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= msgV0735.Seq
         (598 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPBC839.12 |rpc31||DNA-directed RNA polymerase III complex subun...    36   0.006
SPAC27F1.06c |||FKBP-type peptidyl-prolyl cis-trans isomerase |S...    26   3.6  
SPCC63.11 |prp28||U5 snRNP-associated protein Prp28 |Schizosacch...    26   3.6  
SPBC947.07 |||ribosome biogenesis protein Rrp14-C|Schizosaccharo...    26   4.8  
SPBC17D1.06 |dbp3||ATP-dependent RNA helicase Dbp3 |Schizosaccha...    26   4.8  
SPBC1734.01c ||SPBC337.17c|RNA-binding protein|Schizosaccharomyc...    25   8.4  
SPBC365.04c |||RNA-binding protein|Schizosaccharomyces pombe|chr...    25   8.4  
SPBC28F2.12 |rpb1||DNA-directed RNA polymerase II large subunit|...    25   8.4  

>SPBC839.12 |rpc31||DNA-directed RNA polymerase III complex subunit
           Rpc31|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 210

 Score = 35.5 bits (78), Expect = 0.006
 Identities = 21/53 (39%), Positives = 27/53 (50%)
 Frame = -3

Query: 509 QDLKDELTEDXXXXXXXXKDEGLTLEKEGYKSDYDRNEYEERGSEHQEDNDSD 351
           QDLKDE +E          DEGL  E E +  D D N+Y E   ++ E +D D
Sbjct: 148 QDLKDESSEAAHPNIEEEPDEGLEEEDEDFGDD-DDNDYGENYFDNGEGDDYD 199


>SPAC27F1.06c |||FKBP-type peptidyl-prolyl cis-trans isomerase
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 362

 Score = 26.2 bits (55), Expect = 3.6
 Identities = 11/44 (25%), Positives = 24/44 (54%)
 Frame = -3

Query: 239 ERNQREVKEKKSKANMRKTTKGKRTTADPPNIQREKERVWKNQK 108
           ++ ++E KEKK+  ++  +  GK+   +P     + E+  K+ K
Sbjct: 206 DKLKKEEKEKKTAVDVSDSVNGKKRKTEPAGEGEQTEKKSKSTK 249


>SPCC63.11 |prp28||U5 snRNP-associated protein Prp28
           |Schizosaccharomyces pombe|chr 3|||Manual
          Length = 662

 Score = 26.2 bits (55), Expect = 3.6
 Identities = 17/50 (34%), Positives = 25/50 (50%)
 Frame = -3

Query: 239 ERNQREVKEKKSKANMRKTTKGKRTTADPPNIQREKERVWKNQKKGTASS 90
           ER Q+EV+E K+K N +     KRT  +      E   +  ++KK   SS
Sbjct: 41  ERRQKEVEEAKAKQNDKLLDLRKRTFTN----HLENNELADDEKKSQVSS 86


>SPBC947.07 |||ribosome biogenesis protein
           Rrp14-C|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 233

 Score = 25.8 bits (54), Expect = 4.8
 Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 5/58 (8%)
 Frame = -3

Query: 230 QREVKEKKSKANMRKTTKGKRTTADPPNIQREKE-----RVWKNQKKGTASSRLSPSR 72
           +R+ KEKK  ++  K  K     A     QR +E     R  K  KKG A  +  PS+
Sbjct: 174 RRKEKEKKKSSDAWKERKDNEKKAMLMRQQRREENLKKRRESKKSKKGKAPKKKKPSK 231


>SPBC17D1.06 |dbp3||ATP-dependent RNA helicase Dbp3
           |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 578

 Score = 25.8 bits (54), Expect = 4.8
 Identities = 22/71 (30%), Positives = 35/71 (49%)
 Frame = -3

Query: 218 KEKKSKANMRKTTKGKRTTADPPNIQREKERVWKNQKKGTASSRLSPSRWVNPA*RSRII 39
           KEKKSK   +K  K K  +AD   I ++ +   K  KKG + ++   S  +N    ++I 
Sbjct: 71  KEKKSKHEHKKHKKDK-PSADKDRISKKDK---KKSKKGKSKTK-EESIEINAEEGAKIA 125

Query: 38  QNRIPTRKSRN 6
           Q  I +  + N
Sbjct: 126 QPAIGSANASN 136


>SPBC1734.01c ||SPBC337.17c|RNA-binding protein|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 682

 Score = 25.0 bits (52), Expect = 8.4
 Identities = 10/30 (33%), Positives = 16/30 (53%)
 Frame = -3

Query: 218 KEKKSKANMRKTTKGKRTTADPPNIQREKE 129
           K+K +  N +K  KGK T  + P    ++E
Sbjct: 518 KDKDASRNNKKNKKGKHTQIEDPTAASKEE 547


>SPBC365.04c |||RNA-binding protein|Schizosaccharomyces pombe|chr
           2|||Manual
          Length = 233

 Score = 25.0 bits (52), Expect = 8.4
 Identities = 13/41 (31%), Positives = 19/41 (46%)
 Frame = -3

Query: 212 KKSKANMRKTTKGKRTTADPPNIQREKERVWKNQKKGTASS 90
           K+ K N+  T  G   T    N  +EK R WK + +   +S
Sbjct: 160 KERKINIELTAGGGGKTEARMNKIKEKNRKWKEEMRQRVAS 200


>SPBC28F2.12 |rpb1||DNA-directed RNA polymerase II large
           subunit|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 1752

 Score = 25.0 bits (52), Expect = 8.4
 Identities = 11/34 (32%), Positives = 19/34 (55%)
 Frame = -3

Query: 161 ADPPNIQREKERVWKNQKKGTASSRLSPSRWVNP 60
           A  P I+++  R+W + K+G   S L   R ++P
Sbjct: 177 AAQPTIRKDGLRLWGSWKRGKDESDLPEKRLLSP 210


  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: 1,647,194
Number of Sequences: 5004
Number of extensions: 26134
Number of successful extensions: 142
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 118
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): 142
length of database: 2,362,478
effective HSP length: 69
effective length of database: 2,017,202
effective search space used: 260219058
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)