GapMind for Amino acid biosynthesis

 

Alignments for a candidate for aroC in Desulfovibrio vulgaris Hildenborough

Align Chorismate synthase; CS; 5-enolpyruvylshikimate-3-phosphate phospholyase; EPSP phospholyase; EC 4.2.3.5 (characterized)
to candidate 206322 DVU0894 chorismate synthase

Query= SwissProt::P12008
         (361 letters)



>MicrobesOnline__882:206322
          Length = 354

 Score =  386 bits (991), Expect = e-112
 Identities = 191/348 (54%), Positives = 252/348 (72%), Gaps = 1/348 (0%)

Query: 1   MAGNTIGQLFRVTTFGESHGLALGCIVDGVPPGIPLTEADLQHDLDRRRPGTSRYTTQRR 60
           M+GNT+G+LFR+TT+GESHG  LG ++DG P GI L EA +Q +LD RRPG +  +T R+
Sbjct: 1   MSGNTLGRLFRLTTYGESHGAGLGGVIDGCPAGIALDEAVIQRELDLRRPGGNSASTTRQ 60

Query: 61  EPDQVKILSGVFEGVTTGTSIGLLIENTDQRSQDYSAIKDVFRPGHADYTYEQKYGLRDY 120
           EPD+V++LSGVFEGVTTGT I   +EN DQRS+DY  I  ++RPGHAD+TY+ K+G+RDY
Sbjct: 61  EPDRVRLLSGVFEGVTTGTPIAFHVENVDQRSRDYGEIARLYRPGHADFTYDAKFGVRDY 120

Query: 121 RGGGRSSARETAMRVAAGAIAKKYLAEKFGIEIRGCLTQMGDIPLDIKDWSQVEQNPFFC 180
           RGGGR+S RET  RVA GAIA+  LA + GI +R    ++G +P D+ D +  +Q PFF 
Sbjct: 121 RGGGRASGRETLSRVAGGAIAQALLA-RHGIAVRAFTVELGGVPADLVDVAGAQQRPFFS 179

Query: 181 PDPDKIDALDELMRALKKEGDSIGAKVTVVASGVPAGLGEPVFDRLDADIAHALMSINAV 240
           PDPD ++A ++++R +K EGD++G  V V A+GVPAGLGEPVFD+LDA +A+ALMS+ AV
Sbjct: 180 PDPDVVEAWEDMVRTVKGEGDTLGGIVQVEATGVPAGLGEPVFDKLDAVLAYALMSVGAV 239

Query: 241 KGVEIGDGFDVVALRGSQNRDEITKDGFQSNHAGGILGGISSGQQIIAHMALKPTSSITV 300
           KGVE+G GF+   + GS N D I   GF +NHAGGILGGIS+G+ I+   A+KP  SI  
Sbjct: 240 KGVEVGAGFEAARMHGSDNNDPIVPSGFFTNHAGGILGGISNGETIVLRAAVKPIPSIAQ 299

Query: 301 PGRTINRFGEEVEMITKGRHDPCVGIRAVPIAEAMLAIVLMDHLLRQR 348
              TI+R G+   +   GRHD     R VP+ +AM A+VL D LL QR
Sbjct: 300 EQITIDRDGKPSALFIAGRHDISAIPRIVPVLKAMTALVLADMLLMQR 347


Lambda     K      H
   0.319    0.138    0.404 

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: 397
Number of extensions: 18
Number of successful extensions: 2
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: 361
Length of database: 354
Length adjustment: 29
Effective length of query: 332
Effective length of database: 325
Effective search space:   107900
Effective search space used:   107900
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: 49 (23.5 bits)

Align candidate 206322 DVU0894 (chorismate synthase)
to HMM TIGR00033 (aroC: chorismate synthase (EC 4.2.3.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.20294.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.20294.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.