GapMind for Amino acid biosynthesis

 

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

Align putative bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase (EC 3.5.4.19; EC 3.6.1.31) (characterized)
to candidate CA265_RS03605 CA265_RS03605 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP diphosphatase

Query= ecocyc::HISTCYCLOPRATPPHOS
         (203 letters)



>FitnessBrowser__Pedo557:CA265_RS03605
          Length = 200

 Score =  214 bits (545), Expect = 8e-61
 Identities = 107/194 (55%), Positives = 138/194 (71%), Gaps = 1/194 (0%)

Query: 10  LDWEKTDGLMPVIVQHAVSGEVLMLGYMNPEALDKTLESGKVTFFSRTKQRLWTKGETSG 69
           LDW+KT GL+PVI+Q   + EVLMLGYMN EAL+KT   GKVTFFSR+K RLWTKGETS 
Sbjct: 8   LDWDKTAGLLPVIIQDYKTLEVLMLGYMNAEALEKTQAEGKVTFFSRSKNRLWTKGETSN 67

Query: 70  NFLNVVSIAPDCDNDTLLVLANPIGPTCHKGTSSCFGDTAHQWLFLYQLEQLLAERKSAD 129
           NFL V  +  DCD+DT+L+ A+ +GPTCH G+ SCF  T +   F+++LE ++ +R    
Sbjct: 68  NFLYVKELFVDCDHDTILIKADAVGPTCHTGSRSCF-KTDYNQNFIFELENIINDRYENP 126

Query: 130 PETSYTAKLYASGTKRIAQKVGEEGVETALAATVHDRFELTNEASDLMYHLLVLLQDQGL 189
            E SY  K+   G  +IAQKVGEEGVET +AA      EL  EASDL++HLL LL+++GL
Sbjct: 127 VEGSYINKMRNKGLNKIAQKVGEEGVETVIAALAETEEELIGEASDLVFHLLFLLKEKGL 186

Query: 190 DLTTVIENLRKRHQ 203
            +  + +NL KRHQ
Sbjct: 187 SIQDIAKNLEKRHQ 200


Lambda     K      H
   0.317    0.132    0.384 

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: 140
Number of extensions: 4
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: 203
Length of database: 200
Length adjustment: 21
Effective length of query: 182
Effective length of database: 179
Effective search space:    32578
Effective search space used:    32578
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: 45 (21.9 bits)

Align candidate CA265_RS03605 CA265_RS03605 (bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP diphosphatase)
to HMM PF01502 (PRA-CH)

Software error:

../bin/blast/fastacmd -i /tmp/list.8277.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.8277.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.