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= 014453
         (424 letters)

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

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



>pdb|4B4T|S Chain S, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 523

 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/125 (27%), Positives = 60/125 (48%), Gaps = 8/125 (6%)

Query: 246 QRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQR 305
           Q N++    PY  L      G + +  + +   ++    D+   L  ++ S++ K  I+ 
Sbjct: 335 QSNMQKSLLPYYHLTKAVKLGDLKKFTSTITKYKQLLLKDDTYQLCVRLRSNVIKTGIRI 394

Query: 306 LTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFL-------- 357
           ++ TY  +SL+DI   + L+S +  E  V + I+DG I A IN +DG +           
Sbjct: 395 ISLTYKKISLRDICLKLNLDSEQTVEYMVSRAIRDGVIEAKINHEDGFIETTELLNIYDS 454

Query: 358 EDPEQ 362
           EDP+Q
Sbjct: 455 EDPQQ 459


>pdb|1UFM|A Chain A, Solution Structure Of The Pci Domain
          Length = 84

 Score = 29.3 bits (64), Expect = 4.0,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 35/60 (58%), Gaps = 1/60 (1%)

Query: 297 SMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRF 356
           ++ + N+   ++ Y  ++ +++   +++ ++K AE    QMI +G +   I+Q DG+V F
Sbjct: 15  AVIEHNLLSASKLYNNITFEELGALLEIPAAK-AEKIASQMITEGRMNGFIDQIDGIVHF 73


  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    0.134    0.377 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,759,393
Number of Sequences: 62578
Number of extensions: 398643
Number of successful extensions: 1064
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1058
Number of HSP's gapped (non-prelim): 8
length of query: 424
length of database: 14,973,337
effective HSP length: 101
effective length of query: 323
effective length of database: 8,652,959
effective search space: 2794905757
effective search space used: 2794905757
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: 53 (25.0 bits)