Alignments for a candidate for dapB in Dyella japonica UNC79MFTsu3.2

Align dihydrodipicolinate reductase; EC 1.3.1.26 (characterized)
to candidate N515DRAFT_2721 N515DRAFT_2721 dihydrodipicolinate reductase

Query= CharProtDB::CH_002128
         (273 letters)



>FitnessBrowser__Dyella79:N515DRAFT_2721
          Length = 266

 Score =  204 bits (519), Expect = 2e-57
 Identities = 120/263 (45%), Positives = 162/263 (61%), Gaps = 9/263 (3%)

Query: 6   IRVAIAGAGGRMGRQLIQAALALEGVQLGAALEREGSSLLGSDAGELAGAGKTGVTVQSS 65
           +R+A+ GA GRMGR L+   L  +  +   A+    SS LG    E   AG+ G+     
Sbjct: 5   LRLAVIGATGRMGRALLD--LLKDDARFELAVALAASSRLG----EPVYAGEDGLRFTRE 58

Query: 66  LDAVKDDFDVFIDFTRPEGTLNHLAFCRQHGKGMVIGTTGFDEAGKQAIRDAAADIAIVF 125
             A   +  V IDF+ P G    LA CR H   +V GTTG D+A +Q + +AA DI ++ 
Sbjct: 59  WPAAAPE--VAIDFSGPAGLGAALAHCRAHRIALVTGTTGLDQALQQQLDEAARDIPLLR 116

Query: 126 AANFSVGVNVMLKLLEKAAKVMGDYTDIEIIEAHHRHKVDAPSGTALAMGEAIAHALDKD 185
           AANFS+GV V+ +L+ +AA  + D+ D++I+EAHH  KVDAPSGTALA+GEA A      
Sbjct: 117 AANFSLGVAVLRRLVRQAAAALPDW-DLDILEAHHNRKVDAPSGTALALGEAAAAGRGVS 175

Query: 186 LKDCAVYSREGHTGERVPGTIGFATVRAGDIVGEHTAMFADIGERLEITHKASSRMTFAN 245
           L D AVY+REG TG R  G+IGFA VR GDIVGEH       GER+E+ H+A+ R  FA 
Sbjct: 176 LADGAVYAREGTTGPRQHGSIGFAVVRGGDIVGEHEVWVIGPGERVELNHRATDRSIFAR 235

Query: 246 GAVRSALWLSGKESGLFDMRDVL 268
           GA+ +A WL+G+  G +D+  +L
Sbjct: 236 GAIEAAHWLAGRAPGAYDLDAML 258


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: 250
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: 266
Length adjustment: 25
Effective length of query: 248
Effective length of database: 241
Effective search space:    59768
Effective search space used:    59768
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 N515DRAFT_2721 N515DRAFT_2721 (dihydrodipicolinate reductase)
to HMM TIGR00036 (dapB: 4-hydroxy-tetrahydrodipicolinate reductase (EC 1.17.1.8))

Software error:

../bin/blast/fastacmd -i /tmp/list.28567.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.28567.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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