GapMind for catabolism of small carbon sources

 

Alignments for a candidate for glk in Caulobacter crescentus NA1000

Align glucokinase (EC 2.7.1.1; EC 2.7.1.2; EC 2.7.1.8) (characterized)
to candidate CCNA_02133 CCNA_02133 glucokinase

Query= ecocyc::GLUCOKIN-MONOMER
         (321 letters)



>FitnessBrowser__Caulo:CCNA_02133
          Length = 331

 Score =  209 bits (533), Expect = 6e-59
 Identities = 125/313 (39%), Positives = 176/313 (56%), Gaps = 6/313 (1%)

Query: 6   LVGDVGGTNARLALCDIASGE--ISQAKTYSGLDYPSLEAVIRVYLEEHKVEVKD-GCIA 62
           LVGD+GGTNAR AL +    +  + +   Y G DY + E  I  YL +  V+  D   +A
Sbjct: 11  LVGDIGGTNARFALVEFDGQDPRLIEPTAYRGEDYGTAEDAIEEYLRKVGVKHPDQAVVA 70

Query: 63  IACPITGDWVAMTNHTWAFSIAEMKKNLGFSHLEIINDFTAVSMAIPMLKKEHLIQFGGA 122
           +A PI    V MTN  W  S   +++  GF + ++INDFTA ++A P +  + L Q G  
Sbjct: 71  VAGPIDHGQVHMTNLDWRISEDGLRRAGGFRNAKLINDFTAQALAAPRVGPKDLRQIGEL 130

Query: 123 EPVEGKPIAVYGAGTGLGVAHLVHVDKRWVSLPGEGGHVDFAPNSEEEAIILEIL--RAE 180
                  +A+ G GTG GVA LV    + + L  EGGHV FAP  + E  +L  L  R +
Sbjct: 131 PTSGEGDLAILGPGTGFGVAGLVRRHGQEIPLATEGGHVAFAPVDDVEIEVLRALTRRLD 190

Query: 181 IGHVSAERVLSGPGLVNLYRAIVKADNRLPENLKPKDITERALADSCTDCRRALSLFCVI 240
            G VS ER+LSGPG+ +L+  +  A+ R  E L  K ITERA+ + C D    ++ FC I
Sbjct: 191 GGRVSVERILSGPGMEDLHVDLAAAEGRGVEALTAKQITERAV-EGCADSLATVNRFCAI 249

Query: 241 MGRFGGNLALNLGTFGGVFIAGGIVPRFLEFFKASGFRAAFEDKGRFKEYVHDIPVYLIV 300
           +G   G++AL LG  GGVFIAGGI PR ++  + S FR  F+ KGR   +   IP ++I+
Sbjct: 250 LGSTAGDIALTLGARGGVFIAGGIAPRIIDILEKSPFRERFDSKGRLSGFTRSIPTHVIL 309

Query: 301 HDNPGLLGSGAHL 313
           H +  L+G+   L
Sbjct: 310 HPHTALIGAAVAL 322


Lambda     K      H
   0.322    0.141    0.426 

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: 319
Number of extensions: 14
Number of successful extensions: 4
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: 321
Length of database: 331
Length adjustment: 28
Effective length of query: 293
Effective length of database: 303
Effective search space:    88779
Effective search space used:    88779
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: 48 (23.1 bits)

Align candidate CCNA_02133 CCNA_02133 (glucokinase)
to HMM TIGR00749 (glk: glucokinase (EC 2.7.1.2))

Software error:

../bin/blast/fastacmd -i /tmp/list.13487.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.13487.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.