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= 011347
         (488 letters)

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

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



>pdb|3QV2|A Chain A, Structure Analysis Of Entamoeba Histolytica
           Methyltransferase Ehmeth
          Length = 327

 Score = 32.3 bits (72), Expect = 0.53,   Method: Compositional matrix adjust.
 Identities = 21/79 (26%), Positives = 40/79 (50%), Gaps = 7/79 (8%)

Query: 348 LKSMFPGGLTMLSVFSGIGGAEVTLHRLGIKLKGV-ISIETSETNRRILKRWWESSGQTG 406
           L SM    + ++  FSGIGG   +  R  I +    I  + +E   +I  + ++      
Sbjct: 3   LGSMQQKQVNVIEFFSGIGGLRSSYERSSININATFIPFDINEIANKIYSKNFK------ 56

Query: 407 ELVQIEDIQALTTKKFESL 425
           E VQ++++ +++ K+ ESL
Sbjct: 57  EEVQVKNLDSISIKQIESL 75


>pdb|3J21|T Chain T, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
          Revealed By Cryo-em: Implications For Evolution Of
          Eukaryotic Ribosomes (50s Ribosomal Proteins)
          Length = 86

 Score = 30.4 bits (67), Expect = 2.6,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 7/72 (9%)

Query: 2  EITLQLLEMGFSENQVSLAIEKFGSKTPISELADKIFSGQI----FLDTPRSRSYDTVKV 57
          E  + L+E    EN+++  +++  +K  I    ++IF+ ++     L TPR      VK+
Sbjct: 14 EKAISLIE---KENKLTFIVDRRATKQDIKRAVEEIFNVKVEKVNTLITPRGEKKAYVKL 70

Query: 58 KTEYCSPDVVSQ 69
          K EY + +V ++
Sbjct: 71 KPEYSASEVAAR 82


>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
 pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
 pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
 pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
          Length = 727

 Score = 29.3 bits (64), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 13/54 (24%), Positives = 28/54 (51%), Gaps = 6/54 (11%)

Query: 286 SEKLNLVWVGAYKL------GPVDPEHIELILGYPSNHTQAAGNSLTARLESLR 333
           ++ ++ +W   + L      G VDPE++   +G+P++   +    L AR E ++
Sbjct: 666 TDVIDYIWFSTHALRVRGLLGEVDPEYVSKFIGFPNDKFPSDHIPLLARFEFMK 719


  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
   0.317    0.133    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,998,235
Number of Sequences: 62578
Number of extensions: 556537
Number of successful extensions: 1196
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1192
Number of HSP's gapped (non-prelim): 5
length of query: 488
length of database: 14,973,337
effective HSP length: 103
effective length of query: 385
effective length of database: 8,527,803
effective search space: 3283204155
effective search space used: 3283204155
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)