Alignments for a candidate for trpA in Nitratifractor salsuginis DSM 16511

Align Tryptophan synthase alpha chain; EC 4.2.1.20 (characterized, see rationale)
to candidate WP_013553217.1 NITSA_RS01280 tryptophan synthase subunit alpha

Query= uniprot:H0BV16
         (269 letters)



>NCBI__GCF_000186245.1:WP_013553217.1
          Length = 246

 Score =  154 bits (390), Expect = 1e-42
 Identities = 86/234 (36%), Positives = 136/234 (58%), Gaps = 10/234 (4%)

Query: 17  KALIPYVTAGFPFADITPALMHGMVEAGADVIELGVPFSDPMADGPVIQKAGEKALSLGI 76
           K L+ Y+T G+P    T  L   + EAG D +ELG+PFSDP+ADGPVI+ A  KAL  G 
Sbjct: 2   KKLVAYITTGYPDKAFTVDLALALAEAGVDTLELGIPFSDPVADGPVIESANLKALQKGF 61

Query: 77  GMVQVLDHVREFRKRNNTTPVVLMGYANPVERYDQKHGEGAFVRDSAAAGVDGVLIVDYP 136
            +  + +  R      +T   + MGY NP        G   F+ ++ A+GV+G +I D P
Sbjct: 62  RIADLFEVSRSIAPAIDT---LWMGYFNPFYH----KGMETFIAEAKASGVNGFIIPDLP 114

Query: 137 PEECEAFAASLRAHGMDLIFLLAPTSTDERMAEVARVASGYVYYVSLKGVTGSGALDTAA 196
            EE +A+   +   G++LI  +APT T ER+A +AR A  ++Y V+  G+TGSG   +  
Sbjct: 115 YEEAQAYKPMIEEAGLNLIDFIAPTDTPERIAMIARDAKKFLYLVAYAGITGSG--QSEE 172

Query: 197 VEQMLPRIRQHVTIPVGVGFGIRDAATAQAIGKVADAVVIGSRIIQLIEDQEHA 250
           + +++ +IR+    PV VGFG+ +  TA+   K  D V++GS  ++++ D++ +
Sbjct: 173 LSEVIAQIRKQTQTPVYVGFGV-NPDTAKEKAKGVDGVIVGSAFVKILLDEDRS 225


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: 186
Number of extensions: 12
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: 246
Length adjustment: 24
Effective length of query: 245
Effective length of database: 222
Effective search space:    54390
Effective search space used:    54390
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_013553217.1 NITSA_RS01280 (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.6656.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.6656.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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