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|15646200|ref|NP_207516.1| outer membrane protein
[Helicobacter pylori 26695]
         (608 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|1DOT|    Mol_id: 1; Molecule: Duck Ovotransferrin; Chain...    28  3.0
pdb|1F15|C  Chain C, Cucumber Mosaic Virus (Strain Fny) >gi|...    27  6.6

>pdb|1DOT|   Mol_id: 1; Molecule: Duck Ovotransferrin; Chain: Null; Synonym:
           Dot
 pdb|1AOV|   Apo Duck Ovotransferrin
          Length = 686

 Score = 28.1 bits (61), Expect = 3.0
 Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 2/54 (3%)

Query: 60  ETSPIYNTAQAVITSVLAF-WSLYAGNATSFHVTGLNDGSNAPLGRIH-QDGNC 111
           E  P Y  A AV+    A  W+   G  +     G   G N P+G IH + G+C
Sbjct: 425 EEQPAYYFAVAVVKKSSAITWNNLQGKKSCHTAVGRTAGWNIPMGLIHNKTGSC 478



>pdb|1F15|C Chain C, Cucumber Mosaic Virus (Strain Fny)
 pdb|1F15|B Chain B, Cucumber Mosaic Virus (Strain Fny)
 pdb|1F15|A Chain A, Cucumber Mosaic Virus (Strain Fny)
          Length = 218

 Score = 26.9 bits (58), Expect = 6.6
 Identities = 10/27 (37%), Positives = 20/27 (74%)

Query: 387 KNAPAAGQSNYQINPEQQSNLNQALAA 413
           ++AP++  +N+++  +Q S LN+ LAA
Sbjct: 22  RSAPSSADANFRVLSQQLSRLNKTLAA 48



  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    0.128    0.362 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,422,241
Number of Sequences: 13198
Number of extensions: 142110
Number of successful extensions: 284
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 283
Number of HSP's gapped (non-prelim): 2
length of query: 608
length of database: 2,899,336
effective HSP length: 94
effective length of query: 514
effective length of database: 1,658,724
effective search space: 852584136
effective search space used: 852584136
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: 57 (26.6 bits)