GapMind for catabolism of small carbon sources

 

Alignments for a candidate for pcaD in Klebsiella michiganensis M5al

Align Beta-ketoadipate enol-lactone hydrolase (EC 3.1.1.24) (characterized)
to candidate BWI76_RS16125 BWI76_RS16125 3-oxoadipate enol-lactonase

Query= reanno::pseudo3_N2E3:AO353_17230
         (266 letters)



>FitnessBrowser__Koxy:BWI76_RS16125
          Length = 255

 Score =  224 bits (570), Expect = 2e-63
 Identities = 118/252 (46%), Positives = 156/252 (61%), Gaps = 4/252 (1%)

Query: 13  YQLDGPEHAPVLVLSNSLGTNLHMWDVQIPAFTKHFRVLRFDTRGHGRSLVTPGPYSIEQ 72
           YQ+DGP+ APV+VLSNSLGT   MW  Q+ A T+HFRVLR+DT GHG +    G  ++ Q
Sbjct: 5   YQIDGPQDAPVIVLSNSLGTTRAMWQPQLEALTQHFRVLRYDTHGHGATRKN-GKVTLAQ 63

Query: 73  LGRDVLALLDALNIERAHFCGLSMGGLIGQWLGINAGERLHKLVVCNTAAKIGDPSVWNP 132
           LG DV+ALLD LNI +A FCG+SMGGL G WLG  A ER + LVV NTAA+IGD + W  
Sbjct: 64  LGEDVVALLDHLNIAKAWFCGISMGGLTGLWLGRFAPERFYGLVVANTAARIGDQASWLS 123

Query: 133 RIETVLRDGPAAMVALRDASIARWFTPDFAQANPAVAKQITDMLAATSPQGYAANCAAVR 192
           R   V ++G   + A    +  RWFT  F Q  P V   +   L     +GYAA C A+ 
Sbjct: 124 RARAVRQEGMDVVAA---GAADRWFTHAFRQKTPEVVAALCHQLTHIDAEGYAACCEALA 180

Query: 193 DADFREQLASITVPTLVIAGTEDAVTPPSGGRFIQERVRGAEYAEFYAAHLSNVQAGSAF 252
            AD R ++A I +P L++AG  D VT  +   F+ +++  +E     A+HLSN++A  AF
Sbjct: 181 AADLRAEVAQIPIPVLIVAGESDPVTTVADADFLHQQIPVSEVVVLAASHLSNIEAPKAF 240

Query: 253 SDRVLSFLLAEK 264
           S  +L F+  EK
Sbjct: 241 SSALLGFVQGEK 252


Lambda     K      H
   0.321    0.136    0.410 

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: 197
Number of extensions: 6
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: 266
Length of database: 255
Length adjustment: 24
Effective length of query: 242
Effective length of database: 231
Effective search space:    55902
Effective search space used:    55902
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_RS16125 BWI76_RS16125 (3-oxoadipate enol-lactonase)
to HMM TIGR02427 (pcaD: 3-oxoadipate enol-lactonase (EC 3.1.1.24))

Software error:

../bin/blast/fastacmd -i /tmp/list.27657.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.27657.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.