GapMind for Amino acid biosynthesis

 

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

Align Aspartate-semialdehyde dehydrogenase 2; ASA dehydrogenase 2; ASADH 2; Aspartate-beta-semialdehyde dehydrogenase 2; EC 1.2.1.11 (characterized)
to candidate CA265_RS15395 CA265_RS15395 aspartate-semialdehyde dehydrogenase

Query= SwissProt::P23247
         (337 letters)



>FitnessBrowser__Pedo557:CA265_RS15395
          Length = 329

 Score =  280 bits (716), Expect = 4e-80
 Identities = 161/331 (48%), Positives = 215/331 (64%), Gaps = 11/331 (3%)

Query: 7   VAIFGATGAVGETMLEVLQEREFPVDELFLLASERSEGKTYRFNGKTVRVQNVEEFDWSQ 66
           VA+ GATG VG  ML+VL+ER FP+ EL  +ASE+S GK   F GK   + +++     +
Sbjct: 3   VAVVGATGLVGTVMLKVLEERNFPLTELIPVASEKSVGKEITFKGKKFPIVSMDTAISMK 62

Query: 67  VHIALFSAGGELSAKWAPIAAEAGVVVIDNTSHFRYDYDIPLVVPEVNPEAIAEFRNRNI 126
             IALFSAGG  S + AP   EAG  VIDN+S +R D  I L+VPEVN   ++   +  I
Sbjct: 63  PDIALFSAGGNTSLEHAPRFKEAGTTVIDNSSAWRMDPAIKLIVPEVNAHELS--IDNKI 120

Query: 127 IANPNCSTIQMLVALKPIYDAVGIERINVTTYQSVSGAGKAGIDELAGQTAKLLNGYPAE 186
           IANPNCSTIQM+V LKP++D   I+R+ V+TYQSV+G G   +++L  +  K ++G  A 
Sbjct: 121 IANPNCSTIQMVVVLKPLHDKYKIKRVVVSTYQSVTGTGVKAVEQLMNE-RKGVDGPKA- 178

Query: 187 TNTFSQQIAFNCIPQIDQFMDNGYTKEEMKMVWETQKIFNDPSIMVNPTCVRVPVFYGHA 246
              +  +I  N +P ID FM+NGYTKEEMKMV ET KI +D SI V  T VR+PV  GH+
Sbjct: 179 ---YPYEIDLNVLPHIDVFMENGYTKEEMKMVKETNKIMSDDSIKVTATTVRIPVMGGHS 235

Query: 247 EAVHVETRAPIDAEQVMDMLEQTDGI---ELFRGADFPTQVRDAGGKDHVLVGRVRNDIS 303
           E+V++E     D  +V  +LE++ GI   +      +P   +DA  KD V VGR+R D S
Sbjct: 236 ESVNIEFENDFDLAEVRSILEKSPGIIVVDDVANLKYP-MPKDAHEKDEVFVGRIRRDES 294

Query: 304 HHSGINLWVVADNVRKGAATNAVQIAELLVR 334
               +NLW+VADN+RKGAATNAVQIAE L++
Sbjct: 295 APKALNLWIVADNLRKGAATNAVQIAEYLIQ 325


Lambda     K      H
   0.319    0.135    0.395 

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: 278
Number of extensions: 12
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: 337
Length of database: 329
Length adjustment: 28
Effective length of query: 309
Effective length of database: 301
Effective search space:    93009
Effective search space used:    93009
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_RS15395 CA265_RS15395 (aspartate-semialdehyde dehydrogenase)
to HMM TIGR01296 (asd: aspartate-semialdehyde dehydrogenase (EC 1.2.1.11))

Software error:

../bin/blast/fastacmd -i /tmp/list.17328.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.17328.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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