GapMind for catabolism of small carbon sources

 

Alignments for a candidate for ilvE in Phaeobacter inhibens BS107

Align branched-chain-amino-acid aminotransferase subunit (EC 2.6.1.42) (characterized)
to candidate GFF3358 PGA1_c34110 branched-chain-amino-acid aminotransferase IlvE

Query= metacyc::MONOMER-11914
         (306 letters)



>FitnessBrowser__Phaeo:GFF3358
          Length = 288

 Score =  228 bits (580), Expect = 2e-64
 Identities = 117/265 (44%), Positives = 167/265 (63%), Gaps = 7/265 (2%)

Query: 4   EASGKIWLNGEMVEWEEATVHVLSHVVHYGSSVFEGIRCYRNSKGSAIFRLREHVKRLFD 63
           +  G IW++GEMV W +A VH+LSH +HY SSVFEG R Y       IF+ REH +RL  
Sbjct: 6   DRDGLIWMDGEMVNWRDAKVHILSHAMHYASSVFEGERAYNGK----IFKSREHSERLIA 61

Query: 64  SAKIYRMDIPYTQEQICDAIVETVRENGLEECYIRPVVFRGYGE-MGVHPVNCPVDVAVA 122
           SA+   M +PYT +QI  A  ET++ +GL++ Y+R VV+RG GE MGV     PV +A+A
Sbjct: 62  SAEALDMPMPYTVDQIEAAKEETLKASGLQDAYVRAVVWRGSGEDMGVASAKNPVRMAIA 121

Query: 123 AWEWGAYLGAEALEVGVDAGVSTWRRMAPNTMPNMAKAGGNYLNSQLAKMEAVRHGYDEA 182
            W WGAY G   ++ G    ++ W+R +P T+P  AKA G Y+   ++K +A   G  +A
Sbjct: 122 VWGWGAYYGDAKMQ-GAKLDIAEWKRPSPETIPVHAKAAGLYMICTISKHKAEAKGCSDA 180

Query: 183 IMLDYHGYISEGSGENIFLVSEGEIYTPPVSSSLLRGITRDSVIKIARTEGVTVHEEPIT 242
           + +DY GY++E +G NIF V +GE++TP      L GITR +VI + +  G+TVHE  I 
Sbjct: 181 LFMDYRGYVAEATGANIFFVKDGEVHTPK-PDCFLNGITRQTVIGMLKDRGITVHERHIM 239

Query: 243 REMLYIADEAFFTGTAAEITPIRSV 267
            E L   ++ + TGTAAE+TP+  +
Sbjct: 240 PEELDGFEQCWLTGTAAEVTPVGQI 264


Lambda     K      H
   0.320    0.136    0.414 

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: 306
Number of extensions: 18
Number of successful extensions: 5
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: 306
Length of database: 288
Length adjustment: 26
Effective length of query: 280
Effective length of database: 262
Effective search space:    73360
Effective search space used:    73360
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: 41 (21.8 bits)
S2: 48 (23.1 bits)

Align candidate GFF3358 PGA1_c34110 (branched-chain-amino-acid aminotransferase IlvE)
to HMM TIGR01122 (ilvE: branched-chain amino acid aminotransferase (EC 2.6.1.42))

Software error:

../bin/blast/fastacmd -i /tmp/list.23570.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.23570.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.