GapMind for Amino acid biosynthesis

 

Alignments for a candidate for dapB in Dechlorosoma suillum PS

Align dihydrodipicolinate reductase; EC 1.3.1.26 (characterized)
to candidate Dsui_3066 Dsui_3066 dihydrodipicolinate reductase

Query= CharProtDB::CH_002128
         (273 letters)



>FitnessBrowser__PS:Dsui_3066
          Length = 268

 Score =  328 bits (840), Expect = 1e-94
 Identities = 164/267 (61%), Positives = 202/267 (75%), Gaps = 1/267 (0%)

Query: 4   ANIRVAIAGAGGRMGRQLIQAALALEGVQLGAALEREGSSLLGSDAGELAGAGKTGVTVQ 63
           + +R+A+AGA GRMGR LI+A L    V LGAA +R GS  +G DAG+L G    G+ V 
Sbjct: 2   SKLRIAVAGASGRMGRMLIEATLKDGEVVLGAAFDRPGSPAVGKDAGDLVGQ-PCGIQVL 60

Query: 64  SSLDAVKDDFDVFIDFTRPEGTLNHLAFCRQHGKGMVIGTTGFDEAGKQAIRDAAADIAI 123
            S +A     D  IDFTRPEGTL HLA CR+ G  M+IGTTGFDEAGK AIRDAA DI +
Sbjct: 61  DSAEAALKQADCLIDFTRPEGTLEHLALCRKLGVAMIIGTTGFDEAGKAAIRDAAQDIPV 120

Query: 124 VFAANFSVGVNVMLKLLEKAAKVMGDYTDIEIIEAHHRHKVDAPSGTALAMGEAIAHALD 183
           VFA N +VGVN++ KLL+ AA+++    DIEI+EAHH+HK+DAPSGTAL MGE +AHAL 
Sbjct: 121 VFAPNMAVGVNLVFKLLDVAARILNQGYDIEIVEAHHKHKIDAPSGTALRMGEVVAHALG 180

Query: 184 KDLKDCAVYSREGHTGERVPGTIGFATVRAGDIVGEHTAMFADIGERLEITHKASSRMTF 243
           +DLK+CA+Y REG TGER P TIGFATVR GDIVG+H  MF   GER+EI HKA SRM +
Sbjct: 181 RDLKECAIYGREGVTGERDPSTIGFATVRGGDIVGDHNVMFCGTGERVEIAHKAGSRMPY 240

Query: 244 ANGAVRSALWLSGKESGLFDMRDVLDL 270
           A G++R+A +L+GK++GLFDM+DVL L
Sbjct: 241 ALGSLRAARFLAGKKNGLFDMQDVLGL 267


Lambda     K      H
   0.319    0.135    0.383 

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: 310
Number of extensions: 13
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: 273
Length of database: 268
Length adjustment: 25
Effective length of query: 248
Effective length of database: 243
Effective search space:    60264
Effective search space used:    60264
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: 47 (22.7 bits)

Align candidate Dsui_3066 Dsui_3066 (dihydrodipicolinate reductase)
to HMM TIGR00036 (dapB: 4-hydroxy-tetrahydrodipicolinate reductase (EC 1.17.1.8))

Software error:

../bin/blast/fastacmd -i /tmp/list.10652.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.10652.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.