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= 039418
         (297 letters)

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

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



>sp|P70388|RAD50_MOUSE DNA repair protein RAD50 OS=Mus musculus GN=Rad50 PE=1 SV=1
          Length = 1312

 Score = 32.7 bits (73), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 31/106 (29%), Positives = 48/106 (45%), Gaps = 12/106 (11%)

Query: 75  PVEEKCQYKFQSRRGGKANVEKVKFLTRCAPDRLAALVSHLIEKQRKAVCDIGL----GS 130
           PV   CQ  FQ+    +  +  ++   R APD+L +  S L +K+R+    +GL     S
Sbjct: 682 PV---CQRVFQTEAELQEVISDLQSKLRLAPDKLKSTESELKKKERRRDEMLGLVPVRQS 738

Query: 131 IIDLKCGRLKRKLCAWLVERIDTARCVLQLNGHELELSPNSFGYIM 176
           IID     LK K    L  R+ +    +Q   +++E      G IM
Sbjct: 739 IID-----LKEKEIPELRNRLQSVNRDIQRLKNDIEEQETLLGTIM 779


>sp|Q92878|RAD50_HUMAN DNA repair protein RAD50 OS=Homo sapiens GN=RAD50 PE=1 SV=1
          Length = 1312

 Score = 32.3 bits (72), Expect = 4.2,   Method: Composition-based stats.
 Identities = 34/127 (26%), Positives = 56/127 (44%), Gaps = 24/127 (18%)

Query: 13  DFESSCEMLVDAHRSRGSKDRENNHGFISFFAESVRQLKAKDGRACITNEVRKEIRNAFK 72
           DFES  + L +    + SK R    G  + +++ + QL  ++   C              
Sbjct: 637 DFESDLDRLKE-EIEKSSKQRAMLAGATAVYSQFITQLTDENQSCC-------------- 681

Query: 73  NLPVEEKCQYKFQSRRGGKANVEKVKFLTRCAPDRLAALVSHLIEKQRKAVCDIGL---- 128
             PV   CQ  FQ+    +  +  ++   R APD+L +  S L +K+++    +GL    
Sbjct: 682 --PV---CQRVFQTEAELQEVISDLQSKLRLAPDKLKSTESELKKKEKRRDEMLGLVPMR 736

Query: 129 GSIIDLK 135
            SIIDLK
Sbjct: 737 QSIIDLK 743


>sp|Q9JIL8|RAD50_RAT DNA repair protein RAD50 OS=Rattus norvegicus GN=Rad50 PE=1 SV=1
          Length = 1312

 Score = 32.0 bits (71), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 28/101 (27%), Positives = 46/101 (45%), Gaps = 9/101 (8%)

Query: 80  CQYKFQSRRGGKANVEKVKFLTRCAPDRLAALVSHLIEKQRKAVCDIGL----GSIIDLK 135
           CQ  FQ+    +  +  ++   R APD+L +  S L +K+R+    +GL     SIID  
Sbjct: 684 CQRVFQTEAELQEVISDLQSKLRLAPDKLKSTESELKKKERRRDEMLGLVPMRQSIID-- 741

Query: 136 CGRLKRKLCAWLVERIDTARCVLQLNGHELELSPNSFGYIM 176
              LK K    L  R+ +    +Q   +++E      G +M
Sbjct: 742 ---LKEKEIPELRNRLQSVNRDIQRLKNDIEEQETLLGTVM 779


  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
   0.324    0.138    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 112,002,997
Number of Sequences: 539616
Number of extensions: 4508288
Number of successful extensions: 12162
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 12161
Number of HSP's gapped (non-prelim): 11
length of query: 297
length of database: 191,569,459
effective HSP length: 117
effective length of query: 180
effective length of database: 128,434,387
effective search space: 23118189660
effective search space used: 23118189660
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 61 (28.1 bits)