Bombyx BLAST Result against spombe

BLASTX 2.2.12 [Aug-07-2005]


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.

Query= rbmnc12o13
         (886 letters)

Database: spombe 
           5004 sequences; 2,362,478 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPCC188.06c |srp54||signal recognition particle subunit Srp54|Sc...   226   4e-60
SPBC3B9.03 |||signal recognition particle receptor alpha subunit...    32   0.094
SPBC12C2.06 |||ATP-dependent RNA helicase Dbp5|Schizosaccharomyc...    29   1.2  
SPBC1706.03 |fzo1|SPBC839.01|mitochondrial fusion GTPase protein...    27   3.6  
SPAC1142.01 ||SPAC17G6.18|DUF654 family protein|Schizosaccharomy...    26   6.2  

>SPCC188.06c |srp54||signal recognition particle subunit
           Srp54|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 522

 Score =  226 bits (552), Expect = 4e-60
 Identities = 124/265 (46%), Positives = 178/265 (67%), Gaps = 1/265 (0%)
 Frame = -1

Query: 886 IFVMDATIGQACEAQARAFKDKVDIGSVIITKLDGHAKGGGALSAVAATQSPIIFIGTGE 707
           I ++DA+IGQA E+Q++AFK+  D G+VIITKLDGHAKGGGALSAVAAT++PI+FIGTGE
Sbjct: 218 IMILDASIGQAAESQSKAFKETADFGAVIITKLDGHAKGGGALSAVAATKTPIVFIGTGE 277

Query: 706 HIDDLEPFKTKPFIKKLLGMGDIEGLLDKVXXXXXXXXXXXXXXXKHGQFTLRAMYEQFQ 527
           HI+DLE F  + FI KLLG+GD+EGL++ V               + G+FT+R   +Q  
Sbjct: 278 HINDLERFSPRSFISKLLGLGDLEGLMEHV-QSLDFDKKNMVKNLEQGKFTVRDFRDQLG 336

Query: 526 NIMKMGPFSQIMGMIPGFSQDLMSKGSEQESMAKLKLLMTIMDSMNEGELDNRDGAKLFS 347
           NIMK+GP S++  MIPG S ++M+  +++E   ++K ++ I+DSM E ELD+ DG  LF 
Sbjct: 337 NIMKLGPLSKMASMIPGMS-NMMNGMNDEEGSLRMKRMLYIVDSMTEQELDS-DGL-LFV 393

Query: 346 KQPTRITRVAQGAGVTERDVKDLIAQYTKFAAVVKKMGGIKGLFKGGDMAKNVNQTQMVK 167
           +QP+R+ RVA+G+G +  +V++ I+Q   FA + KK+GG  G+   G +  N     + K
Sbjct: 394 EQPSRVLRVARGSGTSVLEVEETISQVRVFAQMAKKIGGKDGIL--GKLGGN-PAAALKK 450

Query: 166 LNQQMAKMMDPRLLQQM-GGMSGLH 95
             +Q+A M        M GGM GL+
Sbjct: 451 DPRQLAAMQKRMQAMGMGGGMPGLN 475


>SPBC3B9.03 |||signal recognition particle receptor alpha subunit
           Srp101|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 547

 Score = 32.3 bits (70), Expect = 0.094
 Identities = 23/80 (28%), Positives = 39/80 (48%), Gaps = 4/80 (5%)
 Frame = -1

Query: 880 VMDATIGQACEAQARAFKDKV---DIGSVIITKLDGHAKGGGAL-SAVAATQSPIIFIGT 713
           V +A +G    AQA+ F+  +    +   II+K+D   +  G +   V A + PIIF+G 
Sbjct: 467 VAEALVGTDSLAQAKHFQASLYHRPLDGFIISKVDTVGQLVGVMVGMVYAVRVPIIFVGI 526

Query: 712 GEHIDDLEPFKTKPFIKKLL 653
           G+   DL        + +L+
Sbjct: 527 GQTYSDLRTLSVDWVVDQLM 546


>SPBC12C2.06 |||ATP-dependent RNA helicase Dbp5|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 503

 Score = 28.7 bits (61), Expect = 1.2
 Identities = 24/98 (24%), Positives = 47/98 (47%), Gaps = 1/98 (1%)
 Frame = -1

Query: 550 RAMYEQFQNIM-KMGPFSQIMGMIPGFSQDLMSKGSEQESMAKLKLLMTIMDSMNEGELD 374
           R +  Q  +++ +MG ++++     G  +D + KG++ ++   +    T+MD M   +LD
Sbjct: 194 RELARQIMDVVTEMGKYTEVKTAF-GI-KDSVPKGAKIDAQIVIGTPGTVMDLMKRRQLD 251

Query: 373 NRDGAKLFSKQPTRITRVAQGAGVTERDVKDLIAQYTK 260
            RD  K+F           QG G     +K L+ + T+
Sbjct: 252 ARD-IKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQ 288


>SPBC1706.03 |fzo1|SPBC839.01|mitochondrial fusion GTPase
           protein|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 758

 Score = 27.1 bits (57), Expect = 3.6
 Identities = 11/35 (31%), Positives = 21/35 (60%)
 Frame = -2

Query: 303 SQNEMLKT*LHNTQNLRLSLKKWVELKDCSKEEIW 199
           ++N++L++ +H  QNL   L  +V+  DC    +W
Sbjct: 46  NRNQLLRS-IHIIQNLLNELDNYVDRSDCLFHSVW 79


>SPAC1142.01 ||SPAC17G6.18|DUF654 family protein|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 667

 Score = 26.2 bits (55), Expect = 6.2
 Identities = 9/28 (32%), Positives = 18/28 (64%)
 Frame = +1

Query: 4   YISSYDCLNVICHPLTHPFHLSPVVAVA 87
           Y+ +YD  N++    +HPFH+  ++ V+
Sbjct: 274 YVQTYDPNNLLMLLRSHPFHIDTLLQVS 301


  Database: spombe
    Posted date:  Oct 4, 2007 10:57 AM
  Number of letters in database: 2,362,478
  Number of sequences in database:  5004
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 3,445,425
Number of Sequences: 5004
Number of extensions: 68919
Number of successful extensions: 207
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 197
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 204
length of database: 2,362,478
effective HSP length: 72
effective length of database: 2,002,190
effective search space used: 444486180
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)