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= 027547
         (222 letters)

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

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



>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 = 28.9 bits (63), Expect = 2.4,   Method: Composition-based stats.
 Identities = 14/40 (35%), Positives = 22/40 (55%)

Query: 38 DQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLE 77
          D M + YS L+ L+P  P   +LS  + +   I+YI  L+
Sbjct: 27 DDMNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQ 66


>pdb|3NIE|A Chain A, Crystal Structure Of Pf11_0147
 pdb|3NIE|B Chain B, Crystal Structure Of Pf11_0147
          Length = 429

 Score = 28.5 bits (62), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 6/61 (9%)

Query: 19  CSSSSPTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLET 78
           C   SP    +K  EK+ RDQ+  +++ + +     P +E+L    +  E I YIK+  T
Sbjct: 273 CFPLSPDHNSKKVHEKSNRDQLNIIFNVIGT-----PPEEDLKCITK-QEVIKYIKLFPT 326

Query: 79  K 79
           +
Sbjct: 327 R 327


>pdb|1LG4|A Chain A, Nmr Structure Of The Human Doppel Protein Fragment 24-152
          Length = 129

 Score = 28.1 bits (61), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 6/59 (10%)

Query: 157 LNAKFSVVGNTIFHVIHAEIRDSMFGFGAAKISERLKGFVSGC------ASEGEMQLPE 209
           L+  F   GN  +   + +  D +   G ++ +   + FV+GC      A++GE Q P+
Sbjct: 43  LDIDFGAEGNRYYEANYWQFPDGIHYNGCSEANVTKEAFVTGCINATQAANQGEFQKPD 101


>pdb|2XSP|A Chain A, Structure Of Cellobiohydrolase 1 (Cel7a) From
           Heterobasidion Annosum
 pdb|2YG1|A Chain A, Apo Structure Of Cellobiohydrolase 1 (Cel7a) From
           Heterobasidion Annosum
 pdb|2YG1|B Chain B, Apo Structure Of Cellobiohydrolase 1 (Cel7a) From
           Heterobasidion Annosum
          Length = 440

 Score = 26.9 bits (58), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 26/93 (27%), Positives = 41/93 (44%), Gaps = 3/93 (3%)

Query: 131 ILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAEIRDSM-FGFGAAKIS 189
            LTS        +E+ R+  Q+G  I N+K ++ G + F  I  +  ++    FG     
Sbjct: 292 FLTSDNTTTGTLHEIRRLYVQNGKVIANSKTNIAGMSQFDSITDDFCNAQKTAFGDTNSF 351

Query: 190 ERLKGF-VSGCA-SEGEMQLPELWDFEINPELW 220
           E L G  V G A  +G + +  +WD      LW
Sbjct: 352 ENLGGLNVMGQAFDKGVVLVMSVWDDHEANMLW 384


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

 Score = 26.9 bits (58), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 13/32 (40%), Positives = 16/32 (50%)

Query: 26 KIERKTIEKNRRDQMKNLYSTLKSLLPNQPSK 57
          ++ R   EK RRDQ   L   L S+LP    K
Sbjct: 13 RVSRNKSEKKRRDQFNVLIKELGSMLPGNARK 44


  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    0.132    0.372 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,330,376
Number of Sequences: 62578
Number of extensions: 239201
Number of successful extensions: 490
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 481
Number of HSP's gapped (non-prelim): 18
length of query: 222
length of database: 14,973,337
effective HSP length: 95
effective length of query: 127
effective length of database: 9,028,427
effective search space: 1146610229
effective search space used: 1146610229
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 49 (23.5 bits)