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= 020465
         (326 letters)

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

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



>pdb|1YVP|A Chain A, Ro Autoantigen Complexed With Rnas
 pdb|1YVP|B Chain B, Ro Autoantigen Complexed With Rnas
 pdb|1YVR|A Chain A, Ro Autoantigen
 pdb|2I91|A Chain A, 60kda Ro Autoantigen In Complex With A Fragment Of
           Misfolded Rna
 pdb|2I91|B Chain B, 60kda Ro Autoantigen In Complex With A Fragment Of
           Misfolded Rna
          Length = 538

 Score = 32.7 bits (73), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 10/86 (11%)

Query: 139 IEAVEKLSENDHTLEILHISGVYNITKEHLRTLHSHLKLNSSRQNEQKRQPILYHKARHY 198
           +EA E++      LEI+H+   Y + +EHL T+  HLK     ++  +  P+        
Sbjct: 229 LEATERVKRTKDELEIIHLIDEYRLVREHLLTI--HLKSKEIWKSLLQDMPL-------- 278

Query: 199 PVLVNRENDHSIDVEICPSCSEVRMV 224
             L+      + D  + P+ SEV  V
Sbjct: 279 TALLRNLGKMTADSVLAPASSEVSSV 304


  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
   0.322    0.137    0.442 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,674,967
Number of Sequences: 62578
Number of extensions: 348621
Number of successful extensions: 832
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 826
Number of HSP's gapped (non-prelim): 16
length of query: 326
length of database: 14,973,337
effective HSP length: 99
effective length of query: 227
effective length of database: 8,778,115
effective search space: 1992632105
effective search space used: 1992632105
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: 51 (24.3 bits)