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= BGIBMGA002000-TA|BGIBMGA002000-PA|IPR001628|Nuclear hormone
receptor, DNA-binding, IPR001723|Steroid hormone receptor,
IPR000324|Vitamin D receptor, IPR008946|Nuclear receptor,
ligand-binding, IPR000536|Nuclear hormone receptor, ligand-binding
         (384 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPCC895.05 |for3||formin For3|Schizosaccharomyces pombe|chr 3|||...    29   1.5  
SPBC1711.17 |prp16|SPBC17G9.01|ATP-dependent RNA helicase Prp16|...    28   2.5  
SPBC56F2.05c |||transcription factor |Schizosaccharomyces pombe|...    28   2.5  
SPBC1734.02c |cdc27|SPBC337.18c|DNA polymerase delta subunit Cdc...    27   4.4  

>SPCC895.05 |for3||formin For3|Schizosaccharomyces pombe|chr
           3|||Manual
          Length = 1461

 Score = 28.7 bits (61), Expect = 1.5
 Identities = 12/35 (34%), Positives = 17/35 (48%)

Query: 94  NSTIRRQMALFLKDPALPTPEMGLTVPPPLDLAVP 128
           + T+  Q  L LK P  P P + +  P P  + VP
Sbjct: 718 SDTVEEQQKLLLKSPPPPPPAVIVPTPAPAPIPVP 752


>SPBC1711.17 |prp16|SPBC17G9.01|ATP-dependent RNA helicase
           Prp16|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 1173

 Score = 27.9 bits (59), Expect = 2.5
 Identities = 32/120 (26%), Positives = 58/120 (48%), Gaps = 7/120 (5%)

Query: 253 EMFETSLAEIVKVHPDSNEYACLRAIVLFKTSFVDVNILCRGQSQIGSEYKRLQDLPAVA 312
           EMFET+L EI + +  SN    L+++ + + S  D + + R  +   +    L +L  + 
Sbjct: 837 EMFETTLPEIQRTNL-SNTVLILKSLGVEEIS--DFDFMDRPPND--TLMASLYELWTLG 891

Query: 313 ALQDHSQLVLNEYTTRTYPLDPSRLSQILQLLPVIKRVSNLI-IVELFFRATIGEIPIER 371
           AL +  +L         +P+DPS LS+++ +    K    +I IV +    ++   P ER
Sbjct: 892 ALDNFGKLTTLGKKMSLFPMDPS-LSKLIIIAEDYKCTEEIITIVSMLSVPSVFYRPKER 950


>SPBC56F2.05c |||transcription factor |Schizosaccharomyces pombe|chr
           2|||Manual
          Length = 397

 Score = 27.9 bits (59), Expect = 2.5
 Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 5/65 (7%)

Query: 110 LPTPEMGL-TVPPPLDLAVPKHNFMSPPQNSLFQHPYPFNRIHMINPSVVNISLKAPSPP 168
           + TP   + T P P  +A+P  N+  PP   + Q  YP N +  + PS V +     +P 
Sbjct: 10  ISTPSASVVTAPLPATIALPSPNYYYPP---VAQGHYPVNNMWSL-PSNVRVISSHGAPG 65

Query: 169 PITAA 173
             T+A
Sbjct: 66  HQTSA 70


>SPBC1734.02c |cdc27|SPBC337.18c|DNA polymerase delta subunit
           Cdc27|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 372

 Score = 27.1 bits (57), Expect = 4.4
 Identities = 28/122 (22%), Positives = 59/122 (48%), Gaps = 8/122 (6%)

Query: 235 LDLKILSEGN-ARIDSRDVEMFETS--LAEIVKVHPDSNEYACLRAIVLFKTSFVD--VN 289
           LD+K+++E +   +D+  +++  +S    E + +    N++  L  I L     +D  +N
Sbjct: 8   LDIKVINESSLVTVDNLSLQLDISSEKAQEYLNMFYQGNDF--LYPIYLIHGQPIDDEIN 65

Query: 290 ILCRGQSQIGSEYKRLQDLPA-VAALQDHSQLVLNEYTTRTYPLDPSRLSQILQLLPVIK 348
           +    +SQ  S +  LQ +    ++LQ+    + + Y T  + L  + LS   +LLP + 
Sbjct: 66  LEIDEESQPISNFPVLQYILCDKSSLQEKQSRLKSGYKTVIFALSSAPLSDFDELLPAVY 125

Query: 349 RV 350
            +
Sbjct: 126 EI 127


  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
   0.324    0.138    0.424 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 1,725,172
Number of Sequences: 5004
Number of extensions: 71306
Number of successful extensions: 220
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 219
Number of HSP's gapped (non-prelim): 4
length of query: 384
length of database: 2,362,478
effective HSP length: 74
effective length of query: 310
effective length of database: 1,992,182
effective search space: 617576420
effective search space used: 617576420
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 40 (21.5 bits)
S2: 55 (26.2 bits)