GapMind for Amino acid biosynthesis

 

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

Align Secreted chorismate mutase; CM; EC 5.4.99.5 (characterized)
to candidate AO353_12165 AO353_12165 chorismate mutase

Query= SwissProt::A0QU81
         (181 letters)



>FitnessBrowser__pseudo3_N2E3:AO353_12165
          Length = 192

 Score = 73.2 bits (178), Expect = 3e-18
 Identities = 55/181 (30%), Positives = 81/181 (44%), Gaps = 6/181 (3%)

Query: 1   MLASVALAALAGVGTPHATADDASPLVPLVDAAAQRLQTADPVAASKFRSGGAIDDPDRE 60
           +LA+ A AA      P  T   A+ L PL+    +RL  AD VA SK+ SG  ++D  RE
Sbjct: 13  LLANTACAATTATHAPAPTPAPAA-LAPLLSTIQERLVIADKVALSKWDSGKPVEDRQRE 71

Query: 61  QQVIAAVTGDATRHNIDPGYVHDVFRNQIDATSSVEHTRFAQWKLDPAAAPSSAPDL-SE 119
           ++VIA    +A  + +    V   F  QI+A   V++   + W     A     PDL   
Sbjct: 72  REVIADAIAEAPYYKLSNEAVEQFFSAQIEANKLVQYAHLSDWHAQGKAPNDPRPDLVGL 131

Query: 120 SRQKIDTLNRTMVDEIARQWPVLHSPVCRPDLDRALDAVATARGFDPVYRHALEYATHSY 179
            R ++D L   ++ ++A   P  + P C   L +A  A        P+   AL  AT   
Sbjct: 132 IRPQLDLLQTRLLQQLADFTPYRNDPHCPSWLAKANKAATQV----PLRELALVRATAEL 187

Query: 180 C 180
           C
Sbjct: 188 C 188


Lambda     K      H
   0.318    0.130    0.387 

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: 75
Number of extensions: 2
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: 181
Length of database: 192
Length adjustment: 20
Effective length of query: 161
Effective length of database: 172
Effective search space:    27692
Effective search space used:    27692
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: 44 (21.6 bits)

Align candidate AO353_12165 AO353_12165 (chorismate mutase)
to HMM TIGR01806 (putative chorismate mutase (EC 5.4.99.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.6523.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.6523.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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