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= 019546
         (339 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 = 70.9 bits (172), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 37/58 (63%), Positives = 43/58 (74%), Gaps = 1/58 (1%)

Query: 80  YRGVRQRTWGKWVAEIREPNR-GNRLWLGTFPSAVEAALAYDHAARAMYGPCARLNLP 136
           YRGVRQR WGK+ AEIR+P + G R+WLGTF +A +AALAYD AA  M G  A LN P
Sbjct: 6   YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 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 = 70.5 bits (171), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 37/58 (63%), Positives = 43/58 (74%), Gaps = 1/58 (1%)

Query: 80  YRGVRQRTWGKWVAEIREPNR-GNRLWLGTFPSAVEAALAYDHAARAMYGPCARLNLP 136
           YRGVRQR WGK+ AEIR+P + G R+WLGTF +A +AALAYD AA  M G  A LN P
Sbjct: 3   YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 60


>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
          Length = 597

 Score = 31.6 bits (70), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 11/42 (26%), Positives = 22/42 (52%)

Query: 92  VAEIREPNRGNRLWLGTFPSAVEAALAYDHAARAMYGPCARL 133
           + +++  N  +  WL  +P  VE  L+Y+   + MY P  ++
Sbjct: 236 ILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKM 277


>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
          Length = 390

 Score = 31.6 bits (70), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 11/42 (26%), Positives = 22/42 (52%)

Query: 92  VAEIREPNRGNRLWLGTFPSAVEAALAYDHAARAMYGPCARL 133
           + +++  N  +  WL  +P  VE  L+Y+   + MY P  ++
Sbjct: 230 ILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKM 271


  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
   0.314    0.134    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,473,992
Number of Sequences: 62578
Number of extensions: 365422
Number of successful extensions: 463
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 457
Number of HSP's gapped (non-prelim): 10
length of query: 339
length of database: 14,973,337
effective HSP length: 99
effective length of query: 240
effective length of database: 8,778,115
effective search space: 2106747600
effective search space used: 2106747600
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: 52 (24.6 bits)