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|15645663|ref|NP_207840.1| conserved hypothetical
protein [Helicobacter pylori 26695]
         (89 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_207840.1|  (NC_000915) conserved hypothetical protein...   182  5e-46
ref|NP_223095.1|  (NC_000921) putative [Helicobacter pylori ...   170  3e-42
ref|NP_281346.1|  (NC_002163) hypothetical protein Cj0135 [C...    52  2e-06
pir||S52275  hypothetical protein 1 - Thermus aquaticus >gi|...    41  0.003

>ref|NP_207840.1| (NC_000915) conserved hypothetical protein [Helicobacter pylori
          26695]
 pir||A64651 conserved hypothetical protein HP1049 - Helicobacter pylori
          (strain 26695)
 gb|AAD08094.1| (AE000612) conserved hypothetical protein [Helicobacter pylori
          26695]
          Length = 89

 Score =  182 bits (463), Expect = 5e-46
 Identities = 89/89 (100%), Positives = 89/89 (100%)

Query: 1  MMGFLLRKTEIKIRMCVACRMRQPQKDLLRLKSFENQIMEFDGKGRSFYVCGNCLKNGEK 60
          MMGFLLRKTEIKIRMCVACRMRQPQKDLLRLKSFENQIMEFDGKGRSFYVCGNCLKNGEK
Sbjct: 1  MMGFLLRKTEIKIRMCVACRMRQPQKDLLRLKSFENQIMEFDGKGRSFYVCGNCLKNGEK 60

Query: 61 KLLKAVSKIKNAPKDTKNIITWIKERSIA 89
          KLLKAVSKIKNAPKDTKNIITWIKERSIA
Sbjct: 61 KLLKAVSKIKNAPKDTKNIITWIKERSIA 89



>ref|NP_223095.1| (NC_000921) putative [Helicobacter pylori J99]
 pir||D71940 hypothetical protein jhp0376 - Helicobacter pylori (strain J99)
 gb|AAD05949.1| (AE001472) putative [Helicobacter pylori J99]
          Length = 89

 Score =  170 bits (431), Expect = 3e-42
 Identities = 84/89 (94%), Positives = 85/89 (95%)

Query: 1  MMGFLLRKTEIKIRMCVACRMRQPQKDLLRLKSFENQIMEFDGKGRSFYVCGNCLKNGEK 60
          MM  LLRKTEIKIRMCVACRMRQPQK LLRLKSFENQI+EFDGKGRSFYVCGNCLKNGEK
Sbjct: 1  MMESLLRKTEIKIRMCVACRMRQPQKGLLRLKSFENQIVEFDGKGRSFYVCGNCLKNGEK 60

Query: 61 KLLKAVSKIKNAPKDTKNIITWIKERSIA 89
          KLLKAVSKIKNAPKDTKNII WIKERSIA
Sbjct: 61 KLLKAVSKIKNAPKDTKNIINWIKERSIA 89



>ref|NP_281346.1| (NC_002163) hypothetical protein Cj0135 [Campylobacter jejuni]
 pir||G81430 hypothetical protein Cj0135 [imported] - Campylobacter jejuni
          (strain NCTC 11168)
 emb|CAB72619.1| (AL139074) hypothetical protein Cj0135 [Campylobacter jejuni]
          Length = 85

 Score = 51.6 bits (122), Expect = 2e-06
 Identities = 31/81 (38%), Positives = 42/81 (51%), Gaps = 6/81 (7%)

Query: 8  KTEIKIRMCVACRMRQPQKDLLRLKSFENQIMEFDGKGRSFYVCGNCLKNGEKKLLKAVS 67
          K  I IRMC+ C+ R  Q  L R K     I+     GRS Y+C NC++  +K L KA S
Sbjct: 2  KKHIPIRMCIVCKNRFEQNMLFRFKVVLGDIVPKAEHGRSGYLCQNCIEREDKVLQKAFS 61

Query: 68 KIKNAPKDTKNIITWIKERSI 88
          KI       KN+ T I ++ +
Sbjct: 62 KI------CKNLNTKITQQGL 76



>pir||S52275 hypothetical protein 1 - Thermus aquaticus
 emb|CAA88037.1| (Z48001) orf1 [Thermus thermophilus]
          Length = 91

 Score = 40.8 bits (94), Expect = 0.003
 Identities = 25/63 (39%), Positives = 38/63 (59%), Gaps = 3/63 (4%)

Query: 11 IKIRMCVACRMRQPQKDLLR-LKSFENQIMEFDGK--GRSFYVCGNCLKNGEKKLLKAVS 67
          + IRMCVACR R+P+ +LLR L + E  +++  GK  GR  YVC +  +   +K L+  +
Sbjct: 4  VPIRMCVACRRRRPKGELLRILVTEEGFVIDPSGKRPGRGAYVCPDSPECRSEKRLRRFA 63

Query: 68 KIK 70
            K
Sbjct: 64 GAK 66



  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
   0.325    0.138    0.410 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 55,859,467
Number of Sequences: 1026957
Number of extensions: 1909068
Number of successful extensions: 7463
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: 7460
Number of HSP's gapped (non-prelim): 4
length of query: 89
length of database: 324,149,939
effective HSP length: 65
effective length of query: 24
effective length of database: 257,397,734
effective search space: 6177545616
effective search space used: 6177545616
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 90 (39.3 bits)