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|15645439|ref|NP_207613.1| hypothetical protein
[Helicobacter pylori 26695]
         (153 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|1LDJ|A  Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxsk...    26  1.8
pdb|1LDK|B  Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxsk...    26  1.8
pdb|1DXY|    Structure Of D-2-Hydroxyisocaproate Dehydrogenase     25  3.0
pdb|1BVU|A  Chain A, Glutamate Dehydrogenase From Thermococc...    25  3.9
pdb|1EU4|A  Chain A, Crystal Structure Of The Superantigen S...    25  5.2

>pdb|1LDJ|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
           Ligase Complex
          Length = 760

 Score = 26.2 bits (56), Expect = 1.8
 Identities = 11/26 (42%), Positives = 18/26 (68%)

Query: 47  SKLLFAFKDIWASKEFNQRFAKEISH 72
           SKL   F+DI  SK+ N++F K +++
Sbjct: 486 SKLQRMFQDIGVSKDLNEQFKKHLTN 511



>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
           Ligase Complex
          Length = 366

 Score = 26.2 bits (56), Expect = 1.8
 Identities = 11/26 (42%), Positives = 18/26 (68%)

Query: 47  SKLLFAFKDIWASKEFNQRFAKEISH 72
           SKL   F+DI  SK+ N++F K +++
Sbjct: 92  SKLQRMFQDIGVSKDLNEQFKKHLTN 117



>pdb|1DXY|   Structure Of D-2-Hydroxyisocaproate Dehydrogenase
          Length = 333

 Score = 25.4 bits (54), Expect = 3.0
 Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 5/41 (12%)

Query: 54 KDIWASKEFNQRFAKEISHFLNTQGHAYGFDGLNGLEILGY 94
          KD   + E++  F  E     NT   A GFDG+N L+   Y
Sbjct: 21 KDTGNTLEYHTEFLDE-----NTVEWAKGFDGINSLQTTPY 56



>pdb|1BVU|A Chain A, Glutamate Dehydrogenase From Thermococcus Litoralis
 pdb|1BVU|B Chain B, Glutamate Dehydrogenase From Thermococcus Litoralis
 pdb|1BVU|C Chain C, Glutamate Dehydrogenase From Thermococcus Litoralis
 pdb|1BVU|D Chain D, Glutamate Dehydrogenase From Thermococcus Litoralis
 pdb|1BVU|E Chain E, Glutamate Dehydrogenase From Thermococcus Litoralis
 pdb|1BVU|F Chain F, Glutamate Dehydrogenase From Thermococcus Litoralis
          Length = 418

 Score = 25.0 bits (53), Expect = 3.9
 Identities = 11/41 (26%), Positives = 22/41 (52%)

Query: 57  WASKEFNQRFAKEISHFLNTQGHAYGFDGLNGLEILGYVPK 97
           + +K  ++ +  ++    +T+G  Y  DGLN  E+L +  K
Sbjct: 225 YMAKIMSEEYGMKVVAVSDTKGGIYNPDGLNADEVLAWKKK 265



>pdb|1EU4|A Chain A, Crystal Structure Of The Superantigen Spe-H (Zinc Bound)
           From Streptococcus Pyogenes
 pdb|1ET9|A Chain A, Crystal Structure Of The Superantigen Spe-H From
           Streptococcus Pyogenes
          Length = 204

 Score = 24.6 bits (52), Expect = 5.2
 Identities = 23/106 (21%), Positives = 40/106 (37%), Gaps = 7/106 (6%)

Query: 15  YKKLETLLKLKKLKVFMPLSLQENLLFIFIKDSKLLFAFKDIWASKEFNQR----FAKEI 70
           YK    L++   +K   P  +  ++L   +KD  L   F+  W S+EF  +    +A   
Sbjct: 15  YKHDSNLIEADSIKN-SPDIVTSHMLKYSVKDKNLSVFFEKDWISQEFKDKEVDIYALSA 73

Query: 71  SHFLNTQGHAYGFDGLNGLEILGYVPKDALKKSNFYAPIKKQARFF 116
                  G  Y  +   G+ +     K+     N +   K+Q   F
Sbjct: 74  QEVCECPGKRY--EAFGGITLTNSEKKEIKVPVNVWDKSKQQPPMF 117



  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
   0.326    0.142    0.414 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 816,186
Number of Sequences: 13198
Number of extensions: 30918
Number of successful extensions: 38
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 35
Number of HSP's gapped (non-prelim): 5
length of query: 153
length of database: 2,899,336
effective HSP length: 80
effective length of query: 73
effective length of database: 1,843,496
effective search space: 134575208
effective search space used: 134575208
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)