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= 028946
         (201 letters)

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

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



>pdb|4AWL|A Chain A, The Nf-y Transcription Factor Is Structurally And
           Functionally A Sequence Specific Histone
          Length = 78

 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 38/87 (43%), Positives = 45/87 (51%), Gaps = 29/87 (33%)

Query: 17  VYVNAKQYRGILRRRQSRAKAELEKKVIKARKVTFHSLKGATIFYNKTLQGLDTYALFSL 76
           +YVNAKQY  IL+RRQ+RAK E E K+ K R+                            
Sbjct: 5   LYVNAKQYHRILKRRQARAKLEAEGKIPKERRK--------------------------- 37

Query: 77  QPYLHESRHQHAMRRARGCGGRFLNTK 103
             YLHESRH+HAM R RG GGRF + K
Sbjct: 38  --YLHESRHRHAMARKRGEGGRFFSPK 62


>pdb|4G91|A Chain A, Ccaat-Binding Complex From Aspergillus Nidulans
 pdb|4G92|A Chain A, Ccaat-Binding Complex From Aspergillus Nidulans With Dna
          Length = 64

 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 36/86 (41%), Positives = 43/86 (50%), Gaps = 30/86 (34%)

Query: 17  VYVNAKQYRGILRRRQSRAKAELEKKVI-KARKVTFHSLKGATIFYNKTLQGLDTYALFS 75
           +YVNAKQ+  IL+RR +R K E + ++  K RK                           
Sbjct: 5   LYVNAKQFHRILKRRVARQKLEEQLRLTSKGRK--------------------------- 37

Query: 76  LQPYLHESRHQHAMRRARGCGGRFLN 101
             PYLHESRH HAMRR RG GGRFL 
Sbjct: 38  --PYLHESRHNHAMRRPRGPGGRFLT 61


  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
   0.313    0.127    0.354 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,957,072
Number of Sequences: 62578
Number of extensions: 168020
Number of successful extensions: 268
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: 264
Number of HSP's gapped (non-prelim): 4
length of query: 201
length of database: 14,973,337
effective HSP length: 94
effective length of query: 107
effective length of database: 9,091,005
effective search space: 972737535
effective search space used: 972737535
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: 49 (23.5 bits)