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_006_J20
(877 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... 60 1e-08
sp|O19049|HNRPK_RABIT Heterogeneous nuclear ribonucleoprote... 60 1e-08
sp|P57722|PCBP3_MOUSE Poly(rC)-binding protein 3 (Alpha-CP3) 42 0.002
sp|P57721|PCBP3_HUMAN Poly(rC)-binding protein 3 (Alpha-CP3) 42 0.002
sp|P57724|PCBP4_MOUSE Poly(rC)-binding protein 4 (Alpha-CP4) 42 0.002
sp|P57723|PCBP4_HUMAN Poly(rC)-binding protein 4 (Alpha-CP4) 42 0.002
sp|Q15366|PCBP2_HUMAN Poly(rC)-binding protein 2 (Alpha-CP2... 41 0.005
sp|Q61990|PCBP2_MOUSE Poly(rC)-binding protein 2 (Alpha-CP2... 41 0.005
sp|P58223|Y4837_ARATH Putative nucleic acid binding protein... 40 0.007
sp|Q96AE4|FUBP1_HUMAN Far upstream element-binding protein ... 39 0.025
>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 = 59.7 bits (143), Expect = 1e-08
Identities = 31/67 (46%), Positives = 44/67 (65%)
Frame = +3
Query: 657 QVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQNMETILSLTGTKDQIDGAQYL 836
QV+IP L S+ GK G+ + I +SGA I ID E + + I+++TGT+DQI AQYL
Sbjct: 391 QVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYL 450
Query: 837 LQICIKK 857
LQ +K+
Sbjct: 451 LQNSVKQ 457
>sp|O19049|HNRPK_RABIT Heterogeneous nuclear ribonucleoprotein K (hnRNP K)
Length = 463
Score = 59.7 bits (143), Expect = 1e-08
Identities = 31/67 (46%), Positives = 44/67 (65%)
Frame = +3
Query: 657 QVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQNMETILSLTGTKDQIDGAQYL 836
QV+IP L S+ GK G+ + I +SGA I ID E + + I+++TGT+DQI AQYL
Sbjct: 391 QVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYL 450
Query: 837 LQICIKK 857
LQ +K+
Sbjct: 451 LQNSVKQ 457
>sp|P57722|PCBP3_MOUSE Poly(rC)-binding protein 3 (Alpha-CP3)
Length = 339
Score = 42.4 bits (98), Expect = 0.002
Identities = 28/82 (34%), Positives = 42/82 (51%)
Frame = +3
Query: 627 ASSNASIEKLQVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQNMETILSLTGT 806
AS AS +L +IP LI + G+ G ++ I SGA+I I E + E +++TGT
Sbjct: 257 ASPPASTHEL--TIPNDLIGCIIGRQGTKINEIRQMSGAQIKIANATEGSSERQITITGT 314
Query: 807 KDQIDGAQYLLQICIKKSVLNL 872
I AQYL+ + V +
Sbjct: 315 PANISLAQYLINARLTSEVTGM 336
>sp|P57721|PCBP3_HUMAN Poly(rC)-binding protein 3 (Alpha-CP3)
Length = 339
Score = 42.4 bits (98), Expect = 0.002
Identities = 28/82 (34%), Positives = 42/82 (51%)
Frame = +3
Query: 627 ASSNASIEKLQVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQNMETILSLTGT 806
AS AS +L +IP LI + G+ G ++ I SGA+I I E + E +++TGT
Sbjct: 257 ASPPASTHEL--TIPNDLIGCIIGRQGTKINEIRQMSGAQIKIANATEGSSERQITITGT 314
Query: 807 KDQIDGAQYLLQICIKKSVLNL 872
I AQYL+ + V +
Sbjct: 315 PANISLAQYLINARLTSEVTGM 336
>sp|P57724|PCBP4_MOUSE Poly(rC)-binding protein 4 (Alpha-CP4)
Length = 403
Score = 42.4 bits (98), Expect = 0.002
Identities = 25/82 (30%), Positives = 38/82 (46%)
Frame = +3
Query: 609 PDNIVGASSNASIEKLQVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQNMETI 788
P + G + + +P LI V G+ G +S I SGA I I E E
Sbjct: 229 PSVVPGMDPSTQTSSQEFLVPNDLIGCVIGRQGSKISEIRQMSGAHIKIGNQAEGAGERH 288
Query: 789 LSLTGTKDQIDGAQYLLQICIK 854
+++TG+ I AQYL+ C++
Sbjct: 289 VTITGSPVSIALAQYLITACLE 310
>sp|P57723|PCBP4_HUMAN Poly(rC)-binding protein 4 (Alpha-CP4)
Length = 403
Score = 42.0 bits (97), Expect = 0.002
Identities = 25/82 (30%), Positives = 37/82 (45%)
Frame = +3
Query: 609 PDNIVGASSNASIEKLQVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQNMETI 788
P + G + +P LI V G+ G +S I SGA I I E E
Sbjct: 229 PSVVPGLDPGTQTSSQEFLVPNDLIGCVIGRQGSKISEIRQMSGAHIKIGNQAEGAGERH 288
Query: 789 LSLTGTKDQIDGAQYLLQICIK 854
+++TG+ I AQYL+ C++
Sbjct: 289 VTITGSPVSIALAQYLITACLE 310
>sp|Q15366|PCBP2_HUMAN Poly(rC)-binding protein 2 (Alpha-CP2) (hnRNP-E2)
Length = 365
Score = 40.8 bits (94), Expect = 0.005
Identities = 22/74 (29%), Positives = 40/74 (54%)
Frame = +3
Query: 624 GASSNASIEKLQVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQNMETILSLTG 803
G ++A +++IP LI + G+ G ++ I SGA+I I E + + +++TG
Sbjct: 280 GLDASAQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITG 339
Query: 804 TKDQIDGAQYLLQI 845
+ I AQYL+ +
Sbjct: 340 SAASISLAQYLINV 353
>sp|Q61990|PCBP2_MOUSE Poly(rC)-binding protein 2 (Alpha-CP2) (Putative heterogeneous
nuclear ribonucleoprotein X) (hnRNP X) (CTBP) (CBP)
Length = 362
Score = 40.8 bits (94), Expect = 0.005
Identities = 22/74 (29%), Positives = 40/74 (54%)
Frame = +3
Query: 624 GASSNASIEKLQVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQNMETILSLTG 803
G ++A +++IP LI + G+ G ++ I SGA+I I E + + +++TG
Sbjct: 277 GLDASAQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITG 336
Query: 804 TKDQIDGAQYLLQI 845
+ I AQYL+ +
Sbjct: 337 SAASISLAQYLINV 350
>sp|P58223|Y4837_ARATH Putative nucleic acid binding protein At4g18375
Length = 606
Score = 40.4 bits (93), Expect = 0.007
Identities = 27/83 (32%), Positives = 43/83 (51%), Gaps = 6/83 (7%)
Frame = +3
Query: 612 DNIVGASSNASIEKL------QVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQ 773
DN++G++ S +L ++ IP + V GK G L NI SGA I I +
Sbjct: 518 DNVLGSTGPYSYGRLPSSSALEILIPAHAMSKVMGKGGGNLENIRRISGAMIEISASKTS 577
Query: 774 NMETILSLTGTKDQIDGAQYLLQ 842
+ + I L+GT +Q+ A+ L+Q
Sbjct: 578 HGDHIALLSGTLEQMRCAENLVQ 600
>sp|Q96AE4|FUBP1_HUMAN Far upstream element-binding protein 1 (FUSE-binding protein 1)
(FBP) (DNA helicase V) (HDH V)
Length = 643
Score = 38.5 bits (88), Expect = 0.025
Identities = 20/64 (31%), Positives = 32/64 (50%)
Frame = +3
Query: 648 EKLQVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQNMETILSLTGTKDQIDGA 827
E + V IP + V G+NGE++ I +D+G I +D E I +TG D+ A
Sbjct: 275 EGIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPERIAQITGPPDRCQHA 334
Query: 828 QYLL 839
++
Sbjct: 335 AEII 338
Score = 38.5 bits (88), Expect = 0.025
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Frame = +3
Query: 645 IEKLQVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQNME---TILSLTGTKDQ 815
+++ +PT + GK GE + +I SGA I + N N + + ++ GT Q
Sbjct: 375 LQEFNFIVPTGKTGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKLFTIRGTPQQ 434
Query: 816 IDGAQYLLQ 842
ID A+ L++
Sbjct: 435 IDYARQLIE 443
Score = 37.4 bits (85), Expect = 0.055
Identities = 20/72 (27%), Positives = 36/72 (50%)
Frame = +3
Query: 642 SIEKLQVSIPTSLIHSVKGKNGEVLSNIISDSGAEISIDGNDEQNMETILSLTGTKDQID 821
S+ + +P ++ + G+ GE +S I +SG +I I + E LTGT + +
Sbjct: 98 SVMTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTGTPESVQ 157
Query: 822 GAQYLLQICIKK 857
A+ LL ++K
Sbjct: 158 SAKRLLDQIVEK 169
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: 92,554,169
Number of Sequences: 369166
Number of extensions: 1786111
Number of successful extensions: 6456
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 5220
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): 5928
length of database: 68,354,980
effective HSP length: 110
effective length of database: 48,034,130
effective search space used: 8694177530
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)