GapMind for catabolism of small carbon sources

 

Alignments for a candidate for ech in Klebsiella michiganensis M5al

Align Probable enoyl-CoA hydratase; EC 4.2.1.17 (uncharacterized)
to candidate BWI76_RS13120 BWI76_RS13120 2-(1,2-epoxy-1,2-dihydrophenyl)acetyl-CoA isomerase

Query= curated2:P24162
         (257 letters)



>FitnessBrowser__Koxy:BWI76_RS13120
          Length = 262

 Score =  226 bits (575), Expect = 5e-64
 Identities = 118/257 (45%), Positives = 164/257 (63%), Gaps = 10/257 (3%)

Query: 9   EISEGLAVITLDRPEVMNALNAAMRHELTAALHRAR--GEARAIVLTGSGRAFCSGQDLG 66
           E+ +G+  ITL+RP+ +N+ N  M  +L A L +A    + R ++LTG+GR FC+GQDL 
Sbjct: 8   EVEQGVMTITLNRPDRLNSFNDLMHQQLAACLKQAERDDDVRCLLLTGAGRGFCAGQDLN 67

Query: 67  D------GAAEGLNLETVLREEYEPLLQAIYSCPLPVLAAVNGAAAGAGANLALAADVVI 120
           D      G A  L L   +   Y PL++ + + P PV+ AVNG AAGAGA LAL  D+V+
Sbjct: 68  DRNVDPSGPAPDLGLS--VERFYNPLVRRLAALPKPVICAVNGVAAGAGATLALGCDIVL 125

Query: 121 AAQSAAFMQAFTRIGLMPDAGGTWWLPRQVGMARAMGMALFAEKIGAEEAARMGLIWEAV 180
           AA+SA F+ AF+++GL+PD GG+W+LPR  G ARAMG+AL  + + AE+AA+ G+IW+ V
Sbjct: 126 AARSAKFVMAFSKLGLVPDCGGSWFLPRVAGRARAMGLALLGDSLSAEQAAQWGMIWQVV 185

Query: 181 PDVDFEHHWRARAAHLARGPSAAFAAVKKAFHAGLSNPLPAQLALEARLQGELGQSADFR 240
            D + +    A A HLA  P+     +KKA     +  L  QL LE   Q   G+SAD+R
Sbjct: 186 DDAELKDTGLALARHLAAQPTYGLGLIKKALQLAETQTLDQQLDLERDYQRLAGRSADYR 245

Query: 241 EGVQAFLEKRPPHFTGR 257
           EGV AFL KRPP F+G+
Sbjct: 246 EGVSAFLAKRPPQFSGK 262


Lambda     K      H
   0.321    0.133    0.397 

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: 168
Number of extensions: 10
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: 257
Length of database: 262
Length adjustment: 24
Effective length of query: 233
Effective length of database: 238
Effective search space:    55454
Effective search space used:    55454
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 (21.9 bits)
S2: 47 (22.7 bits)

Align candidate BWI76_RS13120 BWI76_RS13120 (2-(1,2-epoxy-1,2-dihydrophenyl)acetyl-CoA isomerase)
to HMM TIGR02280 (paaB: phenylacetate degradation probable enoyl-CoA hydratase PaaB (EC 4.2.1.17))

Software error:

../bin/blast/fastacmd -i /tmp/list.14530.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.14530.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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