GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvI in Herbaspirillum seropedicae SmR1

Align acetolactate synthase (subunit 1/2) (EC 2.2.1.6) (characterized)
to candidate HSERO_RS08655 HSERO_RS08655 acetolactate synthase

Query= BRENDA::P00894
         (163 letters)



>FitnessBrowser__HerbieS:HSERO_RS08655
          Length = 163

 Score =  192 bits (487), Expect = 3e-54
 Identities = 94/163 (57%), Positives = 130/163 (79%), Gaps = 1/163 (0%)

Query: 1   MRRILSVLLENESGALSRVIGLFSQRGYNIESLTVAPTDDPTLSRMTIQTVGDEKVLEQI 60
           MR I+SVLLENE+GALSRV+GLFS RGYNIE+LTVAPT+D TLSRMTI T G + V+EQI
Sbjct: 1   MRHIISVLLENEAGALSRVVGLFSARGYNIETLTVAPTEDSTLSRMTIVTSGSDDVIEQI 60

Query: 61  EKQLHKLVDVLRVSELGQGAHVEREIMLVKIQASGYGRDEVKRNTEIFRGQIIDVTPSLY 120
            K L++L++V++V +L +GAH+ERE+ML+K++A G  R+E+KR  +IFRG+IIDVT   Y
Sbjct: 61  TKHLNRLIEVVKVVDLTEGAHIERELMLIKVRAVGKEREEMKRTADIFRGRIIDVTEKTY 120

Query: 121 TVQLAGTSGKLDAFLASIRDVAKIVEVARSGVVGLSRGDKIMR 163
           T++L G   KLDAF+ ++ D   I+E  R+G  G+ RG++I++
Sbjct: 121 TIELTGAKSKLDAFIDAL-DRTAILETVRTGGSGIGRGERILK 162


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: 116
Number of extensions: 4
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: 163
Length of database: 163
Length adjustment: 18
Effective length of query: 145
Effective length of database: 145
Effective search space:    21025
Effective search space used:    21025
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: 43 (21.2 bits)

Align candidate HSERO_RS08655 HSERO_RS08655 (acetolactate synthase)
to HMM TIGR00119 (ilvN: acetolactate synthase, small subunit (EC 2.2.1.6))

Software error:

../bin/blast/fastacmd -i /tmp/list.15786.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.15786.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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