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|15644756|ref|NP_206926.1| ribosomal protein L20
(rpl20) [Helicobacter pylori 26695]
         (116 letters)

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

Searching...done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_222837.1|  50S RIBOSOMAL PROTEIN L20 [Helicobacter py...   230  9e-63
ref|NP_223629.1|  putative [Helicobacter pylori J99]               25  0.43
ref|NP_223023.1|  putative [Helicobacter pylori J99]               22  4.8
ref|NP_223140.1|  OLIGOPEPTIDASE [Helicobacter pylori J99]         22  6.3

>ref|NP_222837.1| 50S RIBOSOMAL PROTEIN L20 [Helicobacter pylori J99]
          Length = 116

 Score =  230 bits (586), Expect = 9e-63
 Identities = 115/116 (99%), Positives = 115/116 (99%)

Query: 1   MRVKTGVVRRRRHKKVLKLARGFYSGRRKHFRKAKEQLERSMYYAFRDRKQKKREFRSLW 60
           MRVKTGVVRRRRHKKVLKLARGFYSGRRKHFRKAKEQLERSMYYAFRDRKQKKREFRSLW
Sbjct: 1   MRVKTGVVRRRRHKKVLKLARGFYSGRRKHFRKAKEQLERSMYYAFRDRKQKKREFRSLW 60

Query: 61  VVRINAACRMHNTSYSRFMHALKVANIELDRKVLADMAMNDMQAFTSVLESVKEHL 116
           VVRINAACRMHNTSYSRFMHALKVANIELDRKVLADMAMNDMQAF SVLESVKEHL
Sbjct: 61  VVRINAACRMHNTSYSRFMHALKVANIELDRKVLADMAMNDMQAFKSVLESVKEHL 116



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

 Score = 25.4 bits (54), Expect = 0.43
 Identities = 23/94 (24%), Positives = 36/94 (37%), Gaps = 28/94 (29%)

Query: 23  FYSGRRKHFRKAKEQLERSMYYAFRDRKQKKREFRSLWVVRINAACRMHNTSYSRFMHAL 82
           +Y   RK F+K      RS+Y+   D   +K + + L                  + H  
Sbjct: 213 YYENHRKDFKKPTSFKTRSLYF---DASLEKTDLKEL----------------EEYYHKN 253

Query: 83  KVANIELDRKVLADMAMNDMQAFTSVLESVKEHL 116
           KV+ ++ + K         +Q F SV E VK  L
Sbjct: 254 KVSYLDKEGK---------LQDFKSVQEQVKHDL 278



>ref|NP_223023.1| putative [Helicobacter pylori J99]
          Length = 79

 Score = 21.9 bits (45), Expect = 4.8
 Identities = 15/46 (32%), Positives = 25/46 (53%), Gaps = 11/46 (23%)

Query: 14 KKVLKLARGFYSGRRKHFRKAKEQLERSMYYAFRDRKQKKREFRSL 59
          KK+ +LA+G  SG  K+F+KA +           D ++ K E ++L
Sbjct: 24 KKIPELAKGLGSG-IKNFKKAVKD----------DEEEAKNELKTL 58



>ref|NP_223140.1| OLIGOPEPTIDASE [Helicobacter pylori J99]
          Length = 578

 Score = 21.6 bits (44), Expect = 6.3
 Identities = 7/22 (31%), Positives = 13/22 (58%)

Query: 24 YSGRRKHFRKAKEQLERSMYYA 45
          ++   KH+    E++ R+M YA
Sbjct: 48 FANTLKHYENLSEKISRAMAYA 69



  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
   0.328    0.134    0.384 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 100,663
Number of Sequences: 1491
Number of extensions: 3445
Number of successful extensions: 14
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 11
Number of HSP's gapped (non-prelim): 4
length of query: 116
length of database: 494,079
effective HSP length: 67
effective length of query: 49
effective length of database: 394,182
effective search space: 19314918
effective search space used: 19314918
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 43 (21.2 bits)