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= 019829
         (335 letters)

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

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



>pdb|3O3U|N Chain N, Crystal Structure Of Human Receptor For Advanced Glycation
           Endproducts (Rage)
          Length = 581

 Score = 28.9 bits (63), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 6/40 (15%)

Query: 64  GKPGGLRCFGAARQIPQRLYTLDELKLNG--IETRSLLSP 101
           G+P  L+C GA ++ PQRL    E KLN    E   +LSP
Sbjct: 381 GEPLVLKCKGAPKKPPQRL----EWKLNTGRTEAWKVLSP 416


>pdb|1CLC|A Chain A, Three-Dimensional Structure Of Endoglucanase D At 1.9
           Angstroms Resolution
          Length = 639

 Score = 28.1 bits (61), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 34/80 (42%), Gaps = 8/80 (10%)

Query: 97  SLLSPVDETLGSIERNLQLAAIVGGVSAWNVFGFNPQQILYLSLALLFLWTVDSVSYNGG 156
           SLLS  D  + +  +N      +G    W   G   +Q + L +A       + +S N  
Sbjct: 420 SLLSTADSIVRT-SQNHGYGRTLGTTYYWGCNGTVVRQTMILQVA-------NKISPNND 471

Query: 157 VGSLVLDTIGHTFSQKYHNR 176
             +  LD I H F + Y+NR
Sbjct: 472 YVNAALDAISHVFGRNYYNR 491


  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
   0.320    0.137    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,407,028
Number of Sequences: 62578
Number of extensions: 326851
Number of successful extensions: 689
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 688
Number of HSP's gapped (non-prelim): 5
length of query: 335
length of database: 14,973,337
effective HSP length: 99
effective length of query: 236
effective length of database: 8,778,115
effective search space: 2071635140
effective search space used: 2071635140
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)