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= 018357
         (357 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 = 0.011,   Method: Composition-based stats.
 Identities = 17/25 (68%), Positives = 21/25 (84%)

Query: 75 RLAQNREAARKSRLRKKAYVQQLEN 99
          RL +NREAAR+SR +KK YV+ LEN
Sbjct: 5  RLMKNREAARESRRKKKEYVKSLEN 29


>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 = 32.0 bits (71), Expect = 0.59,   Method: Composition-based stats.
 Identities = 17/34 (50%), Positives = 25/34 (73%), Gaps = 1/34 (2%)

Query: 66 KTGDQKALRRLAQNREAARKSRLRKKAYVQQLEN 99
          ++ D  AL+R A+N EAAR+SR RK   ++QLE+
Sbjct: 4  ESSDPAALKR-ARNTEAARRSRARKLQRMKQLED 36


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

 Score = 31.6 bits (70), Expect = 0.65,   Method: Composition-based stats.
 Identities = 17/34 (50%), Positives = 25/34 (73%), Gaps = 1/34 (2%)

Query: 66 KTGDQKALRRLAQNREAARKSRLRKKAYVQQLEN 99
          ++ D  AL+R A+N EAAR+SR RK   ++QLE+
Sbjct: 5  ESSDPAALKR-ARNTEAARRSRARKLQRMKQLED 37


>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 = 30.4 bits (67), Expect = 1.4,   Method: Composition-based stats.
 Identities = 17/31 (54%), Positives = 23/31 (74%), Gaps = 1/31 (3%)

Query: 69 DQKALRRLAQNREAARKSRLRKKAYVQQLEN 99
          D  AL+R A+N EAAR+SR RK   ++QLE+
Sbjct: 3  DPAALKR-ARNTEAARRSRARKLQRMKQLED 32


>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 = 30.4 bits (67), Expect = 1.5,   Method: Composition-based stats.
 Identities = 17/31 (54%), Positives = 23/31 (74%), Gaps = 1/31 (3%)

Query: 69 DQKALRRLAQNREAARKSRLRKKAYVQQLEN 99
          D  AL+R A+N EAAR+SR RK   ++QLE+
Sbjct: 2  DPAALKR-ARNTEAARRSRARKLQRMKQLED 31


  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
   0.317    0.132    0.376 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,087,774
Number of Sequences: 62578
Number of extensions: 277641
Number of successful extensions: 637
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 632
Number of HSP's gapped (non-prelim): 5
length of query: 357
length of database: 14,973,337
effective HSP length: 100
effective length of query: 257
effective length of database: 8,715,537
effective search space: 2239893009
effective search space used: 2239893009
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)