5 | 13.5% | 22.5% | 266 | 21 | — | — |
| Local | SUHB_ECOLI | RHO_BACSU | 56.5 | 22.6% | 38.5% | 63 | 14 | 78.7% | 45.7% |
Multiple alignment of acyl carrier protein
About. ACP (acyl carrier protein). There are 1,196,687 results (7,545 reviewed, from Swiss-Prot) with ACP from prokaryotes (but there aren't any reviewed archaean) and eukaryotes (like Arabidopsis thaliana, human and another). I chose five out of the first hundred trying to choose different taxones including eukaryotes.
- Escherichia coli (gram-negative bacteria)
- Bacillus subtilis (gram-positive bacteria)
- Myxococcus xanthus (gram-negative bacteria)
- Anabaena variabilis (gram-negative cyanobacteria)
- Pseudomonas syringae pv. tomato (gram-negative pathogen bacteria)
- Vibrio cholerae serotype O1 (gram-negative pathogen bacteria)
- Brassica campestris (plant from family Cruciferae)
Alignment. I made alignment using muscle program from EMBOSS. Alignment can be found via the link.
Analysis. All the proteins have aligned quite well, only cabbage stands out: it has a large amino acid site at the beginning. Most likely, this can be explained belonging to eukaryotes, but there are not enough other eukaryotes in the alignment for a more accurate conclusion.
As it seems all proteins are homologous since the sequences in prokaryotes are very similar but cabbage differs only in the previously described feature. I would also say that columns 72-29 (except 77) are the least conservative site of this protein except the beginning and the end.