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= psy14770
         (77 letters)

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

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



>pdb|1HLO|A Chain A, The Crystal Structure Of An Intact Human Max-Dna
          Complex: New Insights Into Mechanisms Of
          Transcriptional Control
 pdb|1HLO|B Chain B, The Crystal Structure Of An Intact Human Max-Dna
          Complex: New Insights Into Mechanisms Of
          Transcriptional Control
          Length = 80

 Score = 75.1 bits (183), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 41/60 (68%), Positives = 45/60 (75%), Gaps = 5/60 (8%)

Query: 7  DYDIES-AEKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVEVPGSHVDTLDQGFWY 65
          D ++ES A+KRAHHNALERKRRDHIKDSF SLRDSVPSLQGEK     S    LD+   Y
Sbjct: 3  DIEVESDADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEK----ASRAQILDKATEY 58


>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
          BHLHZ DOMAIN
          Length = 86

 Score = 73.9 bits (180), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/53 (71%), Positives = 40/53 (75%), Gaps = 4/53 (7%)

Query: 13 AEKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVEVPGSHVDTLDQGFWY 65
          A+KRAHHNALERKRRDHIKDSF SLRDSVPSLQGEK     S    LD+   Y
Sbjct: 1  ADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEK----ASRAQILDKATEY 49


>pdb|1R05|A Chain A, Solution Structure Of Max B-Hlh-Lz
 pdb|1R05|B Chain B, Solution Structure Of Max B-Hlh-Lz
          Length = 87

 Score = 73.6 bits (179), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 38/53 (71%), Positives = 40/53 (75%), Gaps = 4/53 (7%)

Query: 13 AEKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVEVPGSHVDTLDQGFWY 65
          A+KRAHHNALERKRRDHIKDSF SLRDSVPSLQGEK     S    LD+   Y
Sbjct: 2  ADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEK----ASRAQILDKATEY 50


>pdb|1NLW|B Chain B, Crystal Structure Of Mad-Max Recognizing Dna
 pdb|1NLW|E Chain E, Crystal Structure Of Mad-Max Recognizing Dna
          Length = 76

 Score = 71.6 bits (174), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/51 (72%), Positives = 38/51 (74%), Gaps = 4/51 (7%)

Query: 15 KRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVEVPGSHVDTLDQGFWY 65
          KRAHHNALERKRRDHIKDSF SLRDSVPSLQGEK     S    LD+   Y
Sbjct: 1  KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEK----ASRAQILDKATEY 47


>pdb|1NKP|B Chain B, Crystal Structure Of Myc-Max Recognizing Dna
 pdb|1NKP|E Chain E, Crystal Structure Of Myc-Max Recognizing Dna
          Length = 83

 Score = 71.2 bits (173), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/52 (71%), Positives = 39/52 (75%), Gaps = 4/52 (7%)

Query: 14 EKRAHHNALERKRRDHIKDSFSSLRDSVPSLQGEKVEVPGSHVDTLDQGFWY 65
          +KRAHHNALERKRRDHIKDSF SLRDSVPSLQGEK     S    LD+   Y
Sbjct: 1  DKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEK----ASRAQILDKATEY 48


>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 = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 17/32 (53%), Positives = 23/32 (71%)

Query: 15 KRAHHNALERKRRDHIKDSFSSLRDSVPSLQG 46
          KR  HN LER+RR+ +K SF +LRD +P L+ 
Sbjct: 6  KRRTHNVLERQRRNELKRSFFALRDQIPELEN 37


>pdb|3U5V|A Chain A, Crystal Structure Of Max-E47
          Length = 76

 Score = 37.4 bits (85), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 17/25 (68%), Positives = 20/25 (80%)

Query: 13 AEKRAHHNALERKRRDHIKDSFSSL 37
          A+KRAHHNALERKRR  I ++F  L
Sbjct: 3  ADKRAHHNALERKRRRDINEAFREL 27


>pdb|1AN4|A Chain A, Structure And Function Of The BHLHZ DOMAIN OF USF
 pdb|1AN4|B Chain B, Structure And Function Of The BHLHZ DOMAIN OF USF
          Length = 65

 Score = 29.3 bits (64), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 18/29 (62%)

Query: 14 EKRAHHNALERKRRDHIKDSFSSLRDSVP 42
          ++RA HN +ER+RRD I +    L   +P
Sbjct: 4  KRRAQHNEVERRRRDKINNWIVQLSKIIP 32


>pdb|1AM9|A Chain A, Human Srebp-1a Bound To Ldl Receptor Promoter
 pdb|1AM9|B Chain B, Human Srebp-1a Bound To Ldl Receptor Promoter
 pdb|1AM9|C Chain C, Human Srebp-1a Bound To Ldl Receptor Promoter
 pdb|1AM9|D Chain D, Human Srebp-1a Bound To Ldl Receptor Promoter
          Length = 82

 Score = 28.1 bits (61), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 13/28 (46%), Positives = 17/28 (60%)

Query: 14 EKRAHHNALERKRRDHIKDSFSSLRDSV 41
          EKR  HNA+E++ R  I D    L+D V
Sbjct: 5  EKRTAHNAIEKRYRSSINDKIIELKDLV 32


>pdb|1NLW|A Chain A, Crystal Structure Of Mad-Max Recognizing Dna
 pdb|1NLW|D Chain D, Crystal Structure Of Mad-Max Recognizing Dna
          Length = 80

 Score = 26.9 bits (58), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 17/27 (62%)

Query: 16 RAHHNALERKRRDHIKDSFSSLRDSVP 42
          R+ HN +E+ RR H++ S   L+  VP
Sbjct: 2  RSTHNEMEKNRRAHLRLSLEKLKGLVP 28


>pdb|4ATI|A Chain A, Mitf:m-Box Complex
 pdb|4ATI|B Chain B, Mitf:m-Box Complex
 pdb|4ATK|A Chain A, Mitf:e-Box Complex
 pdb|4ATK|B Chain B, Mitf:e-Box Complex
          Length = 118

 Score = 25.4 bits (54), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 11/29 (37%), Positives = 18/29 (62%)

Query: 14 EKRAHHNALERKRRDHIKDSFSSLRDSVP 42
          +K+ +HN +ER+RR +I D    L   +P
Sbjct: 26 QKKDNHNLIERRRRFNINDRIKELGTLIP 54


>pdb|2HWK|A Chain A, Crystal Structure Of Venezuelan Equine Encephalitis
           Alphavirus Nsp2 Protease Domain
          Length = 320

 Score = 25.4 bits (54), Expect = 9.1,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 6   RDYD----IESAEKRAHHNALERKRRDHIKDSFSS----LRDSVPSLQGEKVEVPGSHVD 57
           R+YD    +    +R  H AL     +H +  FSS    L+     + GEK+ VPG  VD
Sbjct: 124 RNYDPRINLVPVNRRLPH-ALVLHHNEHPQSDFSSFVSKLKGRTVLVVGEKLSVPGKMVD 182

Query: 58  TL 59
            L
Sbjct: 183 WL 184


  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
   0.316    0.134    0.390 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,377,551
Number of Sequences: 62578
Number of extensions: 78231
Number of successful extensions: 166
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 155
Number of HSP's gapped (non-prelim): 12
length of query: 77
length of database: 14,973,337
effective HSP length: 46
effective length of query: 31
effective length of database: 12,094,749
effective search space: 374937219
effective search space used: 374937219
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)