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= 001174
         (1132 letters)

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

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



>pdb|3ZHE|A Chain A, Structure Of The C. Elegans Smg5-smg7 Complex
 pdb|3ZHE|C Chain C, Structure Of The C. Elegans Smg5-smg7 Complex
          Length = 420

 Score = 31.6 bits (70), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 32/108 (29%), Positives = 45/108 (41%), Gaps = 31/108 (28%)

Query: 23  STENQERTSDASDQMEPSGQRE--HSPDDFEEIRPKTKRSRASEGTAASAQSIELSLIEV 80
           S E  E+     +Q+E  GQ E  HSP     +R K ++                 LIE+
Sbjct: 4   SDEVTEKFKRYCNQLEKYGQTENVHSPV-MAMLRRKGRKQ----------------LIEI 46

Query: 81  IKGNGKLIPQVVKLWVERY---------EKDAKPAIAELLTMLFEACG 119
           +K +G     + KLW+  Y         +K+   AIA LLTM    CG
Sbjct: 47  MKRDGDCTSSINKLWIVGYYHPFQFFIRDKEKNMAIAVLLTMF---CG 91


>pdb|3UK0|A Chain A, Rpd_1889 Protein, An Extracellular Ligand-Binding Receptor
           From Rhodopseudomonas Palustris
          Length = 362

 Score = 30.4 bits (67), Expect = 6.3,   Method: Composition-based stats.
 Identities = 30/112 (26%), Positives = 47/112 (41%), Gaps = 25/112 (22%)

Query: 851 AIDSVPKEYLGPEIISHFVMHGTNVAEIVKHLITVLKKKDEDVSTIFLEALKRAYQRHAV 910
           A+  V +E  GP   S F  H  +  ++++ ++ V  KK +  +  F EAL+ A+     
Sbjct: 266 ALVKVYEEKYGPSSRSQFAGHSYDAFKVLERVVPVALKKAKPGTQEFREALREAF----- 320

Query: 911 EISRSDDKSLTEKSFVECKELSSRLSGTYVGAARNKH----RSDILKTVKEG 958
                    LTEK     +       G Y     +++    RS IL TVK G
Sbjct: 321 ---------LTEKDIAASQ-------GVYNFTETDRYGLDDRSRILLTVKNG 356


  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    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,363,097
Number of Sequences: 62578
Number of extensions: 1081751
Number of successful extensions: 2670
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 2666
Number of HSP's gapped (non-prelim): 13
length of query: 1132
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1023
effective length of database: 8,152,335
effective search space: 8339838705
effective search space used: 8339838705
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: 57 (26.6 bits)