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|15644667|ref|NP_206836.1| aspartate 1-decarboxylase
(panD) [Helicobacter pylori 26695]
         (117 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|1AW8|B  Chain B, Pyruvoyl Dependent Aspartate Decarboxylase    65  3e-12
pdb|1AW8|E  Chain E, Pyruvoyl Dependent Aspartate Decarboxylase    65  3e-12
pdb|1ESG|B  Chain B, Restriction Endonuclease Bamhi Bound To...    25  1.7
pdb|1AW8|A  Chain A, Pyruvoyl Dependent Aspartate Decarboxyl...    25  1.7

>pdb|1AW8|B Chain B, Pyruvoyl Dependent Aspartate Decarboxylase
          Length = 92

 Score = 64.7 bits (156), Expect = 3e-12
 Identities = 32/87 (36%), Positives = 53/87 (60%), Gaps = 1/87 (1%)

Query: 28  IDEDLAKLAKLREGMKVEIVDVNNGERFSTYVILGKKRGEIC-VNGAAARKVAIGDVVII 86
           ID+D    A + E   ++I +V NG+RFSTY I  ++   I  VNGAAA   ++GD+VII
Sbjct: 5   IDQDFLDAAGILENEAIDIWNVTNGKRFSTYAIAAERGSRIISVNGAAAHCASVGDIVII 64

Query: 87  LAYASMNEDEINAHKPSIVLVDEKNEI 113
            ++ +M ++E    +P++   +  NE+
Sbjct: 65  ASFVTMPDEEARTWRPNVAYFEGDNEM 91



>pdb|1AW8|E Chain E, Pyruvoyl Dependent Aspartate Decarboxylase
          Length = 91

 Score = 64.7 bits (156), Expect = 3e-12
 Identities = 32/87 (36%), Positives = 53/87 (60%), Gaps = 1/87 (1%)

Query: 28  IDEDLAKLAKLREGMKVEIVDVNNGERFSTYVILGKKRGEIC-VNGAAARKVAIGDVVII 86
           ID+D    A + E   ++I +V NG+RFSTY I  ++   I  VNGAAA   ++GD+VII
Sbjct: 4   IDQDFLDAAGILENEAIDIWNVTNGKRFSTYAIAAERGSRIISVNGAAAHCASVGDIVII 63

Query: 87  LAYASMNEDEINAHKPSIVLVDEKNEI 113
            ++ +M ++E    +P++   +  NE+
Sbjct: 64  ASFVTMPDEEARTWRPNVAYFEGDNEM 90



>pdb|1ESG|B Chain B, Restriction Endonuclease Bamhi Bound To A Non-Specific
           Dna.
 pdb|2BAM|B Chain B, Restriction Endonuclease Bamhi Complex With Dna And
           Calcium Ions (Pre-Reactive Complex).
 pdb|1ESG|A Chain A, Restriction Endonuclease Bamhi Bound To A Non-Specific
           Dna.
 pdb|3BAM|B Chain B, Restriction Endonuclease Bamhi Complex With Dna And
           Manganese Ions (Post-Reactive Complex)
 pdb|2BAM|A Chain A, Restriction Endonuclease Bamhi Complex With Dna And
           Calcium Ions (Pre-Reactive Complex).
 pdb|3BAM|A Chain A, Restriction Endonuclease Bamhi Complex With Dna And
           Manganese Ions (Post-Reactive Complex)
 pdb|1BHM|B Chain B, Restriction Endonuclease Bamhi Complex With Dna
 pdb|1BAM|   Restriction Endonuclease Bamhi (E.C.3.1.21.4)
 pdb|1BHM|A Chain A, Restriction Endonuclease Bamhi Complex With Dna
          Length = 213

 Score = 25.4 bits (54), Expect = 1.7
 Identities = 14/46 (30%), Positives = 27/46 (58%), Gaps = 1/46 (2%)

Query: 24  GSITIDEDLAKLAKL-REGMKVEIVDVNNGERFSTYVILGKKRGEI 68
           G I + ++  + ++L R GM+ E  ++++  R    ++LG K GEI
Sbjct: 91  GPIDVYKEFIENSELKRVGMEFETGNISSAHRSMNKLLLGLKHGEI 136



>pdb|1AW8|A Chain A, Pyruvoyl Dependent Aspartate Decarboxylase
 pdb|1AW8|D Chain D, Pyruvoyl Dependent Aspartate Decarboxylase
          Length = 24

 Score = 25.4 bits (54), Expect = 1.7
 Identities = 10/20 (50%), Positives = 14/20 (70%)

Query: 5  MLYSKIHRATITDANLNYIG 24
          ML  K+HR  +T A+L+Y G
Sbjct: 5  MLQGKLHRVKVTHADLHYEG 24



  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
   0.317    0.136    0.364 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 596,924
Number of Sequences: 13198
Number of extensions: 20771
Number of successful extensions: 66
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 60
Number of HSP's gapped (non-prelim): 4
length of query: 117
length of database: 2,899,336
effective HSP length: 76
effective length of query: 41
effective length of database: 1,896,288
effective search space: 77747808
effective search space used: 77747808
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)