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|15645447|ref|NP_207621.1| ATP synthase F0, subunit a
(atpB) [Helicobacter pylori 26695]
         (226 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|1C17|M  Chain M, A1c12 Subcomplex Of F1fo Atp Synthase         68  1e-12
pdb|1A6C|A  Chain A, Structure Of Tobacco Ringspot Virus           31  0.10

>pdb|1C17|M Chain M, A1c12 Subcomplex Of F1fo Atp Synthase
          Length = 177

 Score = 67.8 bits (164), Expect = 1e-12
 Identities = 56/172 (32%), Positives = 85/172 (48%), Gaps = 37/172 (21%)

Query: 78  PLAGTIALYVFFSNMIGIIP------------GFES----PTASWSFTLVLALIVFFYYH 121
           PLA TI ++VF  N++ ++P            G  +    P+A  + TL +AL VF    
Sbjct: 9   PLALTIFVWVFLMNLMDLLPIDLLPYIAEHVLGLPALRVVPSADVNVTLSMALGVFILIL 68

Query: 122 FEGIRVQGFFKY--------FAHFAGPVKWLAPFMFPIEIISHFSRIVSLSFRLFGNIKG 173
           F  I+++G   +        F H+A       P    +E +S  S+ VSL  RLFGN+  
Sbjct: 69  FYSIKMKGIGGFTKELTLQPFNHWA-----FIPVNLILEGVSLLSKPVSLGLRLFGNMYA 123

Query: 174 DDMFLLIMLLLVPW------AVPVAPFMVLFFMGILQAFVFMILTYVYLAGA 219
            ++  +++  L+PW       VP A F +L     LQAF+FM+LT VYL+ A
Sbjct: 124 GELIFILIAGLLPWWSQWILNVPWAIFHILII--TLQAFIFMVLTIVYLSMA 173



>pdb|1A6C|A Chain A, Structure Of Tobacco Ringspot Virus
          Length = 513

 Score = 31.2 bits (69), Expect = 0.10
 Identities = 35/144 (24%), Positives = 53/144 (36%), Gaps = 18/144 (12%)

Query: 95  IIPGFE-SPTASWSFTLVLALIVFFYYHFEGIRVQGFFKYFA---HFAGPVKWLAPFMFP 150
           +I  FE +PT +W   L     +  YY  + I++ G     +   +F GPVK        
Sbjct: 169 VIDRFELNPTMTWPIQLGDTFAIDRYYEAKEIKLDGSTSMLSISYNFGGPVKHSKK---- 224

Query: 151 IEIISHFSRIVSLSFRLFGNIKG-----DDMFLLIMLLLVPWAVPVAPFMVLFFMGILQA 205
              IS+   ++S +    G I G       +F     ++ PW     P +     G  Q 
Sbjct: 225 -HAISYSRAVMSRNLGWSGTISGSVKSVSSLFCTASFVIFPWECEAPPTLRQVLWGPHQI 283

Query: 206 F----VFMILTYVYLAGAVLTDEG 225
                 F I     L  A  T+EG
Sbjct: 284 MHGDGQFEIAIKTRLHSAATTEEG 307



  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
   0.335    0.148    0.456 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,175,471
Number of Sequences: 13198
Number of extensions: 43691
Number of successful extensions: 136
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: 133
Number of HSP's gapped (non-prelim): 2
length of query: 226
length of database: 2,899,336
effective HSP length: 85
effective length of query: 141
effective length of database: 1,777,506
effective search space: 250628346
effective search space used: 250628346
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: 52 (24.6 bits)