Difference between revisions of "Multiple Sequence Alignment: T-Coffee - set 1"

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The native protein is colored red in the Alignment. The violet marked residues show where the last residues G (A9UD35) and D (D1L2S0)are aligned in comparison to the other residues thes are aligned with as well as the resulting contigous gap. The residues to which the should be aligned according to the author are colored as well.
+
The native protein is colored red in the alignment. The violet marked residues show where the last residues G (A9UD35) and D (D1L2S0) are aligned, in comparison to the other residues these are aligned with, as well as the resulting contigous gap. The residues to which they should be aligned according to the author are colored as well.
   
 
CLUSTAL FORMAT for T-COFFEE Version_8.47 [http://www.tcoffee.org] [MODE: ], CPU=0.12 sec, SCORE=98, Nseq=10, Len=621
 
CLUSTAL FORMAT for T-COFFEE Version_8.47 [http://www.tcoffee.org] [MODE: ], CPU=0.12 sec, SCORE=98, Nseq=10, Len=621

Latest revision as of 01:34, 7 May 2013

The native protein is colored red in the alignment. The violet marked residues show where the last residues G (A9UD35) and D (D1L2S0) are aligned, in comparison to the other residues these are aligned with, as well as the resulting contigous gap. The residues to which they should be aligned according to the author are colored as well.

CLUSTAL FORMAT for T-COFFEE Version_8.47 [1] [MODE:  ], CPU=0.12 sec, SCORE=98, Nseq=10, Len=621 

P04062                  --------------------------------------------------
tr|A9UD35|A9UD35_DELDE  --------------------------------------------------
tr|D1L2S0|D1L2S0_BALPH  --------------------------------------------------
pdb|pdb|3gxi_A          --------------------------------------------------
pdb|pdb|2nt1_A          --------------------------------------------------
tr|F6WDY8|F6WDY8_HORSE  --------------------------------------------------
sp|Q2KHZ8|GLCM_BOVIN    --------------------------------------------------
tr|F5CB27|F5CB27_DELCA  --------------------------------------------------
tr|F5H241|F5H241_HUMAN  --------------------------------------------------
tr|B7Z6S9|B7Z6S9_HUMAN  MSDRLFSNPGPAPTPQGCFSRGCGWSGCILPSESYCAGPQSPVPPRRLCR
                                                                          

P04062                  -----------------------------------MEFSSPSREECPKPL
tr|A9UD35|A9UD35_DELDE  --------------------------------------------------
tr|D1L2S0|D1L2S0_BALPH  --------------------------------------------------
pdb|pdb|3gxi_A          --------------------------------------------------
pdb|pdb|2nt1_A          --------------------------------------------------
tr|F6WDY8|F6WDY8_HORSE  -----------------------------------MELSSPSREGCLKCP
sp|Q2KHZ8|GLCM_BOVIN    -----------------------------------MELSSPSREEYPMPR
tr|F5CB27|F5CB27_DELCA  --------------------------------------------------
tr|F5H241|F5H241_HUMAN  -----------------------------------MEFSSPSREECPKPL
tr|B7Z6S9|B7Z6S9_HUMAN  LRWDFVLPPVGAAVSLRRRDSGTPVVFSSSNDPEGMEFSSPSREECPKPL
                                                                          

P04062                  SRVSIMAGSLTGLLLLQAVSWASGARPCIPKSFGYSSVVCVCNATYCDSF
tr|A9UD35|A9UD35_DELDE  -----------------------------------------CNATYCDSL
tr|D1L2S0|D1L2S0_BALPH  -------------------------------------VVCVCNATYCDSL
pdb|pdb|3gxi_A          ------------------------ARPCIPKSFGYSSVVCVCNATYCDSF
pdb|pdb|2nt1_A          ------------------------ARPCIPKSFGYSSVVCVCNATYCDSF
tr|F6WDY8|F6WDY8_HORSE  GRVGIMAASFMGLLLLQAVSRASGARPCSPKSFGYSSVVCVCNATYCDSL
sp|Q2KHZ8|GLCM_BOVIN    GRVGIMAASLMGLLLLHTVSWVSGARPCSPKSFGYSSVVCVCNGTYCDSL
tr|F5CB27|F5CB27_DELCA  -----------------------------------------CNATYCDSL
tr|F5H241|F5H241_HUMAN  SRVSIMAGSLTGLLLLQAVSWA----------------------------
tr|B7Z6S9|B7Z6S9_HUMAN  SRVSIMAGSLTGLLLLQAVSWASGARPCIPKSFGYSSVVCVCNATYCDSF
                                                                          

P04062                  DPPTFPALGTFSRYESTRSGRRMELSMGPIQANHTGTGLLLTLQPEQKFQ
tr|A9UD35|A9UD35_DELDE  DPLTLPDPGTFSRFESTRSGRRMELSLGTIQANRTGTGLLLTLQPDQKFQ
tr|D1L2S0|D1L2S0_BALPH  DPLTLPDPGTFSRFESTRSGRRMELSLGAIQANRTGTGLLLTLQP-----
pdb|pdb|3gxi_A          DPPTFPALGTFSRYESTRSGRRMELSMGPIQANHTGTGLLLTLQPEQKFQ
pdb|pdb|2nt1_A          DPPTFPALGTFSRYESTRSGRRMELSMGPIQANHTGTGLLLTLQPEQKFQ
tr|F6WDY8|F6WDY8_HORSE  DPLTLPAPGTFSRYESTRSGRRMELSLGAIQANRTGTGLLLTLQPDQKFQ
sp|Q2KHZ8|GLCM_BOVIN    DPLTLPDPGTFSRFESTRSGRRMELSLGTIQANRTGTGLLLTLQPDQKFQ
tr|F5CB27|F5CB27_DELCA  DPLTLPDPGTFSRFESTRSGRRMELSLGTIQANRTGTGLLLTLQPD----
tr|F5H241|F5H241_HUMAN  --------------------------------------------------
tr|B7Z6S9|B7Z6S9_HUMAN  DPPTFPALGTFSRYESTRSGRRMELSMGPIQANHTGTGLLLTLQPEQKFQ
                                                                          

P04062                  KVKGFGGAMTDAAALNILALSPPAQNLLLKSYFSEEGIGYNIIRVPMASC
tr|A9UD35|A9UD35_DELDE  KVK-----------------------------------------------
tr|D1L2S0|D1L2S0_BALPH  --------------------------------------------------
pdb|pdb|3gxi_A          KVKGFGGAMTDAAALNILALSPPAQNLLLKSYFSEEGIGYNIIRVPMASC
pdb|pdb|2nt1_A          KVKGFGGAMTDAAALNILALSPPAQNLLLKSYFSEEGIGYNIIRVPMASC
tr|F6WDY8|F6WDY8_HORSE  KVKGFGGAMTDAAALNILALSPAARNLLLKSYFSEEGIEYNIIRVPMASC
sp|Q2KHZ8|GLCM_BOVIN    KVKGFGGAMTDAAALNILALSPAARNLLLKSYFSEEGIEYNIIRVPMASC
tr|F5CB27|F5CB27_DELCA  --------------------------------------------------
tr|F5H241|F5H241_HUMAN  -----------------------------------SGIGYNIIRVPMASC
tr|B7Z6S9|B7Z6S9_HUMAN  KVKGFGGAMTDAAALNILALSPPAQNLLLKSYFSEEGIGYNIIRVPMASC
                                                                          

P04062                  DFSIRTYTYADTPDDFQLHNFSLPEEDTKLKIPLIHRALQLAQRPVSLLA
tr|A9UD35|A9UD35_DELDE  --------------------------------------------------
tr|D1L2S0|D1L2S0_BALPH  --------------------------------------------------
pdb|pdb|3gxi_A          DFSIRTYTYADTPDDFQLHNFSLPEEDTKLKIPLIHRALQLAQRPVSLLA
pdb|pdb|2nt1_A          DFSIRTYTYADTPDDFQLHNFSLPEEDTKLKIPLIHRALQLAQRPVSLLA
tr|F6WDY8|F6WDY8_HORSE  DFSIRVYTYADTPDDFQLHNFSLPEEDVKLKIPLIHQALELSQRPISLFA
sp|Q2KHZ8|GLCM_BOVIN    DFSIRTYTYDDSPDDFQLLNFSLPEEDVKLKIPLIHQALELANRSVSLFA
tr|F5CB27|F5CB27_DELCA  --------------------------------------------------
tr|F5H241|F5H241_HUMAN  DFSIRTYTYADTPDDFQLHNFSLPEEDTKLKIPLIHRALQLAQRPVSLLA
tr|B7Z6S9|B7Z6S9_HUMAN  DFSIRTYTYADTPDDFQLHNFGLPEEDTKLKIPLIHRALQLAQRPVSLLA
                                                                          

P04062                  SPWTSPTWLKTNGAVNGKGSLKGQPGDIYHQTWARYFVKFLDAYAEHKLQ
tr|A9UD35|A9UD35_DELDE  --------------------------------------------------
tr|D1L2S0|D1L2S0_BALPH  --------------------------------------------------
pdb|pdb|3gxi_A          SPWTSPTWLKTNGAVNGKGSLKGQPGDIYHQTWARYFVKFLDAYAEHKLQ
pdb|pdb|2nt1_A          SPWTSPTWLKTNGAVNGKGSLKGQPGDIYHQTWARYFVKFLDAYAEHKLQ
tr|F6WDY8|F6WDY8_HORSE  SPWTSPTWLKTNGAVNGKGSLKGQPGDRYHQTWAKYFVKFLDAYAEHKLQ
sp|Q2KHZ8|GLCM_BOVIN    SPWTSPTWLKTNGAVNGKGTLKGQAGDLYHKTWARYFVKFLDAYAEHKLR
tr|F5CB27|F5CB27_DELCA  --------------------------------------------------
tr|F5H241|F5H241_HUMAN  SPWTSPTWLKTNGAVNGKGSLKGQPGDIYHQTWARYFVKFLDAYAEHKLQ
tr|B7Z6S9|B7Z6S9_HUMAN  SPWTSPTWLKTNGAVNGKGSLKGQPGDIYHQTWARYFVKFLDAYAEHKLQ
                                                                          

P04062                  FWAVTAENEPSAGLLSGYPFQCLGFTPEHQRDFIARDLGPTLANSTHHNV
tr|A9UD35|A9UD35_DELDE  --------------------------------------------------
tr|D1L2S0|D1L2S0_BALPH  --------------------------------------------------
pdb|pdb|3gxi_A          FWAVTAENEPSAGLLSGYPFQCLGFTPEHQRDFIARDLGPTLANSTHHNV
pdb|pdb|2nt1_A          FWAVTAENEPSAGLLSGYPFQCLGFTPEHQRDFIARDLGPTLANSTHHNV
tr|F6WDY8|F6WDY8_HORSE  FWAVTTENEPSAGLISGYPFQCLGFTPEHQRDFIARDLGPTLANSTHRNV
sp|Q2KHZ8|GLCM_BOVIN    FWAVTAENEPTAGLLTGYPFQCLGFTPEHQRDFIARDLGPILANSTHRDV
tr|F5CB27|F5CB27_DELCA  --------------------------------------------------
tr|F5H241|F5H241_HUMAN  FWAVTAENEPSAGLLSGYPFQCLGFTPEHQRDFIARDLGPTLANSTHHNV
tr|B7Z6S9|B7Z6S9_HUMAN  FWAVTAENEPSAGLLSGYPFQCLGFTPEHQRDFIARDLGPTLANSTHHNV
                                                                          

P04062                  RLLMLDDQRLLLPHWAKVVLTDPEAAKYVHGIAVHWYLDFLAPAKATLGE
tr|A9UD35|A9UD35_DELDE  --------------------------------------------------
tr|D1L2S0|D1L2S0_BALPH  --------------------------------------------------
pdb|pdb|3gxi_A          RLLMLDDQRLLLPHWAKVVLTDPEAAKYVHGIAVHWYLDFLAPAKATLGE
pdb|pdb|2nt1_A          RLLMLDDQRLLLPHWAKVVLTDPEAAKYVHGIAVHWYLDFLAPAKATLGE
tr|F6WDY8|F6WDY8_HORSE  RVLMLDDQRLLLPRWAQVVLADPEAAKYVHGIAVHWYLDFLAPAKATLGE
sp|Q2KHZ8|GLCM_BOVIN    RLLMLDDQRLLLPRWAQVVLADPEAAKYVHGIAVHWYLDFLAPAKATLGE
tr|F5CB27|F5CB27_DELCA  --------------------------------------------------
tr|F5H241|F5H241_HUMAN  RLLMLDDQRLLLPHWAKVVLTDPEAAKYVHGIAVHWYLDFLAPAKATLGE
tr|B7Z6S9|B7Z6S9_HUMAN  RLLMLDDQRLLLPHWAKVVLTDPEAAKYVHGIAVHWYLDFLAPAKATLGE
                                                                          

P04062                  THRLFPNTMLFASEACVGSKFWEQSVRLGSWDRGMQYSHSIITNLLYHVV
tr|A9UD35|A9UD35_DELDE  --------------------------------------------------
tr|D1L2S0|D1L2S0_BALPH  --------------------------------------------------
pdb|pdb|3gxi_A          THRLFPNTMLFASEACVGSKFWEQSVRLGSWDRGMQYSHSIITNLLYHVV
pdb|pdb|2nt1_A          THRLFPNTMLFASEACVGSKFWEQSVRLGSWDRGMQYSHSIITNLLYHVV
tr|F6WDY8|F6WDY8_HORSE  THRLFPDMMLFASEACVGSKFWEQSVRLGSWDRGVQYSHSIITNLLYHVA
sp|Q2KHZ8|GLCM_BOVIN    THRLFPNTMLFASEACVGSKFWEQSVRLGSWDRGMRYSHSIITNLLYHVV
tr|F5CB27|F5CB27_DELCA  --------------------------------------------------
tr|F5H241|F5H241_HUMAN  THRLFPNTMLFASEACVGSKFWEQSVRLGSWDRGMQYSHSIITNLLYHVV
tr|B7Z6S9|B7Z6S9_HUMAN  THRLFPNTMLFASEACVGSKFWEQSVRLGSWDRGMQYSHSIITNLLYHVV
                                                                          

P04062                  GWTDWNLALNPEGGPNWVRNFVDSPIIVDITKDTFYKQPMFYHLGHFSKF
tr|A9UD35|A9UD35_DELDE  --------------------------------------------------
tr|D1L2S0|D1L2S0_BALPH  --------------------------------------------------
pdb|pdb|3gxi_A          GWTDWNLALNPEGGPNWVRNFVDSPIIVDITKDTFYKQPMFYHLGHFSKF
pdb|pdb|2nt1_A          GWTDWNLALNPEGGPNWVRNFVDSPIIVDITKDTFYKQPMFYHLGHFSKF
tr|F6WDY8|F6WDY8_HORSE  GWTDWNLALNPEGGPNWVRNFVDSPIIVDIAKDTFYKQPMFYHLGHFSKF
sp|Q2KHZ8|GLCM_BOVIN    GWTDWNLALNPEGGPNWVRNFVDSPIIVDIAKDTFYKQPMFYHLGHFSKF
tr|F5CB27|F5CB27_DELCA  --------------------------------------------------
tr|F5H241|F5H241_HUMAN  GWTDWNLALNPEGGPNWVRNFVDSPIIVDITKDTFYKQPMFYHLGHFSKF
tr|B7Z6S9|B7Z6S9_HUMAN  GWTDWNLALNPEGGPNWVRNFVDSPIIVDITKDTFYKQPMFYHLGHFSKF
                                                                          

P04062                  IPEGSQRVGLVASQKNDLDAVALMHPDGSAVVVVLNRSSKDVPLTIKDPA
tr|A9UD35|A9UD35_DELDE  --------------------------------------------------
tr|D1L2S0|D1L2S0_BALPH  --------------------------------------------------
pdb|pdb|3gxi_A          IPEGSQRVGLVASQKNDLDAVALMHPDGSAVVVVLNRSSKDVPLTIKDPA
pdb|pdb|2nt1_A          IPEGSQRVGLVASQKNDLDAVALMHPDGSAVVVVLNRSSKDVPLTIKDPA
tr|F6WDY8|F6WDY8_HORSE  IPEGSQRVGLDASEKTNLDTVALMHPDGSAVVVVLNRSSKDVPLTIKDPA
sp|Q2KHZ8|GLCM_BOVIN    IPEGSQRVGLVASKKSDLDTVALLRPDGSAVAVVLNRSSKDVPLTIKDPA
tr|F5CB27|F5CB27_DELCA  --------------------------------------------------
tr|F5H241|F5H241_HUMAN  IPEGSQRVGLVASQKNDLDAVALMHPDGSAVVVVLNRSSKDVPLTIKDPA
tr|B7Z6S9|B7Z6S9_HUMAN  IPEGSQRVGLVASQKNDLDAVALMHPDGSAVVVVLNRSSKDVPLTIKDPA
                                                                          

P04062                  VGFLETISPGYSIHTYLWRRQ
tr|A9UD35|A9UD35_DELDE  --------------------G
tr|D1L2S0|D1L2S0_BALPH  --------------------D
pdb|pdb|3gxi_A          VGFLETISPGYSIHTYLWHRQ
pdb|pdb|2nt1_A          VGFLETISPGYSIHTYLWHRQ
tr|F6WDY8|F6WDY8_HORSE  VGFLETVSPGYSIHTYLWRRQ
sp|Q2KHZ8|GLCM_BOVIN    VGFMETVSPGYSIHTYLWRRQ
tr|F5CB27|F5CB27_DELCA  ---------------------
tr|F5H241|F5H241_HUMAN  VGFLETISPGYSIHTYLWRRQ
tr|B7Z6S9|B7Z6S9_HUMAN  VGFLETISPGYSIHTYLWRRQ