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|15645642|ref|NP_207818.1| hypothetical protein
[Helicobacter pylori 26695]
         (165 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_207818.1|  (NC_000915) hypothetical protein [Helicoba...   339  6e-93
ref|NP_223115.1|  (NC_000921) putative [Helicobacter pylori ...   322  8e-88
emb|CAA74752.1|  (Y14394) brute force protein [Helicobacter ...    99  2e-20
ref|NP_522148.1|  (NC_003296) PUTATIVE SIGNAL PEPTIDE PROTEI...    46  2e-04

>ref|NP_207818.1| (NC_000915) hypothetical protein [Helicobacter pylori 26695]
 pir||D64648 hypothetical protein HP1028 - Helicobacter pylori (strain 26695)
 gb|AAD08083.1| (AE000611) H. pylori predicted coding region HP1028 [Helicobacter
           pylori 26695]
          Length = 165

 Score =  339 bits (870), Expect = 6e-93
 Identities = 165/165 (100%), Positives = 165/165 (100%)

Query: 1   MRLVSLVIVFCCFLRAVELPGIYQTQEFLYMKSSFVEFFEHNGKFYAYGISDVDGSKARK 60
           MRLVSLVIVFCCFLRAVELPGIYQTQEFLYMKSSFVEFFEHNGKFYAYGISDVDGSKARK
Sbjct: 1   MRLVSLVIVFCCFLRAVELPGIYQTQEFLYMKSSFVEFFEHNGKFYAYGISDVDGSKARK 60

Query: 61  DKLNPNPKLRNRSDKGVVFLSDLIKVGKRSYKGGKAYNFYDGKTYYVRVTQNSNGDLEFT 120
           DKLNPNPKLRNRSDKGVVFLSDLIKVGKRSYKGGKAYNFYDGKTYYVRVTQNSNGDLEFT
Sbjct: 61  DKLNPNPKLRNRSDKGVVFLSDLIKVGKRSYKGGKAYNFYDGKTYYVRVTQNSNGDLEFT 120

Query: 121 SSYDKWGYVGKTFTWKRLSDEEIKNLKLKRFNLDEVLKTIKDSPI 165
           SSYDKWGYVGKTFTWKRLSDEEIKNLKLKRFNLDEVLKTIKDSPI
Sbjct: 121 SSYDKWGYVGKTFTWKRLSDEEIKNLKLKRFNLDEVLKTIKDSPI 165



>ref|NP_223115.1| (NC_000921) putative [Helicobacter pylori J99]
 pir||B71939 hypothetical protein jhp0396 - Helicobacter pylori (strain J99)
 gb|AAD05969.1| (AE001473) putative [Helicobacter pylori J99]
          Length = 167

 Score =  322 bits (826), Expect = 8e-88
 Identities = 155/167 (92%), Positives = 164/167 (97%), Gaps = 2/167 (1%)

Query: 1   MRLVSLVI--VFCCFLRAVELPGIYQTQEFLYMKSSFVEFFEHNGKFYAYGISDVDGSKA 58
           M+LVSL++  VFCCFL AVELPG+YQTQEFLYMKSSFVEFFEHNGKFYAYGISDVDGSKA
Sbjct: 1   MKLVSLIVALVFCCFLGAVELPGVYQTQEFLYMKSSFVEFFEHNGKFYAYGISDVDGSKA 60

Query: 59  RKDKLNPNPKLRNRSDKGVVFLSDLIKVGKRSYKGGKAYNFYDGKTYYVRVTQNSNGDLE 118
           +KDKLNPNPKLRNRSDKGVVFLSDLIKVG++SYKGGKAYNFYDGKTY+VRVTQNSNGDLE
Sbjct: 61  KKDKLNPNPKLRNRSDKGVVFLSDLIKVGEQSYKGGKAYNFYDGKTYHVRVTQNSNGDLE 120

Query: 119 FTSSYDKWGYVGKTFTWKRLSDEEIKNLKLKRFNLDEVLKTIKDSPI 165
           FTSSYDKWGYVGKTFTWKRLSDEEIKNLKLKRFNLDEVLKT+KDSPI
Sbjct: 121 FTSSYDKWGYVGKTFTWKRLSDEEIKNLKLKRFNLDEVLKTLKDSPI 167



>emb|CAA74752.1| (Y14394) brute force protein [Helicobacter pylori]
          Length = 48

 Score = 98.6 bits (244), Expect = 2e-20
 Identities = 46/48 (95%), Positives = 47/48 (97%)

Query: 118 EFTSSYDKWGYVGKTFTWKRLSDEEIKNLKLKRFNLDEVLKTIKDSPI 165
           EFTSSYDKWGY+GKT TWKRLSDEEIKNLKLKRFNLDEVLKTIKDSPI
Sbjct: 1   EFTSSYDKWGYLGKTSTWKRLSDEEIKNLKLKRFNLDEVLKTIKDSPI 48



>ref|NP_522148.1| (NC_003296) PUTATIVE SIGNAL PEPTIDE PROTEIN [Ralstonia
           solanacearum]
 emb|CAD17738.1| (AL646079) PUTATIVE SIGNAL PEPTIDE PROTEIN [Ralstonia solanacearum]
          Length = 156

 Score = 45.8 bits (107), Expect = 2e-04
 Identities = 34/111 (30%), Positives = 52/111 (46%), Gaps = 2/111 (1%)

Query: 1   MRLVSLVIVFCCFLRAVELPGIYQTQEFLYMKSSFVEFFEHNGKF-YAYGISDVDGSKAR 59
           M L   V+     L A E+ G ++ ++       +    E   +  Y   + + D +  +
Sbjct: 19  MSLFFTVVTHAQQLPADEIIGAWEAEDGSVKLDMYKAGPEFEARLLYGNQVVESDNATFK 78

Query: 60  KDKLNPNPKLRNRSDKGVVFLSDLIKVGKRSYKGGKAYNFYDGKTYYVRVT 110
            D  NPNP LR+RS K VVFLS L +     + GG  Y+   G+TY  +VT
Sbjct: 79  LDTKNPNPALRSRSLKNVVFLSGL-RWEDGQWTGGSLYDGASGRTYTCKVT 128



  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
   0.320    0.140    0.415 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 108,214,633
Number of Sequences: 1026957
Number of extensions: 4634670
Number of successful extensions: 10345
Number of sequences better than 1.0e-02: 4
Number of HSP's better than  0.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 10341
Number of HSP's gapped (non-prelim): 4
length of query: 165
length of database: 324,149,939
effective HSP length: 112
effective length of query: 53
effective length of database: 209,130,755
effective search space: 11083930015
effective search space used: 11083930015
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: 92 (40.0 bits)