GapMind for Amino acid biosynthesis

 

Alignments for a candidate for cysK in Synechococcus elongatus PCC 7942

Align cysteine synthase (EC 2.5.1.47) (characterized)
to candidate Synpcc7942_B2623 Synpcc7942_B2623 cysteine synthase A

Query= BRENDA::P9WP55
         (310 letters)



>FitnessBrowser__SynE:Synpcc7942_B2623
          Length = 329

 Score =  315 bits (807), Expect = 9e-91
 Identities = 158/309 (51%), Positives = 215/309 (69%), Gaps = 2/309 (0%)

Query: 3   IAEDITQLIGRTPLVRLRRVTD--GAVADIVAKLEFFNPANSVKDRIGVAMLQAAEQAGL 60
           I   +T+ IG TPLVRL+      GA+A+++ KLE+ NP  SVKDR  ++++Q+A   GL
Sbjct: 4   ILNRLTEWIGNTPLVRLQETAQQYGAIAEVLLKLEYLNPLGSVKDRTALSLIQSARSQGL 63

Query: 61  IKPDTIILEPTSGNTGIALAMVCAARGYRCVLTMPETMSLERRMLLRAYGAELILTPGAD 120
           I   T ++EPT+GNTGI LA   AA   R +L MP+ +S ER  L +  GA+++LTP A+
Sbjct: 64  ITAGTTLIEPTTGNTGIGLAFAAAAEQLRLILVMPDRVSAERIRLAKLLGAKVVLTPAAE 123

Query: 121 GMSGAIAKAEELAKTDQRYFVPQQFENPANPAIHRVTTAEEVWRDTDGKVDIVVAGVGTG 180
            M G IAKA+ L +      + QQF+NPANP+IH+ TT  E+WRDTDG+VDIVVAGVGTG
Sbjct: 124 AMLGCIAKAQALQQQIPDSVILQQFQNPANPSIHQATTGPEIWRDTDGEVDIVVAGVGTG 183

Query: 181 GTITGVAQVIKERKPSARFVAVEPAASPVLSGGQKGPHPIQGIGAGFVPPVLDQDLVDEI 240
           GT+ G+++ +K  +P  + +AV+PA SPVLSGG  G H + G+G  FV P++D+ L+DEI
Sbjct: 184 GTLMGISRYLKPLRPRLQSIAVQPARSPVLSGGAAGSHQLTGMGPNFVSPLVDRSLIDEI 243

Query: 241 ITVGNEDALNVARRLAREEGLLVGISSGAATVAALQVARRPENAGKLIVVVLPDFGERYL 300
           ++   EDA+ V R  A  EG+ +G+SSGA   AALQVA+RPENAGK IV V P   ERYL
Sbjct: 244 LSAYEEDAIAVIRTCAAREGIPLGVSSGAIVWAALQVAKRPENAGKRIVAVCPSGSERYL 303

Query: 301 STPLFADVA 309
           S+ L AD++
Sbjct: 304 SSTLLADIS 312


Lambda     K      H
   0.318    0.136    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: 327
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: 310
Length of database: 329
Length adjustment: 28
Effective length of query: 282
Effective length of database: 301
Effective search space:    84882
Effective search space used:    84882
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 (21.7 bits)
S2: 48 (23.1 bits)

Align candidate Synpcc7942_B2623 Synpcc7942_B2623 (cysteine synthase A)
to HMM TIGR01139 (cysK: cysteine synthase A (EC 2.5.1.47))

Software error:

../bin/blast/fastacmd -i /tmp/list.18737.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.18737.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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