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= 027413
         (223 letters)

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

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



>pdb|1V27|A Chain A, Solution Structure Of The First C2 Domain Of Rim2
          Length = 141

 Score = 28.9 bits (63), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 3/56 (5%)

Query: 39 RQGTQKRKPKSLSMCFVTE--DKNEGTTKVEKKTFVQAQNEIKFFSPAEERQARKR 92
          R+  + R P  + + F+ +  DKN+  TK  KKT     N+   +SP   R+ R+R
Sbjct: 36 REDGRPRNP-YVKIYFLPDRSDKNKRRTKTVKKTLEPKWNQTFIYSPVHRREFRER 90


>pdb|2BWQ|A Chain A, Crystal Structure Of The Rim2 C2a-Domain At 1.4 Angstrom
          Resolution
          Length = 129

 Score = 28.9 bits (63), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 3/56 (5%)

Query: 39 RQGTQKRKPKSLSMCFVTE--DKNEGTTKVEKKTFVQAQNEIKFFSPAEERQARKR 92
          R+  + R P  + + F+ +  DKN+  TK  KKT     N+   +SP   R+ R+R
Sbjct: 33 REDGRPRNP-YVKIYFLPDRSDKNKRRTKTVKKTLEPKWNQTFIYSPVHRREFRER 87


  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
   0.321    0.132    0.383 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,692,077
Number of Sequences: 62578
Number of extensions: 188824
Number of successful extensions: 369
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 365
Number of HSP's gapped (non-prelim): 4
length of query: 223
length of database: 14,973,337
effective HSP length: 95
effective length of query: 128
effective length of database: 9,028,427
effective search space: 1155638656
effective search space used: 1155638656
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)