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_002_K07
(792 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P28659|CUGB1_MOUSE CUG triplet repeat RNA-binding protei... 77 7e-14
sp|Q92879|CUGB1_HUMAN CUG triplet repeat RNA-binding protei... 76 9e-14
sp|O04425|FCA_ARATH Flowering time control protein FCA 65 2e-10
sp|Q86U06|RBM23_HUMAN Probable RNA-binding protein 23 (RNA-... 60 9e-09
sp|Q8VH51|RNPC2_MOUSE RNA-binding region containing protein... 58 3e-08
sp|Q14498|RNPC2_HUMAN RNA-binding region containing protein... 55 2e-07
sp|P42731|PABP2_ARATH Polyadenylate-binding protein 2 (Poly... 53 1e-06
sp|P21187|PABP_DROME Polyadenylate-binding protein (Poly(A)... 50 5e-06
sp|P98179|RBM3_HUMAN Putative RNA-binding protein 3 (RNA-bi... 49 1e-05
sp|O93235|CIRBP_XENLA Cold-inducible RNA-binding protein (G... 49 1e-05
>sp|P28659|CUGB1_MOUSE CUG triplet repeat RNA-binding protein 1 (CUG-BP1) (RNA-binding
protein BRUNOL-2) (Deadenylation factor CUG-BP)
(Deadenylation factor EDEN-BP) (Brain protein F41)
Length = 486
Score = 76.6 bits (187), Expect = 7e-14
Identities = 39/102 (38%), Positives = 62/102 (60%)
Frame = +2
Query: 173 NQDENAKLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAYGQSRGCAFVTFNSSDEAN 352
N E+ KLFIGM++K +E+D+R + +G I+ C IL+ G SRGCAFVTF + A
Sbjct: 103 NAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRTMAQ 162
Query: 353 VAIEALNGMKTSMACPELGSTIVARLADNDHERQLRKMQMQI 478
AI+A++ +T C S +V + AD +++ ++M Q+
Sbjct: 163 TAIKAMHQAQTMEGC---SSPMVVKFADTQKDKEQKRMAQQL 201
Score = 52.0 bits (123), Expect = 2e-06
Identities = 32/109 (29%), Positives = 53/109 (48%), Gaps = 3/109 (2%)
Frame = +2
Query: 191 KLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAY---GQSRGCAFVTFNSSDEANVAI 361
K+F+G + + SE D+R+L E YG + IL+D QS+GC FVTF + A+
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINILRDRSQNPPQSKGCCFVTFYT---RKAAL 73
Query: 362 EALNGMKTSMACPELGSTIVARLADNDHERQLRKMQMQIPAVQFLTPQN 508
EA N + P + I + AD++ + ++ I + +N
Sbjct: 74 EAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTEN 122
Score = 36.2 bits (82), Expect = 0.10
Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 1/71 (1%)
Frame = +2
Query: 182 ENAKLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAYGQSRGC-AFVTFNSSDEANVA 358
E A LFI L + + D+ Q+ P+G + + + D C FV++++ A A
Sbjct: 399 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAA 458
Query: 359 IEALNGMKTSM 391
I+++NG + M
Sbjct: 459 IQSMNGFQIGM 469
>sp|Q92879|CUGB1_HUMAN CUG triplet repeat RNA-binding protein 1 (CUG-BP1) (RNA-binding
protein BRUNOL-2) (Deadenylation factor CUG-BP) (50 kDa
Nuclear polyadenylated RNA-binding protein) (EDEN-BP)
Length = 486
Score = 76.3 bits (186), Expect = 9e-14
Identities = 39/102 (38%), Positives = 62/102 (60%)
Frame = +2
Query: 173 NQDENAKLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAYGQSRGCAFVTFNSSDEAN 352
N E+ KLFIGM++K +E+D+R + +G I+ C IL+ G SRGCAFVTF + A
Sbjct: 103 NAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQ 162
Query: 353 VAIEALNGMKTSMACPELGSTIVARLADNDHERQLRKMQMQI 478
AI+A++ +T C S +V + AD +++ ++M Q+
Sbjct: 163 TAIKAMHQAQTMEGC---SSPMVVKFADTQKDKEQKRMAQQL 201
Score = 51.6 bits (122), Expect = 2e-06
Identities = 31/109 (28%), Positives = 53/109 (48%), Gaps = 3/109 (2%)
Frame = +2
Query: 191 KLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAY---GQSRGCAFVTFNSSDEANVAI 361
K+F+G + + SE D+R+L E YG + +L+D QS+GC FVTF + A+
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYT---RKAAL 73
Query: 362 EALNGMKTSMACPELGSTIVARLADNDHERQLRKMQMQIPAVQFLTPQN 508
EA N + P + I + AD++ + ++ I + +N
Sbjct: 74 EAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTEN 122
Score = 36.2 bits (82), Expect = 0.10
Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 1/71 (1%)
Frame = +2
Query: 182 ENAKLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAYGQSRGC-AFVTFNSSDEANVA 358
E A LFI L + + D+ Q+ P+G + + + D C FV++++ A A
Sbjct: 399 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAA 458
Query: 359 IEALNGMKTSM 391
I+++NG + M
Sbjct: 459 IQSMNGFQIGM 469
>sp|O04425|FCA_ARATH Flowering time control protein FCA
Length = 747
Score = 65.5 bits (158), Expect = 2e-10
Identities = 32/97 (32%), Positives = 53/97 (54%)
Frame = +2
Query: 191 KLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAYGQSRGCAFVTFNSSDEANVAIEAL 370
KLF+G LNK +E +V ++ +G +++ +++D Y QSRGC FV ++S + A AI+ L
Sbjct: 212 KLFVGSLNKQATEKEVEEIFLQFGHVEDVYLMRDEYRQSRGCGFVKYSSKETAMAAIDGL 271
Query: 371 NGMKTSMACPELGSTIVARLADNDHERQLRKMQMQIP 481
NG T C ++ R A+ + +M P
Sbjct: 272 NGTYTMRGC---NQPLIVRFAEPKRPKPGESREMAPP 305
Score = 52.4 bits (124), Expect = 1e-06
Identities = 29/96 (30%), Positives = 51/96 (53%), Gaps = 1/96 (1%)
Frame = +2
Query: 167 IQNQDENAKLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKD-AYGQSRGCAFVTFNSSD 343
+ ++ KLF+G + + +E+++R E +G + ++KD GQ +GC FV + +S
Sbjct: 113 VSDRSSTVKLFVGSVPRTATEEEIRPYFEQHGNVLEVALIKDKRTGQQQGCCFVKYATSK 172
Query: 344 EANVAIEALNGMKTSMACPELGSTIVARLADNDHER 451
+A+ AI AL+ T P + R AD + ER
Sbjct: 173 DADRAIRALHNQIT---LPGGTGPVQVRYADGERER 205
>sp|Q86U06|RBM23_HUMAN Probable RNA-binding protein 23 (RNA-binding motif protein 23)
(RNA-binding region containing protein 4) (Splicing
factor SF2)
Length = 439
Score = 59.7 bits (143), Expect = 9e-09
Identities = 37/109 (33%), Positives = 60/109 (55%), Gaps = 1/109 (0%)
Frame = +2
Query: 59 VRL*IKTTQKMQVASPISVDSMALYSNGYIDKGNMLIQNQDENAKLFIGMLNKNQSEDDV 238
V L I T + + PI V + N N L + +L++G L+ N +ED +
Sbjct: 220 VPLAIGLTGQRLLGVPIIVQASQAEKNRLAAMANNLQKGNGGPMRLYVGSLHFNITEDML 279
Query: 239 RQLCEPYGCIKNCMILKDA-YGQSRGCAFVTFNSSDEANVAIEALNGMK 382
R + EP+G I N +++KD+ G+S+G F+TF+ S+ A A+E LNG +
Sbjct: 280 RGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFE 328
>sp|Q8VH51|RNPC2_MOUSE RNA-binding region containing protein 2 (Coactivator of activating
protein 1 and estrogen receptors) (Coactivator of AP-1
and ERs) (Transcription coactivator CAPER)
Length = 530
Score = 58.2 bits (139), Expect = 3e-08
Identities = 36/109 (33%), Positives = 60/109 (55%), Gaps = 1/109 (0%)
Frame = +2
Query: 59 VRL*IKTTQKMQVASPISVDSMALYSNGYIDKGNMLIQNQDENAKLFIGMLNKNQSEDDV 238
VRL I T + + PI V + N N L + +L++G L+ N +ED +
Sbjct: 207 VRLAIGLTGQRVLGVPIIVQASQAEKNRAAAMANNLQKGSAGPMRLYVGSLHFNITEDML 266
Query: 239 RQLCEPYGCIKNCMILKDA-YGQSRGCAFVTFNSSDEANVAIEALNGMK 382
R + EP+G I++ ++ D+ G+S+G F+TF+ S+ A A+E LNG +
Sbjct: 267 RGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFE 315
>sp|Q14498|RNPC2_HUMAN RNA-binding region containing protein 2 (Hepatocellular carcinoma
protein 1) (Splicing factor HCC1)
Length = 530
Score = 55.5 bits (132), Expect = 2e-07
Identities = 35/109 (32%), Positives = 59/109 (54%), Gaps = 1/109 (0%)
Frame = +2
Query: 59 VRL*IKTTQKMQVASPISVDSMALYSNGYIDKGNMLIQNQDENAKLFIGMLNKNQSEDDV 238
V L I T + + PI V + N N L + +L++G L+ N +ED +
Sbjct: 207 VPLAIGLTGQRVLGVPIIVQASQAEKNRAAAMANNLQKGSAGPMRLYVGSLHFNITEDML 266
Query: 239 RQLCEPYGCIKNCMILKDA-YGQSRGCAFVTFNSSDEANVAIEALNGMK 382
R + EP+G I++ ++ D+ G+S+G F+TF+ S+ A A+E LNG +
Sbjct: 267 RGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFE 315
>sp|P42731|PABP2_ARATH Polyadenylate-binding protein 2 (Poly(A)-binding protein 2) (PABP
2)
Length = 629
Score = 52.8 bits (125), Expect = 1e-06
Identities = 23/70 (32%), Positives = 45/70 (64%)
Frame = +2
Query: 173 NQDENAKLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAYGQSRGCAFVTFNSSDEAN 352
N+ + +++ L ++ ++DD++ YG I + +++KD G+S+G FV F ++D+A
Sbjct: 210 NKTKFTNVYVKNLAESTTDDDLKNAFGEYGKITSAVVMKDGEGKSKGFGFVNFENADDAA 269
Query: 353 VAIEALNGMK 382
A+E+LNG K
Sbjct: 270 RAVESLNGHK 279
Score = 44.7 bits (104), Expect = 3e-04
Identities = 17/65 (26%), Positives = 41/65 (63%)
Frame = +2
Query: 182 ENAKLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAYGQSRGCAFVTFNSSDEANVAI 361
+++ L++ L+ + S++ ++++ P+G + + +++D G S+G FV F + +EA A+
Sbjct: 316 QSSNLYVKNLDPSISDEKLKEIFSPFGTVTSSKVMRDPNGTSKGSGFVAFATPEEATEAM 375
Query: 362 EALNG 376
L+G
Sbjct: 376 SQLSG 380
Score = 42.0 bits (97), Expect = 0.002
Identities = 21/62 (33%), Positives = 34/62 (54%)
Frame = +2
Query: 194 LFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAYGQSRGCAFVTFNSSDEANVAIEALN 373
+FI L+++ + +G I +C + D+ GQS+G FV + + + A AIE LN
Sbjct: 126 IFIKNLDESIDHKALHDTFSSFGNIVSCKVAVDSSGQSKGYGFVQYANEESAQKAIEKLN 185
Query: 374 GM 379
GM
Sbjct: 186 GM 187
>sp|P21187|PABP_DROME Polyadenylate-binding protein (Poly(A)-binding protein) (PABP)
Length = 634
Score = 50.4 bits (119), Expect = 5e-06
Identities = 26/69 (37%), Positives = 41/69 (59%), Gaps = 4/69 (5%)
Frame = +2
Query: 182 ENAKLFIGMLNKNQSED----DVRQLCEPYGCIKNCMILKDAYGQSRGCAFVTFNSSDEA 349
E AKLF + KN +ED +++ EPYG I + ++ G+S+G FV F +++ A
Sbjct: 177 EKAKLFTNVYVKNFTEDFDDEKLKEFFEPYGKITSYKVMSKEDGKSKGFGFVAFETTEAA 236
Query: 350 NVAIEALNG 376
A++ALNG
Sbjct: 237 EAAVQALNG 245
Score = 46.6 bits (109), Expect = 8e-05
Identities = 22/61 (36%), Positives = 35/61 (57%)
Frame = +2
Query: 194 LFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAYGQSRGCAFVTFNSSDEANVAIEALN 373
L++ L+ +D +R PYG I + ++ D G+S+G FV FN++ EA A+ LN
Sbjct: 289 LYVKNLDDTIDDDRLRIAFSPYGNITSAKVMTDEEGRSKGFGFVCFNAASEATCAVTELN 348
Query: 374 G 376
G
Sbjct: 349 G 349
Score = 39.3 bits (90), Expect = 0.012
Identities = 19/62 (30%), Positives = 32/62 (51%)
Frame = +2
Query: 194 LFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAYGQSRGCAFVTFNSSDEANVAIEALN 373
+FI L++ + +G I +C + D G S+G FV F + + AN +I+ +N
Sbjct: 92 VFIKNLDRAIDNKAIYDTFSAFGNILSCKVATDEKGNSKGYGFVHFETEEAANTSIDKVN 151
Query: 374 GM 379
GM
Sbjct: 152 GM 153
>sp|P98179|RBM3_HUMAN Putative RNA-binding protein 3 (RNA-binding motif protein 3) (RNPL)
Length = 157
Score = 49.3 bits (116), Expect = 1e-05
Identities = 26/66 (39%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Frame = +2
Query: 182 ENAKLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKDAYGQ-SRGCAFVTFNSSDEANVA 358
E KLF+G LN N E + +G I +++KD Q SRG F+TF + + A+VA
Sbjct: 4 EEGKLFVGGLNFNTDEQALEDHFSSFGPISEVVVVKDRETQRSRGFGFITFTNPEHASVA 63
Query: 359 IEALNG 376
+ A+NG
Sbjct: 64 MRAMNG 69
>sp|O93235|CIRBP_XENLA Cold-inducible RNA-binding protein (Glycine-rich RNA-binding
protein CIRP) (xCIRP)
Length = 163
Score = 49.3 bits (116), Expect = 1e-05
Identities = 28/66 (42%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Frame = +2
Query: 182 ENAKLFIGMLNKNQSEDDVRQLCEPYGCIKNCMILKD-AYGQSRGCAFVTFNSSDEANVA 358
+ KLFIG LN +ED + Q YG I +++KD +SRG FVTF + D+A A
Sbjct: 3 DEGKLFIGGLNFETNEDCLEQAFTKYGRISEVVVVKDRETKRSRGFGFVTFENVDDAKDA 62
Query: 359 IEALNG 376
+ A+NG
Sbjct: 63 MMAMNG 68
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: 87,243,713
Number of Sequences: 369166
Number of extensions: 1703571
Number of successful extensions: 4363
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4012
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): 4282
length of database: 68,354,980
effective HSP length: 109
effective length of database: 48,218,865
effective search space used: 7425705210
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)