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|15644939|ref|NP_207109.1| hypothetical protein
[Helicobacter pylori 26695]
         (122 letters)

Database: NC_000921.faa
           1491 sequences; 494,079 total letters

Searching...done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_223016.1|  putative [Helicobacter pylori J99]              214  4e-58
ref|NP_223655.1|  putative [Helicobacter pylori J99]               27  0.17
ref|NP_222763.1|  putative TRANSCRIPTIONAL REGULATOR [Helico...    23  3.2
ref|NP_223076.1|  putative RIBOSOMAL PROTEIN L11 METHYLTRANS...    22  5.4

>ref|NP_223016.1| putative [Helicobacter pylori J99]
          Length = 122

 Score =  214 bits (546), Expect = 4e-58
 Identities = 105/120 (87%), Positives = 110/120 (91%)

Query: 1   MCVLCGELISSFHWTDESDSYGIDENLKGQNALISANENARERKRARLKRVRLLNQILAF 60
           MCVLCGELISSFHWTD SD Y  DENL+G NA+ISANENARERKRARLKRV LLNQILAF
Sbjct: 1   MCVLCGELISSFHWTDGSDGYRSDENLRGSNAVISANENARERKRARLKRVGLLNQILAF 60

Query: 61  YGLKINDWQGAKFVLCDKKGQSVIVNDLGDLWDKAQNLAKKEMDALDSHLLAFLNQNANA 120
           YGLKI DWQGAKFVLCDKKGQSVIVNDLGDLWDKAQNLAKK+MD LDS+LLAFLNQ+  A
Sbjct: 61  YGLKIGDWQGAKFVLCDKKGQSVIVNDLGDLWDKAQNLAKKKMDVLDSNLLAFLNQHTQA 120



>ref|NP_223655.1| putative [Helicobacter pylori J99]
          Length = 416

 Score = 26.9 bits (58), Expect = 0.17
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 4   LCGELISSFHWTDESDSYGIDENLKGQNALISANENARERKRARLKRVR 52
           L GEL S   W +       D N + + AL++   N  E+KR  L RV+
Sbjct: 183 LAGEL-SGRAWGEMLCKMVNDSNYESEQALLATGNNPEEQKRRFLLRVK 230



>ref|NP_222763.1| putative TRANSCRIPTIONAL REGULATOR [Helicobacter pylori J99]
          Length = 757

 Score = 22.7 bits (47), Expect = 3.2
 Identities = 10/17 (58%), Positives = 12/17 (69%)

Query: 77  DKKGQSVIVNDLGDLWD 93
           DKK QSV  N +G L+D
Sbjct: 594 DKKIQSVATNSIGRLFD 610



>ref|NP_223076.1| putative RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE [Helicobacter
           pylori J99]
          Length = 329

 Score = 21.9 bits (45), Expect = 5.4
 Identities = 14/43 (32%), Positives = 21/43 (48%)

Query: 21  YGIDENLKGQNALISANENARERKRARLKRVRLLNQILAFYGL 63
           YG  + ++G+  +I AN  A   K    + VRL N  L   G+
Sbjct: 248 YGSTQKIEGRFDIIVANLVADVIKSLYSEFVRLCNHTLILSGI 290



  Database: NC_000921.faa
    Posted date:  Dec 10, 2001  4:36 PM
  Number of letters in database: 494,079
  Number of sequences in database:  1491
  
Lambda     K      H
   0.320    0.135    0.403 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 122,412
Number of Sequences: 1491
Number of extensions: 4881
Number of successful extensions: 10
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 6
Number of HSP's gapped (non-prelim): 4
length of query: 122
length of database: 494,079
effective HSP length: 67
effective length of query: 55
effective length of database: 394,182
effective search space: 21680010
effective search space used: 21680010
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: 43 (21.2 bits)