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= 009239
         (539 letters)

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

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



>pdb|2CQE|A Chain A, Solution Structure Of The Zinc-Finger Domain In Kiaa1064
           Protein
          Length = 98

 Score = 33.1 bits (74), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 10/20 (50%), Positives = 14/20 (70%)

Query: 92  CYFYFNGFCSRGDRCSFLHG 111
           C FY  GFC+R + C ++HG
Sbjct: 16  CKFYITGFCARAENCPYMHG 35


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

 Score = 29.3 bits (64), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 22/50 (44%)

Query: 22 CKKGLDCEYRHNEIARLNPRDCWYWLAGNCINPRCGFRHPPLDAHVTEAP 71
          CKKG  CE+ H       P   +Y   G C N  C F H   ++ + + P
Sbjct: 21 CKKGDQCEFLHEYDMTKMPECYFYSKFGECSNKECPFLHIDPESKIKDCP 70



 Score = 28.5 bits (62), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 11/30 (36%), Positives = 17/30 (56%)

Query: 81  SSIPVNKTSIPCYFYFNGFCSRGDRCSFLH 110
           SS    + ++ C  +  G C +GD+C FLH
Sbjct: 2   SSGSSGEKTVVCKHWLRGLCKKGDQCEFLH 31


>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 = 6.2,   Method: Compositional matrix adjust.
 Identities = 10/25 (40%), Positives = 15/25 (60%)

Query: 89  SIPCYFYFNGFCSRGDRCSFLHGPD 113
           ++ C  +  G C +GD+C FLH  D
Sbjct: 16  TVVCKHWLRGLCKKGDQCEFLHEYD 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
   0.315    0.133    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,029,610
Number of Sequences: 62578
Number of extensions: 717032
Number of successful extensions: 1293
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1279
Number of HSP's gapped (non-prelim): 19
length of query: 539
length of database: 14,973,337
effective HSP length: 104
effective length of query: 435
effective length of database: 8,465,225
effective search space: 3682372875
effective search space used: 3682372875
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (25.4 bits)