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

Align 3-isopropylmalate dehydratase small subunit; Alpha-IPM isomerase; IPMI; Isopropylmalate isomerase; EC 4.2.1.33 (characterized)
to candidate 3607281 Dshi_0696 3-isopropylmalate dehydratase, small subunit (RefSeq)

Query= SwissProt::Q1MA52
         (202 letters)



>FitnessBrowser__Dino:3607281
          Length = 219

 Score =  149 bits (375), Expect = 5e-41
 Identities = 87/195 (44%), Positives = 113/195 (57%), Gaps = 2/195 (1%)

Query: 8   TGVAAPLPVVNVDTDMIIPKDYLKTIKRTGLGTGLFAEARYNEDGSENPDFVLNKPAYRD 67
           TG AA LP+  VDTD +IP  ++ T +  G G  L  + R+ +     P+F LN+     
Sbjct: 10  TGRAAALPMEAVDTDQLIPARFMSTPRAEGYGRYLLHDLRFCDGCVPRPEFALNRVENAG 69

Query: 68  AKILVAGDNFGCGSSREHAPWALLDFGIRCVISTSFADIFYNNCFKNGILPIKVSQEDLD 127
           A ILV G NFG GSSRE A +AL+DFGIR V++ SF DIF  N   NG+ P++V  ED  
Sbjct: 70  ATILVTGRNFGSGSSREAAVYALMDFGIRAVVAPSFGDIFAANAVNNGLCPVQVRPEDGA 129

Query: 128 KLMDDASRGSNAILTVDLENLEITGPDGGLIKFDLDEFKRHCLLNGLDDIGLTLEKGKAI 187
            L+    RG+   +TVDLE   + GP  G + F LD   R  L+ GLDDI LT   G  I
Sbjct: 130 ALLRGLERGARQ-MTVDLEACALRGP-LGTVGFTLDPVWRRKLIEGLDDIDLTRAYGAEI 187

Query: 188 DSFEKKNAASHPWAA 202
            +F   +AA+ PWAA
Sbjct: 188 AAFRAADAAARPWAA 202


Lambda     K      H
   0.319    0.140    0.419 

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: 117
Number of extensions: 3
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: 202
Length of database: 219
Length adjustment: 21
Effective length of query: 181
Effective length of database: 198
Effective search space:    35838
Effective search space used:    35838
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: 45 (21.9 bits)

Align candidate 3607281 Dshi_0696 (3-isopropylmalate dehydratase, small subunit (RefSeq))
to HMM TIGR00171 (leuD: 3-isopropylmalate dehydratase, small subunit (EC 4.2.1.33))

Software error:

../bin/blast/fastacmd -i /tmp/list.24598.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.24598.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.