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= psy16914
         (284 letters)

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

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



>pdb|3I4R|B Chain B, Nup107(Aa658-925)NUP133(AA517-1156) Complex, H.Sapiens
          Length = 644

 Score = 28.5 bits (62), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 28/83 (33%), Positives = 41/83 (49%), Gaps = 7/83 (8%)

Query: 102 AKEETSELAKEKTRELAKEETRELAKEETSELAKEETRELAKEKTRELAKEKTRELAKEK 161
           A E  S L +  ++EL K     L       LA  ETR  AK+KT  L   K   LA + 
Sbjct: 419 AHEHLSWLHEINSQELEKAHATLLG------LANMETRYFAKKKTL-LGLSKLAALASDF 471

Query: 162 TRELAKEKTRELAKEETSELAKE 184
           + ++ +EK  E+A++E   L +E
Sbjct: 472 SEDMLQEKIEEMAEQERFLLHQE 494


>pdb|3CQG|B Chain B, Nucleoporin Nup107/nup133 Interaction Complex, Delta
           Finger Mutant
          Length = 227

 Score = 27.7 bits (60), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 133 LAKEETRELAKEKTRELAKEKTRELAKEKTRELAKEKTRELAKEETSELAKE 184
           LA  ETR  AK+KT  L   K   LA + + ++ +EK  E+A++E   L +E
Sbjct: 27  LANMETRYFAKKKTL-LGLSKLAALASDFSEDMLQEKIEEMAEQERFLLHQE 77


>pdb|3CQC|B Chain B, Nucleoporin Nup107/nup133 Interaction Complex
          Length = 227

 Score = 27.7 bits (60), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 133 LAKEETRELAKEKTRELAKEKTRELAKEKTRELAKEKTRELAKEETSELAKE 184
           LA  ETR  AK+KT  L   K   LA + + ++ +EK  E+A++E   L +E
Sbjct: 27  LANMETRYFAKKKTL-LGLSKLAALASDFSEDMLQEKIEEMAEQERFLLHQE 77


  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
   0.287    0.108    0.244 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,303,090
Number of Sequences: 62578
Number of extensions: 188097
Number of successful extensions: 1563
Number of sequences better than 100.0: 98
Number of HSP's better than 100.0 without gapping: 45
Number of HSP's successfully gapped in prelim test: 53
Number of HSP's that attempted gapping in prelim test: 831
Number of HSP's gapped (non-prelim): 580
length of query: 284
length of database: 14,973,337
effective HSP length: 98
effective length of query: 186
effective length of database: 8,840,693
effective search space: 1644368898
effective search space used: 1644368898
T: 11
A: 40
X1: 17 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 45 (21.8 bits)
S2: 51 (24.3 bits)