Alignments for a candidate for trpB in Synechococcus elongatus PCC 7942

Align Tryptophan synthase beta chain 1; EC 4.2.1.20 (characterized, see rationale)
to candidate Synpcc7942_2143 Synpcc7942_2143 tryptophan synthase subunit beta

Query= uniprot:P50383
         (425 letters)



>FitnessBrowser__SynE:Synpcc7942_2143
          Length = 420

 Score =  129 bits (324), Expect = 2e-34
 Identities = 116/364 (31%), Positives = 162/364 (44%), Gaps = 51/364 (14%)

Query: 72  IGRPTPLFRAKRLEEYLKTP----ARIYFKYEGATPTGSHKINTAIPQAYFAKEEGIEHV 127
           +GRP PL+ A+RL EY + P      IY K E    TG+HKIN A+ QA  AK  G + +
Sbjct: 75  VGRPNPLYFAERLTEYYRRPDGQGPNIYLKREDLNHTGAHKINNALGQALMAKRMGKKRI 134

Query: 128 VTETGAGQWGTAVALAASMYNMKSTIFMVKVSYEQKPMRRSIMQLYGANVYASPTNLTEY 187
           + ETGAGQ G A A   + + ++  I+M     E++ +    M+L GA V          
Sbjct: 135 IAETGAGQHGVATATVCARFGLECVIYMGVHDMERQALNVFRMRLMGAEVRGVAAG---- 190

Query: 188 GRKILETNPQHPGSLGIAMSEAIEYALKN--EFRYLVGSVLD------VVLLHQSVIGQE 239
                       G+L  A SEAI   + N     Y++GSV        +V    S+IG+E
Sbjct: 191 -----------SGTLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMIVREFHSMIGRE 239

Query: 240 TITQLDLL-GEDADILIGCVGGGSNFGGFTYPFIGNKKGKRYIAVSSAEIPKFSKGEYKY 298
              Q   L G   DIL+ CVGGGSN  G    F+ N+   R I V +A      +G    
Sbjct: 240 VRQQAQTLWGGLPDILLACVGGGSNAMGLFNEFV-NEPSVRLIGVEAA-----GRG---V 290

Query: 299 DFPDSAGLLPLVKMITL-----------GKDYVPPPIYAGGLRYHGVAPTLSLLTKEGIV 347
           D P+ A  L   ++  L               +     + GL Y GV P  S L   G  
Sbjct: 291 DTPEHAATLTKGRVGVLHGAMSYLLQDDDGQVIEAHSISAGLDYPGVGPEHSYLMDAGRA 350

Query: 348 EWREYNEREIFEAAKIFIENQGIVPAPESAHAIRAVVDEAIEARKNNERKVIVFNLSGHG 407
           E+    + E  EA +     +GI+PA E+AHA  A +++       N    +V N SG G
Sbjct: 351 EYYSVTDDEALEAFQRISRLEGIIPALETAHAF-AHLEKLCPTLSGNPN--LVINCSGRG 407

Query: 408 LLDL 411
             D+
Sbjct: 408 DKDV 411


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: 409
Number of extensions: 22
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: 425
Length of database: 420
Length adjustment: 32
Effective length of query: 393
Effective length of database: 388
Effective search space:   152484
Effective search space used:   152484
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 Synpcc7942_2143 Synpcc7942_2143 (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.32117.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.32117.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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