Bombyx 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= wdS20513
         (675 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

At5g58420.1 68418.m07315 40S ribosomal protein S4 (RPS4D) riboso...   138   4e-33
At5g07090.1 68418.m00804 40S ribosomal protein S4 (RPS4B)             138   4e-33
At2g17360.1 68415.m02005 40S ribosomal protein S4 (RPS4A) contai...   138   4e-33
At4g10710.1 68417.m01751 transcriptional regulator-related simil...    31   0.70 
At5g61460.1 68418.m07712 structural maintenance of chromosomes (...    27   8.7  
At2g38570.1 68415.m04738 expressed protein ; expression supporte...    27   8.7  

>At5g58420.1 68418.m07315 40S ribosomal protein S4 (RPS4D) ribosomal
           protein S4, Arabidopsis thaliana, PIR:T48480
          Length = 262

 Score =  138 bits (333), Expect = 4e-33
 Identities = 62/83 (74%), Positives = 69/83 (83%)
 Frame = +1

Query: 256 DGKVRTDPTYPAGFMDVVSIEKTNELFRLIYDVKGRFTIHRITPEEAKYKLCKVKRVATG 435
           DGKVRTD TYPAGFMDVVSI KTNE FRL+YD KGRF +H I  EEAK+KLCKV+ +  G
Sbjct: 73  DGKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIKDEEAKFKLCKVRSIQFG 132

Query: 436 PKNVPYLVTHDGRTIRYPDPLIK 504
            K +PYL T+DGRTIRYPDPLIK
Sbjct: 133 QKGIPYLNTYDGRTIRYPDPLIK 155



 Score =  109 bits (261), Expect = 2e-24
 Identities = 48/60 (80%), Positives = 53/60 (88%)
 Frame = +3

Query: 42  MARGPKKHLKRLNAPKAWMLDKLGGVYAPRPSTGPHKLRECLPLVIFLRNRLKYALTGNE 221
           MARG KKHLKRLNAPK WMLDKLGG +AP+PS+GPHK RECLPLV+ +RNRLKYALT  E
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYRE 60



 Score = 58.0 bits (134), Expect = 5e-09
 Identities = 24/44 (54%), Positives = 34/44 (77%)
 Frame = +3

Query: 486 PRPTYQSHDSIQLDIATTKIMDFIKFESGNLCMITGGRNLGRVG 617
           P P  + +D+I+LD+   KI++FIKF+ GN+ M+TGGRN GRVG
Sbjct: 150 PDPLIKPNDTIKLDLEANKIVEFIKFDVGNVVMVTGGRNRGRVG 193



 Score = 31.5 bits (68), Expect = 0.53
 Identities = 12/23 (52%), Positives = 17/23 (73%)
 Frame = +2

Query: 605 GACGHIVSRERHPGSFDIVHIKD 673
           G  G I +RE+H GSF+ +HI+D
Sbjct: 190 GRVGVIKNREKHKGSFETIHIQD 212


>At5g07090.1 68418.m00804 40S ribosomal protein S4 (RPS4B)
          Length = 262

 Score =  138 bits (333), Expect = 4e-33
 Identities = 62/83 (74%), Positives = 69/83 (83%)
 Frame = +1

Query: 256 DGKVRTDPTYPAGFMDVVSIEKTNELFRLIYDVKGRFTIHRITPEEAKYKLCKVKRVATG 435
           DGKVRTD TYPAGFMDVVSI KTNE FRL+YD KGRF +H I  EEAK+KLCKV+ +  G
Sbjct: 73  DGKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIKDEEAKFKLCKVRSIQFG 132

Query: 436 PKNVPYLVTHDGRTIRYPDPLIK 504
            K +PYL T+DGRTIRYPDPLIK
Sbjct: 133 QKGIPYLNTYDGRTIRYPDPLIK 155



 Score =  109 bits (261), Expect = 2e-24
 Identities = 48/60 (80%), Positives = 53/60 (88%)
 Frame = +3

Query: 42  MARGPKKHLKRLNAPKAWMLDKLGGVYAPRPSTGPHKLRECLPLVIFLRNRLKYALTGNE 221
           MARG KKHLKRLNAPK WMLDKLGG +AP+PS+GPHK RECLPLV+ +RNRLKYALT  E
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYRE 60



 Score = 57.6 bits (133), Expect = 7e-09
 Identities = 24/44 (54%), Positives = 34/44 (77%)
 Frame = +3

Query: 486 PRPTYQSHDSIQLDIATTKIMDFIKFESGNLCMITGGRNLGRVG 617
           P P  + +D+I+LD+   KI++FIKF+ GN+ M+TGGRN GRVG
Sbjct: 150 PDPLIKPNDTIKLDLEENKIVEFIKFDVGNVVMVTGGRNRGRVG 193



 Score = 31.5 bits (68), Expect = 0.53
 Identities = 12/23 (52%), Positives = 17/23 (73%)
 Frame = +2

Query: 605 GACGHIVSRERHPGSFDIVHIKD 673
           G  G I +RE+H GSF+ +HI+D
Sbjct: 190 GRVGVIKNREKHKGSFETIHIQD 212


>At2g17360.1 68415.m02005 40S ribosomal protein S4 (RPS4A) contains
           ribosomal protein S4 signature from residues 8 to 22
          Length = 261

 Score =  138 bits (333), Expect = 4e-33
 Identities = 62/83 (74%), Positives = 69/83 (83%)
 Frame = +1

Query: 256 DGKVRTDPTYPAGFMDVVSIEKTNELFRLIYDVKGRFTIHRITPEEAKYKLCKVKRVATG 435
           DGKVRTD TYPAGFMDVVSI KTNE FRL+YD KGRF +H I  EEAK+KLCKV+ +  G
Sbjct: 73  DGKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIKDEEAKFKLCKVRSIQFG 132

Query: 436 PKNVPYLVTHDGRTIRYPDPLIK 504
            K +PYL T+DGRTIRYPDPLIK
Sbjct: 133 QKGIPYLNTYDGRTIRYPDPLIK 155



 Score =  109 bits (261), Expect = 2e-24
 Identities = 48/60 (80%), Positives = 53/60 (88%)
 Frame = +3

Query: 42  MARGPKKHLKRLNAPKAWMLDKLGGVYAPRPSTGPHKLRECLPLVIFLRNRLKYALTGNE 221
           MARG KKHLKRLNAPK WMLDKLGG +AP+PS+GPHK RECLPLV+ +RNRLKYALT  E
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYRE 60



 Score = 57.6 bits (133), Expect = 7e-09
 Identities = 24/44 (54%), Positives = 34/44 (77%)
 Frame = +3

Query: 486 PRPTYQSHDSIQLDIATTKIMDFIKFESGNLCMITGGRNLGRVG 617
           P P  + +D+I+LD+   KI++FIKF+ GN+ M+TGGRN GRVG
Sbjct: 150 PDPLIKPNDTIKLDLEENKIVEFIKFDVGNVVMVTGGRNRGRVG 193



 Score = 31.5 bits (68), Expect = 0.53
 Identities = 12/23 (52%), Positives = 17/23 (73%)
 Frame = +2

Query: 605 GACGHIVSRERHPGSFDIVHIKD 673
           G  G I +RE+H GSF+ +HI+D
Sbjct: 190 GRVGVIKNREKHKGSFETIHIQD 212


>At4g10710.1 68417.m01751 transcriptional regulator-related similar
           to chromatin-specific transcription elongation factor
           FACT 140 kDa subunit (GI:5499741) [Homo sapiens]
          Length = 1074

 Score = 31.1 bits (67), Expect = 0.70
 Identities = 12/27 (44%), Positives = 16/27 (59%)
 Frame = -3

Query: 166 KHSRNLWGPVDGLGAYTPPSLSNIHAL 86
           KHS +LWG  D L   TPP+  ++  L
Sbjct: 44  KHSADLWGSADALAIATPPASDDLRYL 70


>At5g61460.1 68418.m07712 structural maintenance of chromosomes
           (SMC) family protein very strong similarity to SMC-like
           protein (MIM) [Arabidopsis thaliana] GI:5880614;
           contains Pfam profile PF02463: RecF/RecN/SMC N terminal
           domain
          Length = 1057

 Score = 27.5 bits (58), Expect = 8.7
 Identities = 10/29 (34%), Positives = 16/29 (55%)
 Frame = +2

Query: 575 LVYDHGRP*LGACGHIVSRERHPGSFDIV 661
           ++YD  RP L    H+V +  HP  F ++
Sbjct: 532 IIYDFSRPRLNIPRHMVPQTEHPTIFSVI 560


>At2g38570.1 68415.m04738 expressed protein ; expression supported
           by MPSS
          Length = 302

 Score = 27.5 bits (58), Expect = 8.7
 Identities = 12/28 (42%), Positives = 17/28 (60%)
 Frame = +3

Query: 537 TKIMDFIKFESGNLCMITGGRNLGRVGT 620
           T I+ +IK   G   +  GGRN+G+V T
Sbjct: 196 TYILVYIKISVGYRVVTPGGRNIGKVST 223


  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: 16,019,244
Number of Sequences: 28952
Number of extensions: 344868
Number of successful extensions: 914
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 875
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): 914
length of database: 12,070,560
effective HSP length: 78
effective length of database: 9,812,304
effective search space used: 1432596384
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)