GapMind for Amino acid biosynthesis

 

Alignments for a candidate for hisA in Burkholderia phytofirmans PsJN

Align 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; EC 5.3.1.16; Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (uncharacterized)
to candidate BPHYT_RS17685 BPHYT_RS17685 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase

Query= curated2:A1TKZ3
         (248 letters)



>FitnessBrowser__BFirm:BPHYT_RS17685
          Length = 250

 Score =  409 bits (1052), Expect = e-119
 Identities = 199/244 (81%), Positives = 221/244 (90%)

Query: 1   MLLIPAIDLKDGHCVRLKQGDMDQSTTFGEDPAAMARKWVDAGARRLHLVDLNGAFAGAP 60
           MLLIPAIDLKDG CVRLKQGDMDQ+T F E+PAAMAR WVD GARRLHLVDLNGAFAG P
Sbjct: 1   MLLIPAIDLKDGQCVRLKQGDMDQATIFSEEPAAMARHWVDRGARRLHLVDLNGAFAGKP 60

Query: 61  KNHAAIKAILKEVGDDLPVQLGGGIRDLDTIEKYIDGGLRYVIIGTAAVKNPGFLKDACS 120
           KN  AI+AI++EVG ++PVQLGGGIRDL+TIE+Y+D GL YVIIGTAAVKNPGFL+DAC+
Sbjct: 61  KNEDAIRAIIEEVGGEIPVQLGGGIRDLNTIERYLDDGLSYVIIGTAAVKNPGFLQDACT 120

Query: 121 AFGGHIIVGLDAKDGKVATDGWSKLTGHEVVDLAKRFEDWGVESIVYTDIGRDGMLSGIN 180
           AFGGHIIVGLDAKDGKVATDGWSKLTGHEV DLA++FED+G ESI+YTDIGRDGML GIN
Sbjct: 121 AFGGHIIVGLDAKDGKVATDGWSKLTGHEVADLARKFEDYGCESIIYTDIGRDGMLQGIN 180

Query: 181 IEATVKLAQALTIPVIASGGLAGMADIEQLCAVESEGVEGVICGRAIYSGDLDFAAAQAR 240
           IEATV+LA+A+ IPVIASGGL+ + DIE LC VE EG+EGVICGRAIYSGDLDFAAAQ  
Sbjct: 181 IEATVRLARAVKIPVIASGGLSNLTDIESLCEVEDEGIEGVICGRAIYSGDLDFAAAQTL 240

Query: 241 ADEL 244
           AD L
Sbjct: 241 ADRL 244


Lambda     K      H
   0.319    0.139    0.411 

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: 334
Number of extensions: 7
Number of successful extensions: 1
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: 248
Length of database: 250
Length adjustment: 24
Effective length of query: 224
Effective length of database: 226
Effective search space:    50624
Effective search space used:    50624
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)

Align candidate BPHYT_RS17685 BPHYT_RS17685 (1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase)
to HMM TIGR00007 (hisA: 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide isomerase (EC 5.3.1.16))

Software error:

../bin/blast/fastacmd -i /tmp/list.22357.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.22357.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.