GapMind for catabolism of small carbon sources

 

Alignments for a candidate for astE in Shewanella sp. ANA-3

Align Succinylglutamate desuccinylase; EC 3.5.1.96 (uncharacterized)
to candidate 7024961 Shewana3_2132 succinylglutamate desuccinylase (RefSeq)

Query= curated2:A4Y6M4
         (344 letters)



>FitnessBrowser__ANA3:7024961
          Length = 344

 Score =  628 bits (1620), Expect = 0.0
 Identities = 309/344 (89%), Positives = 323/344 (93%)

Query: 1   MLQALLDSKDFLALTLAHPEQFDGEFSFNLGDHTQVEVWDTGVIVFEPIQNEGKDIVLSC 60
           MLQALLDSKDFLALTLA+PE    EFSF LG+HT+VEVW+TGVIVFEP Q +GKD++LSC
Sbjct: 1   MLQALLDSKDFLALTLANPETLGDEFSFTLGEHTRVEVWNTGVIVFEPAQAQGKDVILSC 60

Query: 61  GVHGNETAPIELCNSLIKQLLQQKIIAKQRTLFLIGNPLAINNGTRIIDENMNRLFSGEH 120
           GVHGNETAPIELCN+LIKQLLQQKIIAKQRTLFLIGNPLAINNGTRIIDENMNRLFSGEH
Sbjct: 61  GVHGNETAPIELCNTLIKQLLQQKIIAKQRTLFLIGNPLAINNGTRIIDENMNRLFSGEH 120

Query: 121 SNPPGLVNPERVRAKKLEAYVDRFFTAAADGRQRIHYDLHTAMRASKHEKFAIYPYRPGR 180
           SNPPGLVNPERVRAKKLEAYVDRFF  AA GRQRIHYDLHTAMRASKHEKFAIYPYRPGR
Sbjct: 121 SNPPGLVNPERVRAKKLEAYVDRFFKGAAAGRQRIHYDLHTAMRASKHEKFAIYPYRPGR 180

Query: 181 AFSGEQIMFLAASGVDTVLFHHEPTTTFSYFSSERYGADAFTIELGKVYPMGQNDMTRFI 240
           A+S EQIMFLAASGVDTVLFHHEPTTTFSYFSSE+YGADAFTIELGKVYPMGQNDMTRFI
Sbjct: 181 AYSAEQIMFLAASGVDTVLFHHEPTTTFSYFSSEQYGADAFTIELGKVYPMGQNDMTRFI 240

Query: 241 ATHEMFMRLITAKPLELDAFDADKVNLYQVCRVINKHFDDFEFTFATDVENFRSFPKGFV 300
           A  EMFMRLIT KPL L+ F ADKVNLYQVCRVINKHFDDFEFTFA DVENFRSFPKGFV
Sbjct: 241 AAQEMFMRLITDKPLALEPFSADKVNLYQVCRVINKHFDDFEFTFAADVENFRSFPKGFV 300

Query: 301 LAREGGQEIKVEHEFESVVFPNAKVPIGNRTVICLIPAVNADVR 344
           LAREGGQEIKVE EFE++VFPNAKVPIGNRTVICLIP+V  DVR
Sbjct: 301 LAREGGQEIKVEQEFEAIVFPNAKVPIGNRTVICLIPSVAPDVR 344


Lambda     K      H
   0.323    0.139    0.412 

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: 513
Number of extensions: 11
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: 344
Length of database: 344
Length adjustment: 29
Effective length of query: 315
Effective length of database: 315
Effective search space:    99225
Effective search space used:    99225
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)

Align candidate 7024961 Shewana3_2132 (succinylglutamate desuccinylase (RefSeq))
to HMM TIGR03242 (astE: succinylglutamate desuccinylase (EC 3.5.1.96))

Software error:

../bin/blast/fastacmd -i /tmp/list.27837.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.27837.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.