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|15645775|ref|NP_207952.1| flavodoxin (fldA)
[Helicobacter pylori 26695]
         (164 letters)

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

Searching...done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_223805.1|  Flavodoxin [Helicobacter pylori J99]            322  4e-90
ref|NP_224175.1|  putative [Helicobacter pylori J99]               25  1.1
ref|NP_223967.1|  CATION EFFLUX SYSTEM PROTEIN [Helicobacter...    25  1.4
ref|NP_223824.1|  putative transporter [Helicobacter pylori ...    24  1.8
ref|NP_223370.1|  RNA POLYMERASE SIGMA-54 FACTOR [Helicobact...    23  3.1
ref|NP_223191.1|  cag island protein, DNA transfer protein [...    22  6.9
ref|NP_223158.1|  putative [Helicobacter pylori J99]               22  6.9

>ref|NP_223805.1| Flavodoxin [Helicobacter pylori J99]
          Length = 164

 Score =  322 bits (824), Expect = 4e-90
 Identities = 160/164 (97%), Positives = 162/164 (98%)

Query: 1   MGKIGIFFGTDSGNAEAIAEKISKAIGNAEVVDVAKASKEQFNSFTKVILVAPTAGAGDL 60
           MGKIGIFFGTDSGNAEAIAEKISKAIGNAEV+DVAKASKEQFN FTKVILVAPTAGAGDL
Sbjct: 1   MGKIGIFFGTDSGNAEAIAEKISKAIGNAEVIDVAKASKEQFNGFTKVILVAPTAGAGDL 60

Query: 61  QTDWEDFLGTLEASDFATKTIGLVGLGDQDTYSETFAEGIFHIYEKAKAGKVVGQTPTDG 120
           QTDWEDFLGTLEASDFA KTIGLVGLGDQDTYSETFAEGIFHIYEKAKAGKVVGQTPTDG
Sbjct: 61  QTDWEDFLGTLEASDFANKTIGLVGLGDQDTYSETFAEGIFHIYEKAKAGKVVGQTPTDG 120

Query: 121 YHFEASKAVEGGKFVGLVIDEDNQDDLTDERISKWVEQVKGSFA 164
           YHFEASKAVEGGKFVGLVIDEDNQDDLTDERI+KWVEQVKGSFA
Sbjct: 121 YHFEASKAVEGGKFVGLVIDEDNQDDLTDERIAKWVEQVKGSFA 164



>ref|NP_224175.1| putative [Helicobacter pylori J99]
          Length = 136

 Score = 25.0 bits (53), Expect = 1.1
 Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 4/41 (9%)

Query: 98  EGIFHIYEKAKAGKVVGQTPTDGYHFEASKAVEGGKFVGLV 138
           EG+ H    +K   V+GQT +      A+K V  GKF G V
Sbjct: 44  EGVVH----SKNTVVIGQTGSVVGEIFANKLVVNGKFTGTV 80



>ref|NP_223967.1| CATION EFFLUX SYSTEM PROTEIN [Helicobacter pylori J99]
          Length = 1035

 Score = 24.6 bits (52), Expect = 1.4
 Identities = 12/32 (37%), Positives = 17/32 (52%)

Query: 61  QTDWEDFLGTLEASDFATKTIGLVGLGDQDTY 92
           Q +W++ L   E  D   KT+ L GL +  TY
Sbjct: 622 QNEWKEKLSYKEVRDKLEKTLQLKGLTNSWTY 653



>ref|NP_223824.1| putative transporter [Helicobacter pylori J99]
          Length = 443

 Score = 24.3 bits (51), Expect = 1.8
 Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 3/49 (6%)

Query: 84  VGLGDQDTYSETFAEGIFHIYEKAKAGKVVGQTPTDGYHFEASKAVEGG 132
           +G    +   ++ A     ++EK   GKV+GQ  T GY       V GG
Sbjct: 306 IGFATLEPIMQSLASKFAKVHEK---GKVLGQFTTFGYLGSFVGGVSGG 351



>ref|NP_223370.1| RNA POLYMERASE SIGMA-54 FACTOR [Helicobacter pylori J99]
          Length = 414

 Score = 23.5 bits (49), Expect = 3.1
 Identities = 11/35 (31%), Positives = 21/35 (59%)

Query: 124 EASKAVEGGKFVGLVIDEDNQDDLTDERISKWVEQ 158
           E S AV     + L+ +ED ++ L+D +I + +E+
Sbjct: 346 ETSNAVIKDYLLELIKNEDKKEPLSDAKILELIEE 380



>ref|NP_223191.1| cag island protein, DNA transfer protein [Helicobacter pylori J99]
          Length = 748

 Score = 22.3 bits (46), Expect = 6.9
 Identities = 9/34 (26%), Positives = 20/34 (58%)

Query: 4   IGIFFGTDSGNAEAIAEKISKAIGNAEVVDVAKA 37
           + +++G ++ N     EK+SK +G     DV+++
Sbjct: 607 LNMYYGINNDNYYEHFEKLSKVLGKYTRQDVSRS 640



>ref|NP_223158.1| putative [Helicobacter pylori J99]
          Length = 912

 Score = 22.3 bits (46), Expect = 6.9
 Identities = 11/30 (36%), Positives = 17/30 (56%)

Query: 12 SGNAEAIAEKISKAIGNAEVVDVAKASKEQ 41
          S   +A A K  KA+   + +D +K +KEQ
Sbjct: 25 SEEIKAKATKYEKALQELQKIDESKLTKEQ 54



  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
   0.313    0.134    0.376 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 159,753
Number of Sequences: 1491
Number of extensions: 6351
Number of successful extensions: 14
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 8
Number of HSP's gapped (non-prelim): 7
length of query: 164
length of database: 494,079
effective HSP length: 71
effective length of query: 93
effective length of database: 388,218
effective search space: 36104274
effective search space used: 36104274
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)