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|15645301|ref|NP_207471.1| conserved hypothetical
integral membrane protein [Helicobacter pylori 26695]
         (255 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|1IWG|A  Chain A, Crystal Structure Of Bacterial Multidru...    30  0.27

>pdb|1IWG|A Chain A, Crystal Structure Of Bacterial Multidrug Efflux
           Transporter Acrb
          Length = 1053

 Score = 30.0 bits (66), Expect = 0.27
 Identities = 16/43 (37%), Positives = 25/43 (57%)

Query: 79  GGLIGASFSGFVLKIVSSKILMVIFALLVVYSMIQFVLKPKKK 121
           GG  GA +  F + IVS+  L V+ AL++  ++   +LKP  K
Sbjct: 460 GGSTGAIYRQFSITIVSAMALSVLVALILTPALCATMLKPIAK 502



  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    0.150    0.432 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,293,123
Number of Sequences: 13198
Number of extensions: 49465
Number of successful extensions: 96
Number of sequences better than 10.0: 1
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 95
Number of HSP's gapped (non-prelim): 1
length of query: 255
length of database: 2,899,336
effective HSP length: 86
effective length of query: 169
effective length of database: 1,764,308
effective search space: 298168052
effective search space used: 298168052
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (25.0 bits)