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= psy1721
         (74 letters)

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

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



>pdb|2QL2|B Chain B, Crystal Structure Of The Basic-Helix-Loop-Helix Domains
          Of The Heterodimer E47NEUROD1 BOUND TO DNA
 pdb|2QL2|D Chain D, Crystal Structure Of The Basic-Helix-Loop-Helix Domains
          Of The Heterodimer E47NEUROD1 BOUND TO DNA
          Length = 60

 Score = 33.5 bits (75), Expect = 0.027,   Method: Compositional matrix adjust.
 Identities = 19/44 (43%), Positives = 26/44 (59%)

Query: 1  MRILSKAFFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLKMLL 44
          M  L+ A   L+  +P   K  KLSK++TLRLA +YI  L  +L
Sbjct: 14 MHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEIL 57


>pdb|2LFH|A Chain A, Solution Nmr Structure Of The Helix-Loop-Helix Domain Of
          Human Id3 Protein, Northeast Structural Genomics
          Consortium Target Hr3111a
 pdb|2LFH|B Chain B, Solution Nmr Structure Of The Helix-Loop-Helix Domain Of
          Human Id3 Protein, Northeast Structural Genomics
          Consortium Target Hr3111a
          Length = 68

 Score = 33.1 bits (74), Expect = 0.038,   Method: Compositional matrix adjust.
 Identities = 13/40 (32%), Positives = 27/40 (67%)

Query: 4  LSKAFFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLKML 43
          ++  + RL+  +P VP+ T+LS+++ L+    YIL L+++
Sbjct: 29 MNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQVV 68


>pdb|4AYA|A Chain A, Crystal Structure Of Id2 Hlh Homodimer At 2.1a
          Resolution
 pdb|4AYA|B Chain B, Crystal Structure Of Id2 Hlh Homodimer At 2.1a
          Resolution
          Length = 97

 Score = 31.6 bits (70), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 13/41 (31%), Positives = 27/41 (65%)

Query: 4  LSKAFFRLKTTLPWVPKDTKLSKLDTLRLATSYILHLKMLL 44
          ++  + +LK  +P +P++ K+SK++ L+    YIL L++ L
Sbjct: 40 MNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQIAL 80


>pdb|1NKP|A Chain A, Crystal Structure Of Myc-Max Recognizing Dna
 pdb|1NKP|D Chain D, Crystal Structure Of Myc-Max Recognizing Dna
          Length = 88

 Score = 30.4 bits (67), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 22/35 (62%)

Query: 4  LSKAFFRLKTTLPWVPKDTKLSKLDTLRLATSYIL 38
          L ++FF L+  +P +  + K  K+  L+ AT+YIL
Sbjct: 21 LKRSFFALRDQIPELENNEKAPKVVILKKATAYIL 55


  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
   0.324    0.134    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,005,238
Number of Sequences: 62578
Number of extensions: 54100
Number of successful extensions: 109
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 105
Number of HSP's gapped (non-prelim): 5
length of query: 74
length of database: 14,973,337
effective HSP length: 44
effective length of query: 30
effective length of database: 12,219,905
effective search space: 366597150
effective search space used: 366597150
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)