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|15644832|ref|NP_207002.1| hypothetical protein
[Helicobacter pylori 26695]
         (91 letters)

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

Searching...done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_222910.1|  putative [Helicobacter pylori J99]              158  2e-41
ref|NP_222912.1|  putative [Helicobacter pylori J99]               25  0.36
ref|NP_224078.1|  putative Outer membrane protein [Helicobac...    20  6.8
ref|NP_223797.1|  VALYL-TRNA SYNTHETASE [Helicobacter pylori...    20  8.9
ref|NP_223688.1|  putative PARALOG OF HpaA [Helicobacter pyl...    20  8.9
ref|NP_222754.1|  putative [Helicobacter pylori J99]               20  8.9

>ref|NP_222910.1| putative [Helicobacter pylori J99]
          Length = 100

 Score =  158 bits (400), Expect = 2e-41
 Identities = 73/83 (87%), Positives = 77/83 (91%)

Query: 1  MKKVVFLLLVILGGLEAQSTYCSDHCEGTPDSRIPPMGFHFSFVHSVKYYLQDPQERDHK 60
          MKKVVFLLL +LGGLEA S YCSDHCEGTPDSRIPPMGFHFSFVHSVKYYLQDPQ+RDHK
Sbjct: 1  MKKVVFLLLFMLGGLEAHSDYCSDHCEGTPDSRIPPMGFHFSFVHSVKYYLQDPQKRDHK 60

Query: 61 LEKCHQAFDSTLKVNFITNLLKR 83
          LEKCH+AFDSTLKVNFIT   K+
Sbjct: 61 LEKCHKAFDSTLKVNFITKSFKK 83



>ref|NP_222912.1| putative [Helicobacter pylori J99]
          Length = 916

 Score = 24.6 bits (52), Expect = 0.36
 Identities = 8/18 (44%), Positives = 13/18 (71%)

Query: 37  MGFHFSFVHSVKYYLQDP 54
           +G HFSF H++ Y + +P
Sbjct: 635 VGSHFSFNHNIIYVMDEP 652



>ref|NP_224078.1| putative Outer membrane protein [Helicobacter pylori J99]
          Length = 231

 Score = 20.4 bits (41), Expect = 6.8
 Identities = 6/13 (46%), Positives = 11/13 (84%)

Query: 2  KKVVFLLLVILGG 14
          KK++FL + ++GG
Sbjct: 3  KKIIFLCVFLIGG 15



>ref|NP_223797.1| VALYL-TRNA SYNTHETASE [Helicobacter pylori J99]
          Length = 872

 Score = 20.0 bits (40), Expect = 8.9
 Identities = 10/43 (23%), Positives = 16/43 (36%)

Query: 48  KYYLQDPQERDHKLEKCHQAFDSTLKVNFITNLLKRIASMRKW 90
           K +   P+     +EK  Q        N+I N    +  +R W
Sbjct: 361 KQWFVKPEIAQSSIEKIQQGLARFYPSNWINNYNAWMRELRPW 403



>ref|NP_223688.1| putative PARALOG OF HpaA [Helicobacter pylori J99]
          Length = 249

 Score = 20.0 bits (40), Expect = 8.9
 Identities = 8/23 (34%), Positives = 13/23 (55%)

Query: 8  LLVILGGLEAQSTYCSDHCEGTP 30
          L ++LG L A  T+ +   +G P
Sbjct: 6  LAIVLGSLLASGTFYTALADGMP 28



>ref|NP_222754.1| putative [Helicobacter pylori J99]
          Length = 335

 Score = 20.0 bits (40), Expect = 8.9
 Identities = 8/16 (50%), Positives = 12/16 (75%)

Query: 60  KLEKCHQAFDSTLKVN 75
           K+++ HQ  + TLKVN
Sbjct: 234 KIKRNHQIKEVTLKVN 249



  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
   0.326    0.140    0.436 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 86,233
Number of Sequences: 1491
Number of extensions: 3030
Number of successful extensions: 6
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 6
length of query: 91
length of database: 494,079
effective HSP length: 67
effective length of query: 24
effective length of database: 394,182
effective search space:  9460368
effective search space used:  9460368
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 40 (20.0 bits)