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|15645925|ref|NP_208104.1| ribosomal protein L16
(rpl16) [Helicobacter pylori 26695]
         (141 letters)

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

Searching...done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_223950.1|  50S RIBOSOMAL PROTEIN L16 [Helicobacter py...   282  3e-78
ref|NP_223331.1|  putative [Helicobacter pylori J99]               23  2.4
ref|NP_222934.1|  putative [Helicobacter pylori J99]               23  3.1
ref|NP_223053.1|  ALPHA-KETOGLUTARATE PERMEASE [Helicobacter...    22  5.4
ref|NP_223203.1|  cag island protein [Helicobacter pylori J99]     22  7.0
ref|NP_224139.1|  putative [Helicobacter pylori J99]               22  9.1

>ref|NP_223950.1| 50S RIBOSOMAL PROTEIN L16 [Helicobacter pylori J99]
          Length = 141

 Score =  282 bits (721), Expect = 3e-78
 Identities = 140/141 (99%), Positives = 141/141 (99%)

Query: 1   MLMPKRTKYRKQMKGRNRGKAHRGNSIAFGDIAIKAIEHGRIDSRQIESARVAMTRHIKR 60
           MLMPKRTKYRKQMKGRNRGKAHRGNSIAFGDIAIKAIEHGRIDSRQIESARVAMTRHIKR
Sbjct: 1   MLMPKRTKYRKQMKGRNRGKAHRGNSIAFGDIAIKAIEHGRIDSRQIESARVAMTRHIKR 60

Query: 61  AGKVWIRVFPDKPLTAKPLETRMGKGKGSVEKWVMNIKPGRIVYEMLGIEEGLAREALAL 120
           AGKVWIRVFPDKPLTAKPLETRMGKGKGSVEKWVMNIKPGRIVYEMLGIEEGLAREALAL
Sbjct: 61  AGKVWIRVFPDKPLTAKPLETRMGKGKGSVEKWVMNIKPGRIVYEMLGIEEGLAREALAL 120

Query: 121 AQSKLPFKTKIVTCESENEIY 141
           +QSKLPFKTKIVTCESENEIY
Sbjct: 121 SQSKLPFKTKIVTCESENEIY 141



>ref|NP_223331.1| putative [Helicobacter pylori J99]
          Length = 1167

 Score = 23.5 bits (49), Expect = 2.4
 Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 11/64 (17%)

Query: 35  KAIEHGRIDSRQIESARVAMTRHIKRAGKVWIR-----------VFPDKPLTAKPLETRM 83
           K I++  +    +E  R+A+ R   +    W +           +FPDK      + T +
Sbjct: 874 KLIKNENLPESGMERVRLALYRPFNKQWLYWDKNLINRQSQLPKIFPDKSARNVVINTGV 933

Query: 84  GKGK 87
           G GK
Sbjct: 934 GNGK 937



>ref|NP_222934.1| putative [Helicobacter pylori J99]
          Length = 385

 Score = 23.1 bits (48), Expect = 3.1
 Identities = 17/60 (28%), Positives = 26/60 (43%)

Query: 74  LTAKPLETRMGKGKGSVEKWVMNIKPGRIVYEMLGIEEGLAREALALAQSKLPFKTKIVT 133
           LTAK L+  +  G     K       G I+  +LG   G A    ++  +K   KT++ T
Sbjct: 235 LTAKTLDVILKDGVSDKNKETKAQGLGNIISGLLGGMTGCALVGQSIINAKSGAKTRLST 294



>ref|NP_223053.1| ALPHA-KETOGLUTARATE PERMEASE [Helicobacter pylori J99]
          Length = 437

 Score = 22.3 bits (46), Expect = 5.4
 Identities = 7/22 (31%), Positives = 14/22 (62%)

Query: 72 KPLTAKPLETRMGKGKGSVEKW 93
          +P T KPL++ +    G++ +W
Sbjct: 6  QPATKKPLKSLLAASSGNLVEW 27



>ref|NP_223203.1| cag island protein [Helicobacter pylori J99]
          Length = 376

 Score = 21.9 bits (45), Expect = 7.0
 Identities = 11/35 (31%), Positives = 19/35 (53%), Gaps = 3/35 (8%)

Query: 1   MLMPKRTKYRKQ---MKGRNRGKAHRGNSIAFGDI 32
           +L+    KY+K+   ++   RGK     S A+GD+
Sbjct: 78  VLLDLENKYKKEKEALEKETRGKILTAKSKAYGDL 112



>ref|NP_224139.1| putative [Helicobacter pylori J99]
          Length = 208

 Score = 21.6 bits (44), Expect = 9.1
 Identities = 12/64 (18%), Positives = 31/64 (47%)

Query: 9   YRKQMKGRNRGKAHRGNSIAFGDIAIKAIEHGRIDSRQIESARVAMTRHIKRAGKVWIRV 68
           Y  ++KG +RG     +      +++K+  +   + +++ES       +++RA +  + V
Sbjct: 57  YNFEIKGLSRGALQELSRHRIASLSVKSSRYTLRELKEVESFLPLNETNLERAKEFLVFV 116

Query: 69  FPDK 72
             +K
Sbjct: 117 DDEK 120



  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
   0.319    0.135    0.391 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 123,297
Number of Sequences: 1491
Number of extensions: 4169
Number of successful extensions: 11
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 7
Number of HSP's gapped (non-prelim): 6
length of query: 141
length of database: 494,079
effective HSP length: 69
effective length of query: 72
effective length of database: 391,200
effective search space: 28166400
effective search space used: 28166400
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 44 (21.6 bits)