GeneModel 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= BGIBMGA005307-TA|BGIBMGA005307-PA|IPR000504|RNA-binding region
RNP-1 (RNA recognition motif)
         (137 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPBC902.04 |||RNA-binding protein|Schizosaccharomyces pombe|chr ...    42   5e-05
SPAC2F7.11 |nrd1|msa2|RNA-binding protein Nrd1|Schizosaccharomyc...    29   0.26 
SPBC4F6.14 |||RNA-binding protein|Schizosaccharomyces pombe|chr ...    29   0.34 
SPCC74.09 |mug24||RNA-binding protein, rrm type|Schizosaccharomy...    29   0.34 
SPAC3A12.11c |cwf2|prp3|RNA-binding protein Cwf2|Schizosaccharom...    26   1.8  
SPAC17A2.09c |csx1||RNA-binding protein Csx1|Schizosaccharomyces...    26   2.4  
SPBC1861.04c |||RNA-binding protein Prp24|Schizosaccharomyces po...    25   4.2  
SPCC550.02c |cwf5|ecm2|RNA-binding protein Cwf5|Schizosaccharomy...    24   7.3  
SPAC1610.03c |crp79|meu5|poly|Schizosaccharomyces pombe|chr 1|||...    24   7.3  
SPCC31H12.03c |||transcriptional regulator|Schizosaccharomyces p...    24   7.3  

>SPBC902.04 |||RNA-binding protein|Schizosaccharomyces pombe|chr
           2|||Manual
          Length = 589

 Score = 41.5 bits (93), Expect = 5e-05
 Identities = 19/75 (25%), Positives = 37/75 (49%), Gaps = 3/75 (4%)

Query: 3   PGPAFPRKVPKSPGVEPFGNPKSSITCSNVPDDLFEAATAKKHFSKFGRVQKIRLFPKKQ 62
           P P    +  ++ G +P     +++   N+P++ F     +  FSKFG ++K+ L P   
Sbjct: 223 PQPHLGHRFSRNAGNDP---TSTALEVRNIPEEHFNEENIRSFFSKFGVLEKVELNPTHH 279

Query: 63  MCIVEYEEPVSAERA 77
            C++E+    +A  A
Sbjct: 280 SCVLEFTSHEAANNA 294


>SPAC2F7.11 |nrd1|msa2|RNA-binding protein Nrd1|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 529

 Score = 29.1 bits (62), Expect = 0.26
 Identities = 16/68 (23%), Positives = 28/68 (41%), Gaps = 1/68 (1%)

Query: 11  VPKSPGVEPFGNPKSSITCSNVPDDLFEAATAKKHFSKFGRVQKIRLFPKKQMCIVEYEE 70
           +P +  +   G    +I   N  DD       K+ F +FG ++ +  F +K    V +  
Sbjct: 400 LPSNIALAVAGGASRNIYIGNA-DDSLTIERLKEDFEEFGEIEYVNFFREKNCAFVNFTS 458

Query: 71  PVSAERAV 78
             SA  A+
Sbjct: 459 LASAINAI 466



 Score = 26.2 bits (55), Expect = 1.8
 Identities = 11/27 (40%), Positives = 16/27 (59%)

Query: 50  GRVQKIRLFPKKQMCIVEYEEPVSAER 76
           G +  IR   +K +C V + +PVSA R
Sbjct: 346 GLLHNIRYLQEKHICFVTFVDPVSAFR 372


>SPBC4F6.14 |||RNA-binding protein|Schizosaccharomyces pombe|chr
           2|||Manual
          Length = 674

 Score = 28.7 bits (61), Expect = 0.34
 Identities = 21/63 (33%), Positives = 35/63 (55%), Gaps = 7/63 (11%)

Query: 31  NVPDDLFEAATAKKHFSKFGRVQKIRLFPK--KQMC---IVEYEEPVSAERAV--LNAGA 83
           N+P  + +    + HFSKFG+V++I++  K   +MC    V  ++  +AE A+  LN   
Sbjct: 113 NLPWSIKKPQHLEPHFSKFGKVREIKIPTKGGGRMCGFAFVWMKDRKAAEEAMNSLNGTE 172

Query: 84  FDG 86
            DG
Sbjct: 173 IDG 175


>SPCC74.09 |mug24||RNA-binding protein, rrm type|Schizosaccharomyces
           pombe|chr 3|||Manual
          Length = 654

 Score = 28.7 bits (61), Expect = 0.34
 Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 4/65 (6%)

Query: 7   FPRKVPKSPGVEPF-GNPKSS--ITCSNVPDDLFEAATAKKHFSKFGRVQKIRLFPKKQM 63
           F R  P    ++ F  N  +S  +   N+P    E    ++ F KFG+++ I++  KK +
Sbjct: 278 FARPSPLPESIQNFCSNTAASRNVFIGNLPSSYHEKEI-EEAFGKFGKIEHIKILSKKNI 336

Query: 64  CIVEY 68
             V +
Sbjct: 337 AFVHF 341


>SPAC3A12.11c |cwf2|prp3|RNA-binding protein
           Cwf2|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 388

 Score = 26.2 bits (55), Expect = 1.8
 Identities = 11/44 (25%), Positives = 26/44 (59%), Gaps = 2/44 (4%)

Query: 34  DDLFEAATAKKHFSKFGRVQKIRLFPKKQMCIVEYEEPVSAERA 77
           DD+ E  +  +HF+++G +++IR+   + +  + Y    +A+ A
Sbjct: 185 DDIEEIVS--RHFAEWGDIERIRVLNSRGIAFITYLNEANAQFA 226


>SPAC17A2.09c |csx1||RNA-binding protein Csx1|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 632

 Score = 25.8 bits (54), Expect = 2.4
 Identities = 12/33 (36%), Positives = 19/33 (57%)

Query: 46  FSKFGRVQKIRLFPKKQMCIVEYEEPVSAERAV 78
           F  FGR+  I++   K    V+Y E  +AE+A+
Sbjct: 317 FQPFGRILNIKIPFGKGCGFVQYSEKSAAEKAI 349


>SPBC1861.04c |||RNA-binding protein Prp24|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 1014

 Score = 25.0 bits (52), Expect = 4.2
 Identities = 14/54 (25%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 26  SITCSNVPDDLFEAATAKKHFSKFGRVQKIRLFPKKQMCIVEYEEPVSAERAVL 79
           S+  +NV D     A  +  F  +G++ ++ L P+ +  +VE+ +   A +A L
Sbjct: 875 SLGVTNV-DGTVNEARLRSLFESYGKLYRVVLHPEHEGAVVEFLDIHDAGKASL 927


>SPCC550.02c |cwf5|ecm2|RNA-binding protein Cwf5|Schizosaccharomyces
           pombe|chr 3|||Manual
          Length = 354

 Score = 24.2 bits (50), Expect = 7.3
 Identities = 23/93 (24%), Positives = 42/93 (45%), Gaps = 6/93 (6%)

Query: 11  VPKSPGVEPFGNPK-SSITCSNVPDDLFEAATAKKHFSKFGRVQKIRLFPKKQMCIVEYE 69
           V  S  +EP  + K +S+    V D+L +    +KHF ++G ++ +    + +   V ++
Sbjct: 197 VSLSINMEPPKDKKIASLFLIGVEDELADYKI-RKHFEQYGPLKSVVCSHRAKCAFVNFK 255

Query: 70  EPVSAERAVLNAG----AFDGFMFDVTRSKQRT 98
              SAE A   +       +GF   V   K R+
Sbjct: 256 TRSSAEIAAAASPDGNVVIEGFRLKVQWGKPRS 288


>SPAC1610.03c |crp79|meu5|poly|Schizosaccharomyces pombe|chr
          1|||Manual
          Length = 710

 Score = 24.2 bits (50), Expect = 7.3
 Identities = 12/36 (33%), Positives = 20/36 (55%), Gaps = 1/36 (2%)

Query: 20 FGNPKSSITCSNVPDDLFEAATAKKHFSKFGRVQKI 55
          + +  S+I   N+   L +    K HFSK+G+V+ I
Sbjct: 12 YEDESSTIYVGNIDSRLSDEEIIK-HFSKYGQVESI 46


>SPCC31H12.03c |||transcriptional regulator|Schizosaccharomyces
           pombe|chr 3|||Manual
          Length = 245

 Score = 24.2 bits (50), Expect = 7.3
 Identities = 11/25 (44%), Positives = 14/25 (56%)

Query: 30  SNVPDDLFEAATAKKHFSKFGRVQK 54
           SN+ DD  EA  A+K   +FG   K
Sbjct: 220 SNILDDPIEAEKARKRAERFGVAAK 244


  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    0.391 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 590,262
Number of Sequences: 5004
Number of extensions: 20924
Number of successful extensions: 64
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 55
Number of HSP's gapped (non-prelim): 11
length of query: 137
length of database: 2,362,478
effective HSP length: 66
effective length of query: 71
effective length of database: 2,032,214
effective search space: 144287194
effective search space used: 144287194
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)