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|15645404|ref|NP_207578.1| conserved hypothetical
secreted protein [Helicobacter pylori 26695]
         (184 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|1CYG|    Cyclodextrin Glucanotransferase (E.C.2.4.1.19) ...    26  3.1
pdb|1DTW|A  Chain A, Human Branched-Chain Alpha-Keto Acid De...    25  4.1
pdb|1CII|    Colicin Ia                                            25  5.3
pdb|1KWH|A  Chain A, Structure Analysis Algq2, A Macromolecu...    25  7.0

>pdb|1CYG|   Cyclodextrin Glucanotransferase (E.C.2.4.1.19) (Cgtase)
          Length = 680

 Score = 25.8 bits (55), Expect = 3.1
 Identities = 15/61 (24%), Positives = 29/61 (46%), Gaps = 5/61 (8%)

Query: 20  KNPSTLSKEEEVLQHLQSFSAHFKQVLKNEKPLVYYGVLKAKAPNWALWVYEKPLKKEIY 79
           K  S+ +K     Q +Q  S+     L+   P + YG  + +  N  ++VYE+   K++ 
Sbjct: 372 KMMSSFNKNTRAYQVIQKLSS-----LRRNNPALAYGDTEQRWINGDVYVYERQFGKDVV 426

Query: 80  M 80
           +
Sbjct: 427 L 427



>pdb|1DTW|A Chain A, Human Branched-Chain Alpha-Keto Acid Dehydrogenase
          Length = 400

 Score = 25.4 bits (54), Expect = 4.1
 Identities = 11/32 (34%), Positives = 20/32 (62%), Gaps = 1/32 (3%)

Query: 12  IFMSVAYAKNPSTLSKEEEVL-QHLQSFSAHF 42
           +  S  Y + P+ L K++E L +HLQ++  H+
Sbjct: 362 LLFSDVYQEMPAQLRKQQESLARHLQTYGEHY 393



>pdb|1CII|   Colicin Ia
          Length = 602

 Score = 25.0 bits (53), Expect = 5.3
 Identities = 9/25 (36%), Positives = 14/25 (56%)

Query: 68 WVYEKPLKKEIYMNDKEVVIYEPNL 92
          WV + P + +I   DKE+  Y+  L
Sbjct: 38 WVDDSPTRSDIEKRDKEITAYKNTL 62



>pdb|1KWH|A Chain A, Structure Analysis Algq2, A
          Macromolecule(Alginate)-Binding Periplasmic Protein Of
          Sphingomonas Sp. A1
          Length = 492

 Score = 24.6 bits (52), Expect = 7.0
 Identities = 9/26 (34%), Positives = 18/26 (68%)

Query: 66 ALWVYEKPLKKEIYMNDKEVVIYEPN 91
          A WV +KPL  +I+M+ ++  +++ N
Sbjct: 3  ATWVTDKPLTLKIHMHFRDKWVWDEN 28



  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
   0.320    0.136    0.389 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,050,418
Number of Sequences: 13198
Number of extensions: 44188
Number of successful extensions: 85
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: 83
Number of HSP's gapped (non-prelim): 4
length of query: 184
length of database: 2,899,336
effective HSP length: 83
effective length of query: 101
effective length of database: 1,803,902
effective search space: 182194102
effective search space used: 182194102
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)