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|15645768|ref|NP_207945.1| hypothetical protein
[Helicobacter pylori 26695]
         (135 letters)

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

Searching...done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_223798.1|  putative [Helicobacter pylori J99]              265  3e-73
ref|NP_224009.1|  putative [Helicobacter pylori J99]               96  3e-22
ref|NP_224141.1|  TYPE I RESTRICTION ENZYME (MODIFICATION SU...    25  0.76
ref|NP_222735.1|  putative [Helicobacter pylori J99]               23  2.9
ref|NP_224048.1|  putative [Helicobacter pylori J99]               23  3.8
ref|NP_223709.1|  iron-dependent superoxide dismutase [Helic...    22  8.4
ref|NP_223686.1|  putative [Helicobacter pylori J99]               22  8.4
ref|NP_223044.1|  FLAGELLAR M-RING PROTEIN [Helicobacter pyl...    22  8.4

>ref|NP_223798.1| putative [Helicobacter pylori J99]
          Length = 135

 Score =  265 bits (677), Expect = 3e-73
 Identities = 131/135 (97%), Positives = 134/135 (99%)

Query: 1   MNYFLKAPILGFEHINEVRLEKIDSLFSRLISQTNSPMALDMVLVNPYCLREYSFVIPKY 60
           MNYFLKAPILGFEHINEVRLEKIDSLFSRL+ QTNSPMALDMVLVNPYCLREYSFVIPKY
Sbjct: 1   MNYFLKAPILGFEHINEVRLEKIDSLFSRLMGQTNSPMALDMVLVNPYCLREYSFVIPKY 60

Query: 61  IELLLELDSHSKVEVYCVVVLQKNLEDSMVNFLAPLVFNSKNGFGAQVALSMMDYPDFGF 120
           IELLLELDSHSKVEVYCVVVLQKNLEDSMVNFLAPLVFNSKNGFGAQVALSMMDYPDFGF
Sbjct: 61  IELLLELDSHSKVEVYCVVVLQKNLEDSMVNFLAPLVFNSKNGFGAQVALSMMDYPDFGF 120

Query: 121 RDPLKSFVIQERERA 135
           RDPLKSFV++ERERA
Sbjct: 121 RDPLKSFVVKERERA 135



>ref|NP_224009.1| putative [Helicobacter pylori J99]
          Length = 129

 Score = 95.9 bits (237), Expect = 3e-22
 Identities = 52/126 (41%), Positives = 79/126 (62%), Gaps = 1/126 (0%)

Query: 1   MNYFLKAPILGFEHINEVRLEKIDSLFSRLISQTNSPMALDMVLVNPYCLREYSFVIPKY 60
           M + +KAPILGFE I+++ L+KID +F RL S  ++ + +   LVNP+ LR+Y F +P  
Sbjct: 1   MIFDVKAPILGFETIHKMHLQKIDEIFLRLNSAEDNSV-VSFTLVNPFALRKYEFEVPTP 59

Query: 61  IELLLELDSHSKVEVYCVVVLQKNLEDSMVNFLAPLVFNSKNGFGAQVALSMMDYPDFGF 120
           +++LLEL+    V V  ++V+Q  +E S VN+LAPL+FN       QV L    YP +  
Sbjct: 60  LKILLELEGAKSVLVANIMVVQTPIELSTVNYLAPLIFNLDKQLMGQVVLDSKKYPHYHL 119

Query: 121 RDPLKS 126
           R+ + S
Sbjct: 120 RENILS 125



>ref|NP_224141.1| TYPE I RESTRICTION ENZYME (MODIFICATION SUBUNIT) [Helicobacter
           pylori J99]
          Length = 815

 Score = 25.0 bits (53), Expect = 0.76
 Identities = 13/53 (24%), Positives = 23/53 (42%)

Query: 16  NEVRLEKIDSLFSRLISQTNSPMALDMVLVNPYCLREYSFVIPKYIELLLELD 68
           N +R + +  +     +    P    MV +    L +Y+  IP+YI    EL+
Sbjct: 402 NRLREQDVQKMIDTFNALKEIPYYSKMVSLEEISLNDYNLNIPRYIAAKQELE 454



>ref|NP_222735.1| putative [Helicobacter pylori J99]
          Length = 93

 Score = 23.1 bits (48), Expect = 2.9
 Identities = 12/43 (27%), Positives = 24/43 (54%)

Query: 3  YFLKAPILGFEHINEVRLEKIDSLFSRLISQTNSPMALDMVLV 45
          +FLK   L    ++ +  E ++  F+ L +Q  SP+A  +++V
Sbjct: 4  HFLKIVFLVGMCVSSLFAEGLEGFFNALEAQLKSPIAKGILMV 46



>ref|NP_224048.1| putative [Helicobacter pylori J99]
          Length = 187

 Score = 22.7 bits (47), Expect = 3.8
 Identities = 16/52 (30%), Positives = 26/52 (49%), Gaps = 1/52 (1%)

Query: 64  LLELDSHSKVEVYCVVVLQKNLEDSMVNFLAPLVFNSKNGFGAQVALSMMDY 115
           L + D  SK+E    ++L+K+L+D +      +   SKN    Q  LS + Y
Sbjct: 123 LAKHDDISKIEDAFTLILRKSLQDMIEKCPYFVFLQSKNSVSNQ-GLSRITY 173



>ref|NP_223709.1| iron-dependent superoxide dismutase [Helicobacter pylori J99]
          Length = 213

 Score = 21.6 bits (44), Expect = 8.4
 Identities = 8/18 (44%), Positives = 14/18 (77%)

Query: 86  EDSMVNFLAPLVFNSKNG 103
           +DSM +FL+P+ F+  +G
Sbjct: 11  KDSMGDFLSPVAFDFHHG 28



>ref|NP_223686.1| putative [Helicobacter pylori J99]
          Length = 623

 Score = 21.6 bits (44), Expect = 8.4
 Identities = 12/62 (19%), Positives = 32/62 (51%)

Query: 52  EYSFVIPKYIELLLELDSHSKVEVYCVVVLQKNLEDSMVNFLAPLVFNSKNGFGAQVALS 111
           +Y   +  Y E+L  + +H K  +   ++++ N++  +      L F + +   +++AL+
Sbjct: 186 DYELRLNTYTEVLRYIKNHPKEVLPKNLIMEVNMDFVLNKISKVLPFTAHSLQVSKIALA 245

Query: 112 MM 113
           +M
Sbjct: 246 LM 247



>ref|NP_223044.1| FLAGELLAR M-RING PROTEIN [Helicobacter pylori J99]
          Length = 567

 Score = 21.6 bits (44), Expect = 8.4
 Identities = 12/24 (50%), Positives = 16/24 (66%), Gaps = 1/24 (4%)

Query: 85  LEDSMVNFLAPLVFNSKNGFGAQV 108
           LE+ +VN LAP+V   KN   A+V
Sbjct: 249 LENKIVNILAPIV-GGKNKVVARV 271



  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
   0.325    0.141    0.405 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 146,195
Number of Sequences: 1491
Number of extensions: 6065
Number of successful extensions: 24
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 16
Number of HSP's gapped (non-prelim): 8
length of query: 135
length of database: 494,079
effective HSP length: 69
effective length of query: 66
effective length of database: 391,200
effective search space: 25819200
effective search space used: 25819200
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: 44 (21.6 bits)