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= 039495
         (327 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|P0C2F6|RNHX1_ARATH Putative ribonuclease H protein At1g65750 OS=Arabidopsis thaliana
           GN=At1g65750 PE=3 SV=1
          Length = 620

 Score =  103 bits (256), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 63/208 (30%), Positives = 106/208 (50%), Gaps = 8/208 (3%)

Query: 118 EKIKFKISSARPLSKGKLVNSMIDADCPPGFEKIHRPNSRICWMPPPTNWVKLNIEGSSS 177
           +++KF    A  + +    N ++    P       R    I W+ P   WVK+N +G+S 
Sbjct: 417 DRVKFVKEWAVEVYRAHSGNVLVGITQP-------RVERMIGWVSPCVGWVKVNTDGASR 469

Query: 178 RAQGSAGAGGIVRDESGKWILGYSKNLGTSNSLASELWALYHGLNLVWERGFRKVLVECN 237
              G A AGG++RD +G W  G+S N+G  ++  +ELW +Y+GL   WE+   +V +E +
Sbjct: 470 GNPGLASAGGVLRDCTGAWCGGFSLNIGRCSAPQAELWGVYYGLYFAWEKKVPRVELEVD 529

Query: 238 SHEAVKCLELPASFLDPNRALILSCREYLCRNWDCKLQLILREANSCANWLAAHCENQPL 297
           S   V  L+   S   P   L+  C  +L ++W  ++  + REAN  A+ LA +  +  L
Sbjct: 530 SEVIVGFLKTGISDSHPLSFLVRLCHGFLQKDWLVRIVHVYREANRLADGLANYAFSLSL 589

Query: 298 GSLAVFDTPPYALAPIFQKDSTGIVQTR 325
           G    FD  P A++ + ++D+ G  + R
Sbjct: 590 G-FHSFDLVPDAMSSLLREDTLGSTRPR 616


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.317    0.133    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 129,586,992
Number of Sequences: 539616
Number of extensions: 5445868
Number of successful extensions: 11378
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 11376
Number of HSP's gapped (non-prelim): 5
length of query: 327
length of database: 191,569,459
effective HSP length: 118
effective length of query: 209
effective length of database: 127,894,771
effective search space: 26730007139
effective search space used: 26730007139
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (28.1 bits)