GapMind for Amino acid biosynthesis

 

Alignments for a candidate for cysK in Pedobacter sp. GW460-11-11-14-LB5

Align cysteine synthase (EC 2.5.1.47) (characterized)
to candidate CA265_RS10150 CA265_RS10150 cysteine synthase B

Query= BRENDA::P29848
         (303 letters)



>FitnessBrowser__Pedo557:CA265_RS10150
          Length = 290

 Score =  310 bits (795), Expect = 2e-89
 Identities = 161/289 (55%), Positives = 204/289 (70%), Gaps = 9/289 (3%)

Query: 8   IGNTPLVKLQRLGPDNGSEIWVKLEGNNPAGSVKDRAALSMIVEAEKRGEIKPGDVLIEA 67
           IGNTP+ +LQ+L  +    ++ KLEGNNP GSVKDRA+L+MI  A +RG++ PG  L+EA
Sbjct: 8   IGNTPMAELQKLNINPAVRVFAKLEGNNPGGSVKDRASLNMIRSAIERGDVVPGTKLVEA 67

Query: 68  TSGNTGIALAMIAALKGYRMKLLMPDNMSQERRAAMRAYGAELILVTKEQGMEGARDLAL 127
           TSGNTGIALAMIA+L    ++L+MP N ++ER+  M A+GA++ L+   + +E  RD A 
Sbjct: 68  TSGNTGIALAMIASLYNLEIELVMPANSTRERKVTMEAFGAKVTLL---ESIEDCRDYA- 123

Query: 128 AMSERGEGK---LLDQFNNPDNPYAHYTTTGPEIWRQTSGRITHFVSSMGTTGTITGVSR 184
              E+G  K   LL+QF NPDN  AHY TTGPEIWR T G ITHFVSSMGTTGTI G SR
Sbjct: 124 --EEKGVSKGYFLLNQFANPDNYLAHYKTTGPEIWRDTEGEITHFVSSMGTTGTIMGCSR 181

Query: 185 FLREQEKPVTIVGLQPEEGSSIPGIRRWPAEYMPGIFNASLVDEVLDIHQNDAENTMREL 244
           F +E+   + I+G QP EGSSIPGIRRWP EY+P IF+   VD V+DI Q +A    R +
Sbjct: 182 FFKEKNNDIQIIGCQPTEGSSIPGIRRWPEEYLPKIFDPLRVDRVMDIAQEEATLMSRRM 241

Query: 245 AVREGIFCGVSSGGAVAGALRVARATPGAIVVAIICDRGDRYLSTGVFG 293
           A  EG+F G+SSGGA A AL++A       +V I CDRGDRYLS+ +FG
Sbjct: 242 AKEEGLFAGMSSGGACAAALKLASELDKGTIVFIACDRGDRYLSSDLFG 290


Lambda     K      H
   0.316    0.134    0.386 

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: 307
Number of extensions: 14
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: 303
Length of database: 290
Length adjustment: 26
Effective length of query: 277
Effective length of database: 264
Effective search space:    73128
Effective search space used:    73128
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 CA265_RS10150 CA265_RS10150 (cysteine synthase B)
to HMM TIGR01136 (cysteine synthase (EC 2.5.1.47))

Software error:

../bin/blast/fastacmd -i /tmp/list.15335.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.15335.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.