GapMind for Amino acid biosynthesis

 

Alignments for a candidate for serB in Herbaspirillum seropedicae SmR1

Align Phosphoserine phosphatase; PSP; PSPase; O-phosphoserine phosphohydrolase; EC 3.1.3.3 (characterized)
to candidate HSERO_RS15175 HSERO_RS15175 phosphoserine phosphatase

Query= SwissProt::Q12A06
         (236 letters)



>FitnessBrowser__HerbieS:HSERO_RS15175
          Length = 294

 Score =  239 bits (609), Expect = 6e-68
 Identities = 126/218 (57%), Positives = 159/218 (72%), Gaps = 5/218 (2%)

Query: 18  DLKLSDFKLIAFDMDSTLINIECVDEIADAAGRKAEVAAITEAAMRGEISDYKESLRQRV 77
           D KL+DF+L+A DMDSTLI IEC+DEIAD  G K +VA ITEAAMRGEI ++ ESL +RV
Sbjct: 81  DRKLADFRLVAMDMDSTLITIECIDEIADMQGLKPQVAEITEAAMRGEI-EFNESLTRRV 139

Query: 78  ALLKGVSVASMDEVYRTRLRLNPGAARLVQACKDAGLKVLLVSGGFTFFTDRIRDELGID 137
           ALLKG+   ++  VY  RL+L+PGA  +++A + AGLK LLVSGGFTFFTDR++  L +D
Sbjct: 140 ALLKGLDAGALQRVYDERLQLSPGAENMLKAVQAAGLKTLLVSGGFTFFTDRMKARLNLD 199

Query: 138 YTRSNVLETTDGLLTGRMVDQPWGDICDGEEKRKMLLETCGQLGISPRQAIAMGDGANDL 197
           YT +N LE  DG LTG++V    G I + +EKR  +   C ++G  P QAI MGDGANDL
Sbjct: 200 YTHANTLEVVDGKLTGKVV----GGIVNADEKRATVERVCREIGAEPTQAIVMGDGANDL 255

Query: 198 PMMGEAGLSVAYHAKPRVREQAMVAINEGGLDRLLELV 235
            MMG +GLSVA+ AKP VR QA V +N  GLD +L L+
Sbjct: 256 RMMGISGLSVAFRAKPVVRAQASVGLNFVGLDGILNLL 293


Lambda     K      H
   0.319    0.136    0.385 

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: 216
Number of extensions: 10
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: 236
Length of database: 294
Length adjustment: 25
Effective length of query: 211
Effective length of database: 269
Effective search space:    56759
Effective search space used:    56759
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: 47 (22.7 bits)

Align candidate HSERO_RS15175 HSERO_RS15175 (phosphoserine phosphatase)
to HMM TIGR00338 (serB: phosphoserine phosphatase SerB (EC 3.1.3.3))

Software error:

../bin/blast/fastacmd -i /tmp/list.9833.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.9833.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.