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|15645189|ref|NP_207359.1| hypothetical protein
[Helicobacter pylori 26695]
         (56 letters)

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

Searching...done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_223229.1|  putative [Helicobacter pylori J99]              110  6e-27
ref|NP_222929.1|  putative [Helicobacter pylori J99]               38  4e-05
ref|NP_224172.1|  FOLYLPOLYGLUTAMATE SYNTHASE [Helicobacter ...    22  2.7
ref|NP_222866.1|  SHIKIMATE KINASE I [Helicobacter pylori J99]     22  3.5
ref|NP_223861.1|  D-LACTATE DEHYDROGENASE [Helicobacter pylo...    21  4.5
ref|NP_222756.1|  DNA transformation competancy [Helicobacte...    21  4.5
ref|NP_223648.1|  topoisomerase I [Helicobacter pylori J99]        21  5.9

>ref|NP_223229.1| putative [Helicobacter pylori J99]
          Length = 81

 Score =  110 bits (275), Expect = 6e-27
 Identities = 54/56 (96%), Positives = 56/56 (99%)

Query: 1  MTFYLSKDEHDVLRRLADEEVESVNSFVKRHILKTIIYKKGTNQDSSINCDSSSRL 56
          +TFYLSK+EHDVLRRLADEEVESVNSFVKRHILKTIIYKKGTNQDSSINCDSSSRL
Sbjct: 26 VTFYLSKEEHDVLRRLADEEVESVNSFVKRHILKTIIYKKGTNQDSSINCDSSSRL 81



>ref|NP_222929.1| putative [Helicobacter pylori J99]
          Length = 86

 Score = 38.1 bits (87), Expect = 4e-05
 Identities = 15/36 (41%), Positives = 27/36 (74%)

Query: 1  MTFYLSKDEHDVLRRLADEEVESVNSFVKRHILKTI 36
          ++ Y S +++  L ++A+EE ESV S++KR+ILK +
Sbjct: 34 VSLYFSDEQYQKLEKMANEEEESVGSYIKRYILKAL 69



>ref|NP_224172.1| FOLYLPOLYGLUTAMATE SYNTHASE [Helicobacter pylori J99]
          Length = 389

 Score = 21.9 bits (45), Expect = 2.7
 Identities = 9/29 (31%), Positives = 19/29 (65%)

Query: 5   LSKDEHDVLRRLADEEVESVNSFVKRHIL 33
           ++KD+H  L  + +E  + V+ +++RH L
Sbjct: 203 IAKDKHAQLIVVQNEISKGVSDYIERHHL 231



>ref|NP_222866.1| SHIKIMATE KINASE I [Helicobacter pylori J99]
          Length = 162

 Score = 21.6 bits (44), Expect = 3.5
 Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 6/39 (15%)

Query: 2   TFYLSKDEHDVLRRLADEEVESVNSFVKRHILKTIIYKK 40
           TFYL  D   +++RL  +E E      KR +L  +   K
Sbjct: 94  TFYLKMDFETLIKRLNQKERE------KRPLLNNLTQAK 126



>ref|NP_223861.1| D-LACTATE DEHYDROGENASE [Helicobacter pylori J99]
          Length = 946

 Score = 21.2 bits (43), Expect = 4.5
 Identities = 8/34 (23%), Positives = 17/34 (49%)

Query: 18 DEEVESVNSFVKRHILKTIIYKKGTNQDSSINCD 51
          +EEV+ + +  K+H +       G++     +CD
Sbjct: 50 EEEVQKLCALAKKHGVTLTFRAAGSSLSGQASCD 83



>ref|NP_222756.1| DNA transformation competancy [Helicobacter pylori J99]
          Length = 247

 Score = 21.2 bits (43), Expect = 4.5
 Identities = 13/52 (25%), Positives = 27/52 (51%), Gaps = 5/52 (9%)

Query: 4   YLSKDEHDVLRRLADEEVESVNSFVKRHILKTIIYKKGTNQDSSINCDSSSR 55
           +L++D+H  + + AD+ + S N  + R ++   +     N++S    D  SR
Sbjct: 87  FLNQDKHYAIIQRADKSISS-NEALARSLIGAYV----LNRESINRIDDKSR 133



>ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99]
          Length = 686

 Score = 20.8 bits (42), Expect = 5.9
 Identities = 10/35 (28%), Positives = 18/35 (50%)

Query: 19  EEVESVNSFVKRHILKTIIYKKGTNQDSSINCDSS 53
           E+     +F+ R+I +   +KK   + SS N D +
Sbjct: 609 EDNRVAKAFLDRYIKEHEFFKKNNKKASSSNNDEN 643



  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
   0.316    0.131    0.351 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 53,506
Number of Sequences: 1491
Number of extensions: 1591
Number of successful extensions: 7
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: 0
Number of HSP's gapped (non-prelim): 7
length of query: 56
length of database: 494,079
effective HSP length: 32
effective length of query: 24
effective length of database: 446,367
effective search space: 10712808
effective search space used: 10712808
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 41 (20.4 bits)