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|15644890|ref|NP_207060.1| hypothetical protein
[Helicobacter pylori 26695]
         (200 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|1K8A|G  Chain G, Co-Crystal Structure Of Carbomycin A Bo...    26  3.6
pdb|1JK0|B  Chain B, Ribonucleotide Reductase Y2y4 Heterodimer     25  6.1
pdb|1QO8|A  Chain A, The Structure Of The Open Conformation ...    25  6.1

>pdb|1K8A|G Chain G, Co-Crystal Structure Of Carbomycin A Bound To The 50s
           Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1K9M|G Chain G, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
           Subunit Of Haloarcula Marismortui
 pdb|1KD1|G Chain G, Co-Crystal Structure Of Spiramycin Bound To The 50s
           Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1M1K|G Chain G, Co-Crystal Structure Of Azithromycin Bound To The 50s
           Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1M90|G Chain G, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
           Sparsomycin Bound To The 50s Ribosomal Subunit
 pdb|1JJ2|E Chain E, Fully Refined Crystal Structure Of The Haloarcula
           Marismortui Large Ribosomal Subunit At 2.4 Angstrom
           Resolution
 pdb|1KQS|E Chain E, The Haloarcula Marismortui 50s Complexed With A
           Pretranslocational Intermediate In Protein Synthesis
 pdb|1FFK|1 Chain 1, Crystal Structure Of The Large Ribosomal Subunit From
           Haloarcula Marismortui At 2.4 Angstrom Resolution
          Length = 177

 Score = 25.8 bits (55), Expect = 3.6
 Identities = 13/49 (26%), Positives = 25/49 (50%)

Query: 110 INGELDRVKRALWVHFGEYSVLPDIILYQTNKDNIKILAILSVKNSFRE 158
           + G+   V R LW    + SV  D ++ ++++DN K ++ +    S  E
Sbjct: 22  VEGDNGSVTRRLWYPDIDVSVDGDTVVIESDEDNAKTMSTIGTFQSHIE 70



>pdb|1JK0|B Chain B, Ribonucleotide Reductase Y2y4 Heterodimer
          Length = 345

 Score = 25.0 bits (53), Expect = 6.1
 Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 1/66 (1%)

Query: 1   MDFYGLKVFGLGLADVILERF-KDFMREQPEPYKFLQVFYAQEKERFLNHKMSDYIKQNK 59
           MD   +  +   +AD +L+ F  +       P++F++      K  F   K+SDY K + 
Sbjct: 269 MDLKSIHTYIEFVADGLLQGFGNEKYYNAVNPFEFMEDVATAGKTTFFEKKVSDYQKASD 328

Query: 60  SKEEAS 65
             + A+
Sbjct: 329 MSKSAT 334



>pdb|1QO8|A Chain A, The Structure Of The Open Conformation Of A
           Flavocytochrome C3 Fumarate Reductase
 pdb|1QO8|D Chain D, The Structure Of The Open Conformation Of A
           Flavocytochrome C3 Fumarate Reductase
          Length = 566

 Score = 25.0 bits (53), Expect = 6.1
 Identities = 10/27 (37%), Positives = 14/27 (51%)

Query: 88  LKDFCIKNNVKMTNDKILRAKRINGEL 114
           +KD    NN+  T D +L AK I   +
Sbjct: 325 MKDMTSSNNITATGDGVLMAKEIGASM 351



  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    0.403 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,134,508
Number of Sequences: 13198
Number of extensions: 41965
Number of successful extensions: 57
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 55
Number of HSP's gapped (non-prelim): 3
length of query: 200
length of database: 2,899,336
effective HSP length: 84
effective length of query: 116
effective length of database: 1,790,704
effective search space: 207721664
effective search space used: 207721664
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)