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|15645097|ref|NP_207267.1| conserved hypothetical
protein [Helicobacter pylori 26695]
         (162 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|1GE9|A  Chain A, Solution Structure Of The Ribosome Recy...    28  0.51
pdb|1CII|    Colicin Ia                                            25  5.7
pdb|1AGR|E  Chain E, Complex Of Alf4-Activated Gi-Alpha-1 Wi...    24  7.4
pdb|1QJV|A  Chain A, Pectin Methylesterase Pema From Erwinia...    24  9.7

>pdb|1GE9|A Chain A, Solution Structure Of The Ribosome Recycling Factor
          Length = 184

 Score = 28.1 bits (61), Expect = 0.51
 Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 12/91 (13%)

Query: 71  KSVQFEAGFGPNNIGSVVQVKLPGIIQILIKEKNENAVLFNRCDSLELFQKEDSIAQEPK 130
           K+++ E    P   G+V++V LP     L +E+    V         L +  +      +
Sbjct: 83  KAIREELNLNPTVQGNVIRVTLPP----LTEERRRELVRL-------LHKITEEARVRVR 131

Query: 131 KDERESKEWLDSKEALFSNSKNRAILENLHK 161
              RE+KE ++  E +  + K RA LE L K
Sbjct: 132 NVRREAKEMIEELEGISEDEKKRA-LERLQK 161



>pdb|1CII|   Colicin Ia
          Length = 602

 Score = 24.6 bits (52), Expect = 5.7
 Identities = 10/24 (41%), Positives = 16/24 (66%)

Query: 29  LLCERDAIDFSPKLPKEIHEKFGA 52
           L   +DAI+F+ +  K + EK+GA
Sbjct: 424 LKATKDAINFTTEFLKSVSEKYGA 447



>pdb|1AGR|E Chain E, Complex Of Alf4-Activated Gi-Alpha-1 With Rgs4
 pdb|1AGR|H Chain H, Complex Of Alf4-Activated Gi-Alpha-1 With Rgs4
          Length = 205

 Score = 24.3 bits (51), Expect = 7.4
 Identities = 12/50 (24%), Positives = 22/50 (44%)

Query: 113 CDSLELFQKEDSIAQEPKKDERESKEWLDSKEALFSNSKNRAILENLHKS 162
           C+      K+D +    +  + E K+W +S E L ++    A  +   KS
Sbjct: 33  CEHSSSHSKKDKVVTCQRVSQEEVKKWAESLENLINHECGLAAFKAFLKS 82



>pdb|1QJV|A Chain A, Pectin Methylesterase Pema From Erwinia Chrysanthemi
 pdb|1QJV|B Chain B, Pectin Methylesterase Pema From Erwinia Chrysanthemi
          Length = 342

 Score = 23.9 bits (50), Expect = 9.7
 Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 9/77 (11%)

Query: 81  PNNIGSVVQVK------LPGIIQILIKEKNENAVLFNRCDSLELFQKEDSIAQEPKKDER 134
           PN IG  V +       + G  ++  K+KN N + FN  DS     K         KD R
Sbjct: 259 PNAIGQTVFLNTSMDNHIYGWDKMSGKDKNGNTIWFNPEDSRFFEYKSYGAGAAVSKDRR 318

Query: 135 ESKEWLDSKEALFSNSK 151
              +  D++ A ++ SK
Sbjct: 319 ---QLTDAQAAEYTQSK 332



  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
   0.318    0.136    0.381 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 860,299
Number of Sequences: 13198
Number of extensions: 31302
Number of successful extensions: 64
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 62
Number of HSP's gapped (non-prelim): 4
length of query: 162
length of database: 2,899,336
effective HSP length: 81
effective length of query: 81
effective length of database: 1,830,298
effective search space: 148254138
effective search space used: 148254138
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)