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= 011345
         (488 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 = 32.3 bits (72), Expect = 0.56,   Method: Composition-based stats.
 Identities = 14/44 (31%), Positives = 28/44 (63%)

Query: 135 RRVCRILANRESARQTIRRRQALCEELTRKAADLSQENESLKRE 178
           +R  R++ NRE+AR++ R+++   + L  + A L  +N++L  E
Sbjct: 1   KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEE 44


>pdb|3C25|A Chain A, Crystal Structure Of Noti Restriction Endonuclease Bound
           To Cognate Dna
 pdb|3C25|B Chain B, Crystal Structure Of Noti Restriction Endonuclease Bound
           To Cognate Dna
          Length = 383

 Score = 30.4 bits (67), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 34/122 (27%), Positives = 54/122 (44%), Gaps = 12/122 (9%)

Query: 276 GKLASSQEQENPTDSNVARTPLYVVPCPWFFPLHD--SGSGFHAPIS---NGLKVLQDET 330
           G+ A S++ E P  SNV +   Y +   +    H   +G+GF  P S   + L+ L + T
Sbjct: 218 GRAALSKKMEGPNLSNVFKRTFYQMAYKFALSGHQRCAGTGFAIPQSVWKSWLRHLANPT 277

Query: 331 SARNGYGSGSSSKMTADKENHH-FLLPVKIKNEAYGLPEA------QSYNDLNDIPVTES 383
              NG G+ S      D EN   F+  +    +A   P A       + + L D+ + ES
Sbjct: 278 LIDNGDGTFSLGDTRNDSENAWIFVFELDPDTDASPRPLAPHLEIRVNVDTLIDLALRES 337

Query: 384 PQ 385
           P+
Sbjct: 338 PR 339


>pdb|1T2K|D Chain D, Structure Of The Dna Binding Domains Of Irf3, Atf-2 And
           Jun Bound To Dna
          Length = 61

 Score = 29.3 bits (64), Expect = 5.6,   Method: Composition-based stats.
 Identities = 16/50 (32%), Positives = 27/50 (54%)

Query: 143 NRESARQTIRRRQALCEELTRKAADLSQENESLKREKELAVKEYQSLETI 192
           NR +A ++ ++R+   + L +KA DLS  N  L+ E  L   E   L+ +
Sbjct: 9   NRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQL 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
   0.311    0.128    0.373 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,667,639
Number of Sequences: 62578
Number of extensions: 471882
Number of successful extensions: 920
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 916
Number of HSP's gapped (non-prelim): 17
length of query: 488
length of database: 14,973,337
effective HSP length: 103
effective length of query: 385
effective length of database: 8,527,803
effective search space: 3283204155
effective search space used: 3283204155
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)