GapMind for catabolism of small carbon sources

 

Alignments for a candidate for prpE in Paraburkholderia bryophila 376MFSha3.1

Align propionate-CoA ligase (EC 6.2.1.17) (characterized)
to candidate H281DRAFT_04471 H281DRAFT_04471 propionyl-CoA synthetase

Query= BRENDA::P77495
         (628 letters)



>FitnessBrowser__Burk376:H281DRAFT_04471
          Length = 635

 Score =  800 bits (2066), Expect = 0.0
 Identities = 387/627 (61%), Positives = 484/627 (77%), Gaps = 1/627 (0%)

Query: 3   FSEFYQRSINEPEQFWAEQARRIDWQTPFTQTLDHSNPPFARWFCEGRTNLCHNAIDRWL 62
           + +F++RSI  PE FW ++ARRI W+TPF   LD SNPPFARWF  GRTNLCHNA+DR L
Sbjct: 4   YRDFHRRSIENPEAFWRDEARRIHWETPFDTVLDRSNPPFARWFVGGRTNLCHNAVDRHL 63

Query: 63  EKQPEALALIAVSSETEEERTFTFRQLHDEVNAVASMLRSLGVQRGDRVLVYMPMIAEAH 122
             + +  AL+ VS+ET  ER +T+ +L+ E+N +A+++RSLGV+RGD VL+Y+PMI EA 
Sbjct: 64  VDRAQQNALVYVSTETGIERRYTYAELYAEINRMAAVMRSLGVKRGDVVLLYLPMIPEAL 123

Query: 123 ITLLACARIGAIHSVVFGGFASHSVAARIDDAKPVLIVSADAGARGGKIIPYKKLLDDAI 182
             +LACAR+GAIHSVVFGGFA+ ++AARIDDAKPVLIV+ADAGARGGK+I Y  L+D+AI
Sbjct: 124 FAMLACARLGAIHSVVFGGFAAPNLAARIDDAKPVLIVTADAGARGGKVIDYTPLVDEAI 183

Query: 183 SQAQHQPRHVLLVDRGLAKMARVSGRDVDFASLRHQHIGARVPVAWLESNETSCILYTSG 242
           ++A H+   VLL+DR LA     +   VD+  LR Q   A V   WLES+E S +LYTSG
Sbjct: 184 ARATHKTARVLLIDRQLAPERLNATYLVDYEPLREQFFDAHVSCEWLESSEPSYVLYTSG 243

Query: 243 TTGKPKGVQRDVGGYAVALATSMDTIFGGKAGSVFFCASDIGWVVGHSYIVYAPLLAGMA 302
           TTGKPKGVQRDVGGYAVALA SM+ IF GKAG   F ASD+GWVVGHSYIVYAPL+AG+ 
Sbjct: 244 TTGKPKGVQRDVGGYAVALAASMEYIFEGKAGDTMFTASDVGWVVGHSYIVYAPLIAGLT 303

Query: 303 TIVYEGLPTWPDCGVWWTIVEKYQVSRMFSAPTAIRVLKKFPTAEIRKHDLSSLEVLYLA 362
           T++YEG P  PD G+WW +VE+++++ MF+APTA+RVLKK   A +   DLSSL  L+LA
Sbjct: 304 TVMYEGTPIRPDGGIWWRLVEQHKINLMFTAPTALRVLKKQDPALLESADLSSLRTLFLA 363

Query: 363 GEPLDEPTASWVSNTLDVPVIDNYWQTESGWPIMAIARGLDDRPTRLGSPGVPMYGYNVQ 422
           GEPLDEPTASW++  L  PVIDNYWQTE+GWP++AI RG++  PT+LGSPGVP  G+N+ 
Sbjct: 364 GEPLDEPTASWITGALGKPVIDNYWQTETGWPMLAIPRGVEALPTKLGSPGVPSAGFNLT 423

Query: 423 LLNEVTGEPCGVNEKGMLVVEGPLPPGCIQTIWGDDGRFVKTYWSLF-SRPVYATFDWGI 481
           L NE+TGEPC   EKG+L +  PLPPGC+ T+WGDD RF+ TYWS F  + VY+TFDWGI
Sbjct: 424 LRNELTGEPCPPGEKGVLTLNYPLPPGCMSTVWGDDKRFISTYWSSFPDQQVYSTFDWGI 483

Query: 482 RDADGYHFILGRTDDVINVAGHRLGTREIEESISSHPGVAEVAVVGVKDALKGQVAVAFV 541
           +D DGY  ILGRTDDVINVAGHRLGTREIEE++SSH  VAEVAVVGV D LKGQ A+AFV
Sbjct: 484 QDEDGYVTILGRTDDVINVAGHRLGTREIEEALSSHAAVAEVAVVGVADPLKGQAAMAFV 543

Query: 542 IPKESDSLEDRDVAHSQEKAIMALVDSQIGNFGRPAHVWFVSQLPKTRSGKMLRRTIQAI 601
           + +++ +  D D     E  + A VD Q+G   RP+ V  VS LPKTRSGK+LRR I A+
Sbjct: 544 VLRDAQAYADVDARTKLEAELTATVDRQLGAIARPSRVVIVSMLPKTRSGKLLRRAIAAL 603

Query: 602 CEGRDPGDLTTIDDPASLDQIRQAMEE 628
            EGR+PG+L TI+DPA+L Q+R+ + E
Sbjct: 604 AEGREPGELPTIEDPAALQQVREGLSE 630


Lambda     K      H
   0.320    0.136    0.422 

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: 1165
Number of extensions: 39
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: 628
Length of database: 635
Length adjustment: 38
Effective length of query: 590
Effective length of database: 597
Effective search space:   352230
Effective search space used:   352230
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: 54 (25.4 bits)

Align candidate H281DRAFT_04471 H281DRAFT_04471 (propionyl-CoA synthetase)
to HMM TIGR02316 (prpE: propionate--CoA ligase (EC 6.2.1.17))

Software error:

../bin/blast/fastacmd -i /tmp/list.1577.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.1577.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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