Question

Using the National Center for Biotechnology Information Web site () find the sequence of the enzyme triose phosphate isomerase from E. coli. Use this sequence as a query for a protein-protein BLAST search. In the output, find the alignment with the sequence of triose phosphate isomerase from human beings (Homo sapiens). How many identities are observed in the alignment? 


Answer 1

Job ID no in E.coli= W8FF3TMG01R

Query ID = lcl|Query_45947

The alignment sequence of the human triose phosphate isomerase with the triose phosphate enzyme from Ecoli is given below as follows:

Triosephosphate isomerase 1 [Homo sapiens]

Range 1: 5 to 249GenPeptGraphics Next MatchPrevious Match

Alignment statistics for match #1

Score	Expect	Method	Identities	Positives	Gaps
193 bits(491)	2e-60	Compositional matrix adjust.	113/250(45%)	148/250(59%)	6/250(2%)

Query  2    RHPLVMGNWKLNGSRHMVHELVSNLRKELAGVAGCAVAIAPPEMYIDMAKREAEGSHIML  61
            R   V GNWK+NG +  + EL+  L       A   V  APP  YID A+++ +   I +
Sbjct  5    RKFFVGGNWKMNGRKQSLGELIGTLNAAKV-PADTEVVCAPPTAYIDFARQKLD-PKIAV  62

Query  62   GAQNVDLNLSGAFTGETSAAMLKDIGAQYIIIGHSERRTYHKESDELIAKKFAVLKEQGL  121
             AQN     +GAFTGE S  M+KD GA ++++GHSERR    ESDELI +K A    +GL
Sbjct  63   AAQNCYKVTNGAFTGEISPGMIKDCGATWVVLGHSERRHVFGESDELIGQKVAHALAEGL  122

Query  122  TPVLCIGETEAENEAGKTEEVCARQIDAVLKTQGAAAFEGAVIAYEPVWAIGTGKSATPA  181
              + CIGE   E EAG TE+V   Q   +     A  +   V+AYEPVWAIGTGK+ATP 
Sbjct  123  GVIACIGEKLDEREAGITEKVVFEQTKVI--ADNAKDWSKVVLAYEPVWAIGTGKTATPQ  180

Query  182  QAQAVHKFIRDHI-AKVDANIAEQVIIQYGGSVNASNAAELFAQPDIDGALVGGASLKAD  240
            QAQ VH+ +R  + + V   +A+   I YGGSV  +   EL +QPD+DG LVGGASLK +
Sbjct  181  QAQEVHEKLRGWLKSNVSDAVAQSTRIIYGGSVTGATCKELASQPDVDGFLVGGASLKPE  240

Query  241  AFAVIVKAAE  250
             F  I+ A +
Sbjct  241  -FVDIINAKQ  249

The other sequence alignment is given below as follows

triosephosphate isomerase isoform 1 [Homo sapiens]

Range 1: 5 to 249GenPeptGraphicsNext MatchPrevious Match

Alignment statistics for match #1

Score	Expect	Method	Identities	Positives	Gaps
192 bits(487)	8e-60	Compositional matrix adjust.	112/250(45%)	147/250(58%)	6/250(2%)

Query  2    RHPLVMGNWKLNGSRHMVHELVSNLRKELAGVAGCAVAIAPPEMYIDMAKREAEGSHIML  61
            R   V GNWK+NG +  + EL+  L       A   V  APP  YID A+++ +   I +
Sbjct  5    RKFFVGGNWKMNGRKQSLGELIGTLNAAKV-PADTEVVCAPPTAYIDFARQKLD-PKIAV  62

Query  62   GAQNVDLNLSGAFTGETSAAMLKDIGAQYIIIGHSERRTYHKESDELIAKKFAVLKEQGL  121
             AQN     +GAFTGE S  M+KD GA ++++GHSERR    ESDELI +K A    +GL
Sbjct  63   AAQNCYKVTNGAFTGEISPGMIKDCGATWVVLGHSERRHVFGESDELIGQKVAHALAEGL  122

Query  122  TPVLCIGETEAENEAGKTEEVCARQIDAVLKTQGAAAFEGAVIAYEPVWAIGTGKSATPA  181
              + CIGE   E EAG TE+V   Q   +        +   V+AYEPVWAIGTGK+ATP 
Sbjct  123  GVIACIGEKLDEREAGITEKVVFEQTKVI--ADNVKDWSKVVLAYEPVWAIGTGKTATPQ  180

Query  182  QAQAVHKFIRDHI-AKVDANIAEQVIIQYGGSVNASNAAELFAQPDIDGALVGGASLKAD  240
            QAQ VH+ +R  + + V   +A+   I YGGSV  +   EL +QPD+DG LVGGASLK +
Sbjct  181  QAQEVHEKLRGWLKSNVSDAVAQSTRIIYGGSVTGATCKELASQPDVDGFLVGGASLKPE  240

Query  241  AFAVIVKAAE  250
             F  I+ A +
Sbjct  241  -FVDIINAKQ  249

The chain A alignment of the enzyme triose phosphate isomerase is given below as follows:

Chain A, Triosephosphate Isomerase [Homo sapiens]

Range 1: 2 to 246GenPeptGraphicsNext MatchPrevious Match

Alignment statistics for match #1

Score	Expect	Method	Identities	Positives	Gaps
192 bits(488)	6e-60	Compositional matrix adjust.	112/250(45%)	147/250(58%)	6/250(2%)

Query  2    RHPLVMGNWKLNGSRHMVHELVSNLRKELAGVAGCAVAIAPPEMYIDMAKREAEGSHIML  61
            R   V GNWK+NG +  + EL+  L       A   V  APP  YID A+++ +   I +
Sbjct  2    RKFFVGGNWKMNGRKQSLGELIGTLNAAKV-PADTEVVCAPPTAYIDFARQKLD-PKIAV  59

Query  62   GAQNVDLNLSGAFTGETSAAMLKDIGAQYIIIGHSERRTYHKESDELIAKKFAVLKEQGL  121
             AQN     +GAFTGE S  M+KD GA ++++GHSERR    ESDELI +K A    +GL
Sbjct  60   AAQNCYKVTNGAFTGEISPGMIKDCGATWVVLGHSERRHVFGESDELIGQKVAHALAEGL  119

Query  122  TPVLCIGETEAENEAGKTEEVCARQIDAVLKTQGAAAFEGAVIAYEPVWAIGTGKSATPA  181
              + CIGE   E EAG TE+V   Q   +        +   V+AYEPVWAIGTGK+ATP 
Sbjct  120  GVIACIGEKLDEREAGITEKVVFEQTKVI--ADNVKDWSKVVLAYEPVWAIGTGKTATPQ  177

Query  182  QAQAVHKFIRDHI-AKVDANIAEQVIIQYGGSVNASNAAELFAQPDIDGALVGGASLKAD  240
            QAQ VH+ +R  + + V   +A+   I YGGSV  +   EL +QPD+DG LVGGASLK +
Sbjct  178  QAQEVHEKLRGWLKSNVSDAVAQSTRIIYGGSVTGATCKELASQPDVDGFLVGGASLKPE  237

Query  241  AFAVIVKAAE  250
             F  I+ A +
Sbjct  238  -FVDIINAKQ  246

The phylogenetic tree of the different triose phosphate isomerase enzyme sequences obtained from the phylogenetic tree is given below in comparison to Ecoli as obtained from the NCBI website.

The identity is 113/250 nucleotides in the sequences of the enzyme triose phosphate isomerase.