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= 045606
         (107 letters)

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

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



>pdb|2AP1|A Chain A, Crystal Structure Of The Putative Regulatory Protein
          Length = 327

 Score = 28.9 bits (63), Expect = 0.76,   Method: Composition-based stats.
 Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 4/36 (11%)

Query: 33  RHSLPVANGRHGSPRIQRSLSQAQQGAKGNGTLHVT 68
           RH LPVA     +PRI+R+      G +G   LH+T
Sbjct: 295 RHLLPVAR----APRIERARHGDAGGMRGAAFLHLT 326


>pdb|2Z0S|A Chain A, Crystal Structure Of Putative Exosome Complex Rna-Binding
           Protein
          Length = 235

 Score = 28.5 bits (62), Expect = 1.00,   Method: Compositional matrix adjust.
 Identities = 8/23 (34%), Positives = 15/23 (65%)

Query: 62  NGTLHVTCPNTDLGTVGLLDVTV 84
           NG +H+ CPN DL  + ++ + +
Sbjct: 186 NGRIHLECPNEDLEAIAVMAIKI 208


  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    0.132    0.381 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,062,040
Number of Sequences: 62578
Number of extensions: 113649
Number of successful extensions: 142
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: 141
Number of HSP's gapped (non-prelim): 5
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
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: 45 (21.9 bits)