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= psy12141
         (142 letters)

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

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



>pdb|3LKX|A Chain A, Human Nac Dimerization Domain
          Length = 66

 Score =  102 bits (255), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 47/66 (71%), Positives = 53/66 (80%)

Query: 60  VNTIPGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGHGETREITEMLPGILSQLGP 119
           VN I GIEEVNM    GT+IHFNNPK QASLAANTF ITGH ET+++TEMLP IL+QLG 
Sbjct: 1   VNNISGIEEVNMFTNQGTVIHFNNPKVQASLAANTFTITGHAETKQLTEMLPSILNQLGA 60

Query: 120 EGLTQL 125
           + LT L
Sbjct: 61  DSLTSL 66


>pdb|3MCB|B Chain B, Crystal Structure Of Nac Domains Of Human Nascent
           Polypeptide- Associated Complex (Nac)
          Length = 58

 Score = 94.7 bits (234), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 43/58 (74%), Positives = 48/58 (82%)

Query: 60  VNTIPGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGHGETREITEMLPGILSQL 117
           VN I GIEEVNM    GT+IHFNNPK QASLAANTF ITGH ET+++TEMLP IL+QL
Sbjct: 1   VNNISGIEEVNMFTNQGTVIHFNNPKVQASLAANTFTITGHAETKQLTEMLPSILNQL 58


  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
   0.315    0.132    0.365 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,615,477
Number of Sequences: 62578
Number of extensions: 113573
Number of successful extensions: 189
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 187
Number of HSP's gapped (non-prelim): 2
length of query: 142
length of database: 14,973,337
effective HSP length: 89
effective length of query: 53
effective length of database: 9,403,895
effective search space: 498406435
effective search space used: 498406435
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 46 (22.3 bits)