GapMind for Amino acid biosynthesis

 

Alignments for a candidate for hisC in Pedobacter sp. GW460-11-11-14-LB5

Align histidinol-phosphate aminotransferase imidazole acetol phosphate transaminase His3; EC 2.6.1.9 (characterized)
to candidate CA265_RS03630 CA265_RS03630 histidinol-phosphate transaminase

Query= CharProtDB::CH_125255
         (384 letters)



>FitnessBrowser__Pedo557:CA265_RS03630
          Length = 346

 Score =  261 bits (668), Expect = 2e-74
 Identities = 156/374 (41%), Positives = 228/374 (60%), Gaps = 33/374 (8%)

Query: 3   DLNTCLRKNILELQPYRCARDDFS--EGVLLDANECAYGSVISVDGVEFNRYPDPRQIEV 60
           D+N  +R+NI  L+PY  ARD+F     V LDANE +YGS +  +   +NRYPDP Q+++
Sbjct: 2   DINDLVRENIKNLRPYSTARDEFKGQASVFLDANENSYGSPLPAN---YNRYPDPLQLDL 58

Query: 61  KQRLCDLRNKELSITKPLTPDNICMGVGSDEIIDSLIRISCIPGKDKILMCPPSYGMYTV 120
           K  +  ++   +        +N  +G GSDE ID L R  C PGKD +++ PP+YGMY V
Sbjct: 59  KDAISKIKGVPI--------ENTFLGNGSDEAIDLLFRAFCNPGKDNVIVLPPTYGMYEV 110

Query: 121 SAKINDVEVVKVLLEPDFNLNVDAICETLSKDSAIKVFFACSPGNPTAKALKLEDIKKIL 180
           SA INDVE+ KV L P+F L+++ I ET+ K++  K+ F CSP NPT  ++  EDI+ IL
Sbjct: 111 SANINDVEIRKVSLLPNFQLDMEKIAETIDKNT--KLIFICSPNNPTGNSINREDIETIL 168

Query: 181 EHPTWNGIVVVDEAYIDFSAPDMSALTLVNEYPNLAVCQTLSKSFGLAGIRIGFCLTSKP 240
            +  +NGIVVVDEAYI++ A   + +  + EY NL V QT SK++GLA +R+G   +S  
Sbjct: 169 AN--FNGIVVVDEAYINY-ARQKTFIQELTEYGNLVVLQTFSKAWGLAALRLGMAFSSTK 225

Query: 241 IATIMNSLKAPYNISEPTSRLALDALSPQSIDKMHTYRDAIIQQRVRLCKELTTIKGMGK 300
           +  ++N +K PYNI++ T  LA +AL  ++I +++ +    + +R RL K LT +  + K
Sbjct: 226 VIDVLNKIKPPYNINQATQDLAFEAL--KNIAQVNDWIKESVAERDRLSKALTALNIVKK 283

Query: 301 IIGGYDANFILIQVLDRPEGGKPSNDAAKYLYLQMATMHKVVVRFRGTEPLCEGALRITV 360
           +    DANFIL +V D           A  +Y  +     ++VR R    LCEG LRITV
Sbjct: 284 VYPS-DANFILTEVTD-----------ALKIYDTLVD-QGIIVRDRSKVTLCEGCLRITV 330

Query: 361 GTEEENTILLKTIK 374
           GT+EEN  LL  ++
Sbjct: 331 GTKEENDKLLTVLE 344


Lambda     K      H
   0.320    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: 363
Number of extensions: 20
Number of successful extensions: 8
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: 384
Length of database: 346
Length adjustment: 29
Effective length of query: 355
Effective length of database: 317
Effective search space:   112535
Effective search space used:   112535
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: 49 (23.5 bits)

Align candidate CA265_RS03630 CA265_RS03630 (histidinol-phosphate transaminase)
to HMM TIGR01141 (hisC: histidinol-phosphate transaminase (EC 2.6.1.9))

Software error:

../bin/blast/fastacmd -i /tmp/list.10935.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.10935.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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