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|15645083|ref|NP_207253.1| hypothetical protein
[Helicobacter pylori 26695]
         (103 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_207253.1|  (NC_000915) hypothetical protein [Helicoba...   204  1e-52
gb|AAM03029.1|AF487344_2  (AF487344) unknown [Helicobacter p...   157  2e-38
ref|NP_223658.1|  (NC_000921) INTEGRASE/RECOMBINASE (XERCD F...    86  6e-17
ref|NP_207244.1|  (NC_000915) hypothetical protein [Helicoba...    64  3e-10

>ref|NP_207253.1| (NC_000915) hypothetical protein [Helicobacter pylori 26695]
 pir||G64576 hypothetical protein HP0455 - Helicobacter pylori (strain 26695)
 gb|AAD07533.1| (AE000561) H. pylori predicted coding region HP0455 [Helicobacter
           pylori 26695]
          Length = 103

 Score =  204 bits (520), Expect = 1e-52
 Identities = 103/103 (100%), Positives = 103/103 (100%)

Query: 1   MFLQVVARTLRKNVNILEEQGFIEVIKGKQRYLYVYLKDYRELEGYNSVGANQKNNIPSP 60
           MFLQVVARTLRKNVNILEEQGFIEVIKGKQRYLYVYLKDYRELEGYNSVGANQKNNIPSP
Sbjct: 1   MFLQVVARTLRKNVNILEEQGFIEVIKGKQRYLYVYLKDYRELEGYNSVGANQKNNIPSP 60

Query: 61  FFLQIMRFLEKFAKEIERVKITTKNVLCIFLAKSLCKELIMLF 103
           FFLQIMRFLEKFAKEIERVKITTKNVLCIFLAKSLCKELIMLF
Sbjct: 61  FFLQIMRFLEKFAKEIERVKITTKNVLCIFLAKSLCKELIMLF 103



>gb|AAM03029.1|AF487344_2 (AF487344) unknown [Helicobacter pylori]
          Length = 262

 Score =  157 bits (397), Expect = 2e-38
 Identities = 78/84 (92%), Positives = 80/84 (94%)

Query: 1   MFLQVVARTLRKNVNILEEQGFIEVIKGKQRYLYVYLKDYRELEGYNSVGANQKNNIPSP 60
           MFLQVVARTLRKNVNILEEQGFIEVIKGKQRYLYVYLKDYRELEGYN +GANQKNNIPSP
Sbjct: 91  MFLQVVARTLRKNVNILEEQGFIEVIKGKQRYLYVYLKDYRELEGYNYIGANQKNNIPSP 150

Query: 61  FFLQIMRFLEKFAKEIERVKITTK 84
           FFLQIM FLEKFAKEI+RVKI  K
Sbjct: 151 FFLQIMSFLEKFAKEIKRVKINNK 174



>ref|NP_223658.1| (NC_000921) INTEGRASE/RECOMBINASE (XERCD FAMILY) [Helicobacter
          pylori J99]
 pir||A71870 integrase/recombinase (xercd family) - Helicobacter pylori
          (strain J99)
 gb|AAD06517.1| (AE001523) INTEGRASE/RECOMBINASE (XERCD FAMILY) [Helicobacter
          pylori J99]
          Length = 331

 Score = 86.3 bits (212), Expect = 6e-17
 Identities = 43/44 (97%), Positives = 43/44 (97%)

Query: 1  MFLQVVARTLRKNVNILEEQGFIEVIKGKQRYLYVYLKDYRELE 44
          MFLQVVARTL KNVNILEEQGFIEVIKGKQRYLYVYLKDYRELE
Sbjct: 43 MFLQVVARTLIKNVNILEEQGFIEVIKGKQRYLYVYLKDYRELE 86



>ref|NP_207244.1| (NC_000915) hypothetical protein [Helicobacter pylori 26695]
 pir||F64575 hypothetical protein HP0446 - Helicobacter pylori (strain 26695)
 gb|AAD07516.1| (AE000560) H. pylori predicted coding region HP0446 [Helicobacter
           pylori 26695]
          Length = 259

 Score = 64.3 bits (155), Expect = 3e-10
 Identities = 32/91 (35%), Positives = 52/91 (56%)

Query: 3   LQVVARTLRKNVNILEEQGFIEVIKGKQRYLYVYLKDYRELEGYNSVGANQKNNIPSPFF 62
           LQ   RTLR N+ ILE  GF+   K K+ Y+++ + D+ ++E Y   G N ++N+P+ FF
Sbjct: 98  LQWCDRTLRHNLQILERIGFLTAFKNKKGYIFLSMHDFTKIENYEHSGLNGESNLPNSFF 157

Query: 63  LQIMRFLEKFAKEIERVKITTKNVLCIFLAK 93
           L I  +L+K  K+++       N   +F  K
Sbjct: 158 LGICGYLKKLFKKLKDRAFRLANKHGVFFLK 188



  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
   0.327    0.144    0.402 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 57,102,007
Number of Sequences: 1026957
Number of extensions: 2092776
Number of successful extensions: 7181
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: 7177
Number of HSP's gapped (non-prelim): 4
length of query: 103
length of database: 324,149,939
effective HSP length: 79
effective length of query: 24
effective length of database: 243,020,336
effective search space: 5832488064
effective search space used: 5832488064
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 90 (39.3 bits)