GapMind for Amino acid biosynthesis

 

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

Align aspartate kinase (EC 2.7.2.4) (characterized)
to candidate CA265_RS06275 CA265_RS06275 aspartate kinase

Query= BRENDA::Q57991
         (473 letters)



>FitnessBrowser__Pedo557:CA265_RS06275
          Length = 422

 Score =  184 bits (466), Expect = 6e-51
 Identities = 132/421 (31%), Positives = 214/421 (50%), Gaps = 40/421 (9%)

Query: 4   VMKFGGTSVGSGERIRHVAKIVTKRKKEDDDVVVVVSAMSEVTNALVEISQQALDVRDIA 63
           + KFGG SV   + +++VA IV   KK   ++++V+SAM +VT+ L +++Q  L   + A
Sbjct: 3   IFKFGGASVKDADGVKNVANIVRDYKK--GNLLIVISAMGKVTDKLEKLTQAFLSQNNEA 60

Query: 64  KVGDFIKFIREKHYKAIEEAIKSEEIKEEVKKIIDSRIEELEKVLIGVAYLGELTPKSR- 122
                   I+  H+  I+E  + +          +   +++    + + +L E  P +  
Sbjct: 61  HA--IFDEIKHFHFNIIDELFQGKA---------NPVYDDVANTFVEIDWLIEDEPDNNE 109

Query: 123 ----DYILSFGERLSSPILSGAIRDLGEKSIALEGGEAGIITDNNFGSARVKRLE----V 174
               D I+S GE +S+ I++  + + G K++  +     I TDN++   +V   +    +
Sbjct: 110 DYIYDQIVSIGEVVSTKIVAAWLNETGNKTLWADARNY-IQTDNSYREGKVDWAKTNQMI 168

Query: 175 KERLLPLLKEGIIPVVTGFIGTTEEGYITTLGRGGSDYSAALIGYGLDADIIEIWTDVSG 234
           +  LLPLL + II V  GFIG T E Y TTLGR GSDYSAA+    L+A  + IW DV G
Sbjct: 169 QRDLLPLLNDNII-VTQGFIGGTSENYTTTLGREGSDYSAAIFASCLNAAALTIWKDVPG 227

Query: 235 VYTTDPRLVPTARRIPKLSYIEAMELAYFGAKVLHPRTIEPAMEKGIPILVKNTFEPESE 294
           V   DP+      +I +LSY +A+EL Y+GA V+HP+TI+P   KGIP+ V++  +PE  
Sbjct: 228 VLNADPKWFDETEKIAQLSYHDAIELTYYGATVIHPKTIKPLQNKGIPLFVRSFIQPEGS 287

Query: 295 GTLIT---NDMEMSDSIVKAISTIKNVALINIFGAG-MVGVSGTAARIFKALGEEEVNVI 350
           GT IT   N + +   I K      N ALI+IF       +    + IF+     ++ + 
Sbjct: 288 GTAITKENNPLPIPSFIFKV-----NQALISIFPKDYSFIIEENLSNIFELFHTHKIKIN 342

Query: 351 LISQGSSETNISLVVSEEDVDKALKALKREFGDFGKKS-------FLNNNLIRDVSVDKD 403
            +   +   ++S+      ++K +K L  EF     K        + N   I  V+VDKD
Sbjct: 343 TMLNSAISFSVSVDDHPTQIEKLIKDLSEEFTVKYNKGLELVTIRYYNQQTIDRVTVDKD 402

Query: 404 V 404
           +
Sbjct: 403 I 403


Lambda     K      H
   0.316    0.135    0.364 

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: 443
Number of extensions: 24
Number of successful extensions: 3
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: 473
Length of database: 422
Length adjustment: 33
Effective length of query: 440
Effective length of database: 389
Effective search space:   171160
Effective search space used:   171160
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: 51 (24.3 bits)

Align candidate CA265_RS06275 CA265_RS06275 (aspartate kinase)
to HMM TIGR00657 (aspartate kinase (EC 2.7.2.4))

Software error:

../bin/blast/fastacmd -i /tmp/list.19817.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.19817.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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