GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvI in Dinoroseobacter shibae DFL-12

Align acetolactate synthase (subunit 1/2) (EC 2.2.1.6) (characterized)
to candidate 3608380 Dshi_1781 acetolactate synthase, small subunit (RefSeq)

Query= BRENDA::P00894
         (163 letters)



>FitnessBrowser__Dino:3608380
          Length = 190

 Score =  128 bits (321), Expect = 6e-35
 Identities = 75/156 (48%), Positives = 104/156 (66%), Gaps = 3/156 (1%)

Query: 5   LSVLLENESGALSRVIGLFSQRGYNIESLTVAPTD-DPTLSRMTIQTVGDEKVLEQIEKQ 63
           L+V+++NE+G L+RVIGLFS RGYNIESLTVA  D +   SR+TI T G  +V+EQI+ Q
Sbjct: 31  LAVVVDNEAGVLARVIGLFSGRGYNIESLTVAEIDHEGHRSRITIVTTGTPQVIEQIKAQ 90

Query: 64  LHKLVDVLRVSELG-QGAHVEREIMLVKIQASGYGRDEVKRNTEIFRGQIIDVTPSLYTV 122
           L ++V V  V +L  +GA VERE+ L K+  +G  R E  R  EIFR  ++D T   +  
Sbjct: 91  LARMVPVHEVHDLTVEGASVERELALFKVAGTGDKRIEALRLAEIFRANVVDSTLQSFVF 150

Query: 123 QLAGTSGKLDAFLASIRDVAKIVEVARSGVVGLSRG 158
           ++ GT  K+DAF   +R +  + E+AR+GV  LSRG
Sbjct: 151 EITGTPAKIDAFGELMRPLG-LTEIARTGVAALSRG 185


Lambda     K      H
   0.318    0.136    0.360 

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: 104
Number of extensions: 5
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: 163
Length of database: 190
Length adjustment: 19
Effective length of query: 144
Effective length of database: 171
Effective search space:    24624
Effective search space used:    24624
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 (21.7 bits)
S2: 44 (21.6 bits)

Align candidate 3608380 Dshi_1781 (acetolactate synthase, small subunit (RefSeq))
to HMM TIGR00119 (ilvN: acetolactate synthase, small subunit (EC 2.2.1.6))

Software error:

../bin/blast/fastacmd -i /tmp/list.31677.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.31677.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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