Silkworm BLAST Result against arabidopsis

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= wdS00004
         (783 letters)

Database: arabidopsis 
           28,952 sequences; 12,070,560 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

At5g23410.1 68418.m02745 expressed protein similar to Adagio 3 [...    30   1.5  
At4g11550.1 68417.m01852 DC1 domain-containing protein contains ...    29   3.5  
At3g10845.1 68416.m01306 RNA recognition motif (RRM)-containing ...    29   3.5  
At4g13350.2 68417.m02088 human Rev interacting-like protein-rela...    28   8.0  
At4g13350.1 68417.m02087 human Rev interacting-like protein-rela...    28   8.0  
At1g68050.1 68414.m07774 F-box family protein (FKF1) / adagio 3 ...    28   8.0  

>At5g23410.1 68418.m02745 expressed protein similar to Adagio 3
           [Arabidopsis thaliana] GI:13487072/FKF1 [Arabidopsis
           thaliana] GI:6960305
          Length = 84

 Score = 30.3 bits (65), Expect = 1.5
 Identities = 12/26 (46%), Positives = 16/26 (61%)
 Frame = +2

Query: 206 CVLNGTRLLLLEKHNSCSWFMQSLCE 283
           CV+ GTR+L+L  HN   W +  L E
Sbjct: 48  CVVGGTRVLVLGGHNGEEWILNELHE 73


>At4g11550.1 68417.m01852 DC1 domain-containing protein contains
           Pfam profile PF03107: DC1 domain
          Length = 668

 Score = 29.1 bits (62), Expect = 3.5
 Identities = 14/51 (27%), Positives = 23/51 (45%)
 Frame = -1

Query: 276 RDCINQEHELCFSKSNNLVPLRTQSKSQHELGFCRMKTKNHLFQCWIMLFH 124
           R C+    E     S+++ PL+ QSK  H    C  +  +  + C I  F+
Sbjct: 52  RKCVEDSSEYIEHPSHSVHPLKLQSKPDHICDICDKRIVDLCYHCEICDFN 102


>At3g10845.1 68416.m01306 RNA recognition motif (RRM)-containing
           protein similar to SP|P42731 Polyadenylate-binding
           protein 2 (Poly(A) binding protein 2) (PABP 2)
           {Arabidopsis thaliana}; contains INTERPRO:IPR000504
           RNA-binding region RNP-1 (RNA recognition motif) domain
          Length = 423

 Score = 29.1 bits (62), Expect = 3.5
 Identities = 17/43 (39%), Positives = 24/43 (55%)
 Frame = -3

Query: 169 EDEEPSVSVLDNVIPPSNLSPWQA*IKNSFGFPARVGHLSAVK 41
           EDE P     + V+  +NLSP Q  I + FGF   VG + +V+
Sbjct: 116 EDETPPADFAEEVLFVANLSP-QTKILDIFGFCQDVGEVVSVR 157


>At4g13350.2 68417.m02088 human Rev interacting-like protein-related
           / hRIP protein-related similar to SP|P52594
           Nucleoporin-like protein RIP (HIV-1 Rev-binding protein)
           (Rev interacting protein) (Rev/Rex activation
           domain-binding protein) {Homo sapiens}; contains Pfam
           profile PF01412: Putative GTPase activating protein for
           Arf
          Length = 602

 Score = 27.9 bits (59), Expect = 8.0
 Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
 Frame = -3

Query: 169 EDEEPSVSVLDNVIPPSNLSPWQA*IKNSFGFPAR-VGHLSAV 44
           E+  PS++ L   +PPS + P Q  + N F  P++   H SA+
Sbjct: 501 ENMFPSMAPLQGALPPSGMMPSQG-VHNQFNIPSQGSAHPSAM 542


>At4g13350.1 68417.m02087 human Rev interacting-like protein-related
           / hRIP protein-related similar to SP|P52594
           Nucleoporin-like protein RIP (HIV-1 Rev-binding protein)
           (Rev interacting protein) (Rev/Rex activation
           domain-binding protein) {Homo sapiens}; contains Pfam
           profile PF01412: Putative GTPase activating protein for
           Arf
          Length = 602

 Score = 27.9 bits (59), Expect = 8.0
 Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
 Frame = -3

Query: 169 EDEEPSVSVLDNVIPPSNLSPWQA*IKNSFGFPAR-VGHLSAV 44
           E+  PS++ L   +PPS + P Q  + N F  P++   H SA+
Sbjct: 501 ENMFPSMAPLQGALPPSGMMPSQG-VHNQFNIPSQGSAHPSAM 542


>At1g68050.1 68414.m07774 F-box family protein (FKF1) / adagio 3
           (ADO3) E3 ubiquitin ligase SCF complex F-box subunit;
           identical to FKF1 GI:6960305 and Adagio 3 GI:13487072
           from [Arabidopsis thaliana]; contains Pfam profiles
           PF01344: Kelch motif, PF00785: PAC motif and PF00646:
           F-box domain; contains TIGRfam profile TIGR00229: PAS
           domain S-boxidentical to cDNA Adagio 3 (ADO3)
           GI:13487071
          Length = 619

 Score = 27.9 bits (59), Expect = 8.0
 Identities = 11/26 (42%), Positives = 15/26 (57%)
 Frame = +2

Query: 206 CVLNGTRLLLLEKHNSCSWFMQSLCE 283
           CV+ GTR+L+L  H    W +  L E
Sbjct: 583 CVVGGTRVLVLGGHTGEEWILNELHE 608


  Database: arabidopsis
    Posted date:  Oct 4, 2007 10:56 AM
  Number of letters in database: 12,070,560
  Number of sequences in database:  28,952
  
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: 15,649,350
Number of Sequences: 28952
Number of extensions: 310919
Number of successful extensions: 634
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 621
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): 634
length of database: 12,070,560
effective HSP length: 80
effective length of database: 9,754,400
effective search space used: 1755792000
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)