Alignments for a candidate for trpA in Bifidobacterium longum NCC2705

Align Tryptophan synthase alpha chain; EC 4.2.1.20 (characterized, see rationale)
to candidate WP_007054259.1 BL_RS02305 tryptophan synthase subunit alpha

Query= uniprot:H0BV16
         (269 letters)



>NCBI__GCF_000007525.1:WP_007054259.1
          Length = 289

 Score =  143 bits (361), Expect = 4e-39
 Identities = 89/252 (35%), Positives = 133/252 (52%), Gaps = 8/252 (3%)

Query: 2   SRIASTFSALQAQGRKALIPYVTAGFPFADITPALMHGMVEAGADVIELGVPFSDPMADG 61
           S+  + F+  +A+ + A I Y+  GFP  D++      MVE G D +E+G+P+SDP+ DG
Sbjct: 20  SKSGAMFTKFKAENKPAFIGYLPYGFPNPDVSLDAFKTMVEHGVDAVEIGLPYSDPVMDG 79

Query: 62  PVIQKAGEKALSLGIGMVQVLDHVREFRKRNNTTPVVLMGYANPVERYDQKHGEGAFVRD 121
           PVIQ A   AL+ G  + +V + V            ++M Y N V  Y    G   F RD
Sbjct: 80  PVIQAAASIALNNGETIKRVFEAVETVANAGGVP--LIMSYWNLVYHY----GVERFARD 133

Query: 122 SAAAGVDGVLIVDYPPEECEAFAASLRAHGMDLIFLLAPTSTDERMAEVARVASGYVYYV 181
              AG  G++  D  P+E   +  +   HG+D IFL++P S+ ER+  VAR A G+VY  
Sbjct: 134 FENAGGAGLITPDLIPDEAGEWIEASDRHGLDRIFLVSPDSSTERLETVARNARGFVYAA 193

Query: 182 SLKGVTGSGALDTAAVEQMLPRIRQHVTIPVGVGFGIRDAATAQAIGKVADAVVIGSRII 241
           +  GVTG  A   A+ E ++ R RQ     V VG G+  A     +G  AD V++GS ++
Sbjct: 194 ARMGVTGERATIDASPELLVERTRQAGAENVCVGIGVSTAEQGAKVGSYADGVIVGSALV 253

Query: 242 Q--LIEDQEHAK 251
              L +D + A+
Sbjct: 254 HTLLADDNKTAR 265


Lambda     K      H
   0.321    0.137    0.389 

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: 210
Number of extensions: 9
Number of successful extensions: 2
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: 269
Length of database: 289
Length adjustment: 26
Effective length of query: 243
Effective length of database: 263
Effective search space:    63909
Effective search space used:    63909
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: 47 (22.7 bits)

Align candidate WP_007054259.1 BL_RS02305 (tryptophan synthase subunit alpha)
to HMM TIGR00262 (trpA: tryptophan synthase, alpha subunit (EC 4.2.1.20))

Software error:

../bin/blast/fastacmd -i /tmp/list.3107.in -d ../tmp/NCBI__GCF_000007525.1/orgs.faa -p T > /tmp/gapView.3107.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.