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= psy16513
         (156 letters)

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

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



>pdb|3RIS|A Chain A, Crystal Structure Of The Catalytic Domain Of Uchl5, A
           Proteasome- Associated Human Deubiquitinating Enzyme,
           Reveals An Unproductive Form Of The Enzyme
 pdb|3RIS|B Chain B, Crystal Structure Of The Catalytic Domain Of Uchl5, A
           Proteasome- Associated Human Deubiquitinating Enzyme,
           Reveals An Unproductive Form Of The Enzyme
 pdb|3RIS|C Chain C, Crystal Structure Of The Catalytic Domain Of Uchl5, A
           Proteasome- Associated Human Deubiquitinating Enzyme,
           Reveals An Unproductive Form Of The Enzyme
 pdb|3RIS|D Chain D, Crystal Structure Of The Catalytic Domain Of Uchl5, A
           Proteasome- Associated Human Deubiquitinating Enzyme,
           Reveals An Unproductive Form Of The Enzyme
          Length = 245

 Score = 27.3 bits (59), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 24/50 (48%)

Query: 103 LKTKLDEANRTINDLDVARKKLIIENSDLVRQLSKVTADARMWKIKYETN 152
           L   L E        D A K L + NSD++RQ+    A  +M++   +T+
Sbjct: 112 LGETLSEFKEFSQSFDAAMKGLALSNSDVIRQVHNSFARQQMFEFDTKTS 161


>pdb|3TB3|A Chain A, Crystal Structure Of The Uch Domain Of Uch-L5 With 6
           Residues Deleted
 pdb|3TB3|B Chain B, Crystal Structure Of The Uch Domain Of Uch-L5 With 6
           Residues Deleted
          Length = 229

 Score = 26.9 bits (58), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 24/50 (48%)

Query: 103 LKTKLDEANRTINDLDVARKKLIIENSDLVRQLSKVTADARMWKIKYETN 152
           L   L E        D A K L + NSD++RQ+    A  +M++   +T+
Sbjct: 109 LGETLSEFKEFSQSFDAAMKGLALSNSDVIRQVHNSFARQQMFEFDTKTS 158


>pdb|3A7S|A Chain A, Catalytic Domain Of Uch37
          Length = 228

 Score = 26.9 bits (58), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 24/50 (48%)

Query: 103 LKTKLDEANRTINDLDVARKKLIIENSDLVRQLSKVTADARMWKIKYETN 152
           L   L E        D A K L + NSD++RQ+    A  +M++   +T+
Sbjct: 107 LGETLSEFKEFSQSFDAAMKGLALSNSDVIRQVHNSFARQQMFEFDTKTS 156


  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
   0.309    0.123    0.317 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,713,088
Number of Sequences: 62578
Number of extensions: 81751
Number of successful extensions: 356
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 338
Number of HSP's gapped (non-prelim): 42
length of query: 156
length of database: 14,973,337
effective HSP length: 91
effective length of query: 65
effective length of database: 9,278,739
effective search space: 603118035
effective search space used: 603118035
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 47 (22.7 bits)