GapMind for catabolism of small carbon sources

 

Alignments for a candidate for hutI in Caulobacter crescentus NA1000

Align Imidazolonepropionase (EC 3.5.2.7) (characterized)
to candidate CCNA_01011 CCNA_01011 imidazolonepropionase

Query= reanno::Korea:Ga0059261_3964
         (395 letters)



>FitnessBrowser__Caulo:CCNA_01011
          Length = 401

 Score =  538 bits (1387), Expect = e-158
 Identities = 285/397 (71%), Positives = 318/397 (80%), Gaps = 8/397 (2%)

Query: 6   DTLWRNARLATMTG--DGLGIVEQGAIAATGGTISYIGPDSDAP--DAAEIVDCQGRWIT 61
           D +W NARLAT+     GLGIVE G +A  GG I+Y GP + AP  +AAE +D  GRWIT
Sbjct: 4   DRVWINARLATLAPGRQGLGIVEDGVVACLGGRIAYAGPAAAAPTFEAAESIDVDGRWIT 63

Query: 62  PGLVDCHTHLVHAGNRAREFEARLEGATYEEIARAGGGILSTVTATRAASEDELIASALP 121
           PGL+D HTHLV AG+RA EFE RL GA+YEEIARAGGGI+ST+ ATRAASE ELIA+ALP
Sbjct: 64  PGLIDPHTHLVFAGDRAHEFELRLAGASYEEIARAGGGIVSTMRATRAASEAELIAAALP 123

Query: 122 RLDQLIAEGVTTVEIKSGYGLTLDDELKMLRAARSLGEARNVHIRTTLLAAHAVPPEYKG 181
           RLD L+AEGVTTVEIKSGYGL+LDDELK LRAAR+L + R V + TT L AHA+PPEY+ 
Sbjct: 124 RLDALLAEGVTTVEIKSGYGLSLDDELKSLRAARALADIRRVGVTTTFLGAHALPPEYRD 183

Query: 182 DADGYVDLVCETIIPA--AIGHADAVDAFCEGIGFSPEQTDRVLAAAVAHGLPVKLHAEQ 239
           D DGYVDLVC+T+IPA  A G ADAVD FCEGIGFSP Q  RV  AA AHGLPVKLHAEQ
Sbjct: 184 DEDGYVDLVCQTMIPAIAARGLADAVDGFCEGIGFSPAQIRRVFDAAKAHGLPVKLHAEQ 243

Query: 240 LSNLHGAALAAHHNALSADHLEHLDEAGIAAMAASGTVATLLPGAFYFTREEHRPPIAAL 299
           LSNL GAALAA +NALSADHLEHLD AGIAAMAASGTVATLLPGA+YFTRE   PPIAAL
Sbjct: 244 LSNLSGAALAAEYNALSADHLEHLDAAGIAAMAASGTVATLLPGAYYFTRETLVPPIAAL 303

Query: 300 RAAGVPIALATDCNPGTSPMASILLAANMGATFFRLTVTECLRGITVNGARALGLRT--G 357
           RAAGVP+ALATDCNPGTSP+ S LL  NM AT FR+TV ECL G+T   ARALGL    G
Sbjct: 304 RAAGVPMALATDCNPGTSPLTSPLLVMNMAATLFRMTVEECLAGVTREAARALGLLADRG 363

Query: 358 TLEPGGPADLAIWNVTDLAELVYRIGANPLHSRIYAG 394
           TLE G   DLAIW+V   AELVYR+G NPLH+R++ G
Sbjct: 364 TLEAGKACDLAIWDVERPAELVYRMGFNPLHARVWRG 400


Lambda     K      H
   0.318    0.134    0.396 

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: 563
Number of extensions: 21
Number of successful extensions: 5
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: 395
Length of database: 401
Length adjustment: 31
Effective length of query: 364
Effective length of database: 370
Effective search space:   134680
Effective search space used:   134680
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: 50 (23.9 bits)

Align candidate CCNA_01011 CCNA_01011 (imidazolonepropionase)
to HMM TIGR01224 (hutI: imidazolonepropionase (EC 3.5.2.7))

Software error:

../bin/blast/fastacmd -i /tmp/list.15569.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.15569.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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