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|15645806|ref|NP_207983.1| secreted protein involved
in flagellar motility [Helicobacter pylori 26695]
         (93 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|1F66|D  Chain D, 2.6 A Crystal Structure Of A Nucleosome...    23  5.3

>pdb|1F66|D Chain D, 2.6 A Crystal Structure Of A Nucleosome Core Particle
          Containing The Variant Histone H2a.Z
 pdb|1F66|H Chain H, 2.6 A Crystal Structure Of A Nucleosome Core Particle
          Containing The Variant Histone H2a.Z
          Length = 126

 Score = 23.1 bits (48), Expect = 5.3
 Identities = 10/28 (35%), Positives = 15/28 (52%)

Query: 64 KDAKKPKFSTELVVAQNDKKDAKKPKNS 91
          K A  PK  ++  V +  KKD KK + +
Sbjct: 6  KSAPAPKKGSKKAVTKTQKKDGKKRRKT 33



 Score = 22.7 bits (47), Expect = 6.9
 Identities = 10/24 (41%), Positives = 13/24 (53%)

Query: 26 KDAKKPKFSTELVVAQNDKKDAKK 49
          K A  PK  ++  V +  KKD KK
Sbjct: 6  KSAPAPKKGSKKAVTKTQKKDGKK 29



 Score = 22.7 bits (47), Expect = 6.9
 Identities = 10/24 (41%), Positives = 13/24 (53%)

Query: 45 KDAKKPKFSTELVVAQNDKKDAKK 68
          K A  PK  ++  V +  KKD KK
Sbjct: 6  KSAPAPKKGSKKAVTKTQKKDGKK 29



  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
   0.306    0.122    0.311 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 458,360
Number of Sequences: 13198
Number of extensions: 15278
Number of successful extensions: 6
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: 3
Number of HSP's gapped (non-prelim): 3
length of query: 93
length of database: 2,899,336
effective HSP length: 69
effective length of query: 24
effective length of database: 1,988,674
effective search space: 47728176
effective search space used: 47728176
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 46 (22.3 bits)