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|15644761|ref|NP_206931.1| hypothetical protein
[Helicobacter pylori 26695]
         (33 letters)

Database: NC_000921.faa
           1491 sequences; 494,079 total letters

Searching...done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_222856.1|  Cytochrome oxidase (CBB3-TYPE) [Helicobact...    22  2.9
ref|NP_223280.1|  putative lipopolysaccharide biosynthesis p...    21  6.4
ref|NP_223861.1|  D-LACTATE DEHYDROGENASE [Helicobacter pylo...    20  8.3

>ref|NP_222856.1| Cytochrome oxidase (CBB3-TYPE) [Helicobacter pylori J99]
          Length = 292

 Score = 21.9 bits (45), Expect = 2.9
 Identities = 9/24 (37%), Positives = 12/24 (49%)

Query: 3   YPFMSFKQTFYYKMESKTMKERFK 26
           YP  SF Q   Y  E K   ++F+
Sbjct: 83  YPLSSFSQIGQYNEEVKAHNQKFE 106



>ref|NP_223280.1| putative lipopolysaccharide biosynthesis protein [Helicobacter
           pylori J99]
          Length = 332

 Score = 20.8 bits (42), Expect = 6.4
 Identities = 8/26 (30%), Positives = 13/26 (49%)

Query: 1   MPYPFMSFKQTFYYKMESKTMKERFK 26
           +P    +FK  FYY + +K     F+
Sbjct: 292 LPPQKSTFKNLFYYSLNAKKRLNAFQ 317



>ref|NP_223861.1| D-LACTATE DEHYDROGENASE [Helicobacter pylori J99]
          Length = 946

 Score = 20.4 bits (41), Expect = 8.3
 Identities = 9/29 (31%), Positives = 15/29 (51%)

Query: 2   PYPFMSFKQTFYYKMESKTMKERFKTLFF 30
           P  F    +   Y +E+KT+K   K ++F
Sbjct: 690 PKAFHYMPKNNAYPLENKTLKGGEKVIYF 718



  Database: NC_000921.faa
    Posted date:  Dec 10, 2001  4:36 PM
  Number of letters in database: 494,079
  Number of sequences in database:  1491
  
Lambda     K      H
   0.336    0.143    0.437 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,255
Number of Sequences: 1491
Number of extensions: 783
Number of successful extensions: 6
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2
Number of HSP's gapped (non-prelim): 4
length of query: 33
length of database: 494,079
effective HSP length: 9
effective length of query: 24
effective length of database: 480,660
effective search space: 11535840
effective search space used: 11535840
T: 11
A: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 41 (20.4 bits)