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|15645147|ref|NP_207317.1| cag pathogenicity island
protein (cag1) [Helicobacter pylori 26695]
         (115 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|1D5T|A  Chain A, Guanine Nucleotide Dissociation Inhibit...    26  1.3
pdb|1IJA|A  Chain A, Structure Of Sortase                          26  1.3
pdb|1GND|    Guanine Nucleotide Dissociation Inhibitor, Alph...    26  1.3
pdb|1KSI|A  Chain A, Crystal Structure Of A Eukaryotic (Pea ...    24  4.8

>pdb|1D5T|A Chain A, Guanine Nucleotide Dissociation Inhibitor, Alpha-Isoform
          Length = 433

 Score = 25.8 bits (55), Expect = 1.3
 Identities = 11/27 (40%), Positives = 18/27 (65%), Gaps = 1/27 (3%)

Query: 30 DKRYDSLGLIGAGVLCCVLSGAMGIVG 56
          D+ YD + ++G G+  C+LSG M + G
Sbjct: 4  DEEYDVI-VLGTGLTECILSGIMSVNG 29



>pdb|1IJA|A Chain A, Structure Of Sortase
          Length = 148

 Score = 25.8 bits (55), Expect = 1.3
 Identities = 19/53 (35%), Positives = 28/53 (51%), Gaps = 3/53 (5%)

Query: 58  IFVAIGIFLSFSNINLVKLVEKLSKKQSKVPTTVNNETQKSQATSVTN-EPTE 109
           I +A   F+   N     L  K +KK S V   V NET+K + TS+ + +PT+
Sbjct: 57  ISIAGHTFIDRPNYQFTNL--KAAKKGSMVYFKVGNETRKYKMTSIRDVKPTD 107



>pdb|1GND|   Guanine Nucleotide Dissociation Inhibitor, Alpha-Isoform
          Length = 447

 Score = 25.8 bits (55), Expect = 1.3
 Identities = 11/27 (40%), Positives = 18/27 (65%), Gaps = 1/27 (3%)

Query: 30 DKRYDSLGLIGAGVLCCVLSGAMGIVG 56
          D+ YD + ++G G+  C+LSG M + G
Sbjct: 2  DEEYDVI-VLGTGLTECILSGIMSVNG 27



>pdb|1KSI|A Chain A, Crystal Structure Of A Eukaryotic (Pea Seedling)
           Copper-Containing Amine Oxidase At 2.2a Resolution
 pdb|1KSI|B Chain B, Crystal Structure Of A Eukaryotic (Pea Seedling)
           Copper-Containing Amine Oxidase At 2.2a Resolution
          Length = 642

 Score = 23.9 bits (50), Expect = 4.8
 Identities = 16/46 (34%), Positives = 23/46 (49%), Gaps = 8/46 (17%)

Query: 54  IVGIIFVAIGIFLSFSNINLVKLVEKLSKKQSKVPTTVNNETQKSQ 99
           I GI  VA        +++L+K+VE   +    VPT  N E Q S+
Sbjct: 167 ITGITIVA--------DLDLMKIVEYHDRDIEAVPTAENTEYQVSK 204



  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
   0.313    0.129    0.350 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 570,913
Number of Sequences: 13198
Number of extensions: 20582
Number of successful extensions: 22
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 20
Number of HSP's gapped (non-prelim): 4
length of query: 115
length of database: 2,899,336
effective HSP length: 76
effective length of query: 39
effective length of database: 1,896,288
effective search space: 73955232
effective search space used: 73955232
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 48 (23.1 bits)