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|15644972|ref|NP_207142.1| hypothetical protein
[Helicobacter pylori 26695]
         (154 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|1E6V|B  Chain B, Methyl-Coenzyme M Reductase From Methan...    28  0.62
pdb|1AR1|A  Chain A, Structure At 2.7 Angstrom Resolution Of...    25  4.0
pdb|1QLE|A  Chain A, Cryo-Structure Of The Paracoccus Denitr...    25  4.0

>pdb|1E6V|B Chain B, Methyl-Coenzyme M Reductase From Methanopyrus Kandleri
 pdb|1E6V|E Chain E, Methyl-Coenzyme M Reductase From Methanopyrus Kandleri
          Length = 443

 Score = 27.7 bits (60), Expect = 0.62
 Identities = 14/44 (31%), Positives = 24/44 (53%)

Query: 100 WSMFKAESMGLNKGFMVAGWVAFIIYNALSGIAISRLSAQIIYW 143
           + ++KA  M L   +  AG VA ++ N  +  A   +SA I+Y+
Sbjct: 292 FKVYKANDMDLWNAYAAAGLVAAVMVNQGAARAAQGVSATILYY 335



>pdb|1AR1|A Chain A, Structure At 2.7 Angstrom Resolution Of The Paracoccus
           Denitrificans Two-Subunit Cytochrome C Oxidase Complexed
           With An Antibody Fv Fragment
          Length = 558

 Score = 25.0 bits (53), Expect = 4.0
 Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 3/27 (11%)

Query: 38  AFVGTLFFIGLSCYAIYHG---NMPDY 61
           +F   LFFIG+  Y ++ G   N+P+Y
Sbjct: 496 SFASFLFFIGIVFYTLFAGKRVNVPNY 522



>pdb|1QLE|A Chain A, Cryo-Structure Of The Paracoccus Denitrificans
           Four-Subunit Cytochrome C Oxidase In The Completely
           Oxidized State Complexed With An Antibody Fv Fragment
          Length = 538

 Score = 25.0 bits (53), Expect = 4.0
 Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 3/27 (11%)

Query: 38  AFVGTLFFIGLSCYAIYHG---NMPDY 61
           +F   LFFIG+  Y ++ G   N+P+Y
Sbjct: 480 SFASFLFFIGIVFYTLFAGKRVNVPNY 506



  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
   0.330    0.140    0.441 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 818,567
Number of Sequences: 13198
Number of extensions: 28633
Number of successful extensions: 56
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 55
Number of HSP's gapped (non-prelim): 3
length of query: 154
length of database: 2,899,336
effective HSP length: 80
effective length of query: 74
effective length of database: 1,843,496
effective search space: 136418704
effective search space used: 136418704
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 50 (23.9 bits)