GapMind for catabolism of small carbon sources

 

Alignments for a candidate for maiA in Pseudomonas fluorescens FW300-N2E3

Align Maleylacetoacetate isomerase (EC 5.2.1.2) (characterized)
to candidate AO353_15560 AO353_15560 maleylacetoacetate isomerase

Query= reanno::pseudo3_N2E3:AO353_15560
         (211 letters)



>FitnessBrowser__pseudo3_N2E3:AO353_15560
          Length = 211

 Score =  432 bits (1110), Expect = e-126
 Identities = 211/211 (100%), Positives = 211/211 (100%)

Query: 1   MELFTYYRSTSSFRVRIALALKGLEYQALPINLIAPQGGEHQQPAYLHINPQGRVPALRT 60
           MELFTYYRSTSSFRVRIALALKGLEYQALPINLIAPQGGEHQQPAYLHINPQGRVPALRT
Sbjct: 1   MELFTYYRSTSSFRVRIALALKGLEYQALPINLIAPQGGEHQQPAYLHINPQGRVPALRT 60

Query: 61  DEGELLIQSPAIIEYLEERYPQVPLLSKDLARRAHERGVAALIGCDIHPLHNVSVLNQLR 120
           DEGELLIQSPAIIEYLEERYPQVPLLSKDLARRAHERGVAALIGCDIHPLHNVSVLNQLR
Sbjct: 61  DEGELLIQSPAIIEYLEERYPQVPLLSKDLARRAHERGVAALIGCDIHPLHNVSVLNQLR 120

Query: 121 QLGHDEPQVVHWIGHWITQGLAAVEHLIGDEGYCFGNAPGLADVYLIPQLYAAERFNISL 180
           QLGHDEPQVVHWIGHWITQGLAAVEHLIGDEGYCFGNAPGLADVYLIPQLYAAERFNISL
Sbjct: 121 QLGHDEPQVVHWIGHWITQGLAAVEHLIGDEGYCFGNAPGLADVYLIPQLYAAERFNISL 180

Query: 181 EAYPRIRRVAALAVQHPAFIKAHPANQPDTP 211
           EAYPRIRRVAALAVQHPAFIKAHPANQPDTP
Sbjct: 181 EAYPRIRRVAALAVQHPAFIKAHPANQPDTP 211


Lambda     K      H
   0.322    0.139    0.427 

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: 343
Number of extensions: 9
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: 211
Length of database: 211
Length adjustment: 21
Effective length of query: 190
Effective length of database: 190
Effective search space:    36100
Effective search space used:    36100
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 (21.9 bits)
S2: 45 (21.9 bits)

Align candidate AO353_15560 AO353_15560 (maleylacetoacetate isomerase)
to HMM TIGR01262 (maiA: maleylacetoacetate isomerase (EC 5.2.1.2))

Software error:

../bin/blast/fastacmd -i /tmp/list.3048.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.3048.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.