GapMind for catabolism of small carbon sources

 

Alignments for a candidate for tpi in Synechococcus elongatus PCC 7942

Align Triosephosphate isomerase; TIM; TPI; Triose-phosphate isomerase; EC 5.3.1.1 (characterized)
to candidate Synpcc7942_1261 Synpcc7942_1261 triosephosphate isomerase

Query= SwissProt::P00943
         (253 letters)



>FitnessBrowser__SynE:Synpcc7942_1261
          Length = 263

 Score =  240 bits (612), Expect = 2e-68
 Identities = 127/248 (51%), Positives = 173/248 (69%), Gaps = 11/248 (4%)

Query: 1   MRKPIIAGNWKMHKTLAEAVQFVEDVKGHVPPADEVISVV-CAPFLFLDRLVQAADGTDL 59
           +R+ IIAGNWKM+KT AEA++F++     +    E   VV CAPF  L  L +   G+ +
Sbjct: 22  VRRIIIAGNWKMYKTQAEALEFLQAFLPQLSETPESRKVVLCAPFTTLSSLSKTLHGSRV 81

Query: 60  KIGAQTMHFADQGAYTGEVSPVMLKDLGVTYVILGHSERRQMFAETDETVNKKVLAAFTR 119
           ++GAQ +H+A +GA+TGE+S  ML ++GV YV++GHSERRQ F ETDETVN+++LAA + 
Sbjct: 82  RVGAQNIHWAKEGAFTGEISGAMLTEIGVRYVVVGHSERRQYFGETDETVNQRLLAAQSF 141

Query: 120 GLIPIICCGESLEEREAGQTNAVVASQVEKALAGLTPEQVKQAVIAYEPIWAIGTGKSST 179
           GL+PI+C GES ++R+AG+T AV++ Q+E+ L G     +   VIAYEPIWAIGTG +  
Sbjct: 142 GLLPILCVGESKQQRDAGETEAVISRQLERGLVGADQTNL---VIAYEPIWAIGTGDTCA 198

Query: 180 PEDANSVCGHIRSVVSRLFGPEAAEAIRIQYGGSVKPDNIRDFLAQQQIDGPLVGGASLE 239
            E+AN V G IRS +     P       IQYGGSVKP+NI + +AQ +IDG LVGGASLE
Sbjct: 199 AEEANRVIGLIRSQLKDTDVP-------IQYGGSVKPENIDEIMAQPEIDGALVGGASLE 251

Query: 240 PASFLQLV 247
             SF ++V
Sbjct: 252 AESFARIV 259


Lambda     K      H
   0.318    0.134    0.389 

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: 212
Number of extensions: 11
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: 253
Length of database: 263
Length adjustment: 24
Effective length of query: 229
Effective length of database: 239
Effective search space:    54731
Effective search space used:    54731
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: 47 (22.7 bits)

Align candidate Synpcc7942_1261 Synpcc7942_1261 (triosephosphate isomerase)
to HMM TIGR00419 (tpiA: triose-phosphate isomerase (EC 5.3.1.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.14591.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.14591.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.