Alignments for a candidate for aroC in Desulfovibrio vulgaris Miyazaki F

Align Chorismate synthase; CS; 5-enolpyruvylshikimate-3-phosphate phospholyase; EPSP phospholyase; EC 4.2.3.5 (characterized)
to candidate 8500660 DvMF_1408 chorismate synthase (RefSeq)

Query= SwissProt::P12008
         (361 letters)



>FitnessBrowser__Miya:8500660
          Length = 353

 Score =  366 bits (939), Expect = e-106
 Identities = 187/351 (53%), Positives = 241/351 (68%), Gaps = 4/351 (1%)

Query: 1   MAGNTIGQLFRVTTFGESHGLALGCIVDGVPPGIPLTEADLQHDLDRRRPGTSRYT---T 57
           M+GNT G++FR+TT+GESHG  LG +VDG P G+PL E+ +Q +LD RRPG++      T
Sbjct: 1   MSGNTFGRIFRLTTYGESHGPGLGGVVDGCPAGVPLDESVIQRELDLRRPGSASAGLAGT 60

Query: 58  QRREPDQVKILSGVFEGVTTGTSIGLLIENTDQRSQDYSAIKDVFRPGHADYTYEQKYGL 117
            R+EPD V++LSGVFEGVTTGT IG  I N DQRS+DY  +  ++RPGHAD TY+ KYGL
Sbjct: 61  ARKEPDTVRLLSGVFEGVTTGTPIGFHIANEDQRSRDYGDLAKLYRPGHADITYDAKYGL 120

Query: 118 RDYRGGGRSSARETAMRVAAGAIAKKYLAEKFGIEIRGCLTQMGDIPLDIKDWSQVEQNP 177
           RD+RGGGR+S RET  RVA GA+A   LA    IE+R    ++G +P D+ D +  +   
Sbjct: 121 RDFRGGGRASGRETVSRVAGGAVALALLA-MHDIEVRAYTVEIGGVPADVVDPAGAQGRL 179

Query: 178 FFCPDPDKIDALDELMRALKKEGDSIGAKVTVVASGVPAGLGEPVFDRLDADIAHALMSI 237
           FF PDPD + A + L+  ++ EGD++G  V V A+GVPAGLGEPVFD+LDA +AHA+MS+
Sbjct: 180 FFSPDPDVVPAWESLVHDVRAEGDTLGGIVQVEATGVPAGLGEPVFDKLDALLAHAMMSV 239

Query: 238 NAVKGVEIGDGFDVVALRGSQNRDEITKDGFQSNHAGGILGGISSGQQIIAHMALKPTSS 297
            AVK VE+G G +   LRGS+N D I   GF +NHAGGILGGIS+GQ I+    +KP  S
Sbjct: 240 GAVKAVEVGAGLEAARLRGSENNDPIIPGGFHTNHAGGILGGISNGQPIVVRATVKPIPS 299

Query: 298 ITVPGRTINRFGEEVEMITKGRHDPCVGIRAVPIAEAMLAIVLMDHLLRQR 348
           I     TI+  G    +   GRHD C   R VP+ +AM A+VL D LL QR
Sbjct: 300 IAQEQITIDTNGRPAPLRVGGRHDICAIPRVVPVLKAMAALVLADSLLLQR 350


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: 435
Number of extensions: 17
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: 361
Length of database: 353
Length adjustment: 29
Effective length of query: 332
Effective length of database: 324
Effective search space:   107568
Effective search space used:   107568
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 8500660 DvMF_1408 (chorismate synthase (RefSeq))
to HMM TIGR00033 (aroC: chorismate synthase (EC 4.2.3.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.17662.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.17662.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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