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= 018608
         (353 letters)

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

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



>sp|Q80XC3|US6NL_MOUSE USP6 N-terminal-like protein OS=Mus musculus GN=Usp6nl PE=1 SV=2
          Length = 819

 Score = 38.9 bits (89), Expect = 0.066,   Method: Compositional matrix adjust.
 Identities = 57/214 (26%), Positives = 86/214 (40%), Gaps = 39/214 (18%)

Query: 98  QGDQESSDEGNKNPA-EKETVKEPSKSKENGNGGAGTSKNVENNGAVHHVIKVNEVGGQI 156
           Q  ++S DEG+KN   E E+ ++PS   ++ +     +   +N+ A+ +V K  E   + 
Sbjct: 428 QSRRKSVDEGSKNLKHEAESQRKPSPGMQDSSRHYNHAAANQNSNAISNVRK--EFMPKW 485

Query: 157 AKESKPDQVKQTVTFAAGGQS-------PVGDKKAGDSESEGGVEKSGGGGGSGGKKKKK 209
            K S    +++T  +A  G+S       PV    + ++      +K     G  GK+   
Sbjct: 486 RKPSDASAIERTTKYAVEGKSHSALPALPVAIPGSAETRLPNSRQKMKALDGGEGKR--- 542

Query: 210 KGHKGNNGNSNVVIGGGEPFGGVGGDAPAGAGSPMYGPHGPTHAPFPFPA---------- 259
               G+N +    + GGE   G    A A  G     PH P   P P P+          
Sbjct: 543 ----GSNASQYDNVPGGESEHG----ASAEEGPERTHPHSPRKHPEPSPSPPKVPNKFTF 594

Query: 260 SYSPPRQHGYPYPQY-------APPPHYYTPPVY 286
              PP    YP PQ        A PP Y  PPVY
Sbjct: 595 KVQPPSHVRYP-PQLPEEDHRAAYPPSYSNPPVY 627


>sp|Q1DUF9|INO80_COCIM Putative DNA helicase INO80 OS=Coccidioides immitis (strain RS)
           GN=INO80 PE=3 SV=1
          Length = 1662

 Score = 38.5 bits (88), Expect = 0.087,   Method: Compositional matrix adjust.
 Identities = 47/154 (30%), Positives = 61/154 (39%), Gaps = 50/154 (32%)

Query: 240 AGSPMYGPHGPTHAPFPFPASYSPPRQHGYPY-------------PQYAPP------PHY 280
           AG P YG H PT  P  +P SYSP  +   PY             P +APP      PH+
Sbjct: 2   AGVPPYGMHSPTQQP-RYP-SYSPSTRDRQPYSGNDPYQHPPRTPPSFAPPSSLSRSPHF 59

Query: 281 ---------YTPPVYATSYNTA-----HPRPGYTTSYYTAPTPNSYAYMHA--------- 317
                      PP+  T  N       H   G  TS YT P P   + M A         
Sbjct: 60  ARPPSPMNTTLPPLNGTVVNADGSPPYHGHSGSATSGYTLPRPFGGSLMSATSHSPPPSY 119

Query: 318 --GTGSEIPPSDV-DSYSSQP---SDSFEIFSDE 345
              +GS   PS++ DS+S  P   S+ +++ SD 
Sbjct: 120 SHASGSHSHPSNIPDSFSQSPKRESEPYDVRSDR 153


>sp|P16356|RPB1_CAEEL DNA-directed RNA polymerase II subunit RPB1 OS=Caenorhabditis elegans
            GN=ama-1 PE=1 SV=3
          Length = 1856

 Score = 32.0 bits (71), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 5/69 (7%)

Query: 242  SPMYGPHGPTHAPFPFPASYSPPRQHGYPYPQYAPPPHYYTPPVYATSYNTAHPRPGYTT 301
            SP Y P  PT+   P   +Y+P    G+  PQY+P    Y+P   + SY  + P+   T+
Sbjct: 1752 SPQYSPSSPTYT--PSSPTYNPTSPRGFSSPQYSPTSPTYSPT--SPSYTPSSPQYSPTS 1807

Query: 302  SYYTAPTPN 310
              YT P+P+
Sbjct: 1808 PTYT-PSPS 1815


  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
   0.306    0.129    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 165,740,085
Number of Sequences: 539616
Number of extensions: 9320318
Number of successful extensions: 121546
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 1612
Number of HSP's successfully gapped in prelim test: 2508
Number of HSP's that attempted gapping in prelim test: 59679
Number of HSP's gapped (non-prelim): 35044
length of query: 353
length of database: 191,569,459
effective HSP length: 118
effective length of query: 235
effective length of database: 127,894,771
effective search space: 30055271185
effective search space used: 30055271185
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 62 (28.5 bits)