GapMind for catabolism of small carbon sources

 

Alignments for a candidate for gloB in Marinobacter adhaerens HP15

Align hydroxyacylglutathione hydrolase; EC 3.1.2.6 (characterized)
to candidate GFF1848 HP15_1805 hydroxyacylglutathione hydrolase

Query= CharProtDB::CH_024825
         (251 letters)



>FitnessBrowser__Marino:GFF1848
          Length = 264

 Score =  224 bits (570), Expect = 2e-63
 Identities = 119/263 (45%), Positives = 162/263 (61%), Gaps = 12/263 (4%)

Query: 1   MNLNSIPAFDDNYIWVLNDEAG-RCLIVDPGDAEPVLNAIAANNWQPEAIFLTHHHHDHV 59
           + +++IPAF DNYIW L+D A  + LIVDPG A+PVL+ +A N    + I +THHH DHV
Sbjct: 2   LTISAIPAFSDNYIWCLSDTASDKALIVDPGQAQPVLDHLAENGLTLDTILVTHHHPDHV 61

Query: 60  GGVKELVEKFPQIVVYGPQETQDKGTTQVVKDGETAFVLGHEFSVIATPGHTLGHICYFS 119
           GGVK+L+ +FP   V GP ++  KG+T +V  G+        F V+  PGHTL HI YF+
Sbjct: 62  GGVKDLISRFPDCRVTGPADSPYKGSTNLVHPGDEVIWEDITFQVLGVPGHTLDHIAYFT 121

Query: 120 ------KPYLFCGDTLFSGGCGRLFEGTASQMYQSLKKLSALPDDTLVCCAHEYTLSNMK 173
                 +P LFCGDTLF  GCGRLFEG+  QM QSL+ L ALP  T V CAHEYTL+N++
Sbjct: 122 DVEVNGRPVLFCGDTLFVCGCGRLFEGSPEQMRQSLQTLRALPGKTAVYCAHEYTLANLR 181

Query: 174 FALSILPHDLSINDYYRKVKELRAKNQITLPVILKNERQINVFLRTED---IDLINVINE 230
           FA S LP D  +  + ++ +  R   + T+P +L+NE+++N FLR +D   +D       
Sbjct: 182 FARSWLPEDEGLRTFEQECQAARDAGKPTVPSVLENEKRLNPFLRWDDPAVVDSARAYCS 241

Query: 231 ETLLQQPEER--FAWLRSKKDRF 251
              L    +   FA +R  KD F
Sbjct: 242 SRGLPADSDNAIFAAIRHGKDNF 264


Lambda     K      H
   0.321    0.138    0.425 

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: 259
Number of extensions: 8
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: 251
Length of database: 264
Length adjustment: 24
Effective length of query: 227
Effective length of database: 240
Effective search space:    54480
Effective search space used:    54480
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: 47 (22.7 bits)

Align candidate GFF1848 HP15_1805 (hydroxyacylglutathione hydrolase)
to HMM TIGR03413 (gloB: hydroxyacylglutathione hydrolase (EC 3.1.2.6))

Software error:

../bin/blast/fastacmd -i /tmp/list.28629.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.28629.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.