Prokaryote - Sulfolobus solfataricus

For:

leuC (13815772 - 3-isopropylmalate dehydratase, large subunit (isopropylmalate isomerase) (alpha IPM isomerase) (IPMI) (leuC)) Sulfolobus solfataricus complete genome.

VC2492 (9657072 - 3-isopropylmalate dehydratase, large subunit) Vibrio cholerae chromosome I, complete chromosome.

NMB1036 (7226276 - 3-isopropylmalate dehydratase, large subunit) Neisseria meningitidis serogroup B strain MC58 complete genome.

CC0196 (13421319 - 3-isopropylmalate dehydratase, large subunit) Caulobacter crescentus complete genome.

HI0988 (1574017 - 3-isopropylmalate dehydratase, alpha subunit (leuC)) Haemophilus influenzae Rd complete genome.

XF2375 (9107553 - 3-isopropylmalate dehydratase large subunit) Xylella fastidiosa, complete genome.

CLUSTALW

VC2492          ------------------------------------------------------------

XF2375          TATCTTGAGCTCATTGAGTCTCATGATTTCTTTGTGGACTGGCCTACTTGTTGGGAGTCT

leuC            --------------------------------------------GTTTCTTTTTCGGATT

NMB1036         -----------------------------------CTTTCGTCTACCTCTGTGTGTTTTT

HI0988          ---------------------------------------ATACTTGCCTTCCTCCGTTTA

CC0196          -----GGTCAAGCTTGGGTGCAACCACACATAGATTGACAAACCAGCGTTTCGTGAGA-A

VC2492          -----------------AGTTTGAGAGTGGGGTTACCCCACTCCTCTTTAGCTCTCTGA-

XF2375          CCAGATGAATCGCACATGGGTTTATGCCGAGGCTAAGTGCCGAGTGTTCGACACTCTAT-

leuC            TAGTACGATGTAAATGTAATTTCTTCGTAAG---AAATGCTTATTTATTAATAATTTTA-

NMB1036         TGACAAGATGCAGATGATAATGCCTTTGAAAGAATGACGACAAGTATTCTTTCGTATCG-

HI0988          CGGGGGAAGGTGCCTGAAGGGCGGAAGGGGGCAATCTCCACCCTTAGTTATTTAGAAAT-

CC0196          CGTGATGCCACCCCCGGCGCTTGTCGCTCGGGCTTCCAGACCGTCTTCTTTCTAGTGGAC

VC2492          -GCTCAAGGAAGAAGC--------------------------------------------

XF2375          -ATTTTTGGCGTATGGGATGACATGGTGCGCACGTGG---AGATTCCACACGAAATCATC

leuC            -ACTCCTTA---------------------------------------------------

NMB1036         -AATCATGCTTTA---GATATAACTGCTTACTGAAAT---GGACAATATGTCTAATTTTT

HI0988          -ATCCCCAATAAACAGGGGGGACAAAGTATTTAAAGT---GCGGTTGAAAAACACATCGA

CC0196          GGCCCTCTTCGGGCGGAGCCCATCGGCCCCCGAAGGCTGAAAACGATGCGAGGGCGCGCC

VC2492          ------------------------------------------------------------

XF2375          CAATAATTCTCACATTTGAAAATGCTGAATTCCCATGATTGATCTTGATAAGCTCGCTCT

leuC            ------------------------------------------------------------

NMB1036         TTGTTAAAATTGTTTACAAAATAACACCGACTCAAAAATTAGACAAAATCTGTTGCGCGG

HI0988          ATTTTAACCGCACTTCCCTTAACGAATAGAGAAAAATAT---------------------

CC0196          GAAACATGGGCGCGCCCTATGTCGTTCGGGGCTGTTCGGGAGACTGGAAGGCCACAGGGC

VC2492          ------------------------------------------------------------

XF2375          AGTATGGTTGCCAACGAAGGGTGATATCAGTCGCCGATTGTTGTAACCACATTAGGAATT

leuC            ------------------------------------------------------------

NMB1036         TATAAAGAATACGTCTAAAATCCGCCCAATCCGCATTACCATTTATCCAAAAGAACAACA

HI0988          ------------------------------------------------------------

CC0196          GCAAGAAATTGTCGCGAGCCTGGGGCGCCACTGGATTTTGGCGCACGATCCGCCCTATAT

VC2492          -------

XF2375          GCTGCT-

leuC            -------

NMB1036         TC-----

HI0988          -------

CC0196          CCCCGCC

DIALGN produced similar results and only managed to align a small section of T/A.

http://www.genomatix.de/cgi-bin/dialign/dialign.pl?SHOW=user_17_1.seq_48277.html&TASK=dialign

For:

thrS (13815789 - Threonyl-tRNA synthetase (thrS)) Sulfolobus solfataricus complete genome.

NMB0720 (7225946 - threonyl-tRNA synthetase) Neisseria meningitidis serogroup B strain MC58 complete genome.

HI1367 (1574199 - threonyl-tRNA synthetase (thrS)) Haemophilus influenzae Rd complete genome.

TP0837 (3323150 - threonyl-tRNA synthetase (thrS)) Treponema pallidum complete genome.

XF0736 (9105624 - threonyl-tRNA synthetase) Xylella fastidiosa, complete genome.

Clustal output

thrS ------------------------------------------------------------

NMB0720 ----------------------------TGAATGTCAGTTGGGCGACAGGGGTCGAAATA

TP0837 ------------------------------------------------------------

XF0736 ------------------------------------------------------------

HI1367 TTTTTATTCCTTAACTGGGTATTTAAAAGTGCGGTTATTCTAGCCTTTATTTTTAAGAGA

thrS ------------------------------------------------------------

NMB0720 TATTTTAAAAGACGGCATTATAAATGATTTCCCACGGTTTTTCAGACGACATCCCCAAAT

TP0837 -CGCGCTCACATCCAAAACAGAAAGCATCCTCTACTATACCCTACATACCACGTCCCTTC

XF0736 -AGGCGCCCTCCTGGCGCTTTTTTTGTTGCTTCGCGGGAAGCTCAAGATTGCATTGCTGA

HI1367 TAAAGCCTTTAGTCAGAAAAACATTATTTCCTTTTTGTAAAATATGGGCATTTATTTAAC

thrS ---------------------------C-A-ATACTCTTTGTAACAGCTAAAGATTTAAG

NMB0720 CTTGCCGCAATGTTGCATAAAGAAACGC-ACATACCTCTTGCAAAAATTAAAACGACCCG

TP0837 CTACAGACTGCAGTGACGGCGCAGGCGC-ACTGGCTCAGTGCTTCCTCCAAAACGGC--G

XF0736 ATGTTTGCATTGATGCGTCGGCATTAGC-A-TCATTGCCTGATCCTGCTTAGCAGA---A

HI1367 AATACTTCAAGAAAGTGATAGAATTCGCCACGCATTTTTTGCCTAATTTCGCTCGTTC-A

* * **

thrS TTAAATGACATAGCGATATT----------------------------------------

NMB0720 ATAAAATGCAAAAATTCTTTGAAGGCACGTAGCTCAGTTGGTTAGAGCACCACCTTGACA

TP0837 CCCATTGACAAACCACCCATAAGGTCTCACG-----------------------------

XF0736 TTCAACAACAATGATCCCTAAATACTCAATATATCAATCGCTGACACGCCTTTTATACT-

HI1367 ATGGTAGGAATGAAGCCAAGTAGGGCAAAAGTGCGGTTAATTTTTATAGAATTTTAAATG

thrS ------------------------------------------------------------

NMB0720 TGGTGGGGGTCGTTGGTTCGAATCCAATCGTGCCTACCAAATTCCCATAACGGCATTTAT

TP0837 ------------------------------------------------------------

XF0736 ------------------------------------------------------------

HI1367 AACACGTCACCTTTCGTATGGGTGACCACTGTATAAGGAAAAAAC---------------

thrS ------------------------------

NMB0720 GCCGTTATTTTTTAATCTTTCGGAGCGTTT

TP0837 ------------------------------

XF0736 ------------------------------

HI1367 ------------------------------

DIALGN produced similar results and only managed to align a small section of T/A.

http://www.genomatix.de/cgi-bin/dialign/dialign.pl?SHOW=user_17_2.seq_78486.html&TASK=dialign

For:

alaS (13813483 - Alanyl-tRNA synthetase (alaS)) Sulfolobus solfataricus complete genome.

NMB1595 (7226845 - alanyl-tRNA synthetase) Neisseria meningitidis serogroup B strain MC58 complete genome.

CC2529 (13424088 - alanyl-tRNA synthetase) Caulobacter crescentus complete genome.

HI0814 (1573826 - alanyl-tRNA synthetase (alaS)) Haemophilus influenzae Rd complete genome.

XF0124 (9104908 - alanyl-tRNA synthetase) Xylella fastidiosa, complete genome.

VC0545 (9654973 - alanyl-tRNA synthetase) Vibrio cholerae chromosome I, complete chromosome.

alaS ---AATTCTTACAAAGGATAATAAAAGTAACACTTT---TTCCGAGAAATAGTCACATTT

HI0814 -----------------TTAACAAGA--AATTGTTT---TTTGAATAATCTGAAATAACT

VC0545 --------------------ATCGCTTTCACCCTCTACATTCCGCTTATTAATCTCGCTC

NMB1595 -----------------TTATCATTCCTTGCATATCGGGTTGGAGAAAGCGGCCATTATA

CC2529 ---------------------------GGGGCTTTTGGCTTGCGGCATGCAGACGCCGCG

XF0124 ATCGTGCATGAGGGAGGATGAGGATTCGGCTATTCCGTGTCGTGTTTGAAAGCGCTGCTG

alaS --TAAATTTGTTTTTATAATACAGAATTTAATTTATGGATTAGTCCCTTCCTCATGGAAA

HI0814 --TAAATTT-TAACCGCACTTCTCAAATAGCGTCGTGAAGT-GCGGTTTTATTTTGGAGT

VC0545 --TGGATTT-TATGCATCTTGGTTGAGCTGCCGCTCGCCAC-ACATTCAGTTTGCGGAA-

NMB1595 --GCCGATATTGGCAACAGGGCTTCAGACGGCATTCAAAATCCCGCCACACTCTTCCGA-

CC2529 AGCGAGCATGCGCTGGATGCGCCGATGTCGGCCTTTTCCGCATCCTTGGGCGGCCCCACC

XF0124 --CAAACCGTTGTCTATCCGCGCCACGCTGTGGCGCATGATTGCATGCTTGCTCTCTTTT

alaS TCTTAAATGAAATCTTAATGGCTATTTGTTTTAGAATCTA-AATTACGAGAGGAG---TC

HI0814 TTTGGCAAAAAGCCTTTTTATAAATTT---CAAAAATATGCAAAAATAGGGCGAC---TT

VC0545 ---GAGAAGAAACTAGGCGAACTGTTA--TCCTTGCTTTACAATAGCGCAAAATT---CT

NMB1595 ---AAACCGCCGCTTCCATAGCTAGAAA--CAGGGATTTGCGGTAAGATACCGCCG--TT

CC2529 TTCGACTCGGTTTCCCCTTCGCCGAAAA--CCGCGCTATGCAGCGCCCGACTTCCG--GC

XF0124 CTCTCCTGGGGTTGGTGCTATAAGGAGA---CGAATTGCAACATGCCGTGCATCTGATGT

alaS AGTTTTTAAGCTT----TAGATACTT----TTCTTTTTATTGT-----------------

HI0814 AGTTTTTATTTTTATTATGGGTAACAAGGATTCTTTTTA---------------------

VC0545 AACTTGAGTATTT--CAGGAAGAGCTG---------------------------------

NMB1595 CGTTTTCCCTGCTTTTACCATGACAAGACATTTGAGAGACATTGAAAAAAT---------

CC2529 CGCTCGCCGGACCGGTATTCAAGACTTTGAGACGCTC-----------------------

XF0124 GGCCCCCGTTTCCGTCATGACTGAGTGATATCTATAGTGATAAGGGCACACTTTCGTTTG

alaS ------------------------------------------------------------

HI0814 ------------------------------------------------------------

VC0545 ------------------------------------------------------------

NMB1595 ------------------------------------------------------------

CC2529 ------------------------------------------------------------

XF0124 CTTTGTTGCTCCGGTCTGGTTTCTGGATTTCGGCGATTTGCTGCGTTGTTGCCTATAACG

alaS ------

HI0814 ------

VC0545 ------

NMB1595 ------

CC2529 ------

XF0124 CAGAGG

DIALGN produced similar results and only managed to align a small section of T/A.

http://www.genomatix.de/cgi-bin/dialign/dialign.pl?SHOW=user_17_3.seq_67215.html&TASK=dialign