GapMind for Amino acid biosynthesis

 

Alignments for a candidate for proC in Shewanella loihica PV-4

Align Pyrroline-5-carboxylate reductase; P5C reductase; P5CR; EC 1.5.1.2; PCA reductase (uncharacterized)
to candidate 5210588 Shew_3016 pyrroline-5-carboxylate reductase (RefSeq)

Query= curated2:P52053
         (272 letters)



>FitnessBrowser__PV4:5210588
          Length = 264

 Score =  194 bits (494), Expect = 1e-54
 Identities = 109/262 (41%), Positives = 159/262 (60%), Gaps = 8/262 (3%)

Query: 14  MVRAIVSGLVANGYPAQNITATAPSEARRLPLEQDFGIRTTSDNIQAATEADVVVLSVKP 73
           M  AI+ GL+ +G+ + +I   APS+  R  L QDF +R  SDN  A   AD+++L+VKP
Sbjct: 1   MASAIIRGLIKHGHRSAHILVCAPSQRTRSRLVQDFNVRVHSDNSAAVAFADIIILAVKP 60

Query: 74  QMMADVCKPLQAI-------DFTNKLVISIAAGINCSRLDDMLATKLNLVRVMPNTPSQL 126
            ++  VC  L+ +           KL+ISIAAG+  + + D L   + LV  MPN P+ +
Sbjct: 61  FIVPLVCDELRPLLGQVNNGRSEQKLLISIAAGLTHASISDKLPQNVQLVCAMPNLPTAI 120

Query: 127 GLGMSGLFAPIHVTEHDKAFAAELMEAVGKVCWVEQESGINNVIAAAGSAPAYFFLFMEA 186
           G G++GLF P H+       A +LM AVG   W+E E  + +++A AGS+PAYFFLF+EA
Sbjct: 121 GKGLTGLFVPGHLDRQAVDDAEQLMRAVGDTVWLEDEQQMASIVATAGSSPAYFFLFLEA 180

Query: 187 MQAEAIAQGFDKESARLLVQQAALGAASMVVSNPETELSTLRENVTSKGGTTAEALRTFN 246
           M+  AIAQG   ++A   V Q+A+GA SM +++ E  L+ LR  VTS  GTT +A+  F 
Sbjct: 181 MEKAAIAQGLPAKTASKAVLQSAMGAVSMAMASKE-GLANLRHQVTSPKGTTEQAVLAFQ 239

Query: 247 EHQLSDIVAKAMQAAVARAEEM 268
              L  +VA+AM +A  RA+E+
Sbjct: 240 HGDLDALVARAMDSAARRAKEL 261


Lambda     K      H
   0.317    0.129    0.353 

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: 128
Number of extensions: 4
Number of successful extensions: 3
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: 272
Length of database: 264
Length adjustment: 25
Effective length of query: 247
Effective length of database: 239
Effective search space:    59033
Effective search space used:    59033
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 (21.7 bits)
S2: 47 (22.7 bits)

Align candidate 5210588 Shew_3016 (pyrroline-5-carboxylate reductase (RefSeq))
to HMM TIGR00112 (proC: pyrroline-5-carboxylate reductase (EC 1.5.1.2))

Software error:

../bin/blast/fastacmd -i /tmp/list.14696.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.14696.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.