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|15646127|ref|NP_208309.1| hypothetical protein
[Helicobacter pylori 26695]
         (95 letters)

Database: /home/scwang/download_20020708_db/nr
           1,026,957 sequences; 324,149,939 total letters

Searching..................................................done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_208309.1|  (NC_000915) hypothetical protein [Helicoba...   193  4e-49
ref|NP_224127.1|  (NC_000921) putative TYPE II DNA MODIFICAT...    95  1e-19
ref|NP_208163.1|  (NC_000915) rod shape-determining protein ...    64  3e-10
ref|NP_224004.1|  (NC_000921) putative [Helicobacter pylori ...    61  2e-09

>ref|NP_208309.1| (NC_000915) hypothetical protein [Helicobacter pylori 26695]
 pir||F64709 hypothetical protein HP1518 - Helicobacter pylori (strain 26695)
 gb|AAD08559.1| (AE000649) H. pylori predicted coding region HP1518 [Helicobacter
          pylori 26695]
          Length = 95

 Score =  193 bits (490), Expect = 4e-49
 Identities = 95/95 (100%), Positives = 95/95 (100%)

Query: 1  MIRFAHISLKDFIKKHNPQTPTKETIENFEKEINSLLENAPRQDDEEFQKNEINKFLGKV 60
          MIRFAHISLKDFIKKHNPQTPTKETIENFEKEINSLLENAPRQDDEEFQKNEINKFLGKV
Sbjct: 1  MIRFAHISLKDFIKKHNPQTPTKETIENFEKEINSLLENAPRQDDEEFQKNEINKFLGKV 60

Query: 61 SSIEKHYTYKSVALKNAFINNDKLLKHVFLSDVRN 95
          SSIEKHYTYKSVALKNAFINNDKLLKHVFLSDVRN
Sbjct: 61 SSIEKHYTYKSVALKNAFINNDKLLKHVFLSDVRN 95



>ref|NP_224127.1| (NC_000921) putative TYPE II DNA MODIFICATION ENZYME
          (METHYLTRANSFERASE) [Helicobacter pylori J99]
 pir||D71810 probable type II DNA modification enzyme (methyltransferase) -
          Helicobacter pylori (strain J99)
 gb|AAD06987.1| (AE001563) putative TYPE II DNA MODIFICATION ENZYME
          (METHYLTRANSFERASE) [Helicobacter pylori J99]
          Length = 1252

 Score = 95.1 bits (235), Expect = 1e-19
 Identities = 46/54 (85%), Positives = 47/54 (86%)

Query: 4  FAHISLKDFIKKHNPQTPTKETIENFEKEINSLLENAPRQDDEEFQKNEINKFL 57
          F  I LK FIKK+NPQ P KETIENFEKEINSLLEN PRQDDEEFQKNEINKFL
Sbjct: 3  FTRIPLKVFIKKYNPQEPKKETIENFEKEINSLLENVPRQDDEEFQKNEINKFL 56



>ref|NP_208163.1| (NC_000915) rod shape-determining protein (mreC) [Helicobacter
           pylori 26695]
 pir||D64691 rod shape-determining protein - Helicobacter pylori (strain 26695)
 gb|AAD08415.1| (AE000637) rod shape-determining protein (mreC) [Helicobacter
           pylori 26695]
          Length = 248

 Score = 64.3 bits (155), Expect = 3e-10
 Identities = 29/40 (72%), Positives = 35/40 (87%)

Query: 56  FLGKVSSIEKHYTYKSVALKNAFINNDKLLKHVFLSDVRN 95
           F+G+VSSIE HYTYKS  LKNAF++  KLL+HVFLSDV+N
Sbjct: 209 FVGEVSSIEDHYTYKSAVLKNAFLSGAKLLRHVFLSDVKN 248



>ref|NP_224004.1| (NC_000921) putative [Helicobacter pylori J99]
 pir||D71826 hypothetical protein jhp1286 - Helicobacter pylori (strain J99)
 gb|AAD06860.1| (AE001551) putative [Helicobacter pylori J99]
          Length = 248

 Score = 61.2 bits (147), Expect = 2e-09
 Identities = 27/40 (67%), Positives = 34/40 (84%)

Query: 56  FLGKVSSIEKHYTYKSVALKNAFINNDKLLKHVFLSDVRN 95
           F+G+VSS+E HYTYKS  LKNAF++  KLL+HVFLS V+N
Sbjct: 209 FVGEVSSVEDHYTYKSAVLKNAFLSEAKLLRHVFLSGVKN 248



  Database: /home/scwang/download_20020708_db/nr
    Posted date:  Aug 7, 2002 12:55 PM
  Number of letters in database: 324,149,939
  Number of sequences in database:  1,026,957
  
Lambda     K      H
   0.315    0.133    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: 58,969,211
Number of Sequences: 1026957
Number of extensions: 2144251
Number of successful extensions: 11000
Number of sequences better than 1.0e-02: 4
Number of HSP's better than  0.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 10995
Number of HSP's gapped (non-prelim): 5
length of query: 95
length of database: 324,149,939
effective HSP length: 71
effective length of query: 24
effective length of database: 251,235,992
effective search space: 6029663808
effective search space used: 6029663808
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 90 (39.3 bits)