GapMind for catabolism of small carbon sources

 

Alignments for a candidate for gloB in Synechococcus elongatus PCC 7942

Align Hydroxyacylglutathione hydrolase cytoplasmic; Glyoxalase II; Glx II; EC 3.1.2.6 (characterized)
to candidate Synpcc7942_1403 Synpcc7942_1403 Hydroxyacylglutathione hydrolase

Query= SwissProt::O24496
         (258 letters)



>FitnessBrowser__SynE:Synpcc7942_1403
          Length = 258

 Score =  209 bits (531), Expect = 6e-59
 Identities = 116/264 (43%), Positives = 164/264 (62%), Gaps = 14/264 (5%)

Query: 1   MKIFHVPCLQDNYSYLIIDESTGDAAVVDPVDPEKVIASAEKHQAKIKFVLTTHHHWDHA 60
           M+I  +P LQDNY +L++D     AAVVDP + E V+A+ +     +  +L THHH DH 
Sbjct: 1   MRIDCLPALQDNYIFLLVDVEQRQAAVVDPAEAEPVLAALQAEGLTLTAILNTHHHGDHV 60

Query: 61  GGNEKIKQLVPDIKVYGGSLDK--VKGCTDAVDNGDKLTL-GQDINILALHTPCHTKGHI 117
           GGN ++ +  P+  V   ++D+  + G T  ++ GD+L + GQ   +L +  P HT+GHI
Sbjct: 61  GGNRRLLRQFPEAAVSASAVDRDRIPGQTVLLEAGDRLQICGQTAEVLFV--PGHTRGHI 118

Query: 118 SYYVNGKEGENP--AVFTGDTLFVAGCGKFFEGTAEQMYQSLCVTLAALPKPTQVYCGHE 175
           +YY       NP  A+F GDTLF  GCG+ FEGT  QM  SL   L +LP  T +YC HE
Sbjct: 119 AYYFPEVAEGNPRGALFCGDTLFAGGCGRLFEGTPAQMLDSL-QQLRSLPDDTAIYCAHE 177

Query: 176 YTVKNLEFALTVEPNNGKIQQK---LAWARQQRQADLPTIPSTLEEELETNPFMRVDKPE 232
           YT+ NL FALTVEP+N  +QQ+   +A ARQQ QA   TIPS L+ E  TNPF+R D+  
Sbjct: 178 YTLNNLRFALTVEPDNFDLQQRYQAVAIARQQGQA---TIPSRLDIEKATNPFLRWDQAA 234

Query: 233 IQEKLGCKSPIDTMREVRNKKDQW 256
           +Q  +  + P+ T+  +R++KDQ+
Sbjct: 235 LQAAVSSQDPVQTLARLRSRKDQF 258


Lambda     K      H
   0.317    0.135    0.411 

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: 205
Number of extensions: 10
Number of successful extensions: 4
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: 258
Length of database: 258
Length adjustment: 24
Effective length of query: 234
Effective length of database: 234
Effective search space:    54756
Effective search space used:    54756
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: 41 (21.6 bits)
S2: 47 (22.7 bits)

Align candidate Synpcc7942_1403 Synpcc7942_1403 (Hydroxyacylglutathione hydrolase)
to HMM TIGR03413 (gloB: hydroxyacylglutathione hydrolase (EC 3.1.2.6))

Software error:

../bin/blast/fastacmd -i /tmp/list.14696.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.14696.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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