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|15644661|ref|NP_206830.1| conserved hypothetical
secreted protein [Helicobacter pylori 26695]
         (177 letters)

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

Searching...done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_222746.1|  putative [Helicobacter pylori J99]              337  1e-94
ref|NP_223914.1|  phosphohexosemutase [Helicobacter pylori J99]    25  0.91
ref|NP_223520.1|  putative [Helicobacter pylori J99]               25  1.6
ref|NP_223380.1|  putative Outer membrane protein [Helicobac...    25  1.6
ref|NP_223133.1|  TYPE I RESTRICTION ENZYME (SPECIFICITY SUB...    23  3.5
ref|NP_223194.1|  cag island protein [Helicobacter pylori J99]     23  4.5
ref|NP_224083.1|  putative TYPE II DNA MODIFICATION ENZYME (...    22  7.7
ref|NP_223629.1|  putative [Helicobacter pylori J99]               22  7.7

>ref|NP_222746.1| putative [Helicobacter pylori J99]
          Length = 175

 Score =  337 bits (864), Expect = 1e-94
 Identities = 164/175 (93%), Positives = 171/175 (97%)

Query: 3   LIKFVRNVVLFILTAIFLAFMLLVSYCMPHYSAAVISGVEVKRMNENENTPNNKEVKTLA 62
           +IKFVRNVVLFILTAIFLAFMLLVSYCMPHYS AVISGVEVKRMNENENTPNNKEVKTLA
Sbjct: 1   MIKFVRNVVLFILTAIFLAFMLLVSYCMPHYSVAVISGVEVKRMNENENTPNNKEVKTLA 60

Query: 63  RDVYFVQTYDPKDQKSVTVYRNEDTRFSFPFYFKFNSADISALAQSLINQQVEVKYYGWR 122
           RDVYFVQTYDPKDQKSVTVYRNEDTRF FPFYFKFNSADISALAQSL+NQQVEV+YYGWR
Sbjct: 61  RDVYFVQTYDPKDQKSVTVYRNEDTRFGFPFYFKFNSADISALAQSLVNQQVEVQYYGWR 120

Query: 123 INLFNMFPNVIFLKPLKESTDISKPIFSWILYALLLMGFFISARSVCTLFKSKAH 177
           INLFNMFPNVIFLKPLKES ++SKP+FSWILYALLL+GFFISARSVCTLFK KAH
Sbjct: 121 INLFNMFPNVIFLKPLKESDEMSKPVFSWILYALLLVGFFISARSVCTLFKGKAH 175



>ref|NP_223914.1| phosphohexosemutase [Helicobacter pylori J99]
          Length = 459

 Score = 25.4 bits (54), Expect = 0.91
 Identities = 15/48 (31%), Positives = 26/48 (53%), Gaps = 9/48 (18%)

Query: 70  TYDPKDQKSVTVYRNEDTRFSFPFYFKFNSADISALAQSLINQQVEVK 117
           +++PK+     +  N++     PFY K    DI AL  +L+N + E+K
Sbjct: 103 SHNPKEYNGFKITLNQN-----PFYGK----DIQALKNTLLNAKHEIK 141



>ref|NP_223520.1| putative [Helicobacter pylori J99]
          Length = 153

 Score = 24.6 bits (52), Expect = 1.6
 Identities = 14/39 (35%), Positives = 19/39 (47%), Gaps = 5/39 (12%)

Query: 48 ENENTPNNKEVKTLARDVYFVQTYDPKDQKSVTVYRNED 86
          E EN  +NKE +    DV F     PK  + V VY  ++
Sbjct: 53 EKENFRSNKETQNTEEDVIF-----PKALEEVEVYAKDN 86



>ref|NP_223380.1| putative Outer membrane protein [Helicobacter pylori J99]
          Length = 651

 Score = 24.6 bits (52), Expect = 1.6
 Identities = 21/76 (27%), Positives = 35/76 (45%), Gaps = 11/76 (14%)

Query: 54  NNKEVKTLARDVYFVQTYDPKDQ-----KSVTVYRNEDTRFSFPFYFKFNSADISALAQS 108
           N K+V + A+D++ + +  PKDQ     K+     N     + P+  + N      L Q 
Sbjct: 308 NQKQVISYAQDIFNLFSSIPKDQYRYLEKAYLKIPNAGKTPTNPYRQEVN------LNQE 361

Query: 109 LINQQVEVKYYGWRIN 124
           +   Q  V YYG R++
Sbjct: 362 IQTIQNNVSYYGNRVD 377



>ref|NP_223133.1| TYPE I RESTRICTION ENZYME (SPECIFICITY SUBUNIT) [Helicobacter
           pylori J99]
          Length = 409

 Score = 23.5 bits (49), Expect = 3.5
 Identities = 20/89 (22%), Positives = 38/89 (42%), Gaps = 5/89 (5%)

Query: 2   KLIKFVRNVVLFILTAIFLAFMLLVSYCMPHYSAAVISGVEVKRMNE-NENTPNNKEVKT 60
           K+ + +  ++  +    F+ F  L     P+ +    SG ++K   E N   PN+ +VKT
Sbjct: 173 KINELLHKILELLYEQYFVRFDFLDENNKPYQT----SGGKMKFSKELNRLIPNDFKVKT 228

Query: 61  LARDVYFVQTYDPKDQKSVTVYRNEDTRF 89
           L   + ++    P     +  Y+    RF
Sbjct: 229 LGELITWISGSQPPKSCHIYEYKEGYIRF 257



>ref|NP_223194.1| cag island protein [Helicobacter pylori J99]
          Length = 1819

 Score = 23.1 bits (48), Expect = 4.5
 Identities = 11/45 (24%), Positives = 22/45 (48%)

Query: 42  EVKRMNENENTPNNKEVKTLARDVYFVQTYDPKDQKSVTVYRNED 86
           E +++NE ++  NN+  +    D+   +T +   Q S     NE+
Sbjct: 112 ETQKLNEEDDQENNEHQEETQTDLIDDETSEKTQQDSPQDLSNEE 156



>ref|NP_224083.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
           [Helicobacter pylori J99]
          Length = 678

 Score = 22.3 bits (46), Expect = 7.7
 Identities = 10/31 (32%), Positives = 16/31 (51%)

Query: 58  VKTLARDVYFVQTYDPKDQKSVTVYRNEDTR 88
           +K L+ D Y+  T DPK+       +  DT+
Sbjct: 619 LKFLSEDDYYENTIDPKNGSDWNQNKPTDTK 649



>ref|NP_223629.1| putative [Helicobacter pylori J99]
          Length = 487

 Score = 22.3 bits (46), Expect = 7.7
 Identities = 11/45 (24%), Positives = 20/45 (44%)

Query: 42  EVKRMNENENTPNNKEVKTLARDVYFVQTYDPKDQKSVTVYRNED 86
           E+K+  EN      K      R +YF  + +  D K +  Y +++
Sbjct: 209 EMKKYYENHRKDFKKPTSFKTRSLYFDASLEKTDLKELEEYYHKN 253



  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
   0.327    0.139    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: 182,667
Number of Sequences: 1491
Number of extensions: 8122
Number of successful extensions: 35
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 31
Number of HSP's gapped (non-prelim): 8
length of query: 177
length of database: 494,079
effective HSP length: 72
effective length of query: 105
effective length of database: 386,727
effective search space: 40606335
effective search space used: 40606335
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 46 (22.3 bits)