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= 041119
         (278 letters)

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

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



>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
           Minimized Mean Structure
 pdb|3GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr, 46
           Structures
          Length = 70

 Score = 72.0 bits (175), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 35/63 (55%), Positives = 46/63 (73%), Gaps = 1/63 (1%)

Query: 56  SKHPVYRGVRMRAWGKWVSEIREPRKK-SRIWLGTFSTPEMAARAHDVAALSIKGASAIL 114
           +K   YRGVR R WGK+ +EIR+P K  +R+WLGTF T E AA A+D AA  ++G+ A+L
Sbjct: 1   AKGKHYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALL 60

Query: 115 NFP 117
           NFP
Sbjct: 61  NFP 63


>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding
           Domain Of Aterf1 And Gcc-Box Dna, Minimized Average
           Structure
          Length = 63

 Score = 71.2 bits (173), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 36/62 (58%), Positives = 46/62 (74%), Gaps = 3/62 (4%)

Query: 57  KHPVYRGVRMRAWGKWVSEIREPRKK-SRIWLGTFSTPEMAARAHDVAALSIKGASAILN 115
           KH  YRGVR R WGK+ +EIR+P K  +R+WLGTF T E AA A+D AA  ++G+ A+LN
Sbjct: 1   KH--YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLN 58

Query: 116 FP 117
           FP
Sbjct: 59  FP 60


>pdb|3P0L|A Chain A, Human Steroidogenic Acute Regulatory Protein
 pdb|3P0L|B Chain B, Human Steroidogenic Acute Regulatory Protein
 pdb|3P0L|C Chain C, Human Steroidogenic Acute Regulatory Protein
 pdb|3P0L|D Chain D, Human Steroidogenic Acute Regulatory Protein
          Length = 221

 Score = 28.5 bits (62), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 14/35 (40%), Positives = 20/35 (57%)

Query: 65  RMRAWGKWVSEIREPRKKSRIWLGTFSTPEMAARA 99
           RM A G+W   ++E +   +I   TF T E+AA A
Sbjct: 77  RMEAMGEWNPNVKEIKVLQKIGKDTFITHELAAEA 111


  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
   0.312    0.126    0.377 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,599,504
Number of Sequences: 62578
Number of extensions: 161630
Number of successful extensions: 220
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 211
Number of HSP's gapped (non-prelim): 7
length of query: 278
length of database: 14,973,337
effective HSP length: 98
effective length of query: 180
effective length of database: 8,840,693
effective search space: 1591324740
effective search space used: 1591324740
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)