Alignments for a candidate for trpA in Pseudomonas fluorescens FW300-N1B4

Align Tryptophan synthase alpha chain; EC 4.2.1.20 (characterized, see rationale)
to candidate Pf1N1B4_1830 Tryptophan synthase alpha chain (EC 4.2.1.20)

Query= uniprot:M4NLA4
         (266 letters)



>FitnessBrowser__pseudo1_N1B4:Pf1N1B4_1830
          Length = 270

 Score =  224 bits (570), Expect = 2e-63
 Identities = 118/244 (48%), Positives = 156/244 (63%), Gaps = 1/244 (0%)

Query: 1   MSRIDRRFAALKAANRTGLIPFVTAGDPSPEHMVALMHALVDAGADLIELGVPFSDPMAD 60
           MSR+  RFA LK  NR  L+ FVTAGDPS +  +A++  L  AGAD+IELG+PF+DPMAD
Sbjct: 1   MSRLQTRFAELKEQNRAALVTFVTAGDPSYDTSLAILKGLPGAGADVIELGMPFTDPMAD 60

Query: 61  GPVIQHASERAIAKGVGLADVLGWVAAFRQHDADTPIVLMGYLNPIETHGYARFAGEAVQ 120
           GP IQ A+ RA+     LA  L  V  FR+ + DTP+VLMGY NPI  +G  RF  EA +
Sbjct: 61  GPAIQLANIRALGAKQNLAKTLQMVREFREGNTDTPLVLMGYFNPIHMYGVPRFIAEAKE 120

Query: 121 AGVDGVLLVDCPLEESAVL-QPLRDAGLQRILLAAPTTEPSRMAQLCGSAEGFLYYVSFA 179
           AGVDG+++VD P E +  L  P + AGL  I L  PTT+  R+  +   + GF+YYVS A
Sbjct: 121 AGVDGLIVVDMPPEHNGELCDPAQAAGLDFIRLTTPTTDDVRLPTVLNGSSGFVYYVSVA 180

Query: 180 GITGAAHLSTGDIAARVADVRARAKAPVAVGFGIRDAASAKAIAGFADAVVIGSALVDRL 239
           G+TGA   +   +   V  +R     P+++GFGIR    A +IA  AD VV+GSAL+D +
Sbjct: 181 GVTGAGAATLEHVEEAVTRLRRHTDLPISIGFGIRTPEQAASIARLADGVVVGSALIDHI 240

Query: 240 AGAT 243
           A A+
Sbjct: 241 ANAS 244


Lambda     K      H
   0.322    0.136    0.394 

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: 225
Number of extensions: 9
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: 266
Length of database: 270
Length adjustment: 25
Effective length of query: 241
Effective length of database: 245
Effective search space:    59045
Effective search space used:    59045
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: 47 (22.7 bits)

Align candidate Pf1N1B4_1830 (Tryptophan synthase alpha chain (EC 4.2.1.20))
to HMM TIGR00262 (trpA: tryptophan synthase, alpha subunit (EC 4.2.1.20))

Software error:

../bin/blast/fastacmd -i /tmp/list.13609.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.13609.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.