SilkBase IMG001 IMG002 IMG003 IMG005 IMG006 IMG007 IMG008 IMG009 kuwako IMG010 IMG011 IMG012

Last updated: 2022/11/18
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= ovS302A11f
         (521 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

At3g02540.1 68416.m00242 ubiquitin family protein contains Pfam ...   111   2e-25
At5g38470.1 68418.m04650 DNA repair protein RAD23, putative simi...   109   1e-24
At1g16190.1 68414.m01939 DNA repair protein RAD23, putative simi...   106   8e-24
At1g79650.2 68414.m09288 DNA repair protein RAD23, putative simi...   103   6e-23
At1g79650.1 68414.m09287 DNA repair protein RAD23, putative simi...   103   6e-23
At1g79650.3 68414.m09289 DNA repair protein RAD23, putative simi...    82   3e-16
At3g13235.1 68416.m01666 ubiquitin family protein contains INTER...    30   1.1  
At2g33540.1 68415.m04111 CTD phosphatase-like protein 3 (CPL3) i...    27   7.7  

>At3g02540.1 68416.m00242 ubiquitin family protein contains Pfam
           profiles PF00240: Ubiquitin family, PF00627: UBA/TS-N
           domain;
          Length = 419

 Score =  111 bits (268), Expect = 2e-25
 Identities = 54/119 (45%), Positives = 82/119 (68%), Gaps = 1/119 (0%)
 Frame = -1

Query: 518 QFQQMRAVIQQNPNLLNAVLQQIGQTNPALLQVISQHQEAFVRMLNEPVNPSA-AGVASD 342
           QFQ +RA++Q NP +L  +LQ++G+ NP L+++I  HQ  F+R++NEPV     +G    
Sbjct: 298 QFQALRAMVQANPQVLQPMLQELGKQNPNLMRLIQDHQADFLRLINEPVEGGGESGNLLG 357

Query: 341 ENVADIQQPQLGSQNVIQVSAQDKEAIERLKALGFPEHMVIQAYFACEKNENLAANFLL 165
           +  A + QPQ      IQV+ +++EAIERL+A+GF   +V++ +FAC KNE LAAN+LL
Sbjct: 358 QMAAGMPQPQ-----AIQVTHEEREAIERLEAMGFERALVLEVFFACNKNEELAANYLL 411


>At5g38470.1 68418.m04650 DNA repair protein RAD23, putative similar
           to DNA repair by nucleotide excision (NER) RAD23
           protein, isoform I GI:1914683 from [Daucus carota]
          Length = 378

 Score =  109 bits (262), Expect = 1e-24
 Identities = 53/126 (42%), Positives = 84/126 (66%), Gaps = 2/126 (1%)
 Frame = -1

Query: 518 QFQQMRAVIQQNPNLLNAVLQQIGQTNPALLQVISQHQEAFVRMLNEPVNPSAAGVASDE 339
           QFQ +RA++Q NP +L  +LQ++G+ NP L+++I +HQ  F+R++NEPV         +E
Sbjct: 261 QFQALRAMVQANPQILQPMLQELGKQNPQLVRLIQEHQADFLRLINEPVE-------GEE 313

Query: 338 NVADIQQPQLGSQNVIQVSAQDKEAIERLKALGFPEHMVIQAYFACEKNENLAANFLLS- 162
           NV  ++Q +      + V+ +++EAIERL+ +GF   MV++ +FAC KNE LAAN+LL  
Sbjct: 314 NV--MEQLEAAMPQAVTVTPEEREAIERLEGMGFDRAMVLEVFFACNKNEELAANYLLDH 371

Query: 161 -QNFDD 147
              F+D
Sbjct: 372 MHEFED 377


>At1g16190.1 68414.m01939 DNA repair protein RAD23, putative similar
           to DNA repair by nucleotide excision (NER) RAD23
           protein, isoform II GI:1914685 from [Daucus carota]
          Length = 368

 Score =  106 bits (255), Expect = 8e-24
 Identities = 49/123 (39%), Positives = 83/123 (67%)
 Frame = -1

Query: 518 QFQQMRAVIQQNPNLLNAVLQQIGQTNPALLQVISQHQEAFVRMLNEPVNPSAAGVASDE 339
           QFQQ+R+++  NP +L  +LQ++G+ NP LL++I ++Q  F+++LNEP         SD 
Sbjct: 249 QFQQLRSMVNSNPQILQPMLQELGKQNPQLLRLIQENQAEFLQLLNEPYE------GSDG 302

Query: 338 NVADIQQPQLGSQNVIQVSAQDKEAIERLKALGFPEHMVIQAYFACEKNENLAANFLLSQ 159
           +V    QP     + + V+ +++E+IERL+A+GF   +VI+A+ +C++NE LAAN+LL  
Sbjct: 303 DVDIFDQPDQEMPHSVNVTPEEQESIERLEAMGFDRAIVIEAFLSCDRNEELAANYLLEH 362

Query: 158 NFD 150
           + D
Sbjct: 363 SAD 365


>At1g79650.2 68414.m09288 DNA repair protein RAD23, putative similar
           to DNA repair by nucleotide excision (NER) RAD23
           protein, isoform II GI:1914685 from [Daucus carota];
           contains Pfam profiles PF00240: Ubiquitin family,
           PF00627: UBA/TS-N domain
          Length = 365

 Score =  103 bits (248), Expect = 6e-23
 Identities = 49/123 (39%), Positives = 80/123 (65%)
 Frame = -1

Query: 518 QFQQMRAVIQQNPNLLNAVLQQIGQTNPALLQVISQHQEAFVRMLNEPVNPSAAGVASDE 339
           QFQQ+R ++  NP +L  +LQ++G+ NP LL++I ++Q  F++++NEP         SD 
Sbjct: 246 QFQQLRTMVHSNPQILQPMLQELGKQNPQLLRLIQENQAEFLQLVNEPYE------GSDG 299

Query: 338 NVADIQQPQLGSQNVIQVSAQDKEAIERLKALGFPEHMVIQAYFACEKNENLAANFLLSQ 159
                 QP+    + I V+  ++EAI+RL+A+GF   +VI+A+ AC++NE LAAN+LL  
Sbjct: 300 EGDMFDQPEQEMPHAINVTPAEQEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLLEN 359

Query: 158 NFD 150
           + D
Sbjct: 360 SGD 362


>At1g79650.1 68414.m09287 DNA repair protein RAD23, putative similar
           to DNA repair by nucleotide excision (NER) RAD23
           protein, isoform II GI:1914685 from [Daucus carota];
           contains Pfam profiles PF00240: Ubiquitin family,
           PF00627: UBA/TS-N domain
          Length = 371

 Score =  103 bits (248), Expect = 6e-23
 Identities = 49/123 (39%), Positives = 80/123 (65%)
 Frame = -1

Query: 518 QFQQMRAVIQQNPNLLNAVLQQIGQTNPALLQVISQHQEAFVRMLNEPVNPSAAGVASDE 339
           QFQQ+R ++  NP +L  +LQ++G+ NP LL++I ++Q  F++++NEP         SD 
Sbjct: 252 QFQQLRTMVHSNPQILQPMLQELGKQNPQLLRLIQENQAEFLQLVNEPYE------GSDG 305

Query: 338 NVADIQQPQLGSQNVIQVSAQDKEAIERLKALGFPEHMVIQAYFACEKNENLAANFLLSQ 159
                 QP+    + I V+  ++EAI+RL+A+GF   +VI+A+ AC++NE LAAN+LL  
Sbjct: 306 EGDMFDQPEQEMPHAINVTPAEQEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLLEN 365

Query: 158 NFD 150
           + D
Sbjct: 366 SGD 368


>At1g79650.3 68414.m09289 DNA repair protein RAD23, putative similar
           to DNA repair by nucleotide excision (NER) RAD23
           protein, isoform II GI:1914685 from [Daucus carota];
           contains Pfam profiles PF00240: Ubiquitin family,
           PF00627: UBA/TS-N domain
          Length = 351

 Score = 81.8 bits (193), Expect = 3e-16
 Identities = 40/103 (38%), Positives = 66/103 (64%)
 Frame = -1

Query: 458 QQIGQTNPALLQVISQHQEAFVRMLNEPVNPSAAGVASDENVADIQQPQLGSQNVIQVSA 279
           Q++G+ NP LL++I ++Q  F++++NEP         SD       QP+    + I V+ 
Sbjct: 252 QELGKQNPQLLRLIQENQAEFLQLVNEPYE------GSDGEGDMFDQPEQEMPHAINVTP 305

Query: 278 QDKEAIERLKALGFPEHMVIQAYFACEKNENLAANFLLSQNFD 150
            ++EAI+RL+A+GF   +VI+A+ AC++NE LAAN+LL  + D
Sbjct: 306 AEQEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLLENSGD 348


>At3g13235.1 68416.m01666 ubiquitin family protein contains
           INTERPRO:IPR000626 ubiquitin domain
          Length = 414

 Score = 29.9 bits (64), Expect = 1.1
 Identities = 23/67 (34%), Positives = 29/67 (43%)
 Frame = -1

Query: 368 PSAAGVASDENVADIQQPQLGSQNVIQVSAQDKEAIERLKALGFPEHMVIQAYFACEKNE 189
           PS      +  VA+    Q   QN  +   + +  I +L  LGF    VIQA    E NE
Sbjct: 346 PSGFTEKKNNTVANPTSQQPKRQNTSE-GPEFEAKIAKLVELGFSRDSVIQALKLFEGNE 404

Query: 188 NLAANFL 168
             AA FL
Sbjct: 405 EQAAGFL 411


>At2g33540.1 68415.m04111 CTD phosphatase-like protein 3 (CPL3)
           identical to CTD phosphatase-like 3 (CPL3) [Arabidopsis
           thaliana] GI:22212705; contains Pfam profile PF03031:
           NLI interacting factor
          Length = 1241

 Score = 27.1 bits (57), Expect = 7.7
 Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
 Frame = -1

Query: 440 NPALLQVISQHQEAFVRMLNEPVNPSA----AGVASDENVADIQQPQLG 306
           N    Q +S +Q+  +  +N+ ++ SA    AG +S+ENV  + QP  G
Sbjct: 278 NDHFSQFLSFNQKNEIETMNQDLSRSAIAVFAGTSSEENVNQMTQPSNG 326


  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: 9,070,777
Number of Sequences: 28952
Number of extensions: 147272
Number of successful extensions: 425
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 415
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): 419
length of database: 12,070,560
effective HSP length: 76
effective length of database: 9,870,208
effective search space used: 957410176
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)

- SilkBase 1999-2023 -