GapMind for Amino acid biosynthesis

 

Alignments for a candidate for asd in Shewanella amazonensis SB2B

Align Aspartate-semialdehyde dehydrogenase 2; ASA dehydrogenase 2; ASADH 2; Aspartate-beta-semialdehyde dehydrogenase 2; EC 1.2.1.11 (characterized)
to candidate 6938019 Sama_2152 aspartate-semialdehyde dehydrogenase (RefSeq)

Query= SwissProt::P23247
         (337 letters)



>FitnessBrowser__SB2B:6938019
          Length = 338

 Score =  488 bits (1256), Expect = e-143
 Identities = 239/337 (70%), Positives = 276/337 (81%), Gaps = 1/337 (0%)

Query: 1   MSQQFNVAIFGATGAVGETMLEVLQEREFPVDELFLLASERSEGKTYRFNGKTVRVQNVE 60
           MSQ+FNV + GA+GAVG+TM+E+L+ER FPV +LF LAS RS G T  F+GK V + +VE
Sbjct: 1   MSQEFNVVVLGASGAVGQTMIEILEERNFPVAKLFPLASARSAGDTVSFHGKQVEILDVE 60

Query: 61  EFDWSQVHIALFSAGGELSAKWAPIAAEAGVVVIDNTSHFRYDYDIPLVVPEVNPEAIAE 120
            FDWSQ  I  FSAGG++SAKWAPIAAE G VVIDNTSHFRYD DIPLVVPEVNPEAIA+
Sbjct: 61  TFDWSQAQIGFFSAGGDVSAKWAPIAAEHGCVVIDNTSHFRYDLDIPLVVPEVNPEAIAD 120

Query: 121 FRNRNIIANPNCSTIQMLVALKPIYDAVGIERINVTTYQSVSGAGKAGIDELAGQTAKLL 180
           FRNRNIIANPNCSTIQMLVALKPIYDA GI+RINV TYQSVSG GK  I+ELAGQ AKLL
Sbjct: 121 FRNRNIIANPNCSTIQMLVALKPIYDAYGIDRINVCTYQSVSGTGKKAIEELAGQCAKLL 180

Query: 181 NGYPAETNTFSQQIAFNCIPQIDQFMDNGYTKEEMKMVWETQKIFNDPSIMVNPTCVRVP 240
            G P E + + +QIAFN +P ID+F DNGYTKEEMKMVWET+KIF D SI+VNPT VRVP
Sbjct: 181 QGLPIEPSVYPKQIAFNVLPHIDKFQDNGYTKEEMKMVWETRKIFGDDSILVNPTAVRVP 240

Query: 241 VFYGHAEAVHVETRAPIDAEQVMDMLEQTDGIELFR-GADFPTQVRDAGGKDHVLVGRVR 299
           VFYGH+EAVH+ETR P+DA+ V  +L    G+ LF    D+PT V D  G+D V VGRVR
Sbjct: 241 VFYGHSEAVHIETRDPVDADTVKALLRDAPGVVLFEDDDDYPTAVTDGAGQDPVFVGRVR 300

Query: 300 NDISHHSGINLWVVADNVRKGAATNAVQIAELLVRDY 336
           NDISH +GINLWVV+DN+RKGAA N+VQI E+L+RDY
Sbjct: 301 NDISHPNGINLWVVSDNIRKGAALNSVQIGEILIRDY 337


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: 410
Number of extensions: 6
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: 337
Length of database: 338
Length adjustment: 28
Effective length of query: 309
Effective length of database: 310
Effective search space:    95790
Effective search space used:    95790
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 6938019 Sama_2152 (aspartate-semialdehyde dehydrogenase (RefSeq))
to HMM TIGR01296 (asd: aspartate-semialdehyde dehydrogenase (EC 1.2.1.11))

Software error:

../bin/blast/fastacmd -i /tmp/list.13548.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.13548.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.