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|15645811|ref|NP_207988.1| ribosomal protein S12
(rps12) [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_223837.1|  30S RIBOSOMAL PROTEIN S12 [Helicobacter py...   270  1e-74
ref|NP_223737.1|  UDP-GLUCOSE 4-EPIMERASE [Helicobacter pylo...    24  1.3
ref|NP_224127.1|  putative TYPE II DNA MODIFICATION ENZYME (...    23  2.9
ref|NP_223176.1|  putative [Helicobacter pylori J99]               22  4.9
ref|NP_223746.1|  GLUCOKINASE [Helicobacter pylori J99]            22  6.4
ref|NP_222798.1|  30S RIBOSOMAL PROTEIN S9 [Helicobacter pyl...    22  6.4
ref|NP_223354.1|  3-OXOACID COA-TRANSFERASE, SUBUNIT B [Heli...    22  8.4

>ref|NP_223837.1| 30S RIBOSOMAL PROTEIN S12 [Helicobacter pylori J99]
          Length = 135

 Score =  270 bits (689), Expect = 1e-74
 Identities = 135/135 (100%), Positives = 135/135 (100%)

Query: 1   MPTINQLIRKERKKVVKKTKSPALVECPQRRGVCTRVYTTTPKKPNSALRKVAKVRLTSK 60
           MPTINQLIRKERKKVVKKTKSPALVECPQRRGVCTRVYTTTPKKPNSALRKVAKVRLTSK
Sbjct: 1   MPTINQLIRKERKKVVKKTKSPALVECPQRRGVCTRVYTTTPKKPNSALRKVAKVRLTSK 60

Query: 61  FEVISYIPGEGHNLQEHSIVLVRGGRVKDLPGVKYHIVRGALDTAGVNKRTVSRSKYGTK 120
           FEVISYIPGEGHNLQEHSIVLVRGGRVKDLPGVKYHIVRGALDTAGVNKRTVSRSKYGTK
Sbjct: 61  FEVISYIPGEGHNLQEHSIVLVRGGRVKDLPGVKYHIVRGALDTAGVNKRTVSRSKYGTK 120

Query: 121 KAKATDKKATDNKKK 135
           KAKATDKKATDNKKK
Sbjct: 121 KAKATDKKATDNKKK 135



>ref|NP_223737.1| UDP-GLUCOSE 4-EPIMERASE [Helicobacter pylori J99]
          Length = 344

 Score = 24.3 bits (51), Expect = 1.3
 Identities = 13/49 (26%), Positives = 22/49 (44%)

Query: 28  PQRRGVCTRVYTTTPKKPNSALRKVAKVRLTSKFEVISYIPGEGHNLQE 76
           P R G C R Y       N+ L     +   +K E+ +    +GH+++E
Sbjct: 230 PTRDGTCIRDYIHVDDLANAHLASYHTLLEKNKSEIYNVGYNQGHSVKE 278



>ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
           [Helicobacter pylori J99]
          Length = 1252

 Score = 23.1 bits (48), Expect = 2.9
 Identities = 11/38 (28%), Positives = 20/38 (51%)

Query: 93  VKYHIVRGALDTAGVNKRTVSRSKYGTKKAKATDKKAT 130
           + +H++R    +A +     +R+KYG K  +   KK T
Sbjct: 858 LSFHLLREKGFSAFITSNKYARAKYGAKLREWLLKKTT 895



>ref|NP_223176.1| putative [Helicobacter pylori J99]
          Length = 450

 Score = 22.3 bits (46), Expect = 4.9
 Identities = 10/40 (25%), Positives = 20/40 (50%)

Query: 7   LIRKERKKVVKKTKSPALVECPQRRGVCTRVYTTTPKKPN 46
           L++KE++K V+  K    ++  + +    +     PKK N
Sbjct: 236 LVKKEKRKEVRIEKKEERIDARENKREIKQEAIKEPKKAN 275



>ref|NP_223746.1| GLUCOKINASE [Helicobacter pylori J99]
          Length = 336

 Score = 21.9 bits (45), Expect = 6.4
 Identities = 15/57 (26%), Positives = 24/57 (41%)

Query: 67  IPGEGHNLQEHSIVLVRGGRVKDLPGVKYHIVRGALDTAGVNKRTVSRSKYGTKKAK 123
           I G G  L   +++    G +K LPG   H+     D   +     +RSK+    A+
Sbjct: 139 ILGPGTGLGVSTLIQNSDGSLKVLPGEGGHVSFAPFDDLEILVWQYARSKFNHVSAE 195



>ref|NP_222798.1| 30S RIBOSOMAL PROTEIN S9 [Helicobacter pylori J99]
          Length = 129

 Score = 21.9 bits (45), Expect = 6.4
 Identities = 8/16 (50%), Positives = 11/16 (68%)

Query: 108 NKRTVSRSKYGTKKAK 123
           + R V R KYG +KA+
Sbjct: 106 DSRVVERKKYGKRKAR 121



>ref|NP_223354.1| 3-OXOACID COA-TRANSFERASE, SUBUNIT B [Helicobacter pylori J99]
          Length = 207

 Score = 21.6 bits (44), Expect = 8.4
 Identities = 8/26 (30%), Positives = 13/26 (49%)

Query: 62 EVISYIPGEGHNLQEHSIVLVRGGRV 87
          E I+ +PG        S  ++RGG +
Sbjct: 68 ETITVVPGASFFNSADSFAMIRGGHI 93



  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
   0.314    0.131    0.365 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 121,035
Number of Sequences: 1491
Number of extensions: 4346
Number of successful extensions: 9
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2
Number of HSP's gapped (non-prelim): 7
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: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 44 (21.6 bits)