Alignments for a candidate for gatB in Phaeobacter inhibens BS107

Align Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B; Asp/Glu-ADT subunit B; EC 6.3.5.- (characterized)
to candidate GFF968 PGA1_c09840 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B

Query= SwissProt::Q9RF06
         (475 letters)



>FitnessBrowser__Phaeo:GFF968
          Length = 504

 Score =  397 bits (1021), Expect = e-115
 Identities = 211/484 (43%), Positives = 310/484 (64%), Gaps = 16/484 (3%)

Query: 3   FETVIGLEVHVELKTDSKMFSPSPAHFGAEPNSNTNVIDLAYPGVLPVVNKRAVDWAMRA 62
           +E VIG+EVH ++ +++K+FS +   FGAEPNSN   +D A PG+LPV+N   V+ A+R 
Sbjct: 21  WELVIGMEVHAQVSSNAKLFSGASTKFGAEPNSNVAFVDAAMPGMLPVINDYCVEQAVRT 80

Query: 63  AMALNMEIATESKFDRKNYFYPDNPKAYQISQFDQPIGENGYIDIEV-DGETKRIGITRL 121
            + L  +I   S FDRKNYFYPD P+ YQISQ   PI   G + +E+ DG  + + + R+
Sbjct: 81  GLGLKADINLWSAFDRKNYFYPDLPQGYQISQLYHPIVGEGEVLVELGDGTARNVRVERI 140

Query: 122 HMEEDAGKSTHKGE--YSLVDLNRQGTPLIEIVSEPDIRSPKEAYAYLEKLRSIIQYTGV 179
           HME+DAGKS H  +   S VDLNR G  L+EIVS PDIR P+EA AY+ KLR I+QY G 
Sbjct: 141 HMEQDAGKSIHDMDPNMSFVDLNRTGVCLMEIVSRPDIRGPEEAAAYIAKLRQIMQYLGT 200

Query: 180 SDVKMEEGSLRCDANISL-RPYGQEKF---------GTKAELKNLNSFNYVRKGLEYEEK 229
            D  M+ G+LR D N+S+ RP   EK+         GT+ E+KN+NS  ++++ ++ E +
Sbjct: 201 CDGNMQNGNLRADVNVSVCRPGQYEKYQETQDFSHLGTRCEIKNMNSMRFIQQAIDVEAR 260

Query: 230 RQEEELLSGGEIGQETRRFDESTGKTILMRVKEGSDDYRYFPEPDIVPLYIDDAWKERVR 289
           RQ   + +GG I QETR +D   G+T  MR KE + DYRYFP+PD++PL I+ AW + + 
Sbjct: 261 RQIAIIEAGGTIDQETRLYDPDKGETRSMRSKEEAHDYRYFPDPDLLPLEIEQAWVDDIA 320

Query: 290 QTIPELPDERKAKYVNELGLPAYDAHVLTLTKEMSDFFESTIEHGADVKLTSNWLMGGVN 349
             +PELPDE+KA+++ + GL  YDA VLT   E + FFE T + G   KL +NW++  + 
Sbjct: 321 ANLPELPDEKKARFIKDFGLSDYDASVLTADVESATFFEQTAK-GRSGKLAANWVINELF 379

Query: 350 EYLNKNQ-VELLDTKLTPENLAGMIKLIEDGTMSSKIAKKVFPELAAKGGNAKQIMEDNG 408
             L K++  ++ D+ ++P  L G+I LI    +S KIAK +F  +  +GG+  QI+E+ G
Sbjct: 380 GRLKKDEDKQITDSPVSPAQLGGIIDLISSDAISGKIAKDLFEIVYTEGGDPAQIVEERG 439

Query: 409 LVQISDEATLLKFVNEALDNNEQSVEDYKNGKGKAMGFLVGQIMKASKGQANPQLVNQLL 468
           + Q++D   +   ++E +  N   VE  K    K  G+ VGQ+MKA+ G+ANP+ VN+L+
Sbjct: 440 MKQVTDTGAIEAALDEIIAANPAQVEKAKVNP-KLAGWFVGQVMKATGGKANPKAVNELV 498

Query: 469 KQEL 472
            ++L
Sbjct: 499 AKKL 502


Lambda     K      H
   0.313    0.133    0.373 

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: 654
Number of extensions: 31
Number of successful extensions: 6
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: 475
Length of database: 504
Length adjustment: 34
Effective length of query: 441
Effective length of database: 470
Effective search space:   207270
Effective search space used:   207270
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)

Align candidate GFF968 PGA1_c09840 (aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B)
to HMM TIGR00133 (gatB: aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, B subunit (EC 6.3.5.-))

Software error:

../bin/blast/fastacmd -i /tmp/list.11497.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.11497.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.