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= bmnc12a12
         (712 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC27D7.07c |smd1||Sm snRNP core protein Smd1|Schizosaccharomyc...   116   3e-27
SPBC19C2.14 |smd3||Sm snRNP core protein Smd3|Schizosaccharomyce...    44   3e-05
SPBC30D10.06 |lsm4||U6 snRNP-associated protein Lsm4|Schizosacch...    38   0.001
SPCC1620.01c |lsm2||U6 snRNP-associated protein core protein|Sch...    35   0.010
SPCC1393.08 |||transcription factor, zf-GATA type |Schizosacchar...    32   0.070
SPBC4B4.05 |smg1||Sm snRNP core protein Smg1|Schizosaccharomyces...    31   0.21 
SPCC290.03c |nup186||nucleoporin Nup186|Schizosaccharomyces pomb...    30   0.38 
SPAC2F3.17c |lsm6||U6 snRNP-associated protein Lsm6|Schizosaccha...    29   0.50 
SPBC3E7.14 |smf1|SPBC4F6.01|Sm snRNP core protein Smf1|Schizosac...    29   0.66 
SPBC16D10.02 |trm11||tRNA |Schizosaccharomyces pombe|chr 2|||Manual    29   0.87 
SPAC1399.01c |||purine permease |Schizosaccharomyces pombe|chr 1...    29   0.87 
SPBC1348.06c |||conserved fungal protein|Schizosaccharomyces pom...    26   4.6  
SPBPB2B2.15 |||conserved fungal protein|Schizosaccharomyces pomb...    26   4.6  
SPAC977.05c |||conserved fungal protein|Schizosaccharomyces pomb...    26   4.6  

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

 Score =  116 bits (280), Expect = 3e-27
 Identities = 56/86 (65%), Positives = 68/86 (79%)
 Frame = +1

Query: 106 MKLVRFLMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSI 285
           MKLVRFLMKL++ETV+IELKNG++VHGTIT VD+ MNTHLKAVK+T+K RE + +ETLSI
Sbjct: 1   MKLVRFLMKLTNETVSIELKNGTIVHGTITSVDMQMNTHLKAVKMTVKGREPVPVETLSI 60

Query: 286 RGNNIRYHXXXXXXXXXXXXIDDTPK 363
           RGNNIRY+            IDD+ K
Sbjct: 61  RGNNIRYYILPDSLPLDTLLIDDSTK 86


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

 Score = 43.6 bits (98), Expect = 3e-05
 Identities = 23/64 (35%), Positives = 38/64 (59%), Gaps = 4/64 (6%)
 Frame = +1

Query: 127 MKLSHET----VTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGN 294
           +KL HET    VT+EL+NGS   G +   +  MN  ++ + VT ++     L+ + IRG+
Sbjct: 5   IKLLHETQGHIVTMELENGSTYRGKLIEAEDNMNCQMRDISVTARDGRVSHLDQVYIRGS 64

Query: 295 NIRY 306
           +IR+
Sbjct: 65  HIRF 68


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

 Score = 37.9 bits (84), Expect = 0.001
 Identities = 20/54 (37%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
 Frame = +1

Query: 148 VTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREE-LQLETLSIRGNNIRY 306
           + +ELKNG   +G +   D  MN  L+ V  T+ + ++  +L    IRGNNI+Y
Sbjct: 15  ILVELKNGETFNGHLENCDNYMNLTLREVIRTMPDGDKFFRLPECYIRGNNIKY 68


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

 Score = 35.1 bits (77), Expect = 0.010
 Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 2/69 (2%)
 Frame = +1

Query: 106 MKLVRFLMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKV--TLKNREELQLETL 279
           M    F   L    VT+ELKN   + G +  VD  +N  L+ + V    K      ++ L
Sbjct: 1   MLFYSFFKTLIDTEVTVELKNDMSIRGILKSVDQFLNVKLENISVVDASKYPHMAAVKDL 60

Query: 280 SIRGNNIRY 306
            IRG+ +RY
Sbjct: 61  FIRGSVVRY 69


>SPCC1393.08 |||transcription factor, zf-GATA type
           |Schizosaccharomyces pombe|chr 3|||Manual
          Length = 557

 Score = 32.3 bits (70), Expect = 0.070
 Identities = 21/63 (33%), Positives = 30/63 (47%)
 Frame = -1

Query: 574 NKKHHENLIQSQISDLTYCDQVWLKIRFLSTGVRDLGLHDRLWGHRGHLGLCHDHLWRRR 395
           + K  ENL+ +  S       +W K R   T     GL+ RL GH   +GL  + + RRR
Sbjct: 410 SSKALENLVCANCSSTK--TSLWRKDRHGQTVCNACGLYARLHGHNRPIGLKKNKITRRR 467

Query: 394 RAQ 386
           R +
Sbjct: 468 RGK 470


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

 Score = 30.7 bits (66), Expect = 0.21
 Identities = 15/59 (25%), Positives = 32/59 (54%)
 Frame = +1

Query: 124 LMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGNNI 300
           L K     V ++L     V+G + G D+ +N  L+       + E++++ +++IRGN++
Sbjct: 9   LKKYLDRQVFVQLNGSRKVYGVLRGYDIFLNIVLEDSIEEKVDGEKVKIGSVAIRGNSV 67


>SPCC290.03c |nup186||nucleoporin Nup186|Schizosaccharomyces
           pombe|chr 3|||Manual
          Length = 1647

 Score = 29.9 bits (64), Expect = 0.38
 Identities = 14/41 (34%), Positives = 25/41 (60%)
 Frame = +1

Query: 127 MKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLK 249
           ++LSHE    EL+  SV+   +  VD+  N+H +++ V L+
Sbjct: 208 IRLSHEAHVAELETISVILYQLAKVDLFQNSHFESLLVMLR 248


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

 Score = 29.5 bits (63), Expect = 0.50
 Identities = 18/62 (29%), Positives = 30/62 (48%)
 Frame = +1

Query: 121 FLMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGNNI 300
           FL K+  + V I L +G    G ++ +D  MN  L+  +  +  ++        IRGNN+
Sbjct: 8   FLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYVNGKKTNVYGDAFIRGNNV 67

Query: 301 RY 306
            Y
Sbjct: 68  LY 69


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

 Score = 29.1 bits (62), Expect = 0.66
 Identities = 19/60 (31%), Positives = 27/60 (45%)
 Frame = +1

Query: 121 FLMKLSHETVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGNNI 300
           FL  L  + V + LK G    GT+  VD  MN  L   +  +   +   L  + IR NN+
Sbjct: 11  FLQGLIGKPVLVRLKWGQEYKGTLQSVDSYMNLQLLNAEELVDGVKTGDLGEILIRCNNV 70


>SPBC16D10.02 |trm11||tRNA |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 452

 Score = 28.7 bits (61), Expect = 0.87
 Identities = 16/71 (22%), Positives = 32/71 (45%), Gaps = 1/71 (1%)
 Frame = +3

Query: 150 HYRVEKRQCRSWNNYRGGCRYEHTFXXXXXXXXXXXXTTI-GDLEYTREQYPISSTSRQS 326
           H ++++     W++++    Y+ TF             +I  D EY + Q P+S  + Q 
Sbjct: 115 HEKMKELNPAPWDSFKHNSSYKFTFETFGTRRTMKEQLSIISDFEYMQLQGPVSMHNPQH 174

Query: 327 AFRDFVDRRHS 359
            F    +RR++
Sbjct: 175 VFTVLENRRNN 185


>SPAC1399.01c |||purine permease |Schizosaccharomyces pombe|chr
           1|||Manual
          Length = 601

 Score = 28.7 bits (61), Expect = 0.87
 Identities = 18/50 (36%), Positives = 25/50 (50%)
 Frame = -3

Query: 266 CSSSRFFNVTFTAFKCVFIATSTPVIVP*TTLPFFNSIVTVSWLSFIKNL 117
           C+   FF   F  F  VF+A  +PV+   TT  F  S V VS ++ I  +
Sbjct: 426 CAVILFFMGLFAKFAAVFVAIPSPVLGGMTT--FLFSSVAVSGIAIISQI 473


>SPBC1348.06c |||conserved fungal protein|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 203

 Score = 26.2 bits (55), Expect = 4.6
 Identities = 12/50 (24%), Positives = 25/50 (50%)
 Frame = -3

Query: 296 LFPRILKVSNCSSSRFFNVTFTAFKCVFIATSTPVIVP*TTLPFFNSIVT 147
           L PR+  ++   ++ F  +TFT     ++ T  P  +    +PF N++ +
Sbjct: 78  LIPRLFTIAENDTANFTPLTFT----TYLKTCNPQSIENAMIPFVNTVTS 123


>SPBPB2B2.15 |||conserved fungal protein|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 203

 Score = 26.2 bits (55), Expect = 4.6
 Identities = 12/50 (24%), Positives = 25/50 (50%)
 Frame = -3

Query: 296 LFPRILKVSNCSSSRFFNVTFTAFKCVFIATSTPVIVP*TTLPFFNSIVT 147
           L PR+  ++   ++ F  +TFT     ++ T  P  +    +PF N++ +
Sbjct: 78  LIPRLFTIAENDTANFTPLTFT----TYLKTCNPQSIENAMIPFVNTVTS 123


>SPAC977.05c |||conserved fungal protein|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 204

 Score = 26.2 bits (55), Expect = 4.6
 Identities = 12/50 (24%), Positives = 25/50 (50%)
 Frame = -3

Query: 296 LFPRILKVSNCSSSRFFNVTFTAFKCVFIATSTPVIVP*TTLPFFNSIVT 147
           L PR+  ++   ++ F  +TFT     ++ T  P  +    +PF N++ +
Sbjct: 79  LIPRLFTIAENDTANFTPLTFT----TYLKTCNPQSIENAMIPFVNTVTS 124


  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: 2,448,716
Number of Sequences: 5004
Number of extensions: 43469
Number of successful extensions: 95
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 91
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): 95
length of database: 2,362,478
effective HSP length: 71
effective length of database: 2,007,194
effective search space used: 331187010
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)