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_017_I05
(885 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P61980|HNRPK_RAT Heterogeneous nuclear ribonucleoprotein... 57 9e-08
sp|O19049|HNRPK_RABIT Heterogeneous nuclear ribonucleoprote... 57 9e-08
sp|P57722|PCBP3_MOUSE Poly(rC)-binding protein 3 (Alpha-CP3) 41 0.005
sp|P57721|PCBP3_HUMAN Poly(rC)-binding protein 3 (Alpha-CP3) 41 0.005
sp|P57723|PCBP4_HUMAN Poly(rC)-binding protein 4 (Alpha-CP4) 39 0.025
sp|P60335|PCBP1_MOUSE Poly(rC)-binding protein 1 (Alpha-CP1... 39 0.025
sp|P57724|PCBP4_MOUSE Poly(rC)-binding protein 4 (Alpha-CP4) 39 0.025
sp|Q15366|PCBP2_HUMAN Poly(rC)-binding protein 2 (Alpha-CP2... 37 0.056
sp|Q61990|PCBP2_MOUSE Poly(rC)-binding protein 2 (Alpha-CP2... 37 0.056
sp|Q80WA4|NOVA1_RAT RNA-binding protein Nova-1 (Neuro-oncol... 34 0.62
>sp|P61980|HNRPK_RAT Heterogeneous nuclear ribonucleoprotein K (dC stretch-binding
protein) (CSBP)
sp|P61979|HNRPK_MOUSE Heterogeneous nuclear ribonucleoprotein K
sp|P61978|HNRPK_HUMAN Heterogeneous nuclear ribonucleoprotein K (hnRNP K) (Transformation
up-regulated nuclear protein) (TUNP)
Length = 463
Score = 56.6 bits (135), Expect = 9e-08
Identities = 26/62 (41%), Positives = 41/62 (66%)
Frame = +1
Query: 40 LQYRFLIPQPAAGAIISKKGETIKRLRATYNCDISVPPSNGPERLMIINTEIDRLCGVLG 219
++ R L+ AGA+I K G+ IK LR YN +SVP S+GPER++ I+ +I+ + +L
Sbjct: 43 VELRILLQSKNAGAVIGKGGKNIKALRTDYNASVSVPDSSGPERILSISADIETIGEILK 102
Query: 220 EI 225
+I
Sbjct: 103 KI 104
Score = 41.2 bits (95), Expect = 0.004
Identities = 15/39 (38%), Positives = 29/39 (74%)
Frame = +2
Query: 536 SVIKVYQQMCPSSTDRVIRLVGLPEDILSCLRAIHEVIT 652
+ IK++Q+ CP STDRV+ + G P+ ++ C++ I ++I+
Sbjct: 176 TTIKLFQECCPHSTDRVVLIGGKPDRVVECIKIILDLIS 214
>sp|O19049|HNRPK_RABIT Heterogeneous nuclear ribonucleoprotein K (hnRNP K)
Length = 463
Score = 56.6 bits (135), Expect = 9e-08
Identities = 26/62 (41%), Positives = 41/62 (66%)
Frame = +1
Query: 40 LQYRFLIPQPAAGAIISKKGETIKRLRATYNCDISVPPSNGPERLMIINTEIDRLCGVLG 219
++ R L+ AGA+I K G+ IK LR YN +SVP S+GPER++ I+ +I+ + +L
Sbjct: 43 VELRILLQSKNAGAVIGKGGKNIKALRTDYNASVSVPDSSGPERILSISADIETIGEILK 102
Query: 220 EI 225
+I
Sbjct: 103 KI 104
Score = 41.2 bits (95), Expect = 0.004
Identities = 15/39 (38%), Positives = 29/39 (74%)
Frame = +2
Query: 536 SVIKVYQQMCPSSTDRVIRLVGLPEDILSCLRAIHEVIT 652
+ IK++Q+ CP STDRV+ + G P+ ++ C++ I ++I+
Sbjct: 176 TTIKLFQECCPHSTDRVVLIGGKPDRVVECIKIILDLIS 214
>sp|P57722|PCBP3_MOUSE Poly(rC)-binding protein 3 (Alpha-CP3)
Length = 339
Score = 40.8 bits (94), Expect = 0.005
Identities = 20/56 (35%), Positives = 31/56 (55%)
Frame = +1
Query: 37 SLQYRFLIPQPAAGAIISKKGETIKRLRATYNCDISVPPSNGPERLMIINTEIDRL 204
+L R L+ G+II KKGET+K++R I++ N PER++ I D +
Sbjct: 13 TLTIRLLMHGKEVGSIIGKKGETVKKMREESGARINISEGNCPERIVTITGPTDAI 68
Score = 32.7 bits (73), Expect = 1.4
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Frame = +3
Query: 345 KDIINGIMPDGIVSAD-MDLRFLVSENVCGAIIGKGGEVIRKLTE 476
+DIIN + S + LR +V + CG++IGKGG I+++ E
Sbjct: 81 EDIINSMSNSPATSKPPVTLRLVVPASQCGSLIGKGGSKIKEIRE 125
Score = 30.4 bits (67), Expect = 6.9
Identities = 11/32 (34%), Positives = 21/32 (65%)
Frame = +2
Query: 542 IKVYQQMCPSSTDRVIRLVGLPEDILSCLRAI 637
++V M P+ST+R + + G P+ I+ C++ I
Sbjct: 131 VQVAGDMLPNSTERAVTISGTPDAIIQCVKQI 162
>sp|P57721|PCBP3_HUMAN Poly(rC)-binding protein 3 (Alpha-CP3)
Length = 339
Score = 40.8 bits (94), Expect = 0.005
Identities = 20/56 (35%), Positives = 31/56 (55%)
Frame = +1
Query: 37 SLQYRFLIPQPAAGAIISKKGETIKRLRATYNCDISVPPSNGPERLMIINTEIDRL 204
+L R L+ G+II KKGET+K++R I++ N PER++ I D +
Sbjct: 13 TLTIRLLMHGKEVGSIIGKKGETVKKMREESGARINISEGNCPERIVTITGPTDAI 68
Score = 32.7 bits (73), Expect = 1.4
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Frame = +3
Query: 345 KDIINGIMPDGIVSAD-MDLRFLVSENVCGAIIGKGGEVIRKLTE 476
+DIIN + S + LR +V + CG++IGKGG I+++ E
Sbjct: 81 EDIINSMSNSPATSKPPVTLRLVVPASQCGSLIGKGGSKIKEIRE 125
Score = 30.4 bits (67), Expect = 6.9
Identities = 11/32 (34%), Positives = 21/32 (65%)
Frame = +2
Query: 542 IKVYQQMCPSSTDRVIRLVGLPEDILSCLRAI 637
++V M P+ST+R + + G P+ I+ C++ I
Sbjct: 131 VQVAGDMLPNSTERAVTISGTPDAIIQCVKQI 162
>sp|P57723|PCBP4_HUMAN Poly(rC)-binding protein 4 (Alpha-CP4)
Length = 403
Score = 38.5 bits (88), Expect = 0.025
Identities = 19/49 (38%), Positives = 29/49 (59%)
Frame = +1
Query: 37 SLQYRFLIPQPAAGAIISKKGETIKRLRATYNCDISVPPSNGPERLMII 183
+L R L+ G+II KKGET+KR+R + I++ + PER+ I
Sbjct: 17 TLTLRMLMHGKEVGSIIGKKGETVKRIREQSSARITISEGSCPERITTI 65
Score = 31.6 bits (70), Expect = 3.1
Identities = 13/36 (36%), Positives = 24/36 (66%)
Frame = +2
Query: 542 IKVYQQMCPSSTDRVIRLVGLPEDILSCLRAIHEVI 649
++V + P+ST+R + + G+P+ I+ C+R I VI
Sbjct: 135 VQVAGDLLPNSTERAVTVSGVPDAIILCVRQICAVI 170
>sp|P60335|PCBP1_MOUSE Poly(rC)-binding protein 1 (Alpha-CP1) (hnRNP-E1)
sp|Q15365|PCBP1_HUMAN Poly(rC)-binding protein 1 (Alpha-CP1) (hnRNP-E1) (Nucleic
acid-binding protein SUB2.3)
sp|O19048|PCBP1_RABIT Poly(rC)-binding protein 1 (Alpha-CP1) (hnRNP-E1)
Length = 356
Score = 38.5 bits (88), Expect = 0.025
Identities = 18/49 (36%), Positives = 29/49 (59%)
Frame = +1
Query: 37 SLQYRFLIPQPAAGAIISKKGETIKRLRATYNCDISVPPSNGPERLMII 183
+L R L+ G+II KKGE++KR+R I++ N PER++ +
Sbjct: 13 TLTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISEGNCPERIITL 61
Score = 31.6 bits (70), Expect = 3.1
Identities = 11/32 (34%), Positives = 21/32 (65%)
Frame = +2
Query: 542 IKVYQQMCPSSTDRVIRLVGLPEDILSCLRAI 637
++V M P+ST+R I + G+P+ + C++ I
Sbjct: 131 VQVAGDMLPNSTERAITIAGVPQSVTECVKQI 162
>sp|P57724|PCBP4_MOUSE Poly(rC)-binding protein 4 (Alpha-CP4)
Length = 403
Score = 38.5 bits (88), Expect = 0.025
Identities = 19/49 (38%), Positives = 29/49 (59%)
Frame = +1
Query: 37 SLQYRFLIPQPAAGAIISKKGETIKRLRATYNCDISVPPSNGPERLMII 183
+L R L+ G+II KKGET+KR+R + I++ + PER+ I
Sbjct: 17 TLTLRMLMHGKEVGSIIGKKGETVKRIREQSSARITISEGSCPERITTI 65
Score = 31.6 bits (70), Expect = 3.1
Identities = 13/36 (36%), Positives = 24/36 (66%)
Frame = +2
Query: 542 IKVYQQMCPSSTDRVIRLVGLPEDILSCLRAIHEVI 649
++V + P+ST+R + + G+P+ I+ C+R I VI
Sbjct: 135 VQVAGDLLPNSTERAVTVSGVPDAIILCVRQICAVI 170
>sp|Q15366|PCBP2_HUMAN Poly(rC)-binding protein 2 (Alpha-CP2) (hnRNP-E2)
Length = 365
Score = 37.4 bits (85), Expect = 0.056
Identities = 17/49 (34%), Positives = 29/49 (59%)
Frame = +1
Query: 37 SLQYRFLIPQPAAGAIISKKGETIKRLRATYNCDISVPPSNGPERLMII 183
+L R L+ G+II KKGE++K++R I++ N PER++ +
Sbjct: 13 TLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITL 61
Score = 33.5 bits (75), Expect = 0.81
Identities = 12/32 (37%), Positives = 22/32 (68%)
Frame = +2
Query: 542 IKVYQQMCPSSTDRVIRLVGLPEDILSCLRAI 637
++V M P+ST+R I + G+P+ I+ C++ I
Sbjct: 131 VQVAGDMLPNSTERAITIAGIPQSIIECVKQI 162
>sp|Q61990|PCBP2_MOUSE Poly(rC)-binding protein 2 (Alpha-CP2) (Putative heterogeneous
nuclear ribonucleoprotein X) (hnRNP X) (CTBP) (CBP)
Length = 362
Score = 37.4 bits (85), Expect = 0.056
Identities = 17/49 (34%), Positives = 29/49 (59%)
Frame = +1
Query: 37 SLQYRFLIPQPAAGAIISKKGETIKRLRATYNCDISVPPSNGPERLMII 183
+L R L+ G+II KKGE++K++R I++ N PER++ +
Sbjct: 13 TLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITL 61
Score = 33.5 bits (75), Expect = 0.81
Identities = 12/32 (37%), Positives = 22/32 (68%)
Frame = +2
Query: 542 IKVYQQMCPSSTDRVIRLVGLPEDILSCLRAI 637
++V M P+ST+R I + G+P+ I+ C++ I
Sbjct: 131 VQVAGDMLPNSTERAITIAGIPQSIIECVKQI 162
>sp|Q80WA4|NOVA1_RAT RNA-binding protein Nova-1 (Neuro-oncological ventral antigen 1)
Length = 474
Score = 33.9 bits (76), Expect = 0.62
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 5/69 (7%)
Frame = +1
Query: 49 RFLIPQPAAGAIISKKGETIKRLRATYNCDISVPPSNG-----PERLMIINTEIDRLCGV 213
+ LIP AAG+II K G+TI +L+ I + S ER+ +I I+ L V
Sbjct: 52 KVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNAV 111
Query: 214 LGEIFEIVK 240
G I E ++
Sbjct: 112 HGFIAEKIR 120
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: 93,561,019
Number of Sequences: 369166
Number of extensions: 1776747
Number of successful extensions: 4288
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4107
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): 4288
length of database: 68,354,980
effective HSP length: 110
effective length of database: 48,034,130
effective search space used: 8838279920
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)