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|15645366|ref|NP_207540.1| conserved hypothetical
protein [Helicobacter pylori 26695]
         (393 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|1QAN|A  Chain A, The Structure Of The Rrna Methyltransfe...    28  1.8
pdb|1JG2|A  Chain A, Crystal Structure Of L-Isoaspartyl (D-A...    27  4.0
pdb|1GTX|A  Chain A, 4-Aminobutyrate-Aminotransferase From P...    26  8.9

>pdb|1QAN|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
           Implications For The Reaction Mechanism
 pdb|1QAO|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
           Implications For The Reaction Mechanism
 pdb|1QAQ|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
           Implications For The Reaction Mechanism
 pdb|1QAM|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
           Implications For The Reaction Mechanism
 pdb|2ERC|A Chain A, Crystal Structure Of Ermc' A Rrna-Methyl Transferase
 pdb|2ERC|B Chain B, Crystal Structure Of Ermc' A Rrna-Methyl Transferase
          Length = 244

 Score = 28.1 bits (61), Expect = 1.8
 Identities = 26/132 (19%), Positives = 56/132 (41%), Gaps = 8/132 (6%)

Query: 91  NLQENSKHASGKKTLDLGTFEDFIQKNQAPILIEIGFGSGRHLIELAKNNPTKTCLGIEI 150
           N++ +    + K  +D       I+ N+   + EIG G G   +EL +     T + I+ 
Sbjct: 5   NIKHSQNFITSKHNID--KIMTNIRLNEHDNIFEIGSGKGHFTLELVQRCNFVTAIEIDH 62

Query: 151 HTPSIAQALKQIELLDLKNLHILQGDGRLVLESMPNHRCEKIFVHFPVPWNEKKHRRVLS 210
                 +     +L+D  N  +L  D  ++    P ++  KIF + P   +    R+++ 
Sbjct: 63  KLCKTTEN----KLVDHDNFQVLNKD--ILQFKFPKNQSYKIFGNIPYNISTDIIRKIVF 116

Query: 211 EKFLNEALRVLK 222
           +   +E   +++
Sbjct: 117 DSIADEIYLIVE 128



>pdb|1JG2|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
           Methyltransferase With Adenosine
 pdb|1JG4|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
           Methyltransferase With S-Adenosylmethionine
 pdb|1JG3|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
           Methyltransferase With Adenosine & Vyp(Isp)ha Substrate
 pdb|1JG3|B Chain B, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
           Methyltransferase With Adenosine & Vyp(Isp)ha Substrate
 pdb|1JG1|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
           Methyltransferase With S-Adenosyl-L-Homocysteine
          Length = 235

 Score = 26.9 bits (58), Expect = 4.0
 Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 122 LIEIGFGSGRHLIELAKNNPTKTCLGIEIHTPSIAQALKQIELLDLKNLHILQGDG 177
           ++E+G GSG +   +++   T     IE     +  A + +E   +KN+H++ GDG
Sbjct: 95  ILEVGTGSGWNAALISEIVKTDVYT-IERIPELVEFAKRNLERAGVKNVHVILGDG 149



>pdb|1GTX|A Chain A, 4-Aminobutyrate-Aminotransferase From Pig
 pdb|1GTX|B Chain B, 4-Aminobutyrate-Aminotransferase From Pig
 pdb|1GTX|C Chain C, 4-Aminobutyrate-Aminotransferase From Pig
 pdb|1GTX|D Chain D, 4-Aminobutyrate-Aminotransferase From Pig
          Length = 472

 Score = 25.8 bits (55), Expect = 8.9
 Identities = 12/31 (38%), Positives = 20/31 (63%), Gaps = 1/31 (3%)

Query: 314 ILKTKKIIQEGYFVHV-CNIYENKGDFLVEL 343
           ++K   IIQ    VH  CN  E++G++LV++
Sbjct: 30  LMKQLNIIQNAEAVHFFCNYEESRGNYLVDV 60



  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
   0.322    0.140    0.413 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,236,043
Number of Sequences: 13198
Number of extensions: 91233
Number of successful extensions: 136
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 136
Number of HSP's gapped (non-prelim): 4
length of query: 393
length of database: 2,899,336
effective HSP length: 90
effective length of query: 303
effective length of database: 1,711,516
effective search space: 518589348
effective search space used: 518589348
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)