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= 032773
         (134 letters)

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

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



>pdb|4AWL|B Chain B, The Nf-y Transcription Factor Is Structurally And
          Functionally A Sequence Specific Histone
          Length = 94

 Score = 70.1 bits (170), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 27/44 (61%), Positives = 39/44 (88%)

Query: 33 RASDKCQKEKRKTINGDDLLWAMATLGFEDYIDPLKAYLMRYRE 76
           AS++C +EKRKTING+D+L+AM+TLGF+ Y++PLK YL ++RE
Sbjct: 51 EASERCHQEKRKTINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 94


>pdb|1N1J|A Chain A, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
          Length = 93

 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 27/44 (61%), Positives = 39/44 (88%)

Query: 33 RASDKCQKEKRKTINGDDLLWAMATLGFEDYIDPLKAYLMRYRE 76
           AS++C +EKRKTING+D+L+AM+TLGF+ Y++PLK YL ++RE
Sbjct: 50 EASERCHQEKRKTINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 93


>pdb|4G91|B Chain B, Ccaat-Binding Complex From Aspergillus Nidulans
 pdb|4G92|B Chain B, Ccaat-Binding Complex From Aspergillus Nidulans With Dna
          Length = 92

 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 28/44 (63%), Positives = 38/44 (86%)

Query: 33 RASDKCQKEKRKTINGDDLLWAMATLGFEDYIDPLKAYLMRYRE 76
           AS+KCQ+EKRKT+NG+D+L+AM +LGFE+Y + LK YL +YRE
Sbjct: 49 EASEKCQQEKRKTVNGEDILFAMTSLGFENYAEALKIYLSKYRE 92


>pdb|1JFI|B Chain B, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
          Length = 179

 Score = 34.7 bits (78), Expect = 0.016,   Method: Compositional matrix adjust.
 Identities = 14/43 (32%), Positives = 26/43 (60%)

Query: 33 RASDKCQKEKRKTINGDDLLWAMATLGFEDYIDPLKAYLMRYR 75
           A++ C K ++KTI+ + ++ A+ +LGF  YI  +K  L   +
Sbjct: 56 EANEICNKSEKKTISPEHVIQALESLGFGSYISEVKEVLQECK 98


>pdb|2BYK|B Chain B, Histone Fold Heterodimer Of The Chromatin Accessibility
          Complex
 pdb|2BYK|D Chain D, Histone Fold Heterodimer Of The Chromatin Accessibility
          Complex
 pdb|2BYM|B Chain B, Histone Fold Heterodimer Of The Chromatin Accessibility
          Complex
 pdb|2BYM|D Chain D, Histone Fold Heterodimer Of The Chromatin Accessibility
          Complex
          Length = 128

 Score = 30.0 bits (66), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 13/38 (34%), Positives = 18/38 (47%)

Query: 38 CQKEKRKTINGDDLLWAMATLGFEDYIDPLKAYLMRYR 75
            K+  KTI   D+L  +  L FE ++  L   L  YR
Sbjct: 56 AHKQNHKTITAKDILQTLTELDFESFVPSLTQDLEVYR 93


>pdb|1W5S|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
 pdb|1W5S|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
 pdb|1W5T|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
           Complexes)
 pdb|1W5T|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
           Complexes)
 pdb|1W5T|C Chain C, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
           Complexes)
          Length = 412

 Score = 28.9 bits (63), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 7/49 (14%)

Query: 51  LLWAMATLGFEDYI-DPLKAYLMRYREMEGDTKGSARGGDGSAKRDTIG 98
           +L   A LG  D + +P      R+ E+  D  G  +GGDGSA+R  + 
Sbjct: 223 ILEQRAELGLRDTVWEP------RHLELISDVYGEDKGGDGSARRAIVA 265


  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    0.137    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,463,511
Number of Sequences: 62578
Number of extensions: 130991
Number of successful extensions: 243
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 237
Number of HSP's gapped (non-prelim): 11
length of query: 134
length of database: 14,973,337
effective HSP length: 88
effective length of query: 46
effective length of database: 9,466,473
effective search space: 435457758
effective search space used: 435457758
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)