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= psy9009
         (258 letters)

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

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



>pdb|3AML|A Chain A, Structure Of The Starch Branching Enzyme I (Bei) From
           Oryza Sativa L
          Length = 755

 Score = 68.6 bits (166), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 28/43 (65%), Positives = 35/43 (81%)

Query: 90  GNEFGHPEWLDFPRAGNNSSYWHARRQWNLTDDELLKYKFLNS 132
           GNEFGHPEW+DFPR GNN SY   RRQW+L D + L+YK++N+
Sbjct: 527 GNEFGHPEWIDFPREGNNWSYDKCRRQWSLVDTDHLRYKYMNA 569


>pdb|3AMK|A Chain A, Structure Of The Starch Branching Enzyme I (Bei) From
           Oryza Sativa L
          Length = 702

 Score = 68.6 bits (166), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 28/43 (65%), Positives = 35/43 (81%)

Query: 90  GNEFGHPEWLDFPRAGNNSSYWHARRQWNLTDDELLKYKFLNS 132
           GNEFGHPEW+DFPR GNN SY   RRQW+L D + L+YK++N+
Sbjct: 527 GNEFGHPEWIDFPREGNNWSYDKCRRQWSLVDTDHLRYKYMNA 569


>pdb|3FHC|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Nup214
          Length = 405

 Score = 27.7 bits (60), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 11/21 (52%), Positives = 15/21 (71%)

Query: 198 CPTLPATLDNTVVCLSPDGRE 218
           C TLP+T+  T VC SP G++
Sbjct: 186 CATLPSTVAVTSVCWSPKGKQ 206


>pdb|2OIT|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
           Proto-Oncogene Nup214CAN
          Length = 434

 Score = 27.7 bits (60), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 11/21 (52%), Positives = 15/21 (71%)

Query: 198 CPTLPATLDNTVVCLSPDGRE 218
           C TLP+T+  T VC SP G++
Sbjct: 186 CATLPSTVAVTSVCWSPKGKQ 206


>pdb|3FMO|A Chain A, Crystal Structure Of The Nucleoporin Nup214 In Complex
           With The Dead- Box Helicase Ddx19
 pdb|3FMP|A Chain A, Crystal Structure Of The Nucleoporin Nup214 In Complex
           With The Dead- Box Helicase Ddx19
 pdb|3FMP|C Chain C, Crystal Structure Of The Nucleoporin Nup214 In Complex
           With The Dead- Box Helicase Ddx19
          Length = 450

 Score = 27.7 bits (60), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 11/21 (52%), Positives = 15/21 (71%)

Query: 198 CPTLPATLDNTVVCLSPDGRE 218
           C TLP+T+  T VC SP G++
Sbjct: 186 CATLPSTVAVTSVCWSPKGKQ 206


  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
   0.320    0.136    0.439 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,716,242
Number of Sequences: 62578
Number of extensions: 386989
Number of successful extensions: 721
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 713
Number of HSP's gapped (non-prelim): 8
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)