Silkworm BLAST Result against spombe

BLASTP 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= BGIBMGA001825-TA|BGIBMGA001825-PA|IPR006649|Like-Sm
ribonucleoprotein, eukaryotic and archaea-type, core,
IPR010920|Like-Sm ribonucleoprotein-related, core, IPR001163|Like-Sm
ribonucleoprotein, core
         (139 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPBC30D10.06 |lsm4||U6 snRNP-associated protein Lsm4|Schizosacch...   133   1e-32
SPBC19C2.14 |smd3||Sm snRNP core protein Smd3|Schizosaccharomyce...    63   1e-11
SPAC27D7.07c |smd1||Sm snRNP core protein Smd1|Schizosaccharomyc...    46   3e-06
SPCC1620.01c |lsm2||U6 snRNP-associated protein core protein|Sch...    41   8e-05
SPBC3E7.14 |smf1|SPBC4F6.01|Sm snRNP core protein Smf1|Schizosac...    33   0.012
SPAC2F3.17c |lsm6||U6 snRNP-associated protein Lsm6|Schizosaccha...    29   0.20 
SPAC26A3.08 |smb1|smb|Sm snRNP core protein Smb1|Schizosaccharom...    29   0.20 
SPBC20F10.09 |lsm5||U6 snRNP-associated protein Lsm5|Schizosacch...    28   0.61 
SPBC21D10.09c |||ubiquitin-protein ligase E3 |Schizosaccharomyce...    26   2.5  
SPAC13A11.05 |||peptidase family M17|Schizosaccharomyces pombe|c...    25   3.3  
SPBC9B6.05c |lsm3||U6 snRNP-associated protein Lsm3|Schizosaccha...    25   5.7  
SPBC4B4.05 |smg1||Sm snRNP core protein Smg1|Schizosaccharomyces...    24   7.5  
SPAC13G7.01c |erg7|SPAC4G9.21c|lanosterol synthase Erg7 |Schizos...    24   9.9  
SPAC644.16 |||RNA-binding protein|Schizosaccharomyces pombe|chr ...    24   9.9  

>SPBC30D10.06 |lsm4||U6 snRNP-associated protein
          Lsm4|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 121

 Score =  133 bits (321), Expect = 1e-32
 Identities = 60/99 (60%), Positives = 74/99 (74%)

Query: 1  MLPLSLLRTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECY 60
          MLPL+LL   Q  P+LVELKNGET+NGHL +CDN+MN+ LREVI T  DGDKF+R+PECY
Sbjct: 1  MLPLTLLNATQGRPILVELKNGETFNGHLENCDNYMNLTLREVIRTMPDGDKFFRLPECY 60

Query: 61 IRGSTIKYLRIPDEVIDMVKEETQVKARGRNEVSKGRGQ 99
          IRG+ IKYLRI DEV+  V ++   +   R    +GRGQ
Sbjct: 61 IRGNNIKYLRIQDEVLSQVAKQQAQQRENRGSRFRGRGQ 99


>SPBC19C2.14 |smd3||Sm snRNP core protein Smd3|Schizosaccharomyces
          pombe|chr 2|||Manual
          Length = 97

 Score = 63.3 bits (147), Expect = 1e-11
 Identities = 29/72 (40%), Positives = 46/72 (63%), Gaps = 1/72 (1%)

Query: 2  LPLSLLRTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECYI 61
          L + LL   Q H + +EL+NG TY G L+  ++ MN  +R++  T+RDG +   + + YI
Sbjct: 3  LCIKLLHETQGHIVTMELENGSTYRGKLIEAEDNMNCQMRDISVTARDG-RVSHLDQVYI 61

Query: 62 RGSTIKYLRIPD 73
          RGS I++L +PD
Sbjct: 62 RGSHIRFLIVPD 73


>SPAC27D7.07c |smd1||Sm snRNP core protein Smd1|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 117

 Score = 45.6 bits (103), Expect = 3e-06
 Identities = 30/91 (32%), Positives = 52/91 (57%), Gaps = 5/91 (5%)

Query: 12  NHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECYIRGSTIKYLRI 71
           N  + +ELKNG   +G + S D  MN +L+ V  T + G +   +    IRG+ I+Y  +
Sbjct: 12  NETVSIELKNGTIVHGTITSVDMQMNTHLKAVKMTVK-GREPVPVETLSIRGNNIRYYIL 70

Query: 72  PDEV-ID--MVKEETQVKARGRNEVSKGRGQ 99
           PD + +D  ++ + T+ K + + EV +GRG+
Sbjct: 71  PDSLPLDTLLIDDSTKPKQK-KKEVVRGRGR 100


>SPCC1620.01c |lsm2||U6 snRNP-associated protein core
          protein|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 96

 Score = 40.7 bits (91), Expect = 8e-05
 Identities = 24/82 (29%), Positives = 41/82 (50%), Gaps = 5/82 (6%)

Query: 1  MLPLSLLRTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRM---P 57
          ML  S  +T  +  + VELKN  +  G L S D ++N+ L  +     D  K+  M    
Sbjct: 1  MLFYSFFKTLIDTEVTVELKNDMSIRGILKSVDQFLNVKLENISVV--DASKYPHMAAVK 58

Query: 58 ECYIRGSTIKYLRIPDEVIDMV 79
          + +IRGS ++Y+ +    +D +
Sbjct: 59 DLFIRGSVVRYVHMSSAYVDTI 80


>SPBC3E7.14 |smf1|SPBC4F6.01|Sm snRNP core protein
          Smf1|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 78

 Score = 33.5 bits (73), Expect = 0.012
 Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 3/52 (5%)

Query: 3  PLSLLRTAQNHPMLVELKNGETYNGHLVSCDNWMN---INLREVICTSRDGD 51
          P   L+     P+LV LK G+ Y G L S D++MN   +N  E++   + GD
Sbjct: 8  PKPFLQGLIGKPVLVRLKWGQEYKGTLQSVDSYMNLQLLNAEELVDGVKTGD 59


>SPAC2F3.17c |lsm6||U6 snRNP-associated protein
          Lsm6|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 75

 Score = 29.5 bits (63), Expect = 0.20
 Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 3  PLSLLRTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECYIR 62
          P   L       +L+ L +G  Y G L   D +MN+ L E      +G K     + +IR
Sbjct: 5  PNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLAL-ERTEEYVNGKKTNVYGDAFIR 63

Query: 63 GSTIKYLRIPDE 74
          G+ + Y+   D+
Sbjct: 64 GNNVLYVSALDD 75


>SPAC26A3.08 |smb1|smb|Sm snRNP core protein
          Smb1|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 147

 Score = 29.5 bits (63), Expect = 0.20
 Identities = 12/31 (38%), Positives = 20/31 (64%)

Query: 12 NHPMLVELKNGETYNGHLVSCDNWMNINLRE 42
          NH + V  K+G T+ G L++ D +MN+ L +
Sbjct: 11 NHSLNVTTKDGRTFVGQLLAFDGFMNLVLSD 41


>SPBC20F10.09 |lsm5||U6 snRNP-associated protein
          Lsm5|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 80

 Score = 27.9 bits (59), Expect = 0.61
 Identities = 14/43 (32%), Positives = 25/43 (58%)

Query: 1  MLPLSLLRTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREV 43
          +LPL L+       + V +K+   + G LV  D+++NI L++V
Sbjct: 5  ILPLELIDKCIGSNLWVIMKSEREFAGTLVGFDDYVNIVLKDV 47


>SPBC21D10.09c |||ubiquitin-protein ligase E3 |Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 1610

 Score = 25.8 bits (54), Expect = 2.5
 Identities = 10/26 (38%), Positives = 14/26 (53%)

Query: 48  RDGDKFWRMPECYIRGSTIKYLRIPD 73
           RD   F    ECY +G  +K++R  D
Sbjct: 925 RDAGIFVESFECYFKGEVVKFMRDKD 950


>SPAC13A11.05 |||peptidase family M17|Schizosaccharomyces pombe|chr
           1|||Manual
          Length = 513

 Score = 25.4 bits (53), Expect = 3.3
 Identities = 21/55 (38%), Positives = 26/55 (47%), Gaps = 11/55 (20%)

Query: 15  MLVELKNGETYNGHLVSCDN-WMNINLREVICTSRD-GDKFWRMP--ECYIRGST 65
           MLV L  G  + G  V  +  W N+        S D GD FWRMP  E Y++  T
Sbjct: 395 MLVAL--GNVFTGAFVQGEELWKNLET-----ASHDAGDLFWRMPFHEAYLKQLT 442


>SPBC9B6.05c |lsm3||U6 snRNP-associated protein
          Lsm3|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 93

 Score = 24.6 bits (51), Expect = 5.7
 Identities = 12/38 (31%), Positives = 21/38 (55%)

Query: 3  PLSLLRTAQNHPMLVELKNGETYNGHLVSCDNWMNINL 40
          PL L+R + +  + V+L+     NG L + D  +N+ L
Sbjct: 10 PLDLVRLSLDEIVYVKLRGDRELNGRLHAYDEHLNMVL 47


>SPBC4B4.05 |smg1||Sm snRNP core protein Smg1|Schizosaccharomyces
          pombe|chr 2|||Manual
          Length = 77

 Score = 24.2 bits (50), Expect = 7.5
 Identities = 17/69 (24%), Positives = 33/69 (47%), Gaps = 1/69 (1%)

Query: 7  LRTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECYIRGSTI 66
          L+   +  + V+L       G L   D ++NI L + I    DG+K  ++    IRG+++
Sbjct: 9  LKKYLDRQVFVQLNGSRKVYGVLRGYDIFLNIVLEDSIEEKVDGEKV-KIGSVAIRGNSV 67

Query: 67 KYLRIPDEV 75
            +   D++
Sbjct: 68 IMIETLDKM 76


>SPAC13G7.01c |erg7|SPAC4G9.21c|lanosterol synthase Erg7
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 721

 Score = 23.8 bits (49), Expect = 9.9
 Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 5/60 (8%)

Query: 4   LSLLRTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDG-----DKFWRMPE 58
           L +L     HP+    +N     G  + C +W    L  + C   DG      + W +P+
Sbjct: 158 LRILGMDAGHPVATRARNRLHELGGAIGCPHWGKFWLATLNCYDWDGVNPIPPELWLLPD 217


>SPAC644.16 |||RNA-binding protein|Schizosaccharomyces pombe|chr
          1|||Manual
          Length = 422

 Score = 23.8 bits (49), Expect = 9.9
 Identities = 10/31 (32%), Positives = 16/31 (51%)

Query: 57 PECYIRGSTIKYLRIPDEVIDMVKEETQVKA 87
          P C +    I Y    ++VID+ K+   VK+
Sbjct: 3  PSCVVYVGNIPYEMAEEQVIDIFKQSGPVKS 33


  Database: spombe
    Posted date:  Oct 3, 2007  3:31 PM
  Number of letters in database: 2,362,478
  Number of sequences in database:  5004
  
Lambda     K      H
   0.318    0.134    0.405 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 518,159
Number of Sequences: 5004
Number of extensions: 18062
Number of successful extensions: 47
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 32
Number of HSP's gapped (non-prelim): 15
length of query: 139
length of database: 2,362,478
effective HSP length: 66
effective length of query: 73
effective length of database: 2,032,214
effective search space: 148351622
effective search space used: 148351622
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)
S2: 49 (23.8 bits)