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|15644829|ref|NP_206999.1| ribosomal protein L32
(rpl32) [Helicobacter pylori 26695]
         (48 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|1F5N|A  Chain A, Human Guanylate Binding Protein-1 In Co...    23  9.0
pdb|1JZX|M  Chain M, Structural Basis For The Interaction Of...    23  9.0
pdb|1LNR|Z  Chain Z, Crystal Structure Of The Large Ribosoma...    23  9.0

>pdb|1F5N|A Chain A, Human Guanylate Binding Protein-1 In Complex With The Gtp
           Analogue, Gmppnp.
 pdb|1DG3|A Chain A, Structure Of Human Guanylate Binding Protein-1 In
           Nucleotide Free Form
          Length = 592

 Score = 22.7 bits (47), Expect = 9.0
 Identities = 10/19 (52%), Positives = 12/19 (62%)

Query: 20  YSVKLAKPIKAKDGTWKLP 38
           YS+KL K    KD T+ LP
Sbjct: 204 YSLKLKKGTSQKDETFNLP 222



>pdb|1JZX|M Chain M, Structural Basis For The Interaction Of Antibiotics With
          The Peptidyl Transferase Center In Eubacteria
 pdb|1K01|M Chain M, Structural Basis For The Interaction Of Antibiotics With
          The Peptidyl Transferase Center In Eubacteria
 pdb|1J5A|M Chain M, Structural Basis For The Interaction Of Antibiotics With
          The Peptidyl Transferase Center In Eubacteria
 pdb|1JZY|M Chain M, Structural Basis For The Interaction Of Antibiotics With
          The Peptidyl Transferase Center In Eubacteria
 pdb|1JZZ|M Chain M, Structural Basis For The Interaction Of Antibiotics With
          The Peptidyl Transferase Center In Eubacteria
          Length = 60

 Score = 22.7 bits (47), Expect = 9.0
 Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 1/40 (2%)

Query: 3  VPDRRVSKTRAAKRRTHYSVKLAKPIKAKD-GTWKLPHHI 41
          VP ++ SK++   RR+H+++      +       KL HHI
Sbjct: 6  VPKKKTSKSKRDMRRSHHALTAPNLTECPQCHGKKLSHHI 45



>pdb|1LNR|Z Chain Z, Crystal Structure Of The Large Ribosomal Subunit From
          Deinococcus Radiodurans
          Length = 59

 Score = 22.7 bits (47), Expect = 9.0
 Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 1/40 (2%)

Query: 3  VPDRRVSKTRAAKRRTHYSVKLAKPIKAKD-GTWKLPHHI 41
          VP ++ SK++   RR+H+++      +       KL HHI
Sbjct: 5  VPKKKTSKSKRDMRRSHHALTAPNLTECPQCHGKKLSHHI 44



  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
   0.319    0.130    0.395 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 274,348
Number of Sequences: 13198
Number of extensions: 6093
Number of successful extensions: 20
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: 19
Number of HSP's gapped (non-prelim): 3
length of query: 48
length of database: 2,899,336
effective HSP length: 24
effective length of query: 24
effective length of database: 2,582,584
effective search space: 61982016
effective search space used: 61982016
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)