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|15645991|ref|NP_208172.1| hypothetical protein
[Helicobacter pylori 26695]
         (77 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|1LNR|K  Chain K, Crystal Structure Of The Large Ribosoma...    24  3.4

>pdb|1LNR|K Chain K, Crystal Structure Of The Large Ribosomal Subunit From
          Deinococcus Radiodurans
          Length = 141

 Score = 23.9 bits (50), Expect = 3.4
 Identities = 18/61 (29%), Positives = 24/61 (38%), Gaps = 15/61 (24%)

Query: 4  AKWGIWIVFMDYRLFHMDSMDLPSNQQTTIRDYLKPGSIVVFAIIVIIISSHFSNAYKTL 63
          AK G ++ F DY L  M+   + SNQ    R               I++S HF    K  
Sbjct: 21 AKGGDYVAFGDYGLIAMEPAWIKSNQIEACR---------------IVMSRHFRRGGKIY 65

Query: 64 I 64
          I
Sbjct: 66 I 66



  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
   0.327    0.139    0.424 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 422,294
Number of Sequences: 13198
Number of extensions: 11172
Number of successful extensions: 15
Number of sequences better than 10.0: 1
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 14
Number of HSP's gapped (non-prelim): 1
length of query: 77
length of database: 2,899,336
effective HSP length: 53
effective length of query: 24
effective length of database: 2,199,842
effective search space: 52796208
effective search space used: 52796208
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 47 (22.7 bits)