GapMind for catabolism of small carbon sources

 

Alignments for a candidate for 1pfk in Azospirillum brasilense Sp245

Align 1-phosphofructokinase (EC 2.7.1.56) (characterized)
to candidate AZOBR_RS30840 AZOBR_RS30840 hypothetical protein

Query= reanno::psRCH2:GFF3290
         (312 letters)



>FitnessBrowser__azobra:AZOBR_RS30840
          Length = 323

 Score =  209 bits (531), Expect = 9e-59
 Identities = 128/313 (40%), Positives = 175/313 (55%), Gaps = 6/313 (1%)

Query: 4   VLTVTLNPALDLTVQLPALRLGEVNRSDSLQVHAAGKGLNVAQVLADLG-----HQLTVT 58
           V+TVTLN A+D T+ +P    G VNR+ +    A GKG+NVA  LA          +T T
Sbjct: 11  VVTVTLNAAIDQTLDVPGFAAGAVNRAVAETRTAGGKGINVAAFLAGASLAGGATPVTAT 70

Query: 59  GFLGEGNPQAFEQLFSARGFTDEFVRVAGETRSNLKLAEADGR-VTDINGPGLAVSEAQR 117
           GFLGE N   F+ LF  RG  D  +R+AG +R N+KL + +G  VTDIN PGL V     
Sbjct: 71  GFLGEENTAVFDALFRRRGIRDRCLRLAGRSRVNIKLVDREGHSVTDINLPGLHVPAESW 130

Query: 118 AELLARLKRLVPAHELVVVAGSLPRGIDSQWFVQLLNSLKALGVRVALDTSGAALRDGLA 177
             LL  +  L   +   V++GS+P G+    + +++ +L   G  V +D SG  LR  +A
Sbjct: 131 RGLLTVVDDLAVTNRTFVLSGSVPAGVPDTAYTEMVTALHRRGAFVVVDASGPPLRHAVA 190

Query: 178 TRPWLIKPNEEELAEARGIELSGSSALAAEAQRLQEEGIEHVVVSQGADGVSWFSPGAAL 237
            RP ++KPN  ELAE  G  L   + +   A+ L E GI  VVVS GA+G  +   G AL
Sbjct: 191 ARPDMVKPNAAELAELLGRPLKDRAEVVRAARELSESGIALVVVSLGAEGAVFVEGGRAL 250

Query: 238 HASPPKVRVVSTVGAGDSLLAGMLHGLLEGWPAERTLTHATAIAAQAVGQVGFGITDTAQ 297
            A PP V V STVGAGD+++AG++   LEG   E      TA AA  + ++G  +    +
Sbjct: 251 LAMPPPVEVASTVGAGDAMVAGVVAARLEGMGLEDCARRGTAFAAGTLSRLGPELPPPER 310

Query: 298 LAELQAAVRLQPL 310
           LAEL  AVR++ L
Sbjct: 311 LAELMRAVRVEEL 323


Lambda     K      H
   0.316    0.132    0.371 

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: 251
Number of extensions: 12
Number of successful extensions: 3
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: 312
Length of database: 323
Length adjustment: 27
Effective length of query: 285
Effective length of database: 296
Effective search space:    84360
Effective search space used:    84360
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: 48 (23.1 bits)

Align candidate AZOBR_RS30840 AZOBR_RS30840 (hypothetical protein)
to HMM TIGR03828 (pfkB: 1-phosphofructokinase (EC 2.7.1.56))

Software error:

../bin/blast/fastacmd -i /tmp/list.13608.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.13608.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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