GapMind for catabolism of small carbon sources

 

Alignments for a candidate for epi in Caulobacter crescentus NA1000

Align Ethylmalonyl-CoA/methylmalonyl-CoA epimerase; EC 5.1.99.-; EC 5.1.99.1 (characterized)
to candidate CCNA_02011 CCNA_02011 methylmalonyl CoA epimerase

Query= SwissProt::Q3IZP4
         (134 letters)



>FitnessBrowser__Caulo:CCNA_02011
          Length = 139

 Score =  145 bits (365), Expect = 3e-40
 Identities = 73/132 (55%), Positives = 91/132 (68%), Gaps = 3/132 (2%)

Query: 1   MIGRLNHVAIAVPDLEAAAAQYRNTLGA-EVGAPQDEPDHGVTVIFITLPNTKIELLHPL 59
           MIG+LNHV +A P ++ +   YR+ LGA  +      P+ GV V F+ LPN++IEL+ P 
Sbjct: 1   MIGKLNHVGVATPSIDESVKMYRDLLGATSITDKWAMPEQGVWVCFVNLPNSQIELIEPY 60

Query: 60  GEGSPIAGFLEKNPAGGIHHICYEVEDILAARDRLKEAGARVLGSGEPKIGAHGKPVLFL 119
           GE SPI GFL KNP GG HHIC+EVE+I  ARD L   GA VL  GEP+IGAHG  ++F+
Sbjct: 61  GEKSPIHGFLAKNPKGGQHHICFEVENIYEARDALVAKGATVL--GEPRIGAHGTLIIFV 118

Query: 120 HPKDFNGCLVEL 131
           HPKD  G LVEL
Sbjct: 119 HPKDMGGMLVEL 130


Lambda     K      H
   0.319    0.141    0.421 

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: 110
Number of extensions: 8
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: 134
Length of database: 139
Length adjustment: 15
Effective length of query: 119
Effective length of database: 124
Effective search space:    14756
Effective search space used:    14756
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 (21.7 bits)
S2: 42 (20.8 bits)

Align candidate CCNA_02011 CCNA_02011 (methylmalonyl CoA epimerase)
to HMM TIGR03081 (mce: methylmalonyl-CoA epimerase (EC 5.1.99.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.11258.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.11258.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.