Planarian EST Database


Dr_sW_003_D20

BLASTX 2.2.12 [Aug-07-2005]

Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
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= Dr_sW_003_D20
         (763 letters)

Database: Non-redundant SwissProt sequences 
           184,735 sequences; 68,354,980 total letters



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

sp|P41824|YBOXH_APLCA  Y-box factor homolog (APY1)                123   6e-28
sp|P21573|YBOX1_XENLA  Nuclease sensitive element binding pr...   114   3e-25
sp|Q9JKB3|DBPA_MOUSE  DNA-binding protein A (Cold shock doma...   113   6e-25
sp|Q62764|DBPA_RAT  DNA-binding protein A (Cold shock domain...   113   6e-25
sp|P16989|DBPA_HUMAN  DNA-binding protein A (Cold shock doma...   112   1e-24
sp|Q06066|YBOX1_CHICK  Nuclease sensitive element binding pr...   111   2e-24
sp|Q00436|YB3_XENLA  B box binding protein (YB3 protein)          109   7e-24
sp|P62960|YBOX1_MOUSE  Nuclease sensitive element binding pr...   108   1e-23
sp|P67809|YBOX1_HUMAN  Nuclease sensitive element binding pr...   108   1e-23
sp|P45441|YBX2B_XENLA  Y-box binding protein 2-B (Cytoplasmi...   108   2e-23
>sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1)
          Length = 253

 Score =  123 bits (308), Expect = 6e-28
 Identities = 57/109 (52%), Positives = 81/109 (74%), Gaps = 5/109 (4%)
 Frame = +2

Query: 53  EKNDEYEGNAPDSS-----KQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSA 217
           EK  E E N PD       K+K+++ + ++G VKWFNVK GYGF+ R+D +ED+F+HQ+A
Sbjct: 5   EKQPEVEENQPDQEQNEEQKEKKIIASQVSGTVKWFNVKSGYGFINRDDTKEDVFVHQTA 64

Query: 218 IVKSNPEHPRKSVGEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYA 364
           IVK+NP    +SVG+GE++ FD+V+G KGNEAANV+  +G  V+GS+YA
Sbjct: 65  IVKNNPRKYLRSVGDGEKVEFDVVEGEKGNEAANVTGPEGSNVQGSKYA 113
>sp|P21573|YBOX1_XENLA Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor)
          Length = 303

 Score =  114 bits (285), Expect = 3e-25
 Identities = 58/126 (46%), Positives = 82/126 (65%), Gaps = 10/126 (7%)
 Frame = +2

Query: 29  AAEMANNQEKNDEYEGNAPDSSK----QKQVLHTAITGKVKWFNVKRGYGFVCRNDNQED 196
           ++E+   Q++ D  EG A          K+V+ T + G VKWFNV+ GYGF+ RND +ED
Sbjct: 2   SSEVETQQQQPDALEGKAGQEPAATVGDKKVIATKVLGTVKWFNVRNGYGFINRNDTKED 61

Query: 197 IFIHQSAIVKSNPEHPRKSVGEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYAL--- 367
           +F+HQ+AI K+NP    +SVG+GE + FD+V+G KG EAANV+  +G  V+GS+YA    
Sbjct: 62  VFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPEGVPVQGSKYAADRN 121

Query: 368 ---RYP 376
              RYP
Sbjct: 122 HYRRYP 127
>sp|Q9JKB3|DBPA_MOUSE DNA-binding protein A (Cold shock domain protein A) (Y-box protein
           3)
 sp|Q5PQD5|DBPA_XENLA DNA-binding protein A (Cold shock domain protein A)
          Length = 361

 Score =  113 bits (282), Expect = 6e-25
 Identities = 57/108 (52%), Positives = 74/108 (68%), Gaps = 7/108 (6%)
 Frame = +2

Query: 62  DEYEGNAPDSSK-------QKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAI 220
           D   G AP SS        +K+VL T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI
Sbjct: 56  DAAPGPAPASSAPAGGEDAEKKVLATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAI 115

Query: 221 VKSNPEHPRKSVGEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYA 364
            K+NP    +SVG+GE + FD+V+G KG EAANV+  DG  V+GS YA
Sbjct: 116 KKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPDGVPVEGSRYA 163
>sp|Q62764|DBPA_RAT DNA-binding protein A (Cold shock domain protein A) (Muscle Y-box
           protein YB2) (Y-box binding protein-A) (RYB-A)
          Length = 361

 Score =  113 bits (282), Expect = 6e-25
 Identities = 57/108 (52%), Positives = 74/108 (68%), Gaps = 7/108 (6%)
 Frame = +2

Query: 62  DEYEGNAPDSSK-------QKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAI 220
           D   G AP SS        +K+VL T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI
Sbjct: 56  DAAPGPAPASSAPAGSEDAEKKVLATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAI 115

Query: 221 VKSNPEHPRKSVGEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYA 364
            K+NP    +SVG+GE + FD+V+G KG EAANV+  DG  V+GS YA
Sbjct: 116 KKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPDGVPVEGSRYA 163
>sp|P16989|DBPA_HUMAN DNA-binding protein A (Cold shock domain protein A) (Single-strand
           DNA binding protein NF-GMB)
          Length = 372

 Score =  112 bits (279), Expect = 1e-24
 Identities = 52/95 (54%), Positives = 69/95 (72%)
 Frame = +2

Query: 80  APDSSKQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAIVKSNPEHPRKSVG 259
           A     +K+VL T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI K+NP    +SVG
Sbjct: 77  AGSEDAEKKVLATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVG 136

Query: 260 EGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYA 364
           +GE + FD+V+G KG EAANV+  DG  V+GS YA
Sbjct: 137 DGETVEFDVVEGEKGAEAANVTGPDGVPVEGSRYA 171
>sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor)
          Length = 321

 Score =  111 bits (278), Expect = 2e-24
 Identities = 54/105 (51%), Positives = 73/105 (69%), Gaps = 6/105 (5%)
 Frame = +2

Query: 80  APDSSKQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAIVKSNPEHPRKSVG 259
           AP +   K+V+ T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI K+NP    +SVG
Sbjct: 42  APPAGGDKKVIATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVG 101

Query: 260 EGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYAL------RYP 376
           +GE + FD+V+G KG EAANV+   G  V+GS+YA       RYP
Sbjct: 102 DGETVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYP 146
>sp|Q00436|YB3_XENLA B box binding protein (YB3 protein)
          Length = 305

 Score =  109 bits (273), Expect = 7e-24
 Identities = 56/126 (44%), Positives = 81/126 (64%), Gaps = 10/126 (7%)
 Frame = +2

Query: 29  AAEMANNQEKNDEYEGNAPDSSK----QKQVLHTAITGKVKWFNVKRGYGFVCRNDNQED 196
           ++E+   +++ D  EG A         +K+V+ T + G VKWFNV+ GYGF+ RND +ED
Sbjct: 2   SSEVETQEQQPDALEGKAGQEPAATVGEKKVIATKVLGTVKWFNVRNGYGFINRNDTKED 61

Query: 197 IFIHQSAIVKSNPEHPRKSVGEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYAL--- 367
           +F+HQ+AI K+NP    +SVG+GE + FD+V+G KG EAANV+      V+GS+YA    
Sbjct: 62  VFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPGPVPVQGSKYAADRN 121

Query: 368 ---RYP 376
              RYP
Sbjct: 122 NYRRYP 127
>sp|P62960|YBOX1_MOUSE Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor) (YB-1) (CCAAT-binding
           transcription factor I subunit A) (CBF-A) (Enhancer
           factor I subunit A) (EFI-A) (DNA-binding protein B)
           (DBPB)
 sp|P62961|YBOX1_RAT Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor) (YB-1) (CCAAT-binding
           transcription factor I subunit A) (CBF-A) (Enhancer
           factor I subunit A) (EFI-A) (DNA-binding protein B)
           (DBPB)
          Length = 322

 Score =  108 bits (271), Expect = 1e-23
 Identities = 53/106 (50%), Positives = 73/106 (68%), Gaps = 6/106 (5%)
 Frame = +2

Query: 77  NAPDSSKQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAIVKSNPEHPRKSV 256
           +A  +   K+V+ T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI K+NP    +SV
Sbjct: 42  SAAPAGGDKKVIATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSV 101

Query: 257 GEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYAL------RYP 376
           G+GE + FD+V+G KG EAANV+   G  V+GS+YA       RYP
Sbjct: 102 GDGETVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYP 147
>sp|P67809|YBOX1_HUMAN Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor) (YB-1) (CCAAT-binding
           transcription factor I subunit A) (CBF-A) (Enhancer
           factor I subunit A) (EFI-A) (DNA-binding protein B)
           (DBPB)
 sp|P67808|YBOX1_BOVIN Nuclease sensitive element binding protein 1 (Y-box binding protein
           1) (Y-box transcription factor) (YB-1) (CCAAT-binding
           transcription factor I subunit A) (CBF-A) (Enhancer
           factor I subunit A) (EFI-A) (DNA-binding protein B)
           (DBPB)
          Length = 324

 Score =  108 bits (271), Expect = 1e-23
 Identities = 53/106 (50%), Positives = 73/106 (68%), Gaps = 6/106 (5%)
 Frame = +2

Query: 77  NAPDSSKQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAIVKSNPEHPRKSV 256
           +A  +   K+V+ T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI K+NP    +SV
Sbjct: 44  SAAPAGGDKKVIATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSV 103

Query: 257 GEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYAL------RYP 376
           G+GE + FD+V+G KG EAANV+   G  V+GS+YA       RYP
Sbjct: 104 GDGETVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYP 149
>sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmic RNA-binding protein p54)
           (mRNP3)
          Length = 324

 Score =  108 bits (269), Expect = 2e-23
 Identities = 50/94 (53%), Positives = 69/94 (73%)
 Frame = +2

Query: 83  PDSSKQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAIVKSNPEHPRKSVGE 262
           P +   K++L T + G VKWFNV+ GYGF+ RND++ED+F+HQ+AI K+NP    +SVG+
Sbjct: 29  PRNQINKKLLATQVQGTVKWFNVRNGYGFINRNDSKEDVFVHQTAIKKNNPRKFLRSVGD 88

Query: 263 GEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYA 364
           GE + FD+V+G KG EAANV+   G  VKGS +A
Sbjct: 89  GETVEFDVVEGEKGAEAANVTGPGGVPVKGSRFA 122
  Database: Non-redundant SwissProt sequences
    Posted date:  Dec 6, 2005  7:40 AM
  Number of letters in database: 68,354,980
  Number of sequences in database:  184,735
  
  Database: swissprot.01
    Posted date:  Dec 6, 2005  8:18 AM
  Number of letters in database: 66,202,850
  Number of sequences in database:  184,431
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 74,463,377
Number of Sequences: 369166
Number of extensions: 1418569
Number of successful extensions: 4469
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4292
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): 4426
length of database: 68,354,980
effective HSP length: 108
effective length of database: 48,403,600
effective search space used: 7018522000
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)