GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvH in Pseudomonas fluorescens FW300-N2E3

Align acetolactate synthase (subunit 2/2) (EC 2.2.1.6) (characterized)
to candidate AO353_14495 AO353_14495 acetolactate synthase 3 catalytic subunit

Query= BRENDA::P00893
         (574 letters)



>FitnessBrowser__pseudo3_N2E3:AO353_14495
          Length = 574

 Score =  753 bits (1944), Expect = 0.0
 Identities = 362/576 (62%), Positives = 448/576 (77%), Gaps = 4/576 (0%)

Query: 1   MEMLSGAEMVVRSLIDQGVKQVFGYPGGAVLDIYDALHTVGGIDHVLVRHEQAAVHMADG 60
           +E+LSG EM+VR L D+GVK ++GYPGGA+L +YDAL     + H+LVRHEQAA HMADG
Sbjct: 1   VELLSGGEMLVRFLRDEGVKYIYGYPGGALLHVYDALFKEPEVTHILVRHEQAATHMADG 60

Query: 61  LARATGEVGVVLVTSGPGATNAITGIATAYMDSIPLVVLSGQVATSLIGYDAFQECDMVG 120
            ARATG+ GVVLVTSGPGATNAITGIATAYMDSIP+V++SGQV ++++G DAFQE DM+G
Sbjct: 61  YARATGKAGVVLVTSGPGATNAITGIATAYMDSIPMVIISGQVPSTMVGTDAFQETDMIG 120

Query: 121 ISRPVVKHSFLVKQTEDIPQVLKKAFWLAASGRPGPVVVDLPKDILNPANKLPYVWPESV 180
           ISRP+VKHSF++K   +IP+V+KKAF+LA SGRPGPVVVD+PKD+ NPA K  YV+P+  
Sbjct: 121 ISRPIVKHSFMIKHASEIPEVMKKAFYLAQSGRPGPVVVDIPKDMTNPAEKFEYVFPKKA 180

Query: 181 SMRSYNPTTTGHKGQIKRALQTLVAAKKPVVYVGGGAITAGCHQQLKETVEALNLPVVCS 240
            +RSY+P   GH GQI++A + L+AAK+PV+Y GGG I  G    L E  + LNLPV  +
Sbjct: 181 KLRSYSPAVRGHSGQIRKAAEMLLAAKRPVLYSGGGVILGGGSAPLTELAQMLNLPVTNT 240

Query: 241 LMGLGAFPATHRQALGMLGMHGTYEANMTMHNADVIFAVGVRFDDRTTNNLAKYCPNATV 300
           LMGLG +P T RQ +GMLGMHG+Y AN+ MH+ADVI AVG RFDDR  N  AK+CPNA +
Sbjct: 241 LMGLGGYPGTDRQFIGMLGMHGSYTANLAMHHADVILAVGARFDDRVINGPAKFCPNAKI 300

Query: 301 LHIDIDPTSISKTVTADIPIVGDARQVLEQMLELLSQESAHQPLDEIRDWWQQIEQWRA- 359
           +HIDIDP SISKT+ AD+PIVG    VL +M+ +L +       + +  WW+Q+++WR  
Sbjct: 301 IHIDIDPASISKTIKADVPIVGPVESVLTEMVAILKEIGETPNKESVASWWKQVDEWRGD 360

Query: 360 RQCLKYDT-HSEKIKPQAVIETLWRLTKGDAYVTSDVGQHQMFAALYYPFDKPRRWINSG 418
           R    Y+      IKPQ VIETL  +TKGDA+VTSDVGQHQMFAA YY F+KP RWINSG
Sbjct: 361 RGLFPYEKGDGSVIKPQTVIETLCEVTKGDAFVTSDVGQHQMFAAQYYTFNKPNRWINSG 420

Query: 419 GLGTMGFGLPAALGVKMALPEETVVCVTGDGSIQMNIQELSTALQYELPVLVVNLNNRYL 478
           GLGTMGFG PAA+G+K++ P+  V CVTG+GSIQMNIQELST LQY LPV +V LNN  L
Sbjct: 421 GLGTMGFGFPAAMGIKLSFPDADVACVTGEGSIQMNIQELSTCLQYGLPVKIVILNNGVL 480

Query: 479 GMVKQWQDMIYSGRHSQSYMQSLPDFVRLAEAYGHVGIQISHPHELESKLSEALEQVRNN 538
           GMV+QWQDM Y  RHS SYM+SLPDFV+LAEAYGHVG++I+   +L+SK+ EA      +
Sbjct: 481 GMVRQWQDMSYGSRHSHSYMESLPDFVKLAEAYGHVGVRITDSKDLKSKMEEAF--AMKD 538

Query: 539 RLVFVDVTVDGSEHVYPMQIRGGGMDEMWLSKTERT 574
           RLV +D++VD SEHVYPMQI+ G M +MWLSKTERT
Sbjct: 539 RLVVLDISVDTSEHVYPMQIKDGSMRDMWLSKTERT 574


Lambda     K      H
   0.319    0.135    0.403 

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: 1031
Number of extensions: 31
Number of successful extensions: 3
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: 574
Length of database: 574
Length adjustment: 36
Effective length of query: 538
Effective length of database: 538
Effective search space:   289444
Effective search space used:   289444
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: 53 (25.0 bits)

Align candidate AO353_14495 AO353_14495 (acetolactate synthase 3 catalytic subunit)
to HMM TIGR00118 (ilvB: acetolactate synthase, large subunit, biosynthetic type (EC 2.2.1.6))

Software error:

../bin/blast/fastacmd -i /tmp/list.32660.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.32660.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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