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= 023526
         (281 letters)

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

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



>pdb|4G4S|P Chain P, Structure Of Proteasome-Pba1-Pba2 Complex
          Length = 269

 Score = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 61/276 (22%), Positives = 111/276 (40%), Gaps = 41/276 (14%)

Query: 16  SNLILPALSIGNVGQLAVDLLVSSTGA--ETVGYLDDQFVLPCV--------GNDAYRPS 65
           S L+LP +S+GN+ QL++D L++S     E +  LD ++++  V        G+D+    
Sbjct: 4   SCLVLPLVSVGNIPQLSIDWLLNSQANEWEYLEALDSKYLVEFVGPLDRPEDGSDSLYKD 63

Query: 66  PRGDLALPLQAYESSSSGLTLIQQRSPVVKGMMVEYAKN-----LADFAAASGNKHVVVL 120
                +  L+ + +   GL  IQQR+P+V    V Y  N     +  F +      + + 
Sbjct: 64  ADMKYSSALEVFYNKKRGLFAIQQRTPLVS---VNYLNNFIVEIILPFLSKYNISEICIW 120

Query: 121 SALDFGRLQRIDMSSGPQIYYLSSTSVDGTDDYCEQLGWKRLQEYNPAQRGWKYLSSLAE 180
            +L     +   +    ++Y L        DD  E L    L +       W + +    
Sbjct: 121 DSLYAMEDENGVIVRPQEVYSLGEFYF---DDEAELLSNLHLNDQESMVNNWLHFTPT-- 175

Query: 181 GDVGDENNFTFEDDLEEEDYYPSLPFAALFSCFKARGLK-VTCLLCYCSEGDNMADA--F 237
                    +F+D +  +     + F  L +  + + L+ +    C  +EGDN  D+  F
Sbjct: 176 ---------SFQDKISVDQPIFKILFQILNASQRPKALRSIKYCSCLANEGDNSLDSQQF 226

Query: 238 NLADAACKFLRLNPDNVRGDDGEKWIVPFSWMTVYG 273
                + K ++  P  V      K++ P SW   YG
Sbjct: 227 LQWIISQKVIKNAPPIV------KFVRPISWQGAYG 256


  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
   0.318    0.136    0.415 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,133,271
Number of Sequences: 62578
Number of extensions: 381909
Number of successful extensions: 673
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 671
Number of HSP's gapped (non-prelim): 1
length of query: 281
length of database: 14,973,337
effective HSP length: 98
effective length of query: 183
effective length of database: 8,840,693
effective search space: 1617846819
effective search space used: 1617846819
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: 51 (24.3 bits)