GapMind for Amino acid biosynthesis

 

Alignments for a candidate for cmutase in Pseudomonas simiae WCS417

Align Monofunctional chorismate mutase; EC 5.4.99.5 (characterized)
to candidate GFF324 PS417_01650 chorismate mutase

Query= SwissProt::Q9HU05
         (185 letters)



>FitnessBrowser__WCS417:GFF324
          Length = 178

 Score = 84.0 bits (206), Expect = 1e-21
 Identities = 58/163 (35%), Positives = 87/163 (53%), Gaps = 9/163 (5%)

Query: 23  AQPLSPALQQLLSLSSQRLQLADQVAQSKAQSGKAVQDSPREEQQLQMLAGQAGSHGVGA 82
           A    P L+ LL+  ++RL++ADQVA SK  S K V+D  RE++ +  ++ QA ++ + A
Sbjct: 16  ASAAPPTLEPLLNSIAERLEIADQVALSKWDSKKPVEDKKREQEVIASVSAQAPTYKLDA 75

Query: 83  EQVRLLFAAQIEANKLVQYRLLS-----RPLPDAGQAVDLERIRSRLNQLNLELLRGYAP 137
                 F+AQIEANKLVQY  LS        PD  +   +++IR +L++L   LL+    
Sbjct: 76  AAAEQFFSAQIEANKLVQYTHLSDWQFQGKAPDDPRPDLIKQIRPQLDELQKRLLQ---- 131

Query: 138 ALAELRVDDCRPRLNQALQRQVRVDRLDELHAIALSRAAGDLC 180
            LA+       P+  Q L   V     D L  +A+ RA  +LC
Sbjct: 132 QLADFTPQRTDPQCPQWLAEAVHEPLNDPLRQLAMIRATAELC 174


Lambda     K      H
   0.320    0.133    0.374 

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: 81
Number of extensions: 3
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: 185
Length of database: 178
Length adjustment: 19
Effective length of query: 166
Effective length of database: 159
Effective search space:    26394
Effective search space used:    26394
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 (21.8 bits)
S2: 44 (21.6 bits)

Align candidate GFF324 PS417_01650 (chorismate mutase)
to HMM TIGR01806 (putative chorismate mutase (EC 5.4.99.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.21050.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.21050.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.