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= rbmmt10c02
         (552 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC23G3.06 |||U3 snoRNP protein Nop58 |Schizosaccharomyces pomb...    28   0.80 
SPAC26F1.13c |||leucine-tRNA ligase |Schizosaccharomyces pombe|c...    27   1.8  
SPAC17H9.10c |ddb1||damaged DNA binding protein Ddb1 |Schizosacc...    25   7.4  
SPBC11G11.05 |rpa34||DNA-directed RNA polymerase I complex subun...    25   7.4  
SPCC613.05c |rpl35||60S ribosomal protein L35|Schizosaccharomyce...    25   9.8  
SPAC29B12.10c |||OPT oligopeptide transporter family|Schizosacch...    25   9.8  
SPBC646.02 |cwf11||complexed with Cdc5 protein Cwf11 |Schizosacc...    25   9.8  

>SPAC23G3.06 |||U3 snoRNP protein Nop58 |Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 508

 Score = 28.3 bits (60), Expect = 0.80
 Identities = 15/44 (34%), Positives = 23/44 (52%)
 Frame = +1

Query: 286 KSVKKGRGIMEDESKPKKKTNSIKSQSYADSSLTIAVLSGDLAL 417
           K +KK   ++ED   P+  +N +K QS+A    T+  L    AL
Sbjct: 19  KLLKKRDALIEDLKSPEGASNLLKLQSFAKFESTVDALDNVSAL 62


>SPAC26F1.13c |||leucine-tRNA ligase |Schizosaccharomyces pombe|chr
            1|||Manual
          Length = 1111

 Score = 27.1 bits (57), Expect = 1.8
 Identities = 11/20 (55%), Positives = 15/20 (75%)
 Frame = +1

Query: 286  KSVKKGRGIMEDESKPKKKT 345
            K  KKG+G++ D SKPK+ T
Sbjct: 942  KRQKKGKGMLFDPSKPKRLT 961


>SPAC17H9.10c |ddb1||damaged DNA binding protein Ddb1
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1072

 Score = 25.0 bits (52), Expect = 7.4
 Identities = 19/69 (27%), Positives = 30/69 (43%)
 Frame = +1

Query: 343 TNSIKSQSYADSSLTIAVLSGDLALNRKYYLIVMRHFRENI*RKRPNLWEKKS*ILLHDN 522
           +N IK Q  ++ SL  +  SG L L   +  ++  H  + +    P    KK  +  H+N
Sbjct: 97  SNGIKIQDCSERSLRESQ-SGPLLLVDPFQRVICLHVYQGLLTIIPIFKSKKRFMTSHNN 155

Query: 523 TPSHKNLIV 549
              H N  V
Sbjct: 156 PSLHDNFSV 164


>SPBC11G11.05 |rpa34||DNA-directed RNA polymerase I complex subunit
           Rpa34 |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 251

 Score = 25.0 bits (52), Expect = 7.4
 Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
 Frame = +1

Query: 250 IDFIQNTRI*ARKSVKKGRGIMED-ESKPKKKTNSIKSQ 363
           ++ +QN     +K +KKG+   +D E KPKKK     S+
Sbjct: 209 VEELQNKGKEKQKELKKGKREKKDEEEKPKKKKQKKSSK 247


>SPCC613.05c |rpl35||60S ribosomal protein L35|Schizosaccharomyces
           pombe|chr 3|||Manual
          Length = 122

 Score = 24.6 bits (51), Expect = 9.8
 Identities = 12/32 (37%), Positives = 18/32 (56%)
 Frame = -2

Query: 161 TRYDITKNSTVFKVNNRCSSNTALKWKIVVPI 66
           TR DI +  TV   +NR ++  A K K  +P+
Sbjct: 49  TRKDIARILTVINESNRLAAREAYKNKKYIPL 80


>SPAC29B12.10c |||OPT oligopeptide transporter
           family|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 851

 Score = 24.6 bits (51), Expect = 9.8
 Identities = 10/25 (40%), Positives = 14/25 (56%)
 Frame = +3

Query: 27  GSELFFWFYLFSLNGHYYFPL*CGV 101
           GS +F+WF  F   G  YF + C +
Sbjct: 340 GSFVFYWFPGFIFKGLSYFTVLCWI 364


>SPBC646.02 |cwf11||complexed with Cdc5 protein Cwf11
           |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 1284

 Score = 24.6 bits (51), Expect = 9.8
 Identities = 10/36 (27%), Positives = 19/36 (52%)
 Frame = +3

Query: 186 QNIECEFVFRSHLKCYRRLTVNRLYSKHAHMSQKKR 293
           Q +   F  R   K Y++L +  LY++  + S++ R
Sbjct: 426 QYLSISFFMRQQSKAYKKLLLRSLYAELLNFSEQYR 461


  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: 2,133,415
Number of Sequences: 5004
Number of extensions: 40006
Number of successful extensions: 87
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 86
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): 87
length of database: 2,362,478
effective HSP length: 69
effective length of database: 2,017,202
effective search space used: 229961028
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)