GapMind for catabolism of small carbon sources

 

Alignments for a candidate for fadA in Marinobacter adhaerens HP15

Align 3-oxo-acyl CoA thiolase (EC 2.3.1.16) (characterized)
to candidate GFF49 HP15_49 acetyl-CoA acetyltransferase

Query= metacyc::G185E-7833-MONOMER
         (386 letters)



>FitnessBrowser__Marino:GFF49
          Length = 391

 Score =  346 bits (888), Expect = e-100
 Identities = 192/402 (47%), Positives = 258/402 (64%), Gaps = 28/402 (6%)

Query: 1   MTEAYVIDAVRTAVGKRGGALAGIHPVDLGALAWRGLLDRTDIDPAAVDDVIAGCVDAIG 60
           M +  ++DAVRT VG+  G+LAG+    LGAL    LL R  +   ++DDV+ GCV  IG
Sbjct: 1   MKDVVIVDAVRTPVGRFRGSLAGVRADHLGALVLNELLYRNGLAAESIDDVVFGCVTQIG 60

Query: 61  GQAGNIARLSWLAAGYPEEVPGVTVDRQCGSSQQAISFGAQAIMSGTADVIVAGGVQNMS 120
            Q+ NIAR S L AG+P  VPG+T+DR+CGS + A+     AI +G+A+++VAGG +NMS
Sbjct: 61  EQSANIARTSLLGAGWPTSVPGLTIDRKCGSGEAAVHCAFGAIAAGSAEIVVAGGAENMS 120

Query: 121 QIPISSAMTV-GEQFGFTSPTNESKQWLHRYGD--QEISQFRGSELIAEKWNLSREEMER 177
           ++P+ S   + GE FG            H   D  +  SQ   +E +AEKWNL RE+++ 
Sbjct: 121 RVPMGSNRDLHGEAFG------------HLVSDRYEMTSQGEAAERVAEKWNLDREQLDA 168

Query: 178 YSLTSHERAFAAIRAGHFENEIITV----------ETESGPFRVDEG-PRESSLEKMAGL 226
           ++L SH RA  A  +G+F++EI+ V          E   G F  DE   R++SLEK+A L
Sbjct: 169 FALESHRRAAVAADSGYFKSEIVPVPVADYRENGAEKVEGKFAADETIRRDTSLEKLATL 228

Query: 227 QPLV--EGGRLTAAMASQISDGASAVLLASERAVKDHGLRPRARIHHISARAADPVFMLT 284
           +     E GR+TA  +SQISDG SA+LL S    ++ GL+P+ARI  ++   ADP  MLT
Sbjct: 229 KTSFRKENGRITAGNSSQISDGCSALLLMSSDVARNLGLKPKARIRAVTTVGADPTLMLT 288

Query: 285 GPIPATRYALDKTGLAIDDIDTVEINEAFAPVVMAWLKEIKADPAKVNPNGGAIALGHPL 344
           GPI ATR  L K GL +D+ID  EINEAFA V +AW+KE+ ADP ++N NGGAIALGHPL
Sbjct: 289 GPIGATRKVLAKAGLELDEIDLFEINEAFASVPLAWMKEVGADPERLNVNGGAIALGHPL 348

Query: 345 GATGAKLFTTMLGELERIGGRYGLQTMCEGGGTANVTIIERL 386
           GA+GA++ T+ML ELER  GRY LQ +C  GG    TIIER+
Sbjct: 349 GASGARIMTSMLNELERRRGRYALQAICCAGGMGTATIIERI 390


Lambda     K      H
   0.317    0.134    0.389 

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: 423
Number of extensions: 23
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: 386
Length of database: 391
Length adjustment: 30
Effective length of query: 356
Effective length of database: 361
Effective search space:   128516
Effective search space used:   128516
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)

Align candidate GFF49 HP15_49 (acetyl-CoA acetyltransferase)
to HMM TIGR01930 (acetyl-CoA C-acyltransferase (EC 2.3.1.16))

Software error:

../bin/blast/fastacmd -i /tmp/list.23415.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.23415.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.