GapMind for Amino acid biosynthesis

 

Alignments for a candidate for thrC in Caulobacter crescentus NA1000

Align Threonine synthase; TS; EC 4.2.3.1 (uncharacterized)
to candidate CCNA_03510 CCNA_03510 threonine synthase

Query= curated2:P29363
         (469 letters)



>FitnessBrowser__Caulo:CCNA_03510
          Length = 465

 Score =  422 bits (1084), Expect = e-122
 Identities = 221/459 (48%), Positives = 293/459 (63%), Gaps = 1/459 (0%)

Query: 1   MRYISTRGQAPALNFEDVLLAGLASDGGLYVPENLPRFTLEEIASWVGLPYHELAFRVMR 60
           MRY+STRGQ+  + F D +LAGLA DGGLYVP   P FT ++IA++ G PY E+A  V+ 
Sbjct: 1   MRYVSTRGQSAPIGFLDAVLAGLAPDGGLYVPAEWPSFTAKQIAAFAGKPYAEVAAAVVG 60

Query: 61  PFVAGSIADADFKKILEETYGVFAHDAVAPLRQLNGNEWVLELFHGPTLAFKDFALQLLG 120
            FV   I   D  ++ EE Y  FAH AV P++QL  N ++LELFHGPTLAFKD A+QLLG
Sbjct: 61  KFVGDDIPADDLLQMCEEAYATFAHTAVTPVKQLTANRYLLELFHGPTLAFKDVAMQLLG 120

Query: 121 RLLDHVLAKRGERVVIMGATSGDTGSAAIEGCRRCDNVDIFIMHPHNRVSEVQRRQMTTI 180
           RL D+VL ++  ++ I+ ATSGDTG AA+E  R   N  I  + P  R+SEVQRR MTT 
Sbjct: 121 RLYDYVLERQSRKMTIICATSGDTGGAAVEAFRGRKNARIVALFPEGRISEVQRRFMTTA 180

Query: 181 LGDNIHNIAIEGNFDDCQEMVKASFADQGFLKGTRLVAVNSINWARIMAQIVYYFHAALQ 240
              N+  +++ G+FDDCQ +VK +F D  F     L  VNSINWARI AQ VYYF AA+ 
Sbjct: 181 TDANVACVSVLGSFDDCQAIVKQAFQDDQFRHAVDLSGVNSINWARIAAQSVYYFTAAVA 240

Query: 241 LGAPHRSVAFSVPTGNFGDIFAGYLARNMGLPVSQLIVATNRNDILHRFMSGNRYDKDTL 300
           LGAP R VAF VPTGNFGD +A ++A+ +GLP+  +  ATN NDIL R     RY +  +
Sbjct: 241 LGAPAREVAFVVPTGNFGDAYAAFVAKTLGLPIHSVTAATNSNDILARAFEDGRYSRGAV 300

Query: 301 HPSLSPSMDIMVSSNFERLLFDLHGRNGKAVAELLDAFKASGKLSVEDQRWTEARKLFDS 360
             + SP+MDI V+SNFERL F+   R+G        AF  +G L +        R+LF  
Sbjct: 301 AATQSPAMDIQVASNFERLYFEAVRRDGVETGRAFRAFADTGLLDIPPAAHAWMRELFRG 360

Query: 361 LAVSDEQTCETIAEVYRSSGELLDPHTAIGVRAARECRRSLSVPMVTLGTAHPVKFPEAV 420
            +VS+  T +T+      +GE++DPHTA+G+ AA+  R   ++P+V L TAHP KFPEAV
Sbjct: 361 ASVSEADTAKTMLSTLNETGEVVDPHTAVGLAAAQGVRIDPAIPVVVLSTAHPAKFPEAV 420

Query: 421 EKAGIGQAPALPAHLADLFEREERCTVLPNELAKVQAFV 459
           + A  G  P+ P    DL ++ E+   LP + + V+AFV
Sbjct: 421 Q-AATGLLPSTPRATPDLSKKPEKFERLPADGSSVKAFV 458


Lambda     K      H
   0.322    0.137    0.407 

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: 541
Number of extensions: 22
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: 469
Length of database: 465
Length adjustment: 33
Effective length of query: 436
Effective length of database: 432
Effective search space:   188352
Effective search space used:   188352
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 (21.9 bits)
S2: 51 (24.3 bits)

Align candidate CCNA_03510 CCNA_03510 (threonine synthase)
to HMM TIGR00260 (thrC: threonine synthase (EC 4.2.3.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.13125.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.13125.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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