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|15645380|ref|NP_207554.1| hypothetical protein
[Helicobacter pylori 26695]
         (200 letters)

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

Searching...done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_223416.1|  putative [Helicobacter pylori J99]              383  e-108
ref|NP_222820.1|  CYSTEINE SYNTHASE [Helicobacter pylori J99]      27  0.29
ref|NP_224077.1|  putative [Helicobacter pylori J99]               25  1.1
ref|NP_223117.1|  putative [Helicobacter pylori J99]               24  3.2
ref|NP_223956.1|  50S RIBOSOMAL PROTEIN L4 [Helicobacter pyl...    22  9.3
ref|NP_222872.1|  putative histidine kinase sensor protein [...    22  9.3

>ref|NP_223416.1| putative [Helicobacter pylori J99]
          Length = 200

 Score =  383 bits (983), Expect = e-108
 Identities = 183/200 (91%), Positives = 196/200 (97%)

Query: 1   MACKLLFWKLKDYQNILLYSPLGHELDIRPLIFRLRQKNKCVWLPKSIKKGAHFSKESFT 60
           MACKLLFWKLKDYQNILLYSPLGHELDIRPLI +LRQKNK VWLPKSIKKGAHFSKE FT
Sbjct: 1   MACKLLFWKLKDYQNILLYSPLGHELDIRPLILKLRQKNKRVWLPKSIKKGAHFSKEGFT 60

Query: 61  IAPFRLPLRRLGWFDEPSLSRYYKQELDCIVVPILGMDTSFRRVGFGLGMYDRSLPQLLK 120
           IAPFRLPLRRLGWFDEPSLSRYYK+ELDCIVVPILGMDTSFRRVGFGLGMYDRSLPQL K
Sbjct: 61  IAPFRLPLRRLGWFDEPSLSRYYKRELDCIVVPILGMDTSFRRVGFGLGMYDRSLPQLFK 120

Query: 121 RRLKRPLIVFVSRELAIANGVLTNAYDIEADLYMNARIVVKNNKRKHYEQRVNLHFIRSL 180
           ++LKRPL++FVSRELA+ANG+LT+AYDIEA+LYMNARIV+KNNKRKHYEQRVNLHFIRSL
Sbjct: 121 KQLKRPLVIFVSRELALANGILTDAYDIEANLYMNARIVMKNNKRKHYEQRVNLHFIRSL 180

Query: 181 GSVFDYRSSHVLCDEKDLLR 200
           GSVFD+RS+HVLCDEKDLLR
Sbjct: 181 GSVFDHRSNHVLCDEKDLLR 200



>ref|NP_222820.1| CYSTEINE SYNTHASE [Helicobacter pylori J99]
          Length = 305

 Score = 27.3 bits (59), Expect = 0.29
 Identities = 27/103 (26%), Positives = 44/103 (42%), Gaps = 7/103 (6%)

Query: 47  SIKKGAHFSKESFTIAPFRLPLRRLGWFDEPSLSRYYKQELDCIVVPILGMDTSFRRVGF 106
           +IKK    ++   +I    LPL+    F+ P     Y   L   +V  LG + +    G 
Sbjct: 126 AIKKSKELAE---SIPDSYLPLQ----FENPDNPAAYYHTLAPEIVQELGTNLTSFVAGI 178

Query: 107 GLGMYDRSLPQLLKRRLKRPLIVFVSRELAIANGVLTNAYDIE 149
           G G     + + LK R+    ++ V  E +I NG     ++IE
Sbjct: 179 GSGGTFAGMAKYLKERIPNIRLIGVEPEGSILNGGEPGPHEIE 221



>ref|NP_224077.1| putative [Helicobacter pylori J99]
          Length = 377

 Score = 25.4 bits (54), Expect = 1.1
 Identities = 11/35 (31%), Positives = 20/35 (56%)

Query: 115 LPQLLKRRLKRPLIVFVSRELAIANGVLTNAYDIE 149
           LP++L   +  PL+VF++   AI  G+    Y ++
Sbjct: 261 LPRVLALVIVLPLLVFIADAFAILGGMFAIKYQLD 295



>ref|NP_223117.1| putative [Helicobacter pylori J99]
          Length = 391

 Score = 23.9 bits (50), Expect = 3.2
 Identities = 10/22 (45%), Positives = 15/22 (67%)

Query: 109 GMYDRSLPQLLKRRLKRPLIVF 130
           G+   SL Q++ R LKRP++ F
Sbjct: 47  GVGKTSLAQIIARSLKRPILSF 68



>ref|NP_223956.1| 50S RIBOSOMAL PROTEIN L4 [Helicobacter pylori J99]
          Length = 215

 Score = 22.3 bits (46), Expect = 9.3
 Identities = 9/18 (50%), Positives = 12/18 (66%)

Query: 159 VVKNNKRKHYEQRVNLHF 176
           VV++NKRKH  +  N  F
Sbjct: 133 VVEDNKRKHLTKEANQMF 150



>ref|NP_222872.1| putative histidine kinase sensor protein [Helicobacter pylori J99]
          Length = 442

 Score = 22.3 bits (46), Expect = 9.3
 Identities = 20/81 (24%), Positives = 35/81 (42%), Gaps = 18/81 (22%)

Query: 80  SRYYKQELDCIVVPILGMDTSFRRVGFGLGMYDRSLPQLLKRRLKRPLIVFVSRELAIAN 139
           S+  K++ +  + P        +  GFGLGMY      ++K  L+    + ++     +N
Sbjct: 345 SKPLKEDFEKYLQPYFKSSNPSQAHGFGLGMY------IIKNALE---AMGLNLSYHYSN 395

Query: 140 G---------VLTNAYDIEAD 151
           G         V  + YD+EAD
Sbjct: 396 GRICFTIHDCVFNSFYDLEAD 416



  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    0.144    0.443 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 214,092
Number of Sequences: 1491
Number of extensions: 9491
Number of successful extensions: 26
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 20
Number of HSP's gapped (non-prelim): 7
length of query: 200
length of database: 494,079
effective HSP length: 73
effective length of query: 127
effective length of database: 385,236
effective search space: 48924972
effective search space used: 48924972
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)