Alignments for a candidate for trpA in Paraburkholderia phymatum STM815

Align Tryptophan synthase alpha chain; EC 4.2.1.20 (characterized, see rationale)
to candidate WP_012403664.1 BPHY_RS22010 tryptophan synthase subunit alpha

Query= uniprot:H0BV16
         (269 letters)



>NCBI__GCF_000020045.1:WP_012403664.1
          Length = 271

 Score =  304 bits (778), Expect = 2e-87
 Identities = 156/269 (57%), Positives = 201/269 (74%), Gaps = 4/269 (1%)

Query: 1   MSRIASTFSALQAQGRKALIPYVTAGFPFADITPALMHGMVEAGADVIELGVPFSDPMAD 60
           MSRI STF+AL AQG+K LIP++TAG P    T   MH + + GADVIELGVPFSDPMAD
Sbjct: 1   MSRIQSTFAALAAQGKKGLIPFMTAGDPDPARTVEFMHALAKGGADVIELGVPFSDPMAD 60

Query: 61  GPVIQKAGEKALSLGIGMVQVLDHVREFRKRNNTTPVVLMGYANPVERYDQKHGEGAFVR 120
           GPVIQ++ E+AL+ G+ +  VL  V+ FR+ ++ TPVVLMGYANP+ER     G  AF  
Sbjct: 61  GPVIQQSSERALAKGVSLRHVLADVKRFRESDDKTPVVLMGYANPIERM----GADAFAA 116

Query: 121 DSAAAGVDGVLIVDYPPEECEAFAASLRAHGMDLIFLLAPTSTDERMAEVARVASGYVYY 180
            +  AGVDGVL+VDYPPEE   FA +++A G+D IFLLAPTSTDER+AEV ++ASGYVYY
Sbjct: 117 AAKDAGVDGVLVVDYPPEESANFAETMKAAGIDPIFLLAPTSTDERIAEVGKIASGYVYY 176

Query: 181 VSLKGVTGSGALDTAAVEQMLPRIRQHVTIPVGVGFGIRDAATAQAIGKVADAVVIGSRI 240
           VSLKGVTG+  LD  ++   +P I+  V +PVGVGFGIRDA +A+A+ +V+DAVVIGSRI
Sbjct: 177 VSLKGVTGAANLDVLSIAGKIPAIKSRVPLPVGVGFGIRDAQSARAVAEVSDAVVIGSRI 236

Query: 241 IQLIEDQEHAKVVPLTIDFLRGIRKALDA 269
           +QL+E+           +F++ IR+ALD+
Sbjct: 237 VQLLEEAAPQSAAGKLTNFIKEIRQALDS 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: 260
Number of extensions: 10
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: 271
Length adjustment: 25
Effective length of query: 244
Effective length of database: 246
Effective search space:    60024
Effective search space used:    60024
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_012403664.1 BPHY_RS22010 (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.18591.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.18591.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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