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= 037441
         (366 letters)

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

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



>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
           Transcriptional Activator Complex
          Length = 361

 Score = 33.9 bits (76), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 32/45 (71%), Gaps = 1/45 (2%)

Query: 190 AERKRREKLSQRFIALSAILPG-LKKMDKASVLGDAIRYVKELQE 233
           +E+KRR++ +     L ++LPG  +KMDK++VL  +I ++++ +E
Sbjct: 19  SEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKE 63


>pdb|4H10|B Chain B, Intermolecular Recognition Revealed By The Complex
           Structure Of Human Clock-bmal1 Basic Helix-loop-helix
           Domains With E-box Dna
          Length = 71

 Score = 32.3 bits (72), Expect = 0.47,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 34/51 (66%), Gaps = 1/51 (1%)

Query: 190 AERKRREKLSQRFIALSAILPG-LKKMDKASVLGDAIRYVKELQERVKVLE 239
           +E+KRR++ +     L ++LPG  +KMDK++VL  +I ++++ +E    LE
Sbjct: 15  SEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHKEITAWLE 65


>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 = 31.2 bits (69), Expect = 0.87,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 2/56 (3%)

Query: 187 HIMAERKRREKLSQRFIALSAILPGLK--KMDKASVLGDAIRYVKELQERVKVLEE 240
           H   ERKRR+ +   F +L   +P L+  K  +A +L  A  Y++ ++ +V  L++
Sbjct: 8   HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTLQQ 63


>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 = 31.2 bits (69), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 37/66 (56%), Gaps = 7/66 (10%)

Query: 186 DHIMAERKRREKLSQRFIALSAILPGLK----KMDKASVLGDAIRYVKEL---QERVKVL 238
           +H + ER+RR  ++ R   L  ++P       + +K ++L  ++ Y+++L   Q+R K L
Sbjct: 30  NHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDL 89

Query: 239 EEQTKK 244
           E + KK
Sbjct: 90  ENRQKK 95


>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 = 3.8,   Method: Compositional matrix adjust.
 Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 6/53 (11%)

Query: 187 HIMAERKRREKLSQRFIALSAILPG------LKKMDKASVLGDAIRYVKELQE 233
           H   ER+RR+K++   + LS I+P            K  +L  A  Y++EL++
Sbjct: 9   HNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQ 61


>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 = 28.1 bits (61), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 2/45 (4%)

Query: 187 HIMAERKRREKLSQRFIALSAILPGLK--KMDKASVLGDAIRYVK 229
           H   ERKRR+ +   F +L   +P L+  K  +A +L  A  Y++
Sbjct: 16  HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQ 60


  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
   0.315    0.130    0.363 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,118,467
Number of Sequences: 62578
Number of extensions: 253704
Number of successful extensions: 613
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 611
Number of HSP's gapped (non-prelim): 10
length of query: 366
length of database: 14,973,337
effective HSP length: 100
effective length of query: 266
effective length of database: 8,715,537
effective search space: 2318332842
effective search space used: 2318332842
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: 52 (24.6 bits)