GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvA in Pseudomonas simiae WCS417

Align L-threonine dehydratase biosynthetic IlvA; EC 4.3.1.19; Threonine deaminase (uncharacterized)
to candidate GFF2483 PS417_12665 hypothetical protein

Query= curated2:P37946
         (422 letters)



>FitnessBrowser__WCS417:GFF2483
          Length = 340

 Score =  235 bits (599), Expect = 2e-66
 Identities = 132/320 (41%), Positives = 188/320 (58%), Gaps = 7/320 (2%)

Query: 13  VKHILKAHQNVKDVVIHTPLQRNDRLSERYECNIYLKREDLQVVRSFKLRGAYHKMKQLS 72
           VK IL A   V D+ + TPLQ    LS      + LKREDLQ   SFK+RGAY+K+ QL+
Sbjct: 19  VKKILAAP--VYDLAVRTPLQAAPALSALLGNQVLLKREDLQPTFSFKIRGAYNKLVQLT 76

Query: 73  SEQTENGVVCASAGNHAQGVAFSCKHLGIHGKIFMPSTTPRQKVSQVELFGKGFIDIILT 132
            EQ   GVV ASAGNHAQGVA + + LGI  +I MP++TP  KV  V   G      +L 
Sbjct: 77  PEQRARGVVTASAGNHAQGVALAARELGIKARIVMPASTPELKVLGVRSRGA---QAVLH 133

Query: 133 GDTFDDVYKSAAECCEAESRTFIHPFDDPDVMAGQGTLAVEILNDIDTEPHFLFASVGGG 192
           G +F      A +  E+   TF+ PFDDPDV+AGQGT+A+EIL         +F  VGGG
Sbjct: 134 GASFPFALAYALQLAESSGCTFVSPFDDPDVIAGQGTVAMEILRQQQGPLDAIFVPVGGG 193

Query: 193 GLLSGVGTYLKNVSPDTKVIAVEPAGAASYFESNKAGHVVTLDKIDKFVDGAAVKKIGEE 252
           GL++GV  Y+K + PD ++I VEP G++    + +AG  V L  +D F DG AV ++G  
Sbjct: 194 GLIAGVAAYVKYLRPDVRIIGVEPEGSSCLLAALRAGERVVLPSVDGFADGTAVAQVGAH 253

Query: 253 TFRTLETVVDDILLVPEGKVCTSILELYNECAVVAEPAGALSVAALDLY--KDQIKGKNV 310
            F      VD+++ V    +C++I  +Y++   + EP+GAL+VA +  Y     ++G+ +
Sbjct: 254 GFEICRDWVDEVITVSNDALCSAIKLIYDDTRSITEPSGALAVAGIRQYVATHNLRGQTL 313

Query: 311 VCVVSGGNNDIGRMQEMKER 330
           V + SG N +   ++ + ER
Sbjct: 314 VAINSGANINFDSLRHVAER 333


Lambda     K      H
   0.318    0.137    0.397 

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: 330
Number of extensions: 9
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: 422
Length of database: 340
Length adjustment: 30
Effective length of query: 392
Effective length of database: 310
Effective search space:   121520
Effective search space used:   121520
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 (21.7 bits)
S2: 50 (23.9 bits)

Align candidate GFF2483 PS417_12665 (hypothetical protein)
to HMM TIGR01124 (ilvA: threonine ammonia-lyase, biosynthetic (EC 4.3.1.19))

Software error:

../bin/blast/fastacmd -i /tmp/list.4732.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.4732.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.