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|15645631|ref|NP_207807.1| amino acid permease (rocE)
[Helicobacter pylori 26695]
         (519 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|1JFR|A  Chain A, Crystal Structure Of The Streptomyces E...    28  2.5
pdb|1AQ0|A  Chain A, Barley 1,3-1,4-Beta-Glucanase In Monocl...    28  3.3

>pdb|1JFR|A Chain A, Crystal Structure Of The Streptomyces Exfoliatus Lipase At
           1.9a Resolution: A Model For A Family Of Platelet-
           Activating Factor Acetylhydrolases
 pdb|1JFR|B Chain B, Crystal Structure Of The Streptomyces Exfoliatus Lipase At
           1.9a Resolution: A Model For A Family Of Platelet-
           Activating Factor Acetylhydrolases
          Length = 262

 Score = 28.1 bits (61), Expect = 2.5
 Identities = 22/69 (31%), Positives = 28/69 (39%), Gaps = 19/69 (27%)

Query: 88  ASAGPLGT-------LIAYCFGGLVVYCIMLSLGELASVYPTTGSFGDYAAKFIGPGTGY 140
           AS GP  T       L+A  FGG  +Y            YPT+ + G + A  I PG   
Sbjct: 18  ASRGPYATSQTSVSSLVASGFGGGTIY------------YPTSTADGTFGAVVISPGFTA 65

Query: 141 MVFWMYWLG 149
               + WLG
Sbjct: 66  YQSSIAWLG 74



>pdb|1AQ0|A Chain A, Barley 1,3-1,4-Beta-Glucanase In Monoclinic Space Group
 pdb|1AQ0|B Chain B, Barley 1,3-1,4-Beta-Glucanase In Monoclinic Space Group
 pdb|1GHR|   1,3-1,4-Beta-Glucanase (E.C.3.2.1.73) (1,3-1,4-Beta-D-Glucan
           4-Glucanohydrolase, Isoenzyme E2)
          Length = 306

 Score = 27.7 bits (60), Expect = 3.3
 Identities = 31/119 (26%), Positives = 41/119 (34%), Gaps = 20/119 (16%)

Query: 262 FAFTGTEVIGVAVGETKNASEVMPKA----IKATLWRIVFFFLGSVFVISVFLPMNDSSI 317
           +   G EV G   G T+N    M       + A L  I      S  ++ VF P +  S 
Sbjct: 87  YVCVGNEVAG---GATRNLVPAMKNVHGALVAAGLGHIKVTTSVSQAILGVFSPPSAGSF 143

Query: 318 T------QSPFVSVLERINLPFIGMGIPYVADIMNA-------VIITAMFSTANSGLYG 363
           T        P V  L R N P +    PY+A   N         +  A  +    G YG
Sbjct: 144 TGEAAAFMGPVVQFLARTNAPLMANIYPYLAWAYNPSAMDMGYALFNASGTVVRDGAYG 202



  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
   0.331    0.146    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: 2,826,324
Number of Sequences: 13198
Number of extensions: 115497
Number of successful extensions: 265
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 265
Number of HSP's gapped (non-prelim): 3
length of query: 519
length of database: 2,899,336
effective HSP length: 92
effective length of query: 427
effective length of database: 1,685,120
effective search space: 719546240
effective search space used: 719546240
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 56 (26.2 bits)