BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
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.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 033206
         (125 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1LFW|A Chain A, Crystal Structure Of Pepv
          Length = 470

 Score = 27.7 bits (60), Expect = 1.6,   Method: Composition-based stats.
 Identities = 15/29 (51%), Positives = 17/29 (58%), Gaps = 3/29 (10%)

Query: 75  ILNWVYRYFTEPHYVHWIPWISGLVQTLL 103
           IL+  Y  F EPHYV   P    +VQTLL
Sbjct: 371 ILDVTYNGFEEPHYV---PGSDPMVQTLL 396


>pdb|3JYV|J Chain J, Structure Of The 40s Rrna And Proteins And PE TRNA FOR
          EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces
          Lanuginosus Ribosome At 8.9a Resolution
          Length = 96

 Score = 27.7 bits (60), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 25/48 (52%)

Query: 20 LLKIHTIKSCSGVSLKTQELYALVFTTRYLDIFTDFVSIRLMFSVIVE 67
          +LKI T K+ +G   KT E Y +    RY+D+      ++ +  + +E
Sbjct: 42 VLKISTRKTPNGEGSKTWETYEMRIHKRYIDLEAPVQIVKRITQITIE 89


>pdb|1S1H|J Chain J, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex
          From Yeast Obtained By Docking Atomic Models For Rna
          And Protein Components Into A 11.7 A Cryo-Em Map. This
          File, 1s1h, Contains 40s Subunit. The 60s Ribosomal
          Subunit Is In File 1s1i
          Length = 100

 Score = 27.7 bits (60), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 25/48 (52%)

Query: 20 LLKIHTIKSCSGVSLKTQELYALVFTTRYLDIFTDFVSIRLMFSVIVE 67
          +LKI T K+ +G   KT E Y +    RY+D+      ++ +  + +E
Sbjct: 42 VLKISTRKTPNGEGSKTWETYEMRIHKRYIDLEAPVQIVKRITQITIE 89


>pdb|3IZB|J Chain J, Localization Of The Small Subunit Ribosomal Proteins Into
           A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
           Translating 80s Ribosome
 pdb|3O2Z|N Chain N, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
           Of The First 80s In The Asymmetric Unit.
 pdb|3O30|N Chain N, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
           Of The Second 80s In The Asymmetric Unit.
 pdb|3U5C|U Chain U, The Structure Of The Eukaryotic Ribosome At 3.0 A
           Resolution. This Entry Contains Proteins Of The 40s
           Subunit, Ribosome A
 pdb|3U5G|U Chain U, The Structure Of The Eukaryotic Ribosome At 3.0 A
           Resolution. This Entry Contains Proteins Of The 40s
           Subunit, Ribosome B
          Length = 121

 Score = 27.7 bits (60), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 25/48 (52%)

Query: 20  LLKIHTIKSCSGVSLKTQELYALVFTTRYLDIFTDFVSIRLMFSVIVE 67
           +LKI T K+ +G   KT E Y +    RY+D+      ++ +  + +E
Sbjct: 62  VLKISTRKTPNGEGSKTWETYEMRIHKRYIDLEAPVQIVKRITQITIE 109


>pdb|1ZYL|A Chain A, Crystal Structure Of Hypothetical Protein Yihe From
           Escherichia Coli
          Length = 328

 Score = 26.6 bits (57), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 10/29 (34%), Positives = 17/29 (58%)

Query: 69  AYRGLYILNWVYRYFTEPHYVHWIPWISG 97
           A R +Y L W+ R + +P +    PW++G
Sbjct: 271 AMRLVYYLAWLMRRWADPAFPKNFPWLTG 299


>pdb|3TUA|A Chain A, Crystal Structure Of The Burkholderia Lethal Factor 1
           (Blf1) C94s Mutant
          Length = 210

 Score = 25.8 bits (55), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 9/18 (50%), Positives = 12/18 (66%)

Query: 85  EPHYVHWIPWISGLVQTL 102
           EP  + W+PW  G +QTL
Sbjct: 56  EPAKILWLPWKQGELQTL 73


>pdb|3TU8|A Chain A, Crystal Structure Of The Burkholderia Lethal Factor 1
           (Blf1)
          Length = 210

 Score = 25.8 bits (55), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 9/18 (50%), Positives = 12/18 (66%)

Query: 85  EPHYVHWIPWISGLVQTL 102
           EP  + W+PW  G +QTL
Sbjct: 56  EPAKILWLPWKQGELQTL 73


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.329    0.141    0.448 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,442,537
Number of Sequences: 62578
Number of extensions: 118728
Number of successful extensions: 215
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 209
Number of HSP's gapped (non-prelim): 7
length of query: 125
length of database: 14,973,337
effective HSP length: 86
effective length of query: 39
effective length of database: 9,591,629
effective search space: 374073531
effective search space used: 374073531
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)