GapMind for Amino acid biosynthesis

 

Alignments for a candidate for gatC in Desulfovibrio vulgaris Hildenborough

Align Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit C; Asp/Glu-ADT subunit C; EC 6.3.5.- (uncharacterized)
to candidate 206235 DVU0809 glutamyl-tRNA(Gln) amidotransferase, C subunit

Query= curated2:Q313S4
         (94 letters)



>MicrobesOnline__882:206235
          Length = 94

 Score =  128 bits (322), Expect = 1e-35
 Identities = 64/94 (68%), Positives = 71/94 (75%)

Query: 1  MSISKEQVAAIAGLARLQLDEDKKELFAGQFAQILEYMDTLNEVDTDGVAPLYSPVQHAT 60
          M ISKEQVA IA LARL LDE + E FAGQF  IL+YMD L  VDT  V PLYSP +H T
Sbjct: 1  MKISKEQVATIARLARLDLDEARLERFAGQFGDILDYMDMLGAVDTTDVEPLYSPSEHGT 60

Query: 61 VYREDEVQRHCSREQVLANAPEEDGTFFIVPRIV 94
          V R DEV  HC+RE++LANAPE DG FF+VPRIV
Sbjct: 61 VLRADEVHTHCTREELLANAPESDGQFFVVPRIV 94


Lambda     K      H
   0.318    0.134    0.371 

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: 62
Number of extensions: 1
Number of successful extensions: 1
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: 94
Length of database: 94
Length adjustment: 10
Effective length of query: 84
Effective length of database: 84
Effective search space:     7056
Effective search space used:     7056
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: 39 (20.8 bits)
S2: 39 (19.6 bits)

Align candidate 206235 DVU0809 (glutamyl-tRNA(Gln) amidotransferase, C subunit)
to HMM TIGR00135 (gatC: aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit (EC 6.3.5.-))

Software error:

../bin/blast/fastacmd -i /tmp/list.19738.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.19738.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.