GapMind for Amino acid biosynthesis

 

Alignments for a candidate for gatC in Cupriavidus basilensis 4G11

Align Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit C; Asp/Glu-ADT subunit C; EC 6.3.5.- (uncharacterized)
to candidate RR42_RS00585 RR42_RS00585 glutamyl-tRNA amidotransferase

Query= curated2:B4E7X5
         (99 letters)



>FitnessBrowser__Cup4G11:RR42_RS00585
          Length = 99

 Score =  135 bits (340), Expect = 1e-37
 Identities = 68/99 (68%), Positives = 80/99 (80%)

Query: 1  MALTLTDVKRIAHLARLEMADADAEHMLGQLNEFFGLVEQMQAVDTAGIAPLAHPIEQIQ 60
          MAL L+DVKRIAHLAR+E+ D +A   L QLN+FF LVEQMQAVDT GI PLAHP+  ++
Sbjct: 1  MALDLSDVKRIAHLARIEINDDEAGQTLVQLNQFFSLVEQMQAVDTTGIVPLAHPLSAVR 60

Query: 61 EVAQRLRDDAVTEVVDRDDNQRPAPAVQDGLYLVPKVIE 99
          E++QRLRDD VTE   R+D QRPAPA + GLYLVPKVIE
Sbjct: 61 EMSQRLRDDVVTEPNRREDYQRPAPATEGGLYLVPKVIE 99


Lambda     K      H
   0.319    0.135    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: 74
Number of extensions: 2
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: 99
Length of database: 99
Length adjustment: 10
Effective length of query: 89
Effective length of database: 89
Effective search space:     7921
Effective search space used:     7921
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: 39 (20.9 bits)
S2: 39 (19.6 bits)

Align candidate RR42_RS00585 RR42_RS00585 (glutamyl-tRNA amidotransferase)
to HMM TIGR00135 (gatC: aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit (EC 6.3.5.-))

Software error:

../bin/blast/fastacmd -i /tmp/list.2082.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.2082.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.