GapMind for Amino acid biosynthesis

 

Alignments for a candidate for hisF in Shewanella loihica PV-4

Align IGP synthase cyclase subunit; EC 4.1.3.- (characterized)
to candidate 5209750 Shew_2203 imidazole glycerol phosphate synthase subunit HisF (RefSeq)

Query= CharProtDB::CH_024847
         (258 letters)



>FitnessBrowser__PV4:5209750
          Length = 257

 Score =  388 bits (996), Expect = e-113
 Identities = 192/257 (74%), Positives = 216/257 (84%)

Query: 1   MLAKRIIPCLDVRDGQVVKGVQFRNHEIIGDIVPLAKRYAEEGADELVFYDITASSDGRV 60
           MLAKRI+PCLDVRDG+VVKGVQFRNHEI+GDIVPLA RYA E ADELVFYDITAS+  RV
Sbjct: 1   MLAKRIVPCLDVRDGKVVKGVQFRNHEIVGDIVPLAARYAAESADELVFYDITASAHDRV 60

Query: 61  VDKSWVSRVAEVIDIPFCVAGGIKSLEDAAKILSFGADKISINSPALADPTLITRLADRF 120
           VDKSWVSRVAE IDIPFCVAGGIKS+E A + L+FGADKISINSPAL+DP LI RL D F
Sbjct: 61  VDKSWVSRVAEQIDIPFCVAGGIKSIEQAREKLAFGADKISINSPALSDPGLIDRLQDEF 120

Query: 121 GVQCIVVGIDTWYDAETGKYHVNQYTGDESRTRVTQWETLDWVQEVQKRGAGEIVLNMMN 180
           G QCIV+GID++YDA+T  Y V Q+TGDE+ T+ TQW T DWV+EVQ+RG GEIVLN+MN
Sbjct: 121 GRQCIVIGIDSYYDADTDSYKVKQFTGDEAATKDTQWYTQDWVEEVQRRGCGEIVLNVMN 180

Query: 181 QDGVRNGYDLEQLKKVREVCHVPLIASGGAGTMEHFLEAFRDADVDGALAASVFHKQIIN 240
           QDGVR GYD++QL  VR +C VPLIASGGAGTMEHFLE F  A VD ALAASVFHK II 
Sbjct: 181 QDGVRQGYDIKQLAMVRAICDVPLIASGGAGTMEHFLEVFTQAGVDAALAASVFHKGIIE 240

Query: 241 IGELKAYLATQGVEIRI 257
           I  LK YL   GV++R+
Sbjct: 241 IEALKRYLLDNGVQMRL 257


Lambda     K      H
   0.321    0.138    0.409 

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: 314
Number of extensions: 7
Number of successful extensions: 2
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: 257
Length adjustment: 24
Effective length of query: 234
Effective length of database: 233
Effective search space:    54522
Effective search space used:    54522
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 5209750 Shew_2203 (imidazole glycerol phosphate synthase subunit HisF (RefSeq))
to HMM TIGR00735 (hisF: imidazoleglycerol phosphate synthase, cyclase subunit)

Software error:

../bin/blast/fastacmd -i /tmp/list.7510.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.7510.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.