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= 029917
         (185 letters)

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

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



>pdb|2EQE|A Chain A, Solution Structure Of The Fourth A20-Type Zinc Finger
           Domain From Human Tumor Necrosis Factor, Alpha-Induced
           Protein3
          Length = 48

 Score = 29.6 bits (65), Expect = 1.1,   Method: Composition-based stats.
 Identities = 12/26 (46%), Positives = 16/26 (61%)

Query: 80  DQFGKTKVHLQGCVFFGQPEPPGPCS 105
           D+ G +K    GCV+FG PE  G C+
Sbjct: 11  DRTGTSKCRKAGCVYFGTPENKGFCT 36


>pdb|3OJ3|I Chain I, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
 pdb|3OJ3|J Chain J, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
 pdb|3OJ3|K Chain K, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
 pdb|3OJ3|L Chain L, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
 pdb|3OJ3|M Chain M, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
 pdb|3OJ3|N Chain N, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
 pdb|3OJ3|O Chain O, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
 pdb|3OJ3|P Chain P, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
 pdb|3OJ4|C Chain C, Crystal Structure Of The A20 Znf4, Ubiquitin And Ubch5a
           Complex
 pdb|3OJ4|F Chain F, Crystal Structure Of The A20 Znf4, Ubiquitin And Ubch5a
           Complex
          Length = 49

 Score = 29.3 bits (64), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 12/26 (46%), Positives = 16/26 (61%)

Query: 80  DQFGKTKVHLQGCVFFGQPEPPGPCS 105
           D+ G +K    GCV+FG PE  G C+
Sbjct: 14  DRTGTSKCRKAGCVYFGTPENKGFCT 39


  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
   0.319    0.135    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,771,940
Number of Sequences: 62578
Number of extensions: 182543
Number of successful extensions: 250
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 248
Number of HSP's gapped (non-prelim): 3
length of query: 185
length of database: 14,973,337
effective HSP length: 93
effective length of query: 92
effective length of database: 9,153,583
effective search space: 842129636
effective search space used: 842129636
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: 48 (23.1 bits)