Alignments for a candidate for trpB in Desulfovibrio oxyclinae DSM 11498

Align Tryptophan synthase beta chain 1; EC 4.2.1.20 (characterized, see rationale)
to candidate WP_018123674.1 B149_RS0102965 tryptophan synthase subunit beta

Query= uniprot:P50383
         (425 letters)



>NCBI__GCF_000375485.1:WP_018123674.1
          Length = 386

 Score =  112 bits (279), Expect = 3e-29
 Identities = 102/351 (29%), Positives = 166/351 (47%), Gaps = 30/351 (8%)

Query: 71  SIGRPTPLFRAKRLEEYLKTPARIYFKYEGATPTGSHKINTAIPQAYFAKEEGIEHVVTE 130
           ++GRP+ L     L +   T   I+ K E    +G+HKIN  + QA  A++ G + ++TE
Sbjct: 49  NVGRPSALTPCPNLSK--DTGVNIWLKREDLNHSGAHKINNTLGQALLARKMGKKVLLTE 106

Query: 131 TGAGQWGTAVALAASMYNMKSTIFMVKVSYEQKPMRRSIMQLYGANVYASPTNLTEYGRK 190
           TGAG  G AVA AA+M +MK  ++M     E++      M++ GA +        E G +
Sbjct: 107 TGAGMNGVAVATAAAMMDMKCLVYMGAKDVERQEPNVRRMEVLGAEIIP-----VESGTR 161

Query: 191 ILETNPQHPGSLGIAMSEAIEYALKNEFRYLVGSVLD------VVLLHQSVIGQETITQ- 243
            L+       ++  A+   I  A +++  Y  G+         +V   Q+VI +E   Q 
Sbjct: 162 TLK------DAINAALRRWI--ATQSDTHYCFGTAAGPHPFPLLVRELQAVISEEARQQF 213

Query: 244 LDLLGEDADILIGCVGGGSNFGGFTYPFIGNKKGKRYIAVSSAEIPKFSKGEYKYDFPDS 303
           LD  G   D +  CVGGGSN  G  + F+ + +  R + V +A   +            +
Sbjct: 214 LDRTGRLPDAVSACVGGGSNAIGAFHHFVPD-ESVRLVGVEAAGSGEEGCHNSAPLNLGT 272

Query: 304 AGLLPLVKMITLGKD---YVPPPIYAGGLRYHGVAPTLSLLTKEGIVEWREYNEREIFEA 360
            G+L  ++   L  D    +P    A GL Y GV P  + L + G  E+   N+ +   A
Sbjct: 273 EGVLHGMRTRLLQTDEGQILPSHSIAPGLDYPGVGPEHAGLQQSGRAEYVTINDSQALNA 332

Query: 361 AKIFIENQGIVPAPESAHAIRAVVDEAIEARKNNERKVIVFNLSGHGLLDL 411
            K+    +GI+PA ES+HA+   ++ A + +  +    I+ NLSG G  D+
Sbjct: 333 FKLLARREGIIPALESSHALAWALENADDLQGQH----ILVNLSGRGDKDM 379


Lambda     K      H
   0.318    0.138    0.403 

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: 344
Number of extensions: 17
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: 425
Length of database: 386
Length adjustment: 31
Effective length of query: 394
Effective length of database: 355
Effective search space:   139870
Effective search space used:   139870
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)

Align candidate WP_018123674.1 B149_RS0102965 (tryptophan synthase subunit beta)
to HMM TIGR00263 (trpB: tryptophan synthase, beta subunit (EC 4.2.1.20))

Software error:

../bin/blast/fastacmd -i /tmp/list.26686.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.26686.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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