GapMind for Amino acid biosynthesis

 

Alignments for a candidate for asp-kinase in Herbaspirillum seropedicae SmR1

Align Aspartate kinase; Aspartokinase; EC 2.7.2.4 (characterized)
to candidate HSERO_RS10695 HSERO_RS10695 aspartate kinase

Query= SwissProt::C3JXY0
         (413 letters)



>FitnessBrowser__HerbieS:HSERO_RS10695
          Length = 417

 Score =  515 bits (1327), Expect = e-151
 Identities = 270/417 (64%), Positives = 330/417 (79%), Gaps = 12/417 (2%)

Query: 1   MALIVQKFGGTSVGSVERIEQVADKVKKFRDAGDDLVVVLSAMSGETNRLIDLAKAISGD 60
           MAL V K+GGTS+GS+ERI+ VA +V K+ DAG  +VVV SAMSGETNRL+ +AK I   
Sbjct: 1   MALYVHKYGGTSMGSIERIQNVAKRVAKWHDAGHQIVVVPSAMSGETNRLLGMAKEIMA- 59

Query: 61  QQPLPRELDVIVSTGEQVTIALLAMALNKRGVPAVSYTGSQVRILTDSAHTKARILQIDD 120
            QP  RELD++ STGEQV++ALLA+AL   G  AVSY G QV I TDSA TKARI  IDD
Sbjct: 60  -QPDGRELDMLASTGEQVSVALLAIALQALGKQAVSYAGWQVPIKTDSAFTKARIRSIDD 118

Query: 121 QKIRTDLKAGRVVVVAGFQGVDEQGNITTLGRGGSDTTGVALAAALKADECQIYTDVDGV 180
            K+R DL AG++V++ GFQGVD  GNITTLGRGGSDT+ VA+AAA+KA EC IYTDVDGV
Sbjct: 119 AKVRKDLNAGKIVIITGFQGVDADGNITTLGRGGSDTSAVAVAAAIKAAECLIYTDVDGV 178

Query: 181 YTTDPRVVSVAQRLDKITFEEMLEMASLGSKVLQIRAVEFAGKYNVPLRVLHSFKE---- 236
           YTTDPRVVS A+RL  +TFEEMLEMASLGSKVLQIR+VEFAG Y +P RVL S  +    
Sbjct: 179 YTTDPRVVSEARRLKTVTFEEMLEMASLGSKVLQIRSVEFAGNYKMPTRVLSSLTDPLTP 238

Query: 237 -----GPGTLITIDEEESMEQPIISGIAFNRDEAKLTIRGVPDTPGVAFKILGPISGANI 291
                  GTLI+ +E+++MEQ  I+GIAF+RDEAK+T+ GVPD PG+A++ILGP++ ANI
Sbjct: 239 LAEEAASGTLISFEEDKNMEQATITGIAFSRDEAKITVLGVPDRPGIAYQILGPVADANI 298

Query: 292 EVDMIVQNVSHDNTTDFTFTVHRNEYDAAERILQNTAK-EIGAREVVGDTKIAKVSIVGV 350
           EVDMI+QN S +  TDFTFTV R EY  A  +L N+ K  IGA  + GDTK++KVS+VGV
Sbjct: 299 EVDMIIQNQSVEGKTDFTFTVPRGEYAKAVEVLNNSVKAHIGAAAINGDTKVSKVSVVGV 358

Query: 351 GMRSHAGVASRMFEALAKESINIQMISTSEIKVSVVIEEKYLELAVRALHTAFELDA 407
           GMRSH G+AS+MF  L++E +NIQMISTSEIK+SV+I+EKY+ELAVRALH AF+LD+
Sbjct: 359 GMRSHVGIASQMFRTLSEEGVNIQMISTSEIKISVLIDEKYMELAVRALHKAFDLDS 415


Lambda     K      H
   0.316    0.133    0.357 

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: 507
Number of extensions: 18
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: 413
Length of database: 417
Length adjustment: 31
Effective length of query: 382
Effective length of database: 386
Effective search space:   147452
Effective search space used:   147452
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)

Align candidate HSERO_RS10695 HSERO_RS10695 (aspartate kinase)
to HMM TIGR00657 (aspartate kinase (EC 2.7.2.4))

Software error:

../bin/blast/fastacmd -i /tmp/list.6689.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.6689.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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