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= 037293
         (82 letters)

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

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



>pdb|3IZ6|U Chain U, Localization Of The Small Subunit Ribosomal Proteins Into
           A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
           Ribosome
          Length = 138

 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/60 (43%), Positives = 39/60 (65%), Gaps = 3/60 (5%)

Query: 9   RNLVNAGRVTFAGWVFESVESKSRFSFSFK---NGLDTKAEKSRKQLKERKNMAKKIGGV 65
           R     G+ T  G +++++++  ++   ++   NGL TK EKSRKQ+KERKN AKKI GV
Sbjct: 67  RTHFGGGKSTGFGLIYDNLDAAKKYEPKYRLIRNGLATKVEKSRKQMKERKNRAKKIRGV 126


>pdb|3PS9|A Chain A, Crystal Structure Of Mnmc From E. Coli
          Length = 676

 Score = 28.9 bits (63), Expect = 0.69,   Method: Composition-based stats.
 Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 1/42 (2%)

Query: 1   MPLPVNDHRNLVNAGRVTFAGWVFESVESKSRFSFSFKNGLD 42
           MPLP   HR L++AGRVT   W  +  E  S+   S    +D
Sbjct: 141 MPLP-GCHRLLLDAGRVTLDLWFGDINELTSQLDDSLNQKVD 181


>pdb|3IZB|U Chain U, Localization Of The Small Subunit Ribosomal Proteins Into
           A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
           Translating 80s Ribosome
 pdb|3U5C|Y Chain Y, The Structure Of The Eukaryotic Ribosome At 3.0 A
           Resolution. This Entry Contains Proteins Of The 40s
           Subunit, Ribosome A
 pdb|3U5G|Y Chain Y, The Structure Of The Eukaryotic Ribosome At 3.0 A
           Resolution. This Entry Contains Proteins Of The 40s
           Subunit, Ribosome B
 pdb|3J16|D Chain D, Models Of Ribosome-Bound Dom34p And Rli1p And Their
           Ribosomal Binding Partners
          Length = 135

 Score = 28.9 bits (63), Expect = 0.74,   Method: Compositional matrix adjust.
 Identities = 20/48 (41%), Positives = 28/48 (58%), Gaps = 4/48 (8%)

Query: 21  GWVFESVESKSRFSFSFK---NGLDTKAEK-SRKQLKERKNMAKKIGG 64
           G V+ SV    +F  +++    GL  K EK SR+Q K++KN  KKI G
Sbjct: 73  GLVYNSVAEAKKFEPTYRLVRYGLAEKVEKASRQQRKQKKNRDKKIFG 120


  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
   0.315    0.130    0.369 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,737,039
Number of Sequences: 62578
Number of extensions: 49125
Number of successful extensions: 57
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 55
Number of HSP's gapped (non-prelim): 4
length of query: 82
length of database: 14,973,337
effective HSP length: 51
effective length of query: 31
effective length of database: 11,781,859
effective search space: 365237629
effective search space used: 365237629
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)