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= psy3119
         (187 letters)

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

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



>pdb|3Q5X|A Chain A, Structure Of Proteasome Tether
          Length = 245

 Score = 31.2 bits (69), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 6/78 (7%)

Query: 105 SDSFDYDSLKDTDFVFMRWKEHFLVPDHTIKDINGASFAGFYYICFQKSAATIEGYYFHR 164
           +DSF Y   K  D+ F R +E ++   H + D+    +   Y  CF+K+   ++      
Sbjct: 109 NDSFPYGGDKRGDYAFNRIREKYMAVLHALNDM-VPCYLPPYSTCFEKNITFLDA----- 162

Query: 165 SSEWFQSLTLCHVPDHSL 182
           ++     L   H P+H++
Sbjct: 163 ATNVVHELPEFHNPNHNV 180


>pdb|3Q5W|A Chain A, Structure Of Proteasome Tether
 pdb|3Q5W|B Chain B, Structure Of Proteasome Tether
          Length = 245

 Score = 28.5 bits (62), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 19/78 (24%), Positives = 34/78 (43%), Gaps = 6/78 (7%)

Query: 105 SDSFDYDSLKDTDFVFMRWKEHFLVPDHTIKDINGASFAGFYYICFQKSAATIEGYYFHR 164
           +DSF Y   K  D+ F R +E +    H + D     +   Y  CF+K+   ++      
Sbjct: 109 NDSFPYGGDKRGDYAFNRIREKYXAVLHALND-XVPCYLPPYSTCFEKNITFLDA----- 162

Query: 165 SSEWFQSLTLCHVPDHSL 182
           ++     L   H P+H++
Sbjct: 163 ATNVVHELPEFHNPNHNV 180


  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    0.138    0.437 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,578,112
Number of Sequences: 62578
Number of extensions: 289510
Number of successful extensions: 612
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 610
Number of HSP's gapped (non-prelim): 16
length of query: 187
length of database: 14,973,337
effective HSP length: 93
effective length of query: 94
effective length of database: 9,153,583
effective search space: 860436802
effective search space used: 860436802
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)