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_028_G07
(903 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P17133|RU17_DROME U1 small nuclear ribonucleoprotein 70 ... 192 1e-48
sp|P08621|RU17_HUMAN U1 small nuclear ribonucleoprotein 70 ... 174 2e-43
sp|P09406|RU17_XENLA U1 small nuclear ribonucleoprotein 70 ... 164 4e-40
sp|Q42404|RU17_ARATH U1 small nuclear ribonucleoprotein 70 ... 135 1e-31
sp|Q62376|RU17_MOUSE U1 small nuclear ribonucleoprotein 70 ... 114 5e-25
sp|Q14103|HNRPD_HUMAN Heterogeneous nuclear ribonucleoprote... 64 6e-10
sp|P17132|HNRPC_RAT Heterogeneous nuclear ribonucleoprotein... 64 6e-10
sp|Q9JJ54|HNRPD_RAT Heterogeneous nuclear ribonucleoprotein... 64 6e-10
sp|Q60668|HNRPD_MOUSE Heterogeneous nuclear ribonucleoprote... 64 6e-10
sp|Q00916|RU17_YEAST U1 small nuclear ribonucleoprotein 70 ... 62 2e-09
>sp|P17133|RU17_DROME U1 small nuclear ribonucleoprotein 70 kDa (U1 snRNP 70 kDa)
(snRNP70)
Length = 448
Score = 192 bits (487), Expect = 1e-48
Identities = 89/155 (57%), Positives = 117/155 (75%), Gaps = 1/155 (0%)
Frame = +3
Query: 6 YLPPNLLALFAARDPIPFAVPLER-PKSHRPLPYTGIAQYVKIFEDPSETPIPPKVETXX 182
YLPPNLLALFAAR+PIPF P+++ P + Y G+A+++ FEDP +TP+P VET
Sbjct: 4 YLPPNLLALFAAREPIPFMPPVDKLPHEKKSRGYLGVAKFMADFEDPKDTPLPKTVETRQ 63
Query: 183 XXXXXXXXXXAEQIAYKVEQDLALWNPNEIPSGTKDPYKTLFVARINYDTTESKIRREFE 362
AEQ+AYK+E+++ALW+P EI + T+DP++TLF+ARINYDT+ESK+RREFE
Sbjct: 64 ERLERRRREKAEQVAYKLEREIALWDPTEIKNATEDPFRTLFIARINYDTSESKLRREFE 123
Query: 363 GYGPIKTIKMIKNSMNNKPRGYCFIEYEHERDMHA 467
YGPIK I +I + + KP+GY FIEYEHERDMHA
Sbjct: 124 FYGPIKKIVLIHDQESGKPKGYAFIEYEHERDMHA 158
Score = 50.4 bits (119), Expect = 7e-06
Identities = 24/27 (88%), Positives = 25/27 (92%)
Frame = +2
Query: 692 HAAYKNADGKKIDGHRVLVDVERARTV 772
HAAYK+ADGKKID RVLVDVERARTV
Sbjct: 157 HAAYKHADGKKIDSKRVLVDVERARTV 183
>sp|P08621|RU17_HUMAN U1 small nuclear ribonucleoprotein 70 kDa (U1 snRNP 70 kDa)
(snRNP70) (U1-70K)
Length = 437
Score = 174 bits (442), Expect = 2e-43
Identities = 84/156 (53%), Positives = 106/156 (67%), Gaps = 2/156 (1%)
Frame = +3
Query: 6 YLPPNLLALFAARDPIPFAVPLER--PKSHRPLPYTGIAQYVKIFEDPSETPIPPKVETX 179
+LPPNLLALFA RDPIP+ PLE+ + H PY GIA Y++ FEDP + P P + ET
Sbjct: 4 FLPPNLLALFAPRDPIPYLPPLEKLPHEKHHNQPYCGIAPYIREFEDPRDAPPPTRAETR 63
Query: 180 XXXXXXXXXXXAEQIAYKVEQDLALWNPNEIPSGTKDPYKTLFVARINYDTTESKIRREF 359
E+ +VE +L +W+P+ P+ D +KTLFVAR+NYDTTESK+RREF
Sbjct: 64 EERMERKRREKIERRQQEVETELKMWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREF 123
Query: 360 EGYGPIKTIKMIKNSMNNKPRGYCFIEYEHERDMHA 467
E YGPIK I M+ + + KPRGY FIEYEHERDMH+
Sbjct: 124 EVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHS 159
Score = 50.4 bits (119), Expect = 7e-06
Identities = 23/27 (85%), Positives = 25/27 (92%)
Frame = +2
Query: 692 HAAYKNADGKKIDGHRVLVDVERARTV 772
H+AYK+ADGKKIDG RVLVDVER RTV
Sbjct: 158 HSAYKHADGKKIDGRRVLVDVERGRTV 184
>sp|P09406|RU17_XENLA U1 small nuclear ribonucleoprotein 70 kDa (U1 snRNP 70 kDa)
(snRNP70) (U1-70K)
Length = 471
Score = 164 bits (414), Expect = 4e-40
Identities = 81/159 (50%), Positives = 104/159 (65%), Gaps = 5/159 (3%)
Frame = +3
Query: 6 YLPPNLLALFAARDPIPFAVPLER--PKSHRPLPYTGIAQYVKIFEDPSETPIPPKVETX 179
+LPPNLLALFA RDP+P+ PL++ + H PY GIA Y++ FEDP + P P + ET
Sbjct: 4 FLPPNLLALFAPRDPVPYLPPLDKLPHEKHHNQPYCGIAPYIREFEDPRDAPPPTRAETR 63
Query: 180 XXXXXXXXXXXAEQIAYKVEQDLALWNPNEIPSGTKDPYKTLFVARINYDTTESKIRREF 359
E+ VE +L +W+P+ + D +KTLFVAR+NYDTTESK+RREF
Sbjct: 64 EERMERKRREKIERRQQDVENELKIWDPHNDQNAQGDAFKTLFVARVNYDTTESKLRREF 123
Query: 360 EGYGPIKTIKMIKN---SMNNKPRGYCFIEYEHERDMHA 467
E YGPIK I ++ N + KPRGY FIEYEHERDMH+
Sbjct: 124 EVYGPIKRIHIVYNKGSEGSGKPRGYAFIEYEHERDMHS 162
Score = 50.4 bits (119), Expect = 7e-06
Identities = 23/27 (85%), Positives = 25/27 (92%)
Frame = +2
Query: 692 HAAYKNADGKKIDGHRVLVDVERARTV 772
H+AYK+ADGKKIDG RVLVDVER RTV
Sbjct: 161 HSAYKHADGKKIDGRRVLVDVERGRTV 187
>sp|Q42404|RU17_ARATH U1 small nuclear ribonucleoprotein 70 kDa (U1 snRNP 70 kDa)
(snRNP70) (U1-70K)
Length = 427
Score = 135 bits (341), Expect = 1e-31
Identities = 70/156 (44%), Positives = 95/156 (60%), Gaps = 3/156 (1%)
Frame = +3
Query: 9 LPPNLLALFAARDPIPFAVPLERPKSHRPLPYTGIAQYVKIFEDPSE---TPIPPKVETX 179
L NLL LF R P+ + P E+ K PYTG+AQ+V F +P + P P+VE
Sbjct: 42 LTNNLLKLFEPRPPLEYKPPPEKRKCP---PYTGMAQFVSNFAEPGDPEYAPPKPEVELP 98
Query: 180 XXXXXXXXXXXAEQIAYKVEQDLALWNPNEIPSGTKDPYKTLFVARINYDTTESKIRREF 359
E+ K +DL ++PN P+ T DPYKTLFV+R+NY+++ESKI+REF
Sbjct: 99 SQKRERIHKLRLEKGVEKAAEDLKKYDPNNDPNATGDPYKTLFVSRLNYESSESKIKREF 158
Query: 360 EGYGPIKTIKMIKNSMNNKPRGYCFIEYEHERDMHA 467
E YGPIK + ++ + + NKP+GY FIEY H RDM A
Sbjct: 159 ESYGPIKRVHLVTDQLTNKPKGYAFIEYMHTRDMKA 194
Score = 46.6 bits (109), Expect = 1e-04
Identities = 22/26 (84%), Positives = 23/26 (88%)
Frame = +2
Query: 695 AAYKNADGKKIDGHRVLVDVERARTV 772
AAYK ADG+KIDG RVLVDVER RTV
Sbjct: 194 AAYKQADGQKIDGRRVLVDVERGRTV 219
>sp|Q62376|RU17_MOUSE U1 small nuclear ribonucleoprotein 70 kDa (U1 SNRNP 70 kDa)
(snRNP70)
Length = 378
Score = 114 bits (284), Expect = 5e-25
Identities = 51/84 (60%), Positives = 65/84 (77%)
Frame = +3
Query: 216 EQIAYKVEQDLALWNPNEIPSGTKDPYKTLFVARINYDTTESKIRREFEGYGPIKTIKMI 395
E+ +VE +L +W+P+ P+ D +KTLFVAR+NYDTTESK+RREFE YGPIK I M+
Sbjct: 6 ERRQQEVETELKMWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMV 65
Query: 396 KNSMNNKPRGYCFIEYEHERDMHA 467
+ + KPRGY FIEYEHERDMH+
Sbjct: 66 YSKRSGKPRGYAFIEYEHERDMHS 89
Score = 50.4 bits (119), Expect = 7e-06
Identities = 23/27 (85%), Positives = 25/27 (92%)
Frame = +2
Query: 692 HAAYKNADGKKIDGHRVLVDVERARTV 772
H+AYK+ADGKKIDG RVLVDVER RTV
Sbjct: 88 HSAYKHADGKKIDGRRVLVDVERGRTV 114
>sp|Q14103|HNRPD_HUMAN Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 355
Score = 63.9 bits (154), Expect = 6e-10
Identities = 27/70 (38%), Positives = 45/70 (64%)
Frame = +3
Query: 282 TKDPYKTLFVARINYDTTESKIRREFEGYGPIKTIKMIKNSMNNKPRGYCFIEYEHERDM 461
TK+P K +FV ++ DT E KIR F G+G +++I++ ++ NK RG+CFI ++ E +
Sbjct: 177 TKEPVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPV 236
Query: 462 HAFITKRVHN 491
+ K+ HN
Sbjct: 237 KKIMEKKYHN 246
Score = 31.2 bits (69), Expect = 4.1
Identities = 12/75 (16%), Positives = 39/75 (52%)
Frame = +3
Query: 264 NEIPSGTKDPYKTLFVARINYDTTESKIRREFEGYGPIKTIKMIKNSMNNKPRGYCFIEY 443
+E + ++ +K +F+ +++DTT+ ++ F +G + + + + + RG+ F+ +
Sbjct: 87 SEAATAQREEWK-MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF 145
Query: 444 EHERDMHAFITKRVH 488
+ + + ++ H
Sbjct: 146 KESESVDKVMDQKEH 160
>sp|P17132|HNRPC_RAT Heterogeneous nuclear ribonucleoprotein C (hnRNP C) (hnRNP core
protein C)
Length = 158
Score = 63.9 bits (154), Expect = 6e-10
Identities = 27/70 (38%), Positives = 45/70 (64%)
Frame = +3
Query: 282 TKDPYKTLFVARINYDTTESKIRREFEGYGPIKTIKMIKNSMNNKPRGYCFIEYEHERDM 461
TK+P K +FV ++ DT E KIR F G+G +++I++ ++ NK RG+CFI ++ E +
Sbjct: 29 TKEPVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPV 88
Query: 462 HAFITKRVHN 491
+ K+ HN
Sbjct: 89 KKIMEKKYHN 98
>sp|Q9JJ54|HNRPD_RAT Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 353
Score = 63.9 bits (154), Expect = 6e-10
Identities = 27/70 (38%), Positives = 45/70 (64%)
Frame = +3
Query: 282 TKDPYKTLFVARINYDTTESKIRREFEGYGPIKTIKMIKNSMNNKPRGYCFIEYEHERDM 461
TK+P K +FV ++ DT E KIR F G+G +++I++ ++ NK RG+CFI ++ E +
Sbjct: 175 TKEPVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPV 234
Query: 462 HAFITKRVHN 491
+ K+ HN
Sbjct: 235 KKIMEKKYHN 244
Score = 30.8 bits (68), Expect = 5.4
Identities = 12/74 (16%), Positives = 38/74 (51%)
Frame = +3
Query: 267 EIPSGTKDPYKTLFVARINYDTTESKIRREFEGYGPIKTIKMIKNSMNNKPRGYCFIEYE 446
E + ++ +K +F+ +++DTT+ ++ F +G + + + + + RG+ F+ ++
Sbjct: 86 EAATAQREEWK-MFIGGLSWDTTKKDLKDYFSKFGDVVDCTLKLDPITGRSRGFGFVLFK 144
Query: 447 HERDMHAFITKRVH 488
+ + ++ H
Sbjct: 145 ESESVDKVMDQKEH 158
>sp|Q60668|HNRPD_MOUSE Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 355
Score = 63.9 bits (154), Expect = 6e-10
Identities = 27/70 (38%), Positives = 45/70 (64%)
Frame = +3
Query: 282 TKDPYKTLFVARINYDTTESKIRREFEGYGPIKTIKMIKNSMNNKPRGYCFIEYEHERDM 461
TK+P K +FV ++ DT E KIR F G+G +++I++ ++ NK RG+CFI ++ E +
Sbjct: 177 TKEPVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPV 236
Query: 462 HAFITKRVHN 491
+ K+ HN
Sbjct: 237 KKIMEKKYHN 246
Score = 30.8 bits (68), Expect = 5.4
Identities = 12/74 (16%), Positives = 38/74 (51%)
Frame = +3
Query: 267 EIPSGTKDPYKTLFVARINYDTTESKIRREFEGYGPIKTIKMIKNSMNNKPRGYCFIEYE 446
E + ++ +K +F+ +++DTT+ ++ F +G + + + + + RG+ F+ ++
Sbjct: 88 EAAAAQREEWK-MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFK 146
Query: 447 HERDMHAFITKRVH 488
+ + ++ H
Sbjct: 147 ESESVDKVMDQKEH 160
>sp|Q00916|RU17_YEAST U1 small nuclear ribonucleoprotein 70 kDa homolog
Length = 300
Score = 62.0 bits (149), Expect = 2e-09
Identities = 38/148 (25%), Positives = 68/148 (45%), Gaps = 3/148 (2%)
Frame = +3
Query: 12 PPNLLALFAARDPIPFAVPLERPKSHRPLP--YTGIAQYVKIFEDPSETPIPPKVETXXX 185
P ++ LF R P+ + P + P + R TG+A + P
Sbjct: 9 PDDVSRLFKPRPPLSYKRPTDYPYAKRQTNPNITGVANLLSTSLKHYMEEFPEGSPNNHL 68
Query: 186 XXXXXXXXXAEQIAYKVEQDLALWNPNEIPS-GTKDPYKTLFVARINYDTTESKIRREFE 362
+ A +++ L WNPN P DPY+T+F+ R+ YD E ++++ F
Sbjct: 69 QRYEDIKLSKIKNAQLLDRRLQNWNPNVDPHIKDTDPYRTIFIGRLPYDLDEIELQKYFV 128
Query: 363 GYGPIKTIKMIKNSMNNKPRGYCFIEYE 446
+G I+ I+++K+ + K +GY FI ++
Sbjct: 129 KFGEIEKIRIVKDKITQKSKGYAFIVFK 156
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: 93,804,369
Number of Sequences: 369166
Number of extensions: 1796893
Number of successful extensions: 4431
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4180
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): 4411
length of database: 68,354,980
effective HSP length: 110
effective length of database: 48,034,130
effective search space used: 9126484700
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)