GapMind for catabolism of small carbon sources

 

Alignments for a candidate for maiA in Phaeobacter inhibens BS107

Align Maleylacetoacetate isomerase (EC 5.2.1.2) (characterized)
to candidate GFF38 PGA1_c00380 putative maleylacetoacetate isomerase

Query= reanno::MR1:200836
         (216 letters)



>FitnessBrowser__Phaeo:GFF38
          Length = 228

 Score =  162 bits (410), Expect = 5e-45
 Identities = 96/219 (43%), Positives = 132/219 (60%), Gaps = 16/219 (7%)

Query: 1   MILYGYWRSSAAYRVRIALNLKGVSAEQLSVHLVRDGGEQHKADYIALNPQELVPTLVVD 60
           +ILY YWRSSA+YRVRIALNL G+S   ++V LV+  GEQ   D++A NPQ LVP L   
Sbjct: 4   VILYDYWRSSASYRVRIALNLAGISYRAVTVDLVK--GEQVSPDHLARNPQGLVPVL--- 58

Query: 61  DEQDGDALTQSLAIIEYLDELYPKTPLLPASALERAHVRAMALTIACEIHPLNNLRVLQY 120
            E DG  LTQSLAI++YLD+      LLP +  ERA  +A+A  IA ++HP+ NL+V ++
Sbjct: 59  -EIDGLRLTQSLAILDYLDQTR-HLDLLPRTPAERALAQALAHAIAVDLHPVCNLKVARH 116

Query: 121 LTQKLTVNEEAKSA--------WYHHWVATGFTALETQLVRHS-GRYCFGDKVTIADLCL 171
            +   T +  + +A        W  H++  G  A  T L  H    YC GD   +ADLCL
Sbjct: 117 ASDLCTGSAASPAAQPVDMPADWMRHFIRPGLVAFNTLLEEHPVAPYCTGDHPGLADLCL 176

Query: 172 VPQVYNAQRFNVDLTPYPNIMRVWAECNQLPAFADAAPE 210
           +PQ+YNA+R+ V+    P ++ +   C   PAFA A P+
Sbjct: 177 IPQLYNARRWGVNFDDLPRLVTIETTCAGNPAFAMAHPD 215


Lambda     K      H
   0.321    0.134    0.408 

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: 166
Number of extensions: 9
Number of successful extensions: 6
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: 216
Length of database: 228
Length adjustment: 22
Effective length of query: 194
Effective length of database: 206
Effective search space:    39964
Effective search space used:    39964
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 GFF38 PGA1_c00380 (putative maleylacetoacetate isomerase)
to HMM TIGR01262 (maiA: maleylacetoacetate isomerase (EC 5.2.1.2))

Software error:

../bin/blast/fastacmd -i /tmp/list.18160.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.18160.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.