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= wdS20504
         (671 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...   127   8e-30
At5g07090.1 68418.m00804 40S ribosomal protein S4 (RPS4B)             126   1e-29
At2g17360.1 68415.m02005 40S ribosomal protein S4 (RPS4A) contai...   126   1e-29
At4g10710.1 68417.m01751 transcriptional regulator-related simil...    31   0.70 
At4g38880.1 68417.m05506 amidophosphoribosyltransferase, putativ...    28   4.9  
At3g56260.1 68416.m06252 expressed protein                             28   4.9  
At5g52440.1 68418.m06507 HCF106 protein identical to HCF106 [Ara...    27   8.6  

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

 Score =  127 bits (306), Expect = 8e-30
 Identities = 57/92 (61%), Positives = 70/92 (76%)
 Frame = +1

Query: 256 VSIEKTNELFRLIYDVKGRFTIHRITPEEAKYKLCKVKRVATGPKNVPYLVTHDGRTIRY 435
           VSI KTNE FRL+YD KGRF +H I  EEAK+KLCKV+ +  G K +PYL T+DGRTIRY
Sbjct: 90  VSIPKTNENFRLLYDTKGRFRLHSIKDEEAKFKLCKVRSIQFGQKGIPYLNTYDGRTIRY 149

Query: 436 PDPLIKVNDSIQLDIATTKIMDFISLSLGTCV 531
           PDPLIK ND+I+LD+   KI++FI   +G  V
Sbjct: 150 PDPLIKPNDTIKLDLEANKIVEFIKFDVGNVV 181



 Score =  102 bits (244), Expect = 2e-22
 Identities = 44/55 (80%), Positives = 49/55 (89%)
 Frame = +3

Query: 6   KKHLKRLNAPKAWMLDKLGGVYAPRPSTGPHKLRECLPLVIFLRNRLKYALTGNE 170
           KKHLKRLNAPK WMLDKLGG +AP+PS+GPHK RECLPLV+ +RNRLKYALT  E
Sbjct: 6   KKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYRE 60



 Score = 83.4 bits (197), Expect = 1e-16
 Identities = 35/55 (63%), Positives = 45/55 (81%)
 Frame = +3

Query: 507 QFESGNLCMITGGRNLGRVGTIVSRERHPGSFDIVHIKDSTGHTFATRLNNVFII 671
           +F+ GN+ M+TGGRN GRVG I +RE+H GSF+ +HI+DSTGH FATRL NV+ I
Sbjct: 174 KFDVGNVVMVTGGRNRGRVGVIKNREKHKGSFETIHIQDSTGHEFATRLGNVYTI 228



 Score = 49.6 bits (113), Expect = 2e-06
 Identities = 21/31 (67%), Positives = 26/31 (83%)
 Frame = +2

Query: 164 KRILKIVKQRLIKVDGKVRTDPTYPAGFMDV 256
           + ++ I+ QR I+VDGKVRTD TYPAGFMDV
Sbjct: 59  REVISILMQRHIQVDGKVRTDKTYPAGFMDV 89


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

 Score =  126 bits (305), Expect = 1e-29
 Identities = 57/92 (61%), Positives = 70/92 (76%)
 Frame = +1

Query: 256 VSIEKTNELFRLIYDVKGRFTIHRITPEEAKYKLCKVKRVATGPKNVPYLVTHDGRTIRY 435
           VSI KTNE FRL+YD KGRF +H I  EEAK+KLCKV+ +  G K +PYL T+DGRTIRY
Sbjct: 90  VSIPKTNENFRLLYDTKGRFRLHSIKDEEAKFKLCKVRSIQFGQKGIPYLNTYDGRTIRY 149

Query: 436 PDPLIKVNDSIQLDIATTKIMDFISLSLGTCV 531
           PDPLIK ND+I+LD+   KI++FI   +G  V
Sbjct: 150 PDPLIKPNDTIKLDLEENKIVEFIKFDVGNVV 181



 Score =  102 bits (244), Expect = 2e-22
 Identities = 44/55 (80%), Positives = 49/55 (89%)
 Frame = +3

Query: 6   KKHLKRLNAPKAWMLDKLGGVYAPRPSTGPHKLRECLPLVIFLRNRLKYALTGNE 170
           KKHLKRLNAPK WMLDKLGG +AP+PS+GPHK RECLPLV+ +RNRLKYALT  E
Sbjct: 6   KKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYRE 60



 Score = 83.4 bits (197), Expect = 1e-16
 Identities = 35/55 (63%), Positives = 45/55 (81%)
 Frame = +3

Query: 507 QFESGNLCMITGGRNLGRVGTIVSRERHPGSFDIVHIKDSTGHTFATRLNNVFII 671
           +F+ GN+ M+TGGRN GRVG I +RE+H GSF+ +HI+DSTGH FATRL NV+ I
Sbjct: 174 KFDVGNVVMVTGGRNRGRVGVIKNREKHKGSFETIHIQDSTGHEFATRLGNVYTI 228



 Score = 49.6 bits (113), Expect = 2e-06
 Identities = 21/31 (67%), Positives = 26/31 (83%)
 Frame = +2

Query: 164 KRILKIVKQRLIKVDGKVRTDPTYPAGFMDV 256
           + ++ I+ QR I+VDGKVRTD TYPAGFMDV
Sbjct: 59  REVISILMQRHIQVDGKVRTDKTYPAGFMDV 89


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

 Score =  126 bits (305), Expect = 1e-29
 Identities = 57/92 (61%), Positives = 70/92 (76%)
 Frame = +1

Query: 256 VSIEKTNELFRLIYDVKGRFTIHRITPEEAKYKLCKVKRVATGPKNVPYLVTHDGRTIRY 435
           VSI KTNE FRL+YD KGRF +H I  EEAK+KLCKV+ +  G K +PYL T+DGRTIRY
Sbjct: 90  VSIPKTNENFRLLYDTKGRFRLHSIKDEEAKFKLCKVRSIQFGQKGIPYLNTYDGRTIRY 149

Query: 436 PDPLIKVNDSIQLDIATTKIMDFISLSLGTCV 531
           PDPLIK ND+I+LD+   KI++FI   +G  V
Sbjct: 150 PDPLIKPNDTIKLDLEENKIVEFIKFDVGNVV 181



 Score =  102 bits (244), Expect = 2e-22
 Identities = 44/55 (80%), Positives = 49/55 (89%)
 Frame = +3

Query: 6   KKHLKRLNAPKAWMLDKLGGVYAPRPSTGPHKLRECLPLVIFLRNRLKYALTGNE 170
           KKHLKRLNAPK WMLDKLGG +AP+PS+GPHK RECLPLV+ +RNRLKYALT  E
Sbjct: 6   KKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYRE 60



 Score = 83.4 bits (197), Expect = 1e-16
 Identities = 35/55 (63%), Positives = 45/55 (81%)
 Frame = +3

Query: 507 QFESGNLCMITGGRNLGRVGTIVSRERHPGSFDIVHIKDSTGHTFATRLNNVFII 671
           +F+ GN+ M+TGGRN GRVG I +RE+H GSF+ +HI+DSTGH FATRL NV+ I
Sbjct: 174 KFDVGNVVMVTGGRNRGRVGVIKNREKHKGSFETIHIQDSTGHEFATRLGNVYTI 228



 Score = 49.6 bits (113), Expect = 2e-06
 Identities = 21/31 (67%), Positives = 26/31 (83%)
 Frame = +2

Query: 164 KRILKIVKQRLIKVDGKVRTDPTYPAGFMDV 256
           + ++ I+ QR I+VDGKVRTD TYPAGFMDV
Sbjct: 59  REVISILMQRHIQVDGKVRTDKTYPAGFMDV 89


>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 = -2

Query: 115 KHSRNLWGPVDGLGAYTPPSLSNIHAL 35
           KHS +LWG  D L   TPP+  ++  L
Sbjct: 44  KHSADLWGSADALAIATPPASDDLRYL 70


>At4g38880.1 68417.m05506 amidophosphoribosyltransferase, putative /
           glutamine phosphoribosylpyrophosphate amidotransferase,
           putative / phosphoribosyldiphosphate 5-amidotransferase,
           putative similar to amidophosphoribosyltransferase
           [Arabidopsis thaliana] GI:469195; contains Pfam profiles
           PF00156: Phosphoribosyl transferase domain, PF00310:
           Glutamine amidotransferases class-II
          Length = 532

 Score = 28.3 bits (60), Expect = 4.9
 Identities = 21/66 (31%), Positives = 29/66 (43%)
 Frame = +3

Query: 465 HPVRHRNYEDYGLHQFESGNLCMITGGRNLGRVGTIVSRERHPGSFDIVHIKDSTGHTFA 644
           H ++HR  E  G+       L  ITG   +  V T       PG   I H++ ST  + A
Sbjct: 97  HALQHRGQEGAGIVAANQNGLESITGVGLVSDVFTESKLNNLPGDIAIGHVRYST--SGA 154

Query: 645 TRLNNV 662
           + L NV
Sbjct: 155 SMLKNV 160


>At3g56260.1 68416.m06252 expressed protein 
          Length = 176

 Score = 28.3 bits (60), Expect = 4.9
 Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
 Frame = +3

Query: 420 PHHPLPRPTYQSQRFHPVRHRNYEDYGLHQFESGNLCMITGGRNLGRVGTI--VSRERHP 593
           P H L +     ++  P+ + NYE+  L    +  LC   GGR LG   ++  V+R    
Sbjct: 95  PPHSLKKRMSHDKK-SPLLYANYEEDELRSSPTSTLCCSNGGR-LGCSSSMGSVTRALFS 152

Query: 594 GSFDIVHIKDSTG 632
           GS + +   ++TG
Sbjct: 153 GSMEGMKRHETTG 165


>At5g52440.1 68418.m06507 HCF106 protein identical to HCF106
           [Arabidopsis thaliana] GI:4894914; contains Pfam profile
           PF02416: mttA/Hcf106 family
          Length = 260

 Score = 27.5 bits (58), Expect = 8.6
 Identities = 22/94 (23%), Positives = 39/94 (41%), Gaps = 1/94 (1%)
 Frame = +1

Query: 382 GPKNVPYLVTHDGRTIRYPDPLIKVNDSIQLDIATTKIMDFISLSLGTCV*SXEAVTWGV 561
           GPK +  +  + G+T+R   P I+    +  D  +T   +     + T     +  T  V
Sbjct: 106 GPKGLAEVARNLGKTLRTFQPTIRELQDVSRDFKSTLEREIGLDDISTPNVYNQNRTNPV 165

Query: 562 W-APSCPARDIPAPSTLCTSRTPRDTPSPRG*TT 660
              P  P   +P+     T+  P D+ SP+  T+
Sbjct: 166 QPPPPPPPPSVPSTEAPVTANDPNDSQSPKAYTS 199


  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: 16,325,717
Number of Sequences: 28952
Number of extensions: 360005
Number of successful extensions: 1069
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 1006
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): 1067
length of database: 12,070,560
effective HSP length: 78
effective length of database: 9,812,304
effective search space used: 1422784080
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)