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|15645872|ref|NP_208050.1| conserved hypothetical
mitochondrial protein 4 [Helicobacter pylori 26695]
         (154 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_208050.1|  (NC_000915) conserved hypothetical mitocho...   309  6e-84
ref|NP_223897.1|  (NC_000921) putative [Helicobacter pylori ...   282  9e-76
ref|NP_281427.1|  (NC_002163) putative integral membrane pro...    82  2e-15

>ref|NP_208050.1| (NC_000915) conserved hypothetical mitochondrial protein 4
           [Helicobacter pylori 26695]
 pir||B64677 conserved hypothetical protein HP1258 - Helicobacter pylori
           (strain 26695)
 gb|AAD08304.1| (AE000631) conserved hypothetical mitochondrial protein 4
           [Helicobacter pylori 26695]
          Length = 154

 Score =  309 bits (792), Expect = 6e-84
 Identities = 154/154 (100%), Positives = 154/154 (100%)

Query: 1   MATKKTKKNKTPKKKQALESPLKGLYLSLRLKAFITDIFMIYTPMLYIMTYAILGSAKDF 60
           MATKKTKKNKTPKKKQALESPLKGLYLSLRLKAFITDIFMIYTPMLYIMTYAILGSAKDF
Sbjct: 1   MATKKTKKNKTPKKKQALESPLKGLYLSLRLKAFITDIFMIYTPMLYIMTYAILGSAKDF 60

Query: 61  RENQSAIFLCLLFYALTHSFFIAFKSQSPGMRYARFKLIKNNGEKVGFFLALWRFVLWVL 120
           RENQSAIFLCLLFYALTHSFFIAFKSQSPGMRYARFKLIKNNGEKVGFFLALWRFVLWVL
Sbjct: 61  RENQSAIFLCLLFYALTHSFFIAFKSQSPGMRYARFKLIKNNGEKVGFFLALWRFVLWVL 120

Query: 121 SMGLLIGFVTPFIFKFFLHDKLSGTHIETIKEAT 154
           SMGLLIGFVTPFIFKFFLHDKLSGTHIETIKEAT
Sbjct: 121 SMGLLIGFVTPFIFKFFLHDKLSGTHIETIKEAT 154



>ref|NP_223897.1| (NC_000921) putative [Helicobacter pylori J99]
 pir||H71837 hypothetical protein jhp1179 - Helicobacter pylori (strain J99)
 gb|AAD06765.1| (AE001545) putative [Helicobacter pylori J99]
          Length = 152

 Score =  282 bits (721), Expect = 9e-76
 Identities = 141/152 (92%), Positives = 145/152 (94%), Gaps = 2/152 (1%)

Query: 1   MATKKTKKNKTPKKKQALESPLKGLYLSLRLKAFITDIFMIYTPMLYIMTYAILGSAKDF 60
           MATKKTKKNK  +KKQALE+PLKGLYLSLRLKAFITDIFMIYTPMLYIMTYAILGSAKDF
Sbjct: 1   MATKKTKKNK--EKKQALENPLKGLYLSLRLKAFITDIFMIYTPMLYIMTYAILGSAKDF 58

Query: 61  RENQSAIFLCLLFYALTHSFFIAFKSQSPGMRYARFKLIKNNGEKVGFFLALWRFVLWVL 120
           RENQSAIFLCLLFYALTHSFFIAFKSQSPGMRYARFKL+KNNGEKV FFLALWRFVLWVL
Sbjct: 59  RENQSAIFLCLLFYALTHSFFIAFKSQSPGMRYARFKLVKNNGEKVDFFLALWRFVLWVL 118

Query: 121 SMGLLIGFVTPFIFKFFLHDKLSGTHIETIKE 152
           SMGLL+GFV PFIFKFFLHDK S THIE IKE
Sbjct: 119 SMGLLVGFVAPFIFKFFLHDKFSSTHIEIIKE 150



>ref|NP_281427.1| (NC_002163) putative integral membrane protein [Campylobacter
           jejuni]
 pir||H81440 probable integral membrane protein Cj0232c [imported] -
           Campylobacter jejuni (strain NCTC 11168)
 emb|CAB72701.1| (AL139074) putative integral membrane protein [Campylobacter
           jejuni]
          Length = 136

 Score = 81.6 bits (200), Expect = 2e-15
 Identities = 46/124 (37%), Positives = 71/124 (57%), Gaps = 4/124 (3%)

Query: 29  LRLKAFITDIFMIYTPMLYIMTYAILGSAKDFRENQSAIFLCLLFYALTHSFFIAFKSQS 88
           LR +A + DIF+IY P+LY+  Y +LGS + F  N     LC   + L  + F+  K+QS
Sbjct: 12  LRFRALLIDIFLIYVPILYLF-YFLLGSKEAFLNNHFITTLCTFLFGLIQAIFLTKKAQS 70

Query: 89  PGMR-YARFKLIKNNGEKVGFFLALWRFVLWVLSMGLLIGFVTPFIFK--FFLHDKLSGT 145
           PG++ Y  + +    G+K+ F   L R+V++++S GLL G    F+ K    LHD L+ +
Sbjct: 71  PGLKAYDLYLIDIKTGKKLSFLRILLRYVIFIISFGLLFGLFVSFVRKDRLNLHDILTQS 130

Query: 146 HIET 149
            I T
Sbjct: 131 CIAT 134



  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
   0.330    0.143    0.426 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 92,677,367
Number of Sequences: 1026957
Number of extensions: 3403367
Number of successful extensions: 10232
Number of sequences better than 1.0e-02: 3
Number of HSP's better than  0.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 10227
Number of HSP's gapped (non-prelim): 3
length of query: 154
length of database: 324,149,939
effective HSP length: 110
effective length of query: 44
effective length of database: 211,184,669
effective search space: 9292125436
effective search space used: 9292125436
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 92 (40.0 bits)