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|15644962|ref|NP_207132.1| conserved hypothetical
protein [Helicobacter pylori 26695]
         (134 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|1B8P|A  Chain A, Malate Dehydrogenase From Aquaspirillum...    25  2.3
pdb|1AMU|B  Chain B, Phenylalanine Activating Domain Of Gram...    25  3.0
pdb|1M7S|A  Chain A, Crystal Structure Analysis Of Catalase ...    25  3.9
pdb|1LM5|A  Chain A, Structures Of Two Intermediate Filament...    23  8.7

>pdb|1B8P|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
 pdb|1B8V|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
 pdb|1B8U|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
          Length = 329

 Score = 25.4 bits (54), Expect = 2.3
 Identities = 14/27 (51%), Positives = 18/27 (65%), Gaps = 4/27 (14%)

Query: 42  DLLREKNIQVLVVGKPHESYADTNARI 68
           D +  +NI+VLVVG P    A+TNA I
Sbjct: 120 DAVASRNIKVLVVGNP----ANTNAYI 142



>pdb|1AMU|B Chain B, Phenylalanine Activating Domain Of Gramicidin Synthetase 1
           In A Complex With Amp And Phenylalanine
 pdb|1AMU|A Chain A, Phenylalanine Activating Domain Of Gramicidin Synthetase 1
           In A Complex With Amp And Phenylalanine
          Length = 563

 Score = 25.0 bits (53), Expect = 3.0
 Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 1/45 (2%)

Query: 64  TNARIEHFIKLVDFKGEIVFINEDRSSIEAYENLEHLGKKNKRLA 108
           T   + H I  + F G++    ED   I    NL H+  K+  LA
Sbjct: 142 TQKHLVHLIHNIQFNGQVEIFEEDTIKIREGTNL-HVPSKSTDLA 185



>pdb|1M7S|A Chain A, Crystal Structure Analysis Of Catalase Catf Of Pseudomonas
           Syringae
 pdb|1M7S|B Chain B, Crystal Structure Analysis Of Catalase Catf Of Pseudomonas
           Syringae
 pdb|1M7S|C Chain C, Crystal Structure Analysis Of Catalase Catf Of Pseudomonas
           Syringae
 pdb|1M7S|D Chain D, Crystal Structure Analysis Of Catalase Catf Of Pseudomonas
           Syringae
          Length = 484

 Score = 24.6 bits (52), Expect = 3.9
 Identities = 10/29 (34%), Positives = 18/29 (61%)

Query: 70  HFIKLVDFKGEIVFINEDRSSIEAYENLE 98
           H  KLV+ KGE+ ++     S++  +NL+
Sbjct: 194 HAYKLVNAKGEVHYVKFHWKSLQGIKNLD 222



>pdb|1LM5|A Chain A, Structures Of Two Intermediate Filament-Binding Fragments
           Of Desmoplakin Reveal A Unique Repeat Motif Structure
 pdb|1LM5|B Chain B, Structures Of Two Intermediate Filament-Binding Fragments
           Of Desmoplakin Reveal A Unique Repeat Motif Structure
          Length = 214

 Score = 23.5 bits (49), Expect = 8.7
 Identities = 14/39 (35%), Positives = 23/39 (58%)

Query: 86  EDRSSIEAYENLEHLGKKNKRLAIKDGRLDSLSACRILE 124
           E+ S I A  + E+L K +    I+ G +DS++  R+LE
Sbjct: 6   EESSPIAAIFDTENLEKISITEGIERGIVDSITGQRLLE 44



  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
   0.322    0.140    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: 700,734
Number of Sequences: 13198
Number of extensions: 25762
Number of successful extensions: 87
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 82
Number of HSP's gapped (non-prelim): 7
length of query: 134
length of database: 2,899,336
effective HSP length: 79
effective length of query: 55
effective length of database: 1,856,694
effective search space: 102118170
effective search space used: 102118170
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)