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= 000395
         (1576 letters)

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

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



>pdb|4ELJ|A Chain A, Crystal Structure Of The Inactive Retinoblastoma Protein
           Phosphorylated At T373
          Length = 656

 Score = 30.4 bits (67), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 20/85 (23%), Positives = 39/85 (45%), Gaps = 6/85 (7%)

Query: 810 DKTLEEANYTVANNQDAFKHDQFPKKRRVSQEENLGIQHSCDSGEMNKTANLDAKVHEKT 869
           DKTL+       ++ D+F+  + P+K  + +E N+   H      MN    L   ++  +
Sbjct: 268 DKTLQ------TDSIDSFETQRTPRKSNLDEEVNVIPPHXPVRTVMNTIQQLMMILNSAS 321

Query: 870 LGPANDLIGTAQACTEGITDTVISR 894
             P+ +LI     CT    ++++ R
Sbjct: 322 DQPSENLISYFNNCTVNPKESILKR 346


>pdb|3O4X|E Chain E, Crystal Structure Of Complex Between Amino And Carboxy
           Terminal Fragments Of Mdia1
 pdb|3O4X|H Chain H, Crystal Structure Of Complex Between Amino And Carboxy
           Terminal Fragments Of Mdia1
 pdb|3O4X|G Chain G, Crystal Structure Of Complex Between Amino And Carboxy
           Terminal Fragments Of Mdia1
 pdb|3O4X|F Chain F, Crystal Structure Of Complex Between Amino And Carboxy
           Terminal Fragments Of Mdia1
          Length = 467

 Score = 30.4 bits (67), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 27/118 (22%), Positives = 58/118 (49%), Gaps = 20/118 (16%)

Query: 469 PQEHRKVVQGKCLAADHLSQQLEEARGRIDELQKQIHDLHSSRKSFDASAIQVDKYVDSG 528
           P E   V +   ++A++L + L       D+++KQI D+    ++F A+  + DK+V+  
Sbjct: 288 PDELAHVEKASRVSAENLQKSL-------DQMKKQIADVERDVQNFPAATDEKDKFVEKM 340

Query: 529 KAKLLKKQLKFEKMQVKHAKQVAKLEKDRNIILHQELGRLKVDFAQFLHRLDTVDQCF 586
            + +   Q ++ K+++ H+             L++ELG    D+  F  +  +V++ F
Sbjct: 341 TSFVKDAQEQYNKLRMMHSNMET---------LYKELG----DYFVFDPKKLSVEEFF 385


  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
   0.314    0.128    0.356 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 38,621,583
Number of Sequences: 62578
Number of extensions: 1430494
Number of successful extensions: 3615
Number of sequences better than 100.0: 51
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 42
Number of HSP's that attempted gapping in prelim test: 3491
Number of HSP's gapped (non-prelim): 145
length of query: 1576
length of database: 14,973,337
effective HSP length: 112
effective length of query: 1464
effective length of database: 7,964,601
effective search space: 11660175864
effective search space used: 11660175864
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 58 (26.9 bits)