Alignments for a candidate for aroE in Desulfovibrio vulgaris Miyazaki F

Align Shikimate dehydrogenase (NADP(+)); SDH; EC 1.1.1.25 (uncharacterized)
to candidate 8501228 DvMF_1962 shikimate 5-dehydrogenase (RefSeq)

Query= curated2:Q30VD9
         (279 letters)



>FitnessBrowser__Miya:8501228
          Length = 315

 Score =  290 bits (743), Expect = 2e-83
 Identities = 158/292 (54%), Positives = 191/292 (65%), Gaps = 17/292 (5%)

Query: 4   PRIPRQLYGIIGYPLGHSMSPLLHNWGFELLGEQAAYMAFPVAPEKLAEFICCARMLPVS 63
           P +PR+LYGIIG+PLGH+MSPLLHNWGF LL   A YMA+P+ P ++ +FI   R LP+ 
Sbjct: 5   PFLPRELYGIIGHPLGHTMSPLLHNWGFSLLDVPAVYMAWPLEPGRVGDFITAVRTLPIR 64

Query: 64  GLSVTIPHKQAVMPLLDAVTPRAQAAGAVNTLFYDDGKLTGDNTDVYGFLHPL---DSCG 120
           G SVTIPHKQAV+PLLD V+ RA+A GAVNTL++ DG+L G+NTDV GFL PL    + G
Sbjct: 65  GASVTIPHKQAVLPLLDGVSDRARAVGAVNTLYWRDGQLLGENTDVTGFLAPLRQRAAAG 124

Query: 121 TAHAAALVLGAGGAANAVLAALTARGMCN------VTVTNRNGDRARILAERFGVRCVAW 174
                ALVLG GGAA AVLA L   G         V VT RN ++A  LA  FG   V W
Sbjct: 125 WRCERALVLGNGGAARAVLAGLRELGPAGDGVVRAVGVTGRNAEKAAPLAAEFGAEVVDW 184

Query: 175 EERHAVDADLVVNTTPLGMAGDRQAQTPLDPAFFSSRPA--------GLAYDLIYNPAQT 226
           + R    ADLVVNTTP+GM+G+RQ  T      F+++          GLAYDL+YNP +T
Sbjct: 185 DARVHWGADLVVNTTPMGMSGERQGDTAFPEQGFAAQGVAAGGDGRRGLAYDLVYNPLRT 244

Query: 227 FFLASAQAAGWRVLNGLDMFVAQGAEQFRIWRGRELPFAQARALIADALASG 278
            FL+ A  AGW   +GL MFV QG EQFR+W G ELP   AR L+A AL  G
Sbjct: 245 RFLSEAADAGWDTQDGLGMFVEQGREQFRLWTGLELPAEGARTLVAVALGLG 296


Lambda     K      H
   0.324    0.137    0.427 

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: 304
Number of extensions: 13
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: 279
Length of database: 315
Length adjustment: 26
Effective length of query: 253
Effective length of database: 289
Effective search space:    73117
Effective search space used:    73117
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 48 (23.1 bits)

Align candidate 8501228 DvMF_1962 (shikimate 5-dehydrogenase (RefSeq))
to HMM TIGR00507 (aroE: shikimate dehydrogenase (EC 1.1.1.25))

Software error:

../bin/blast/fastacmd -i /tmp/list.22307.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.22307.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.