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= 015739
         (401 letters)

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

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



>pdb|1DH3|A Chain A, Crystal Structure Of A Creb Bzip-Cre Complex Reveals The
           Basis For Creb Faimly Selective Dimerization And Dna
           Binding
 pdb|1DH3|C Chain C, Crystal Structure Of A Creb Bzip-Cre Complex Reveals The
           Basis For Creb Faimly Selective Dimerization And Dna
           Binding
          Length = 55

 Score = 37.4 bits (85), Expect = 0.016,   Method: Composition-based stats.
 Identities = 18/45 (40%), Positives = 32/45 (71%)

Query: 218 KRIRRMVSNRESARRSRKRKQAHMQELELQVERLKGENATLYKQF 262
           KR  R++ NRE+AR SR++K+ +++ LE +V  L+ +N TL ++ 
Sbjct: 1   KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEEL 45


>pdb|1YSA|C Chain C, The Gcn4 Basic Region Leucine Zipper Binds Dna As A Dimer
           Of Uninterrupted Alpha Helices: Crystal Structure Of The
           Protein-Dna Complex
 pdb|1YSA|D Chain D, The Gcn4 Basic Region Leucine Zipper Binds Dna As A Dimer
           Of Uninterrupted Alpha Helices: Crystal Structure Of The
           Protein-Dna Complex
          Length = 58

 Score = 33.5 bits (75), Expect = 0.23,   Method: Composition-based stats.
 Identities = 22/45 (48%), Positives = 27/45 (60%), Gaps = 4/45 (8%)

Query: 214 PIDLKRIRRMVSNRESARRSRKRKQAHMQELELQVERLKGENATL 258
           P  LKR R    N E+ARRSR RK   M++LE +VE L  +N  L
Sbjct: 4   PAALKRAR----NTEAARRSRARKLQRMKQLEDKVEELLSKNYHL 44


>pdb|2DGC|A Chain A, Gcn4 Basic Domain, Leucine Zipper Complexed With AtfCREB
           Site Dna
          Length = 63

 Score = 32.3 bits (72), Expect = 0.49,   Method: Compositional matrix adjust.
 Identities = 24/50 (48%), Positives = 31/50 (62%), Gaps = 5/50 (10%)

Query: 209 QSTDHPIDLKRIRRMVSNRESARRSRKRKQAHMQELELQVERLKGENATL 258
           +S+D P  LKR R    N E+ARRSR RK   M++LE +VE L  +N  L
Sbjct: 5   ESSD-PAALKRAR----NTEAARRSRARKLQRMKQLEDKVEELLSKNYHL 49


>pdb|1DGC|A Chain A, The X-Ray Structure Of The Gcn4-Bzip Bound To AtfCREB SITE
           Dna Shows The Complex Depends On Dna Flexibility
          Length = 62

 Score = 32.3 bits (72), Expect = 0.49,   Method: Compositional matrix adjust.
 Identities = 24/50 (48%), Positives = 31/50 (62%), Gaps = 5/50 (10%)

Query: 209 QSTDHPIDLKRIRRMVSNRESARRSRKRKQAHMQELELQVERLKGENATL 258
           +S+D P  LKR R    N E+ARRSR RK   M++LE +VE L  +N  L
Sbjct: 4   ESSD-PAALKRAR----NTEAARRSRARKLQRMKQLEDKVEELLSKNYHL 48


>pdb|3S9G|A Chain A, Structure Of Human Hexim1 (Delta Stammer) Coiled Coil
           Domain
 pdb|3S9G|B Chain B, Structure Of Human Hexim1 (Delta Stammer) Coiled Coil
           Domain
          Length = 104

 Score = 32.0 bits (71), Expect = 0.71,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 27/53 (50%)

Query: 218 KRIRRMVSNRESARRSRKRKQAHMQELELQVERLKGENATLYKQFTDAAQQYK 270
           K + RM       R   KR  A ++ELEL+++RL+ EN  L  +     QQ +
Sbjct: 44  KSLSRMEDENNRLRLESKRLDARVRELELELDRLRAENLQLLTENELHRQQER 96


>pdb|1LD4|E Chain E, Placement Of The Structural Proteins In Sindbis Virus
 pdb|1LD4|F Chain F, Placement Of The Structural Proteins In Sindbis Virus
 pdb|1LD4|G Chain G, Placement Of The Structural Proteins In Sindbis Virus
 pdb|1LD4|H Chain H, Placement Of The Structural Proteins In Sindbis Virus
 pdb|1LD4|I Chain I, Placement Of The Structural Proteins In Sindbis Virus
 pdb|1LD4|J Chain J, Placement Of The Structural Proteins In Sindbis Virus
 pdb|1LD4|K Chain K, Placement Of The Structural Proteins In Sindbis Virus
 pdb|1LD4|L Chain L, Placement Of The Structural Proteins In Sindbis Virus
          Length = 57

 Score = 31.6 bits (70), Expect = 0.92,   Method: Compositional matrix adjust.
 Identities = 22/45 (48%), Positives = 27/45 (60%), Gaps = 4/45 (8%)

Query: 214 PIDLKRIRRMVSNRESARRSRKRKQAHMQELELQVERLKGENATL 258
           P  LKR R    N E+ARRSR RK   M++LE +VE L  +N  L
Sbjct: 3   PAALKRAR----NTEAARRSRARKLQRMKQLEDKVEELLSKNYHL 43


  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
   0.312    0.125    0.353 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,932,363
Number of Sequences: 62578
Number of extensions: 242832
Number of successful extensions: 505
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 488
Number of HSP's gapped (non-prelim): 17
length of query: 401
length of database: 14,973,337
effective HSP length: 101
effective length of query: 300
effective length of database: 8,652,959
effective search space: 2595887700
effective search space used: 2595887700
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)