GapMind for Amino acid biosynthesis

 

Alignments for a candidate for hisF in Bacteroides thetaiotaomicron VPI-5482

Align Imidazole glycerol phosphate synthase subunit HisF; IGP synthase cyclase subunit; IGP synthase subunit HisF; ImGP synthase subunit HisF; IGPS subunit HisF; EC 4.3.2.10 (characterized)
to candidate 350906 BT1378 imidazole glycerol phosphate synthase subunit hisF (NCBI ptt file)

Query= SwissProt::Q9X0C6
         (253 letters)



>FitnessBrowser__Btheta:350906
          Length = 251

 Score =  276 bits (706), Expect = 3e-79
 Identities = 142/250 (56%), Positives = 179/250 (71%), Gaps = 1/250 (0%)

Query: 1   MLAKRIIACLDVKDGRVVKGTNFENLRDSGDPVELGKFYSEIGIDELVFLDITASVEKRK 60
           MLAKRII CLD+KDG+ VKGTNF NLR +GDPVELG+ YSE G DELVFLDITAS E RK
Sbjct: 1   MLAKRIIPCLDIKDGQTVKGTNFVNLRQAGDPVELGRAYSEQGADELVFLDITASHEGRK 60

Query: 61  TMLELVEKVAEQIDIPFTVGGGIHDFETASELILRGADKVSINTAAVENPSLITQIAQTF 120
           T  ELV+++A  I+IPFTVGGGI++      L+  GADK+SIN++A+ NP LI  IA+ F
Sbjct: 61  TFTELVKRIAANINIPFTVGGGINELSDVDRLLNAGADKISINSSAIRNPQLIDDIAKNF 120

Query: 121 GSQAVVVAIDAKRVDGEFMVFTYSGKKNTGILLRDWVVEVEKRGAGEILLTSIDRDGTKS 180
           GSQ  V+A+DAK+ +  +  +   G+  T   L  W  E ++RGAGEIL TS++ DG K+
Sbjct: 121 GSQVCVLAVDAKQTENGWKCYLNGGRIETDKELLAWTKEAQERGAGEILFTSMNHDGVKT 180

Query: 181 GYDTEMIRFVRPLTTLPIIASGGAGKMEHFLEAFLAG-ADAALAASVFHFREIDVRELKE 239
           GY  E +  +    ++P+IASGGAG  EHF +AFL G ADAALAASVFHF EI + ELK 
Sbjct: 181 GYANEALASLADQLSIPVIASGGAGLKEHFRDAFLVGKADAALAASVFHFGEIKIPELKS 240

Query: 240 YLKKHGVNVR 249
           YL   G+ +R
Sbjct: 241 YLCGEGITIR 250


Lambda     K      H
   0.320    0.138    0.384 

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: 211
Number of extensions: 7
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: 253
Length of database: 251
Length adjustment: 24
Effective length of query: 229
Effective length of database: 227
Effective search space:    51983
Effective search space used:    51983
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 (21.8 bits)
S2: 46 (22.3 bits)

Align candidate 350906 BT1378 (imidazole glycerol phosphate synthase subunit hisF (NCBI ptt file))
to HMM TIGR00735 (hisF: imidazoleglycerol phosphate synthase, cyclase subunit)

Software error:

../bin/blast/fastacmd -i /tmp/list.26785.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.26785.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.