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|15645904|ref|NP_208083.1| conserved hypothetical
protein [Helicobacter pylori 26695]
         (204 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|1IG3|A  Chain A, Mouse Thiamin Pyrophosphokinase Complex...    28  0.57
pdb|1IG0|B  Chain B, Crystal Structure Of Yeast Thiamin Pyro...    28  0.97
pdb|1LRZ|A  Chain A, X-Ray Crystal Structure Of Staphylococc...    25  4.8

>pdb|1IG3|A Chain A, Mouse Thiamin Pyrophosphokinase Complexed With Thiamin
 pdb|1IG3|B Chain B, Mouse Thiamin Pyrophosphokinase Complexed With Thiamin
          Length = 263

 Score = 28.5 bits (62), Expect = 0.57
 Identities = 31/118 (26%), Positives = 41/118 (34%), Gaps = 17/118 (14%)

Query: 12  PKSQKCLDLLKNAPFLIACDGAVTSLHAL------QFKPSVVIGDLDSIDSHLKALYNP- 64
           P   +   L K A      DG    L+ L       F P  V GD DSI   +K  Y   
Sbjct: 47  PLDARFRHLWKKALLRACADGGANHLYDLTEGERESFLPEFVSGDFDSIRPEVKEYYTKK 106

Query: 65  ----IRMSEQNSNDLSKAFFYALNK------GCDDFIFLGLNGKREDHALANTFLLLE 112
               I   +Q+  D +K       K        D  + LG  G R D  +A+   L +
Sbjct: 107 GCDLISTPDQDHTDFTKCLQVLQRKIEEKELQVDVIVTLGGLGGRFDQIMASVNTLFQ 164



>pdb|1IG0|B Chain B, Crystal Structure Of Yeast Thiamin Pyrophosphokinase
 pdb|1IG0|A Chain A, Crystal Structure Of Yeast Thiamin Pyrophosphokinase
          Length = 319

 Score = 27.7 bits (60), Expect = 0.97
 Identities = 17/64 (26%), Positives = 29/64 (44%), Gaps = 14/64 (21%)

Query: 28  IACDGAVTSLH---------ALQFKPSVVIGDLDSIDSHLKALYNP-----IRMSEQNSN 73
           +  DGA   L+          +++ P+ +IGDLDS+   +   Y       I+ + Q S 
Sbjct: 66  VCADGAANRLYDYLDDDETLRIKYLPNYIIGDLDSLSEKVYKYYRKNKVTIIKQTTQYST 125

Query: 74  DLSK 77
           D +K
Sbjct: 126 DFTK 129



>pdb|1LRZ|A Chain A, X-Ray Crystal Structure Of Staphylococcus Aureus Fema
          Length = 426

 Score = 25.4 bits (54), Expect = 4.8
 Identities = 11/23 (47%), Positives = 15/23 (64%)

Query: 81  YALNKGCDDFIFLGLNGKREDHA 103
           YALN G D + F G++GK  + A
Sbjct: 352 YALNHGIDRYNFYGVSGKFTEDA 374



  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    0.138    0.396 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,087,168
Number of Sequences: 13198
Number of extensions: 41525
Number of successful extensions: 58
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 57
Number of HSP's gapped (non-prelim): 3
length of query: 204
length of database: 2,899,336
effective HSP length: 84
effective length of query: 120
effective length of database: 1,790,704
effective search space: 214884480
effective search space used: 214884480
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: 52 (24.6 bits)