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|15646119|ref|NP_208301.1| conserved hypothetical
protein [Helicobacter pylori 26695]
         (117 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|1JE5|B  Chain B, Crystal Structure Of Gp2.5, A Single-St...    24  5.1
pdb|1XYS|    Catalytic Core Of Xylanase A E246c Mutant             23  8.7
pdb|1CLX|A  Chain A, Catalytic Core Of Xylanase A >gi|163342...    23  8.7
pdb|1HQM|D  Chain D, Crystal Structure Of Thermus Aquaticus ...    23  8.7
pdb|1E5N|A  Chain A, E246c Mutant Of P Fluorescens Subsp. Ce...    23  8.7

>pdb|1JE5|B Chain B, Crystal Structure Of Gp2.5, A Single-Stranded Dna Binding
           Protein Encoded By Bacteriophage T7
 pdb|1JE5|A Chain A, Crystal Structure Of Gp2.5, A Single-Stranded Dna Binding
           Protein Encoded By Bacteriophage T7
          Length = 206

 Score = 23.9 bits (50), Expect = 5.1
 Identities = 12/28 (42%), Positives = 19/28 (67%)

Query: 88  TELYLKISKLEISPNSQVGASVKIRYES 115
           ++L +K S +    N+ VGASVK++ ES
Sbjct: 147 SKLKVKYSLVPYKWNTAVGASVKLQLES 174



>pdb|1XYS|   Catalytic Core Of Xylanase A E246c Mutant
          Length = 347

 Score = 23.1 bits (48), Expect = 8.7
 Identities = 11/29 (37%), Positives = 17/29 (57%), Gaps = 4/29 (13%)

Query: 81  KTRYKEITELYLKISKLEISPNSQVGASV 109
           K RYKEI + YL++    + P  + G +V
Sbjct: 280 KARYKEIVQAYLEV----VPPGRRGGITV 304



>pdb|1CLX|A Chain A, Catalytic Core Of Xylanase A
 pdb|1CLX|B Chain B, Catalytic Core Of Xylanase A
 pdb|1CLX|C Chain C, Catalytic Core Of Xylanase A
 pdb|1CLX|D Chain D, Catalytic Core Of Xylanase A
          Length = 347

 Score = 23.1 bits (48), Expect = 8.7
 Identities = 11/29 (37%), Positives = 17/29 (57%), Gaps = 4/29 (13%)

Query: 81  KTRYKEITELYLKISKLEISPNSQVGASV 109
           K RYKEI + YL++    + P  + G +V
Sbjct: 280 KARYKEIVQAYLEV----VPPGRRGGITV 304



>pdb|1HQM|D Chain D, Crystal Structure Of Thermus Aquaticus Core Rna
           Polymerase- Includes Complete Structure With Side-Chains
           (Except For Disordered Regions)-Further Refined From
           Original Deposition-Contains Additional Sequence
           Information
          Length = 1265

 Score = 23.1 bits (48), Expect = 8.7
 Identities = 10/22 (45%), Positives = 13/22 (58%)

Query: 28  PQKISVNLDLFYTQLPNKVYLD 49
           P KI   LDLF T+L   +Y +
Sbjct: 109 PSKIGTLLDLFATELEQVLYFN 130



>pdb|1E5N|A Chain A, E246c Mutant Of P Fluorescens Subsp. Cellulosa Xylanase A
           In Complex With Xylopentaose
 pdb|1E5N|B Chain B, E246c Mutant Of P Fluorescens Subsp. Cellulosa Xylanase A
           In Complex With Xylopentaose
          Length = 348

 Score = 23.1 bits (48), Expect = 8.7
 Identities = 11/29 (37%), Positives = 17/29 (57%), Gaps = 4/29 (13%)

Query: 81  KTRYKEITELYLKISKLEISPNSQVGASV 109
           K RYKEI + YL++    + P  + G +V
Sbjct: 281 KARYKEIVQAYLEV----VPPGRRGGITV 305



  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
   0.318    0.137    0.363 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 589,395
Number of Sequences: 13198
Number of extensions: 20363
Number of successful extensions: 43
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 41
Number of HSP's gapped (non-prelim): 5
length of query: 117
length of database: 2,899,336
effective HSP length: 76
effective length of query: 41
effective length of database: 1,896,288
effective search space: 77747808
effective search space used: 77747808
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)