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|15644704|ref|NP_206874.1| lipoprotein signal
peptidase (lspA) [Helicobacter pylori 26695]
         (157 letters)

Database: /var/www/html/HP/blast_new/blast/db/pdbaa
           13,198 sequences; 2,899,336 total letters

Searching...........................done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

pdb|1ECF|B  Chain B, Escherichia Coli Glutamine Phosphoribos...    25  4.1
pdb|1LDF|A  Chain A, Crystal Structure Of The E. Coli Glycer...    24  7.0

>pdb|1ECF|B Chain B, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase
 pdb|1ECG|B Chain B, Don Inactivated Escherichia Coli Glutamine
           Phosphoribosylpyrophosphate (Prpp) Amidotransferase
 pdb|1ECC|A Chain A, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase Complexed With Mn-Cprpp And
           5-Oxo-Norleucine
 pdb|1ECC|B Chain B, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase Complexed With Mn-Cprpp And
           5-Oxo-Norleucine
 pdb|1ECJ|A Chain A, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase Complexed With 2 Amp Per
           Tetramer
 pdb|1ECJ|B Chain B, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase Complexed With 2 Amp Per
           Tetramer
 pdb|1ECJ|C Chain C, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase Complexed With 2 Amp Per
           Tetramer
 pdb|1ECJ|D Chain D, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase Complexed With 2 Amp Per
           Tetramer
 pdb|1ECF|A Chain A, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase
 pdb|1ECG|A Chain A, Don Inactivated Escherichia Coli Glutamine
           Phosphoribosylpyrophosphate (Prpp) Amidotransferase
 pdb|1ECB|C Chain C, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase Complexed With 2 Gmp, 1 Mg Per
           Subunit
 pdb|1ECB|A Chain A, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase Complexed With 2 Gmp, 1 Mg Per
           Subunit
 pdb|1ECB|D Chain D, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase Complexed With 2 Gmp, 1 Mg Per
           Subunit
 pdb|1ECB|B Chain B, Escherichia Coli Glutamine Phosphoribosylpyrophosphate
           (Prpp) Amidotransferase Complexed With 2 Gmp, 1 Mg Per
           Subunit
          Length = 504

 Score = 25.0 bits (53), Expect = 4.1
 Identities = 14/46 (30%), Positives = 21/46 (45%)

Query: 90  IEFGMVFGAGVSNVLDRFVHGGVVDYVYYHYGFDFAIFNFADVMID 135
           I F  V+G  + +  +   HG  VD +    G D  IF   + +ID
Sbjct: 399 IRFPNVYGIDMPSATELIAHGREVDEIRQIIGADGLIFQDLNDLID 444



>pdb|1LDF|A Chain A, Crystal Structure Of The E. Coli Glycerol Facilitator
           (Glpf) Mutation W48f, F200t
          Length = 281

 Score = 24.3 bits (51), Expect = 7.0
 Identities = 33/118 (27%), Positives = 51/118 (42%), Gaps = 22/118 (18%)

Query: 12  FMGVFFLIF---GVDQAIKYAILEGFRYESLMIDIVLVFNKGVAFSLLSFLEGGLK--YL 66
           F+G   LIF   G   A+K A     ++E     I ++F  GVA ++  +L  G+   +L
Sbjct: 15  FLGTGLLIFFGVGCVAALKVAGASFGQWE-----ISVIFGLGVAMAI--YLTAGVSGAHL 67

Query: 67  QILLILGLFIFLMRQRELFKNHAIEFGMVFGAGVSNVLDRFVHGGVVDYVYYHYGFDF 124
              + + L++F        K   I F       VS V   F    +V  +YY+  FDF
Sbjct: 68  NPAVTIALWLFACFD----KRKVIPFI------VSQVAGAFCAAALVYGLYYNLFFDF 115



  Database: /var/www/html/HP/blast_new/blast/db/pdbaa
    Posted date:  Dec 20, 2002 11:08 AM
  Number of letters in database: 2,899,336
  Number of sequences in database:  13,198
  
Lambda     K      H
   0.336    0.153    0.444 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 812,780
Number of Sequences: 13198
Number of extensions: 31719
Number of successful extensions: 66
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 65
Number of HSP's gapped (non-prelim): 2
length of query: 157
length of database: 2,899,336
effective HSP length: 81
effective length of query: 76
effective length of database: 1,830,298
effective search space: 139102648
effective search space used: 139102648
T: 11
A: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 50 (23.9 bits)