GapMind for Amino acid biosynthesis

 

Alignments for a candidate for thrC in Sphingomonas koreensis DSMZ 15582

Align Threonine synthase; TS; EC 4.2.3.1 (characterized)
to candidate Ga0059261_1999 Ga0059261_1999 threonine synthase

Query= SwissProt::P23669
         (481 letters)



>FitnessBrowser__Korea:Ga0059261_1999
          Length = 466

 Score =  330 bits (846), Expect = 6e-95
 Identities = 201/477 (42%), Positives = 278/477 (58%), Gaps = 21/477 (4%)

Query: 1   MDYISTRDASRTPARFSDILLGGLAPDGGLYLPATYPQLDDAQLSKWREVLANEGYAALA 60
           M Y STR  +     F D+ L GLA DGGLY+P  +P+    Q++     LA   Y   A
Sbjct: 1   MRYQSTRGTA-PELDFRDVTLAGLAKDGGLYVPVEWPRFTPEQIAD----LAGLSYVETA 55

Query: 61  AEVISLFV-DDIPVEDIKAITARAYTYPKFNSEDIVPVTELEDNIYLGHLSEGPTAAFKD 119
             V++ F    +   +++ +   AY   +F+ + + P+ +L+   +L  L  GPT AFKD
Sbjct: 56  VRVMAPFTAGSLSEAELRELCTAAYG--RFSHDAVTPLVQLDHRHFLLELFHGPTLAFKD 113

Query: 120 MAMQLLGELFEYELRRRNETINILGATSGDTGSSAEYAMRGREGIRVFMLTPAGRMTPFQ 179
           +A+QLLG  FE  L+  ++ + I+GATSGDTGS+A  A+ GREGI +FML P  R++  Q
Sbjct: 114 VALQLLGLFFERFLKGTDQHLTIVGATSGDTGSAAIDAVAGREGIDIFMLHPNKRVSDVQ 173

Query: 180 QAQMFGLDDPNIFNIALDGVFDDCQDVVKAVSADAEFKKDNRIGAVNSINWARLMAQVVY 239
           + QM  +  PN+ NIA++G FDD Q +VKA+  DA F    ++ AVNSINWARLMAQVVY
Sbjct: 174 RRQMTTVLSPNVHNIAIEGSFDDAQAMVKAMFNDAGFAGRFQVTAVNSINWARLMAQVVY 233

Query: 240 YVSSWIRTTTSNDQKVSFSVPTGNFGDICAGHIARQMGLPIDRLIVATNENDVLDEFFRT 299
           Y  + +R    N + V+FSVPTGNFGD+ AG++A +MGLP+ +LIVATN ND+L      
Sbjct: 234 YFYAAVRLGAPN-RAVAFSVPTGNFGDVFAGYVAARMGLPVAKLIVATNVNDILHRALSA 292

Query: 300 GDYRVRSSADTHETSSPSMDISRASNFERFIFDLLGRDATRVNDLFGTQVRQGGFSLADD 359
           GDY   S+     T++PSMDI  +SNFER +FDL GRD   + D    Q+R  GF  +  
Sbjct: 293 GDY---STGTVTPTAAPSMDIQVSSNFERLLFDLAGRDGAALAD----QMR--GFEASKA 343

Query: 360 ---ANFEKAAAEYGFASGRSTHADRVATIADVHSRLDVLIDPHTADGVHVARQWRDEVNT 416
               N ++  A   FAS R   A+    +A  H+R D ++DPHTA G+  AR+     + 
Sbjct: 344 MRLTNAQQEGAAKLFASDRIDAAEMAQAMAWAHARADEILDPHTAIGLAAARRADIATDV 403

Query: 417 PIIVLETALPVKFADTIVEAIGEAPQTPERFAAIMDAPFKVSDLPNDTDAVKQYIVD 473
           PI+ L TA P KF D +  A G  P  P R   + D   +   LP   DAV  YI +
Sbjct: 404 PIVTLATAHPAKFGDAVERATGIRPTLPARIGDLFDREERYDVLPATFDAVTGYIAE 460


Lambda     K      H
   0.319    0.135    0.390 

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: 588
Number of extensions: 25
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: 481
Length of database: 466
Length adjustment: 33
Effective length of query: 448
Effective length of database: 433
Effective search space:   193984
Effective search space used:   193984
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: 51 (24.3 bits)

Align candidate Ga0059261_1999 Ga0059261_1999 (threonine synthase)
to HMM TIGR00260 (thrC: threonine synthase (EC 4.2.3.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.32441.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.32441.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.