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= 018223
         (359 letters)

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

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



>pdb|2RHK|C Chain C, Crystal Structure Of Influenza A Ns1a Protein In Complex
           With F2f3 Fragment Of Human Cellular Factor Cpsf30,
           Northeast Structural Genomics Targets Or8c And Hr6309a
 pdb|2RHK|D Chain D, Crystal Structure Of Influenza A Ns1a Protein In Complex
           With F2f3 Fragment Of Human Cellular Factor Cpsf30,
           Northeast Structural Genomics Targets Or8c And Hr6309a
          Length = 72

 Score = 29.3 bits (64), Expect = 3.2,   Method: Composition-based stats.
 Identities = 10/32 (31%), Positives = 22/32 (68%)

Query: 90  KSILCEFYKAGQCQKGFKCKFSHDLNVQRKGE 121
           K+++C+ +  G C+KG +C+F H+ ++ +  E
Sbjct: 15  KTVVCKHWLRGLCKKGDQCEFLHEYDMTKMSE 46


>pdb|1M9O|A Chain A, Nmr Structure Of The First Zinc Binding Domain Of
           Nup475TTPTIS11
          Length = 77

 Score = 29.3 bits (64), Expect = 3.5,   Method: Composition-based stats.
 Identities = 13/34 (38%), Positives = 22/34 (64%), Gaps = 1/34 (2%)

Query: 90  KSILCEFY-KAGQCQKGFKCKFSHDLNVQRKGEK 122
           K+ LC  Y ++G+C+ G KC+F+H L   R+  +
Sbjct: 11  KTELCRTYSESGRCRYGAKCQFAHGLGELRQANR 44


>pdb|2D9N|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 2 In
           Cleavage And Polyadenylation Specificity Factor
          Length = 77

 Score = 28.5 bits (62), Expect = 5.3,   Method: Composition-based stats.
 Identities = 10/32 (31%), Positives = 22/32 (68%)

Query: 90  KSILCEFYKAGQCQKGFKCKFSHDLNVQRKGE 121
           K+++C+ +  G C+KG +C+F H+ ++ +  E
Sbjct: 9   KTVVCKHWLRGLCKKGDQCEFLHEYDMTKMPE 40


  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
   0.311    0.128    0.373 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,882,374
Number of Sequences: 62578
Number of extensions: 313881
Number of successful extensions: 582
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 579
Number of HSP's gapped (non-prelim): 4
length of query: 359
length of database: 14,973,337
effective HSP length: 100
effective length of query: 259
effective length of database: 8,715,537
effective search space: 2257324083
effective search space used: 2257324083
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)