GapMind for catabolism of small carbon sources

 

Alignments for a candidate for kbl in Dyella japonica UNC79MFTsu3.2

Align 2-amino-3-ketobutyrate coenzyme A ligase (EC 2.3.1.29) (characterized)
to candidate N515DRAFT_0037 N515DRAFT_0037 2-amino-3-ketobutyrate coenzyme A ligase

Query= reanno::Cup4G11:RR42_RS28295
         (400 letters)



>FitnessBrowser__Dyella79:N515DRAFT_0037
          Length = 400

 Score =  512 bits (1319), Expect = e-150
 Identities = 251/397 (63%), Positives = 307/397 (77%), Gaps = 3/397 (0%)

Query: 3   TTDAFYAAIRQELESIEQAGLFKTERVIASPQGSLIRTTDGKEVINLCANNYLGLSSHPE 62
           TT A YAA   EL+SI + GLFK ERVI SPQ + I    G+ V+N CANNYLGL+ HP+
Sbjct: 6   TTQARYAA---ELDSIREQGLFKAERVIVSPQSAQIELEGGRRVLNFCANNYLGLADHPQ 62

Query: 63  VVEAAHRALGERGFGLSSVRFICGTQDLHKSLEARLASFLGTEDTILYGSAFDANGGLFE 122
           V++AA  AL   GFG++SVRFICGTQDLHK LE ++A F GTEDTILY + FDANGGL+E
Sbjct: 63  VIQAAKEALDSHGFGMASVRFICGTQDLHKQLEKKIAEFFGTEDTILYAACFDANGGLYE 122

Query: 123 TLLGSDDAVISDELNHASIIDGIRLCKAKRFRYKNNDLEDLREQLKAADAAGARFKLVFT 182
            LLG +DA+ISD LNHASIIDGIRLCKA+RFRY N D+ DL +QL+AADAAGAR KL+ T
Sbjct: 123 PLLGEEDAIISDALNHASIIDGIRLCKARRFRYANCDMADLEQQLQAADAAGARTKLITT 182

Query: 183 DGVFSMDGTIARLDEIREICDEFGALLGIDECHATGFLGQRGRGSHEHRGIFGKVDIITG 242
           DG FSMDG IA LD+I  +  ++ A++ IDECH TGFLG  GRGS E  G+  K+DI TG
Sbjct: 183 DGAFSMDGFIAPLDKIAALAAKYNAMVHIDECHCTGFLGASGRGSAEVNGVMDKIDIFTG 242

Query: 243 TLGKALGGASGGFTSGRKEVVALLRQRSRPYLFSNTVAPCIVGATLKVLDLLEADTTLRD 302
           TLGKALGGA GGFT+GR EV+ LLRQRSRPYLFSN++ P +V A LKV D+L +   LR 
Sbjct: 243 TLGKALGGALGGFTTGRAEVIELLRQRSRPYLFSNSLPPHVVAAALKVFDMLSSAGELRQ 302

Query: 303 KLERNARYFRGKLGTLGFDVKPGDHPIIPVMVYDAEKAQRLSRRLLELGVYVIGFFYPVV 362
           +++ N RYFR ++   GFD+KPG HPI+PVM+YDA+KAQ ++ RLL+ G+YV GFFYPVV
Sbjct: 303 RVQENTRYFREQMTQAGFDIKPGVHPIVPVMIYDAKKAQAMATRLLDEGIYVTGFFYPVV 362

Query: 363 PRGQARIRVQISALHDSAELDQALEAFEIAGKELGII 399
           P+GQARIR Q+SA H    LD+A+ AF   G+ELG+I
Sbjct: 363 PQGQARIRTQMSAAHTREHLDRAIAAFTKVGRELGVI 399


Lambda     K      H
   0.321    0.140    0.402 

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: 527
Number of extensions: 7
Number of successful extensions: 1
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: 400
Length of database: 400
Length adjustment: 31
Effective length of query: 369
Effective length of database: 369
Effective search space:   136161
Effective search space used:   136161
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: 50 (23.9 bits)

Align candidate N515DRAFT_0037 N515DRAFT_0037 (2-amino-3-ketobutyrate coenzyme A ligase)
to HMM TIGR01822 (kbl: glycine C-acetyltransferase (EC 2.3.1.29))

Software error:

../bin/blast/fastacmd -i /tmp/list.548.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.548.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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