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= psy13230
         (132 letters)

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

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



>pdb|4B0Z|A Chain A, Crystal Structure Of S. Pombe Rpn12
 pdb|4B0Z|B Chain B, Crystal Structure Of S. Pombe Rpn12
          Length = 229

 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 36/118 (30%), Positives = 57/118 (48%), Gaps = 29/118 (24%)

Query: 38  SQNRVAEFHMELERIQ----------YEDMIFL-------AKDGVPS-------PRYNAF 73
           S+NR+AEFH  LE +            E +I L       A D V S       P ++ F
Sbjct: 109 SENRIAEFHTALESVPDKSLFERDPYVEWVISLEQNVMEGAFDKVASMIRSCNFPEFSYF 168

Query: 74  METLIDTTRNEIASCIEKAYTVISVGDTAQKLHI----GSEKQMVEFGKKVKN-IVYF 126
           M+ ++   RNEIA+C EK Y+ I + +    L++     +EK   E G  +++ ++YF
Sbjct: 169 MKIVMSMVRNEIATCAEKVYSEIPLSNATSLLYLENTKETEKLAEERGWDIRDGVIYF 226


>pdb|4B4T|T Chain T, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 274

 Score = 25.8 bits (55), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 12/49 (24%), Positives = 24/49 (48%)

Query: 69  RYNAFMETLIDTTRNEIASCIEKAYTVISVGDTAQKLHIGSEKQMVEFG 117
            +++F + L    R+EIA   E +Y  + + +    L   +EK+  +F 
Sbjct: 173 EFDSFTDILKSAIRDEIAKNTELSYDFLPLSNIKALLFFNNEKETEKFA 221


  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
   0.321    0.135    0.381 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,802,998
Number of Sequences: 62578
Number of extensions: 92773
Number of successful extensions: 209
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 206
Number of HSP's gapped (non-prelim): 3
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)