Alignments for a candidate for dapE in Azospirillum brasilense Sp245

Align succinyl-diaminopimelate desuccinylase (EC 3.5.1.18) (characterized)
to candidate AZOBR_RS03470 AZOBR_RS03470 succinyl-diaminopimelate desuccinylase

Query= BRENDA::P44514
         (377 letters)



>FitnessBrowser__azobra:AZOBR_RS03470
          Length = 397

 Score =  291 bits (746), Expect = 2e-83
 Identities = 164/380 (43%), Positives = 229/380 (60%), Gaps = 10/380 (2%)

Query: 6   VSLAQDLIRRPSISPNDEGCQQIIAERLEKLGFQIEWMPFND-----TLNLWAKHGTSEP 60
           V++AQ LIR PS++P D G   ++   L  LGF    + F +       NL+A+ GT  P
Sbjct: 16  VAVAQALIRCPSVTPEDGGALGVLEAALAPLGFVCHRLRFEEEGTAPVDNLYARLGTEGP 75

Query: 61  VIAFAGHTDVVPTGDENQWSSPPFSAEIIDGMLYGRGAADMKGSLAAMIVAAEEYVKA-- 118
              FAGHTDVVP G+   WS  PF+AEI +G LYGRGA DMKG++AA + AA  +VKA  
Sbjct: 76  NFCFAGHTDVVPPGELKGWSIDPFAAEIHNGRLYGRGAVDMKGAIAAFVAAAARHVKAVK 135

Query: 119 --NPNHKGTIALLITSDEEATAKDGTIHVVETLMARDEKITYCMVGEPSSAKNLGDVVKN 176
                 KG+I+LLIT DEE  A +GT  V++ L A+ EK+  C+VGEP++ K LGD++K 
Sbjct: 136 ETGDAPKGSISLLITGDEEGVAINGTRKVLDWLQAKGEKLDACVVGEPTNPKALGDMIKI 195

Query: 177 GRRGSITGNLYIQGIQGHVAYPHLAENPIHKAALFLQELTTYQWDKGNEFFPPTSLQIAN 236
           GRRGS+T  L + G QGHVAYPHLA+NP+ + A  L  +T    D G   F P++L++  
Sbjct: 196 GRRGSMTAFLTVHGAQGHVAYPHLADNPLPRLARMLTAITAEPLDAGTPHFQPSNLELTT 255

Query: 237 IHAGTGSNNVIPAELYIQFNLRYCTEVTDEIIKQKVAEMLEKHNLKYRIEWNLSGKPFLT 296
           I  G  ++NVIPA+     N+R+    T + +   + E L+     Y ++  +SG  FLT
Sbjct: 256 IDVGNPAHNVIPAQGKATLNIRFNDLHTADTLLAWLRERLDGVGGSYELDHFVSGDSFLT 315

Query: 297 KPGKLLDSITSAIEETIGITPKAETGGGTSDGRFIALMGAEVVEFGPLNSTIHKVNECVS 356
            PG L + +  A E   G  P+  T GGTSD RFI      VVEFG +  T+HKV+E  +
Sbjct: 316 PPGPLTELVADAAERVTGRRPEYSTTGGTSDARFIKNF-CPVVEFGLVGQTMHKVDEHTA 374

Query: 357 VEDLGKCGEIYHKMLVNLLD 376
           ++DL +  +IY ++L N+ D
Sbjct: 375 LDDLTRLTDIYGEVLRNVFD 394


Lambda     K      H
   0.316    0.134    0.394 

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: 447
Number of extensions: 25
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: 377
Length of database: 397
Length adjustment: 30
Effective length of query: 347
Effective length of database: 367
Effective search space:   127349
Effective search space used:   127349
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: 50 (23.9 bits)

Align candidate AZOBR_RS03470 AZOBR_RS03470 (succinyl-diaminopimelate desuccinylase)
to HMM TIGR01246 (dapE: succinyl-diaminopimelate desuccinylase (EC 3.5.1.18))

Software error:

../bin/blast/fastacmd -i /tmp/list.29899.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.29899.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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