GapMind for Amino acid biosynthesis

 

Alignments for a candidate for tpiA in Shewanella sp. ANA-3

Align triose-phosphate isomerase (EC 5.3.1.1) (characterized)
to candidate 7023804 Shewana3_1026 triosephosphate isomerase (RefSeq)

Query= BRENDA::P0A858
         (255 letters)



>FitnessBrowser__ANA3:7023804
          Length = 260

 Score =  246 bits (627), Expect = 4e-70
 Identities = 124/259 (47%), Positives = 172/259 (66%), Gaps = 8/259 (3%)

Query: 1   MRHPLVMGNWKLNGSRHMVHELVSNLRKELAGVAGCAVAIAPPEMYIDM------AKREA 54
           +R P+V GNWK+NGS  +  EL      +L   +   V + PP +Y++       A +EA
Sbjct: 3   LRRPMVAGNWKMNGSAALAQELFKKFASKLQNDSA-EVVLCPPSIYLESVRQLLEANKEA 61

Query: 55  -EGSHIMLGAQNVDLNLSGAFTGETSAAMLKDIGAQYIIIGHSERRTYHKESDELIAKKF 113
            +GS + +GAQN+  +  GA+TGE S  MLKD G +Y+IIGHSERR  + E+  ++A+KF
Sbjct: 62  LDGSLVRMGAQNLSQHDFGAYTGEVSGQMLKDCGCRYVIIGHSERRRMYGETSNIVAEKF 121

Query: 114 AVLKEQGLTPVLCIGETEAENEAGKTEEVCARQIDAVLKTQGAAAFEGAVIAYEPVWAIG 173
           A  ++ GLTP+LC+GE+    EA +T EV A ++D V++  G  AF+ A+IAYEP+WA+G
Sbjct: 122 AAAQKHGLTPILCVGESGPAREARRTFEVIAEELDIVIQKNGTMAFDNAIIAYEPLWAVG 181

Query: 174 TGKSATPAQAQAVHKFIRDHIAKVDANIAEQVIIQYGGSVNASNAAELFAQPDIDGALVG 233
           TGKSATP QAQ VH FIR  +++V   I E + I YGGSV  SNAA+LFAQPD+DG L+G
Sbjct: 182 TGKSATPEQAQEVHAFIRKRLSEVSPFIGENIRILYGGSVTPSNAADLFAQPDVDGGLIG 241

Query: 234 GASLKADAFAVIVKAAEAA 252
           GASL +  F  +   A +A
Sbjct: 242 GASLNSTEFLSLCTIAMSA 260


Lambda     K      H
   0.316    0.130    0.366 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 202
Number of extensions: 9
Number of successful extensions: 2
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 255
Length of database: 260
Length adjustment: 24
Effective length of query: 231
Effective length of database: 236
Effective search space:    54516
Effective search space used:    54516
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)

Align candidate 7023804 Shewana3_1026 (triosephosphate isomerase (RefSeq))
to HMM TIGR00419 (tpiA: triose-phosphate isomerase (EC 5.3.1.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.26416.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.26416.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.