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= 012393
         (464 letters)

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

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



>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain
 pdb|3IUY|B Chain B, Crystal Structure Of Ddx53 Dead-Box Domain
          Length = 228

 Score = 32.0 bits (71), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 19/84 (22%), Positives = 42/84 (50%), Gaps = 5/84 (5%)

Query: 178 SLYGAESRAESAEEKVTQLTDTNLELSEEINFLKGNNDSNTKKVGIL----ENQLRDLEI 233
            +YG  +R    E+ +++  D  +     +N L+ NN  N + +  L     +++ D+E 
Sbjct: 126 CIYGGRNRNGQIED-ISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEF 184

Query: 234 QLQQAKVSSEASQEQQSMLYSAIW 257
           + Q  K+  +   ++Q+++ SA W
Sbjct: 185 EPQIRKILLDVRPDRQTVMTSATW 208


>pdb|3SFW|A Chain A, Crystal Structure Of Dihydropyrimidinase From
           Brevibacillus Agri Nchu1002
 pdb|3SFW|B Chain B, Crystal Structure Of Dihydropyrimidinase From
           Brevibacillus Agri Nchu1002
          Length = 461

 Score = 29.3 bits (64), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 26/93 (27%), Positives = 42/93 (45%), Gaps = 12/93 (12%)

Query: 114 AKDMVLQKLESTKNSEVLT-------MKEKVKSLEEQLKESEIRLQNANACFQTSQEQLN 166
           A D VL++LES  N+E +T        K  + + +E L ++ IR +   A  Q   E  +
Sbjct: 129 ANDHVLEELESVVNNEGITSLXVFMAYKNVLMADDETLFKTLIRAKELGALVQVHAENGD 188

Query: 167 EMDNFI-----ESLKESLYGAESRAESAEEKVT 194
            +D        E   + +Y A +R   AE + T
Sbjct: 189 VLDYLTKQALAEGNTDPIYHAYTRPPEAEGEAT 221


>pdb|2D0I|A Chain A, Crystal Structure Ph0520 Protein From Pyrococcus
           Horikoshii Ot3
 pdb|2D0I|B Chain B, Crystal Structure Ph0520 Protein From Pyrococcus
           Horikoshii Ot3
 pdb|2D0I|C Chain C, Crystal Structure Ph0520 Protein From Pyrococcus
           Horikoshii Ot3
 pdb|2D0I|D Chain D, Crystal Structure Ph0520 Protein From Pyrococcus
           Horikoshii Ot3
          Length = 333

 Score = 28.5 bits (62), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 30/114 (26%), Positives = 55/114 (48%), Gaps = 14/114 (12%)

Query: 41  KLHHTEQVAFRME-EAAEVVWGRF-----LEAENSAEVLMGISKEMLGRFQIVQFNLN-- 92
           K+H+ ++   R E E+   +W  F     L  +    + MG   + + R +++ F +   
Sbjct: 115 KIHYADKFIRRGEWESHAKIWTGFKRIESLYGKKVGILGMGAIGKAIAR-RLIPFGVKLY 173

Query: 93  -GSLQR----ESELKSKLGDFIEQLKAKDMVLQKLESTKNSEVLTMKEKVKSLE 141
             S  R    E ELK++  D  E L+  D+V+  L  T+++  +  +E+VK LE
Sbjct: 174 YWSRHRKVNVEKELKARYMDIDELLEKSDIVILALPLTRDTYHIINEERVKKLE 227


  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
   0.309    0.124    0.316 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,342,221
Number of Sequences: 62578
Number of extensions: 360788
Number of successful extensions: 1604
Number of sequences better than 100.0: 85
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 62
Number of HSP's that attempted gapping in prelim test: 1466
Number of HSP's gapped (non-prelim): 151
length of query: 464
length of database: 14,973,337
effective HSP length: 102
effective length of query: 362
effective length of database: 8,590,381
effective search space: 3109717922
effective search space used: 3109717922
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 53 (25.0 bits)