BLASTP 2.2.1 [Apr-13-2001]


Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= gi|15644815|ref|NP_206985.1| hypothetical protein
[Helicobacter pylori 26695]
         (404 letters)

Database: /var/www/html/HP/blast_new/blast/db/pdbaa
           13,198 sequences; 2,899,336 total letters

Searching...........................done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

pdb|1PDO|    Phosphoenolpyruvate-Dependent Phosphotransferas...    27  4.1
pdb|1BJT|    Topoisomerase Ii Residues 409 - 1201 >gi|163327...    26  7.1

>pdb|1PDO|   Phosphoenolpyruvate-Dependent Phosphotransferase System
          Length = 135

 Score = 26.9 bits (58), Expect = 4.1
 Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 2/78 (2%)

Query: 166 LSEIDTNPTTFKVMLINKIDSSFFNSLIRLKINNELDDETLKLFAKTDIVLFKATRDRPG 225
           L+++DT  T   + L++    S FN+  R+ ++ E  +    +     +    A  D P 
Sbjct: 52  LAKLDT--TKGVLFLVDTWGGSPFNAASRIVVDKEHYEVIAGVNIPMLVETLMARDDDPS 109

Query: 226 TDNLINAYLKKGKEGLKS 243
            D L+   ++ G+EG+K+
Sbjct: 110 FDELVALAVETGREGVKA 127



>pdb|1BJT|   Topoisomerase Ii Residues 409 - 1201
 pdb|1BGW|   Topoisomerase Residues 410 - 1202,
          Length = 793

 Score = 26.2 bits (56), Expect = 7.1
 Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 3/71 (4%)

Query: 122 EASTDKTYEKLKDELKKIKKSKLKSFIQSYVSDLKNFYQAFLDLLSEIDTNPTTFKVMLI 181
           EAS D+  +    E++ IKK       + Y  D K+     L ++++ D + +  K ++I
Sbjct: 75  EASADQILKNA--EIQAIKKIMGLQHRKKY-EDTKSLRYGHLMIMTDQDHDGSHIKGLII 131

Query: 182 NKIDSSFFNSL 192
           N ++SSF   L
Sbjct: 132 NFLESSFLGLL 142



  Database: /var/www/html/HP/blast_new/blast/db/pdbaa
    Posted date:  Dec 20, 2002 11:08 AM
  Number of letters in database: 2,899,336
  Number of sequences in database:  13,198
  
Lambda     K      H
   0.319    0.139    0.393 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,312,367
Number of Sequences: 13198
Number of extensions: 100043
Number of successful extensions: 278
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 277
Number of HSP's gapped (non-prelim): 3
length of query: 404
length of database: 2,899,336
effective HSP length: 90
effective length of query: 314
effective length of database: 1,711,516
effective search space: 537416024
effective search space used: 537416024
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)