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= 011681
         (479 letters)

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

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



>pdb|2FH5|A Chain A, The Structure Of The Mammalian Srp Receptor
 pdb|2GO5|1 Chain 1, Structure Of Signal Recognition Particle Receptor (Sr) In
           Complex With Signal Recognition Particle (Srp) And
           Ribosome Nascent Chain Complex
          Length = 185

 Score = 33.1 bits (74), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 22/83 (26%), Positives = 41/83 (49%), Gaps = 3/83 (3%)

Query: 48  VSLLEEQVHQMLRE-WKAELHEPSPASSLQQDGSLGFSSDIYRLLQLCEEEDDATSTLTA 106
           V  L + VH++ R+ ++ E+ + S  S L  +G+  F +D  RLL+  EE     +  T 
Sbjct: 88  VDKLIDDVHRLFRDKYRTEIQQQSALSLL--NGTFDFQNDFLRLLREAEESSKIRAPTTM 145

Query: 107 PKPEPNDQVLPVADTAVYHEGEQ 129
            K E +++      + +   GE+
Sbjct: 146 KKFEDSEKAKKPVRSMIETRGEK 168


>pdb|2ZUY|A Chain A, Crystal Structure Of Exotype Rhamnogalacturonan Lyase Yesx
          Length = 620

 Score = 30.0 bits (66), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 12/48 (25%), Positives = 21/48 (43%)

Query: 369 HLYEYEINKCDACALYRLELKLVDGKKSAKGKLANDSVADLQKQMGRL 416
           H  ++ +   D      + +K  DG    KG +  D  AD + + GR+
Sbjct: 181 HYTQFMVYDLDGDGKAEIAMKTADGTTDGKGHIIGDEQADFRNEQGRI 228


  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
   0.316    0.134    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,826,708
Number of Sequences: 62578
Number of extensions: 713567
Number of successful extensions: 1466
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1462
Number of HSP's gapped (non-prelim): 7
length of query: 479
length of database: 14,973,337
effective HSP length: 103
effective length of query: 376
effective length of database: 8,527,803
effective search space: 3206453928
effective search space used: 3206453928
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: 53 (25.0 bits)