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|15645129|ref|NP_207299.1| hypothetical protein
[Helicobacter pylori 26695]
         (54 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|1KQF|A  Chain A, Formate Dehydrogenase N From E. Coli >g...    23  5.1
pdb|1DMU|A  Chain A, Crystal Structure Of The Restriction En...    23  8.7

>pdb|1KQF|A Chain A, Formate Dehydrogenase N From E. Coli
 pdb|1KQG|A Chain A, Formate Dehydrogenase N From E. Coli
          Length = 1015

 Score = 23.5 bits (49), Expect = 5.1
 Identities = 11/32 (34%), Positives = 18/32 (55%), Gaps = 2/32 (6%)

Query: 15  CAYKLLKKHVGIEKYTLLDTACG--NKEFLKL 44
           C + LLK+HV      +++  CG    +FLK+
Sbjct: 359 CVWNLLKEHVSRYTPDVVENICGTPKADFLKV 390



>pdb|1DMU|A Chain A, Crystal Structure Of The Restriction Endonuclease Bgli
           (E.C.3.1.21.4) Bound To Its Dna Recognition Sequence
          Length = 299

 Score = 22.7 bits (47), Expect = 8.7
 Identities = 9/18 (50%), Positives = 11/18 (61%)

Query: 3   LGVYYTPPYLVDCAYKLL 20
           LG++  P Y  D AYK L
Sbjct: 244 LGLFCNPGYAFDSAYKFL 261



  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
   0.320    0.141    0.440 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 354,607
Number of Sequences: 13198
Number of extensions: 10080
Number of successful extensions: 7
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 6
Number of HSP's gapped (non-prelim): 2
length of query: 54
length of database: 2,899,336
effective HSP length: 30
effective length of query: 24
effective length of database: 2,503,396
effective search space: 60081504
effective search space used: 60081504
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)