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= psy17511
         (466 letters)

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

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



>pdb|1AVO|B Chain B, Proteasome Activator Reg(Alpha)
 pdb|1AVO|D Chain D, Proteasome Activator Reg(Alpha)
 pdb|1AVO|F Chain F, Proteasome Activator Reg(Alpha)
 pdb|1AVO|H Chain H, Proteasome Activator Reg(Alpha)
 pdb|1AVO|J Chain J, Proteasome Activator Reg(Alpha)
 pdb|1AVO|L Chain L, Proteasome Activator Reg(Alpha)
 pdb|1AVO|N Chain N, Proteasome Activator Reg(Alpha)
          Length = 140

 Score =  124 bits (311), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 55/127 (43%), Positives = 83/127 (65%)

Query: 335 VPSNEKLKLMISVVKPHIKQLVEHSNVLKMWITFMIPKIEDGNNFGVSIQEDILAEIQSV 394
           V  NEK+ +++  +KP IK ++E  N++  W+   IP+IEDGNNFGV++QE +   + S+
Sbjct: 2   VNCNEKIVVLLQRLKPEIKDVIEQLNLVTTWLQLQIPRIEDGNNFGVAVQEKVFELMTSL 61

Query: 395 ESEAAAFYDQMSRYFVSRAKVISKVAKYPHIADYRQAVKELDEKEYLSLWLVLCEIRNRY 454
            ++   F+ Q+S+YF  R   ++K AK PH+ DYRQ V ELDE EY  + L++ EIRN Y
Sbjct: 62  HTKLEGFHTQISKYFSERGDAVTKAAKQPHVGDYRQLVHELDEAEYRDIRLMVMEIRNAY 121

Query: 455 LCLKTIV 461
             L  I+
Sbjct: 122 AVLYDII 128



 Score =  114 bits (286), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 52/131 (39%), Positives = 82/131 (62%)

Query: 134 VPSNEKLKLMISVVKPHIKQLVEHSNVLKMWITFMIPKIEDGNNFGVSIQEDILAEIQSV 193
           V  NEK+ +++  +KP IK ++E  N++  W+   IP+IEDGNNFGV++QE +   + S+
Sbjct: 2   VNCNEKIVVLLQRLKPEIKDVIEQLNLVTTWLQLQIPRIEDGNNFGVAVQEKVFELMTSL 61

Query: 194 ESEAAAFYDQMSRYFVSRAKVISKVAKYPHIADYRQAVKELDEKEYLSLWLVKEYVDTVK 253
            ++   F+ Q+S+YF  R   ++K AK PH+ DYRQ V ELDE EY  + L+   +    
Sbjct: 62  HTKLEGFHTQISKYFSERGDAVTKAAKQPHVGDYRQLVHELDEAEYRDIRLMVMEIRNAY 121

Query: 254 SQAEELILKGF 264
           +   ++ILK F
Sbjct: 122 AVLYDIILKNF 132


>pdb|3NIE|A Chain A, Crystal Structure Of Pf11_0147
 pdb|3NIE|B Chain B, Crystal Structure Of Pf11_0147
          Length = 429

 Score = 34.7 bits (78), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 23/82 (28%), Positives = 37/82 (45%), Gaps = 4/82 (4%)

Query: 386 DILAEIQSVESEAAAFYDQMSRYFVSRAKVISKVAKYPHIADYRQAVKELDEKEYLSL-- 443
           D+  +  S+  E     + M R+   +   I K   +P++ D R+   E    E + L  
Sbjct: 331 DLSKKYSSISKEGIDLLESMLRFNAQKRITIDKALSHPYLKDVRKENLENFSTEKIILPF 390

Query: 444 --WLVLCEIRNRYLCLKTIVHF 463
             W+VL E + RY+ LK I  F
Sbjct: 391 DDWMVLSETQLRYIFLKEIQSF 412


  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    0.134    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,331,253
Number of Sequences: 62578
Number of extensions: 545528
Number of successful extensions: 1635
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1626
Number of HSP's gapped (non-prelim): 16
length of query: 466
length of database: 14,973,337
effective HSP length: 102
effective length of query: 364
effective length of database: 8,590,381
effective search space: 3126898684
effective search space used: 3126898684
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)