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= 025423
         (253 letters)

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

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



>sp|O49286|SKP2B_ARATH F-box protein SKP2B OS=Arabidopsis thaliana GN=SKP2B PE=1 SV=1
          Length = 360

 Score = 32.7 bits (73), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 29/104 (27%), Positives = 48/104 (46%), Gaps = 17/104 (16%)

Query: 119 ISISLTRLTGSAATEAMAKLSLELFTAFRSMQTLIVQEQERCLQLEKEAA---------- 168
           +S+ LTRL+ S   + M  L L L   F  +QTL++++ +   QLE  A           
Sbjct: 62  VSLGLTRLSLSWCKKNMNSLVLSLAPKFVKLQTLVLRQDKP--QLEDNAVEAIANHCHEL 119

Query: 169 --AEKERNENIQNQPLYSKRQ---KLQKMNFSDKTDISASILSN 207
              +  ++  I +  LYS  +    L K+N S  T  S + L++
Sbjct: 120 QDLDLSKSSKITDHSLYSLARGCTNLTKLNLSGCTSFSDTALAH 163


>sp|P18593|VIRD3_AGRT5 Protein virD3 OS=Agrobacterium tumefaciens (strain C58 / ATCC
           33970) GN=virD3 PE=4 SV=2
          Length = 673

 Score = 31.6 bits (70), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 29/113 (25%), Positives = 48/113 (42%), Gaps = 19/113 (16%)

Query: 76  EFIDYVVASIKSEDVKLILEGHSN----------------ADGAAYAKIVAQKSKGMPRI 119
           +F D+  A +   D   ++E HSN                AD     + V ++++ MP  
Sbjct: 415 DFPDFTEAELAKIDA--LVESHSNRSLSVRNIVPDLRGAGADNVFRKEGVVERAEKMPID 472

Query: 120 SISLTRLTGS-AATEAMAKLSLELFTAFRSMQTLIVQEQERCLQLEKEAAAEK 171
           S+SLTRL G  + +   ++ SLE F          ++E ER  +   E   +K
Sbjct: 473 SVSLTRLNGERSRSPKTSQASLEDFPDLTDADLAHIEESERIARTAVEKGKQK 525


  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
   0.313    0.127    0.348 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 83,983,722
Number of Sequences: 539616
Number of extensions: 3059890
Number of successful extensions: 9978
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 46
Number of HSP's that attempted gapping in prelim test: 9941
Number of HSP's gapped (non-prelim): 76
length of query: 253
length of database: 191,569,459
effective HSP length: 115
effective length of query: 138
effective length of database: 129,513,619
effective search space: 17872879422
effective search space used: 17872879422
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 60 (27.7 bits)