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_019_A21
(856 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q99020|ROAA_MOUSE Heterogeneous nuclear ribonucleoprotei... 95 2e-19
sp|Q14103|HNRPD_HUMAN Heterogeneous nuclear ribonucleoprote... 92 2e-18
sp|P17132|HNRPC_RAT Heterogeneous nuclear ribonucleoprotein... 92 2e-18
sp|Q9JJ54|HNRPD_RAT Heterogeneous nuclear ribonucleoprotein... 92 2e-18
sp|Q60668|HNRPD_MOUSE Heterogeneous nuclear ribonucleoprote... 92 2e-18
sp|Q99729|ROAA_HUMAN Heterogeneous nuclear ribonucleoprotei... 87 6e-17
sp|P07029|HNRU2_HUMAN Heterogeneous nuclear ribonucleoprote... 82 1e-15
sp|Q08473|SQD_DROME RNA-binding protein squid (Heterogeneou... 82 2e-15
sp|Q920Q6|MSI2H_MOUSE RNA-binding protein Musashi homolog 2... 67 5e-11
sp|Q96DH6|MSI2H_HUMAN RNA-binding protein Musashi homolog 2... 67 5e-11
>sp|Q99020|ROAA_MOUSE Heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B)
(CArG-binding factor-A) (CBF-A)
Length = 285
Score = 95.1 bits (235), Expect = 2e-19
Identities = 46/96 (47%), Positives = 64/96 (66%), Gaps = 1/96 (1%)
Frame = +2
Query: 2 LEVPEHRLKNKKIDPKPAKPTK-EPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPF 178
L+ EHRL + IDPK A K +P KKIFVGGL+P+ TEE+I+EYF Q+G +E+++LP
Sbjct: 133 LDQKEHRLDGRVIDPKKAMAMKKDPVKKIFVGGLNPEATEEKIREYFGQFGEIEAIELPI 192
Query: 179 DTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSK 286
D KR+ +VF++F ED K + + V GSK
Sbjct: 193 DPKLNKRRGFVFITFKEEDPVKKVLEKKFHTVSGSK 228
Score = 48.9 bits (115), Expect = 2e-05
Identities = 22/82 (26%), Positives = 49/82 (59%)
Frame = +2
Query: 53 AKPTKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTE 232
A +E K+FVGGLS D +++ +K+YF+++G V + D + G+ + + F+ F +
Sbjct: 67 ASKNEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILF-KD 125
Query: 233 DAAKNAIINEKQDVLGSKLVCP 298
++ ++++K+ L +++ P
Sbjct: 126 SSSVEKVLDQKEHRLDGRVIDP 147
>sp|Q14103|HNRPD_HUMAN Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 355
Score = 92.0 bits (227), Expect = 2e-18
Identities = 47/97 (48%), Positives = 63/97 (64%), Gaps = 2/97 (2%)
Frame = +2
Query: 2 LEVPEHRLKNKKIDPKPAKP--TKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLP 175
++ EH+L K IDPK AK TKEP KKIFVGGLSPD EE+I+EYF +G VES++LP
Sbjct: 155 MDQKEHKLNGKVIDPKRAKAMKTKEPVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELP 214
Query: 176 FDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSK 286
D KR+ + F++F E+ K + + +V SK
Sbjct: 215 MDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSK 251
Score = 51.2 bits (121), Expect = 4e-06
Identities = 24/73 (32%), Positives = 45/73 (61%)
Frame = +2
Query: 80 KIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIIN 259
K+F+GGLS D T++ +K+YFS++G V L D G+ + + F+ F E + + +++
Sbjct: 98 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF-KESESVDKVMD 156
Query: 260 EKQDVLGSKLVCP 298
+K+ L K++ P
Sbjct: 157 QKEHKLNGKVIDP 169
>sp|P17132|HNRPC_RAT Heterogeneous nuclear ribonucleoprotein C (hnRNP C) (hnRNP core
protein C)
Length = 158
Score = 92.0 bits (227), Expect = 2e-18
Identities = 47/97 (48%), Positives = 63/97 (64%), Gaps = 2/97 (2%)
Frame = +2
Query: 2 LEVPEHRLKNKKIDPKPAKP--TKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLP 175
++ EH+L K IDPK AK TKEP KKIFVGGLSPD EE+I+EYF +G VES++LP
Sbjct: 7 MDQKEHKLNGKVIDPKRAKAMKTKEPVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELP 66
Query: 176 FDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSK 286
D KR+ + F++F E+ K + + +V SK
Sbjct: 67 MDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSK 103
>sp|Q9JJ54|HNRPD_RAT Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 353
Score = 92.0 bits (227), Expect = 2e-18
Identities = 47/97 (48%), Positives = 63/97 (64%), Gaps = 2/97 (2%)
Frame = +2
Query: 2 LEVPEHRLKNKKIDPKPAKP--TKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLP 175
++ EH+L K IDPK AK TKEP KKIFVGGLSPD EE+I+EYF +G VES++LP
Sbjct: 153 MDQKEHKLNGKVIDPKRAKAMKTKEPVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELP 212
Query: 176 FDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSK 286
D KR+ + F++F E+ K + + +V SK
Sbjct: 213 MDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSK 249
Score = 51.2 bits (121), Expect = 4e-06
Identities = 24/73 (32%), Positives = 45/73 (61%)
Frame = +2
Query: 80 KIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIIN 259
K+F+GGLS D T++ +K+YFS++G V L D G+ + + F+ F E + + +++
Sbjct: 96 KMFIGGLSWDTTKKDLKDYFSKFGDVVDCTLKLDPITGRSRGFGFVLF-KESESVDKVMD 154
Query: 260 EKQDVLGSKLVCP 298
+K+ L K++ P
Sbjct: 155 QKEHKLNGKVIDP 167
>sp|Q60668|HNRPD_MOUSE Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 355
Score = 92.0 bits (227), Expect = 2e-18
Identities = 47/97 (48%), Positives = 63/97 (64%), Gaps = 2/97 (2%)
Frame = +2
Query: 2 LEVPEHRLKNKKIDPKPAKP--TKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLP 175
++ EH+L K IDPK AK TKEP KKIFVGGLSPD EE+I+EYF +G VES++LP
Sbjct: 155 MDQKEHKLNGKVIDPKRAKAMKTKEPVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELP 214
Query: 176 FDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSK 286
D KR+ + F++F E+ K + + +V SK
Sbjct: 215 MDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSK 251
Score = 51.2 bits (121), Expect = 4e-06
Identities = 24/73 (32%), Positives = 45/73 (61%)
Frame = +2
Query: 80 KIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIIN 259
K+F+GGLS D T++ +K+YFS++G V L D G+ + + F+ F E + + +++
Sbjct: 98 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF-KESESVDKVMD 156
Query: 260 EKQDVLGSKLVCP 298
+K+ L K++ P
Sbjct: 157 QKEHKLNGKVIDP 169
>sp|Q99729|ROAA_HUMAN Heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B) (APOBEC-1
binding protein 1) (ABBP-1)
Length = 331
Score = 87.0 bits (214), Expect = 6e-17
Identities = 44/97 (45%), Positives = 64/97 (65%), Gaps = 2/97 (2%)
Frame = +2
Query: 2 LEVPEHRLKNKKIDPKPAKPTK-EPNKKIFVGGLSPDV-TEEQIKEYFSQYGSVESVDLP 175
L+ EHRL + IDPK A K +P KKIFVGGL+P+ TEE+I+EYF ++G +E+++LP
Sbjct: 126 LDQKEHRLDGRVIDPKKAMAMKKDPVKKIFVGGLNPESPTEEKIREYFGEFGEIEAIELP 185
Query: 176 FDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSK 286
D KR+ +VF++F E+ K + + V GSK
Sbjct: 186 MDPKLNKRRGFVFITFKEEEPVKKVLEKKFHTVSGSK 222
Score = 50.1 bits (118), Expect = 8e-06
Identities = 25/96 (26%), Positives = 53/96 (55%)
Frame = +2
Query: 11 PEHRLKNKKIDPKPAKPTKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSK 190
P ++ D A +E K+FVGGLS D +++ +K+YF+++G V + D +
Sbjct: 46 PRAGIRTAPRDQINASKNEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNT 105
Query: 191 GKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKLVCP 298
G+ + + F+ F + A+ ++++K+ L +++ P
Sbjct: 106 GRSRGFGFILF-KDAASVEKVLDQKEHRLDGRVIDP 140
>sp|P07029|HNRU2_HUMAN Heterogeneous nuclear ribonucleoprotein UP2
Length = 225
Score = 82.4 bits (202), Expect = 1e-15
Identities = 40/70 (57%), Positives = 50/70 (71%), Gaps = 2/70 (2%)
Frame = +2
Query: 32 KKIDPKPAKP--TKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKP 205
K IDPK AK TKEP KKIFVGGLSPD EE+I+EYF +G VES++LP D KR+
Sbjct: 155 KVIDPKRAKAMKTKEPVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRG 214
Query: 206 YVFLSFTTED 235
+ F++F E+
Sbjct: 215 FCFITFNQEE 224
>sp|Q08473|SQD_DROME RNA-binding protein squid (Heterogeneous nuclear ribonucleoprotein
40) (HNRNP 40)
Length = 344
Score = 81.6 bits (200), Expect = 2e-15
Identities = 36/92 (39%), Positives = 61/92 (66%)
Frame = +2
Query: 14 EHRLKNKKIDPKPAKPTKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKG 193
EH + +KK+DPK AK + KIFVGGL+ ++++E+IK YF Q+G++ V++PFD K
Sbjct: 118 EHIINSKKVDPKKAKAR---HGKIFVGGLTTEISDEEIKTYFGQFGNIVEVEMPFDKQKS 174
Query: 194 KRKPYVFLSFTTEDAAKNAIINEKQDVLGSKL 289
+RK + F++F +E + + KQ + G ++
Sbjct: 175 QRKGFCFITFDSEQVVTDLLKTPKQKIAGKEV 206
Score = 57.8 bits (138), Expect = 4e-08
Identities = 25/82 (30%), Positives = 52/82 (63%)
Frame = +2
Query: 53 AKPTKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTE 232
A ++ ++K+FVGGLS + TE++++++F +YG +ES+++ D G+ + + F+ FT
Sbjct: 48 ASGQRDDDRKLFVGGLSWETTEKELRDHFGKYGEIESINVKTDPQTGRSRGFAFIVFTNT 107
Query: 233 DAAKNAIINEKQDVLGSKLVCP 298
+A + + + ++ SK V P
Sbjct: 108 EAI-DKVSAADEHIINSKKVDP 128
>sp|Q920Q6|MSI2H_MOUSE RNA-binding protein Musashi homolog 2 (Musashi-2)
Length = 346
Score = 67.4 bits (163), Expect = 5e-11
Identities = 34/84 (40%), Positives = 47/84 (55%), Gaps = 6/84 (7%)
Frame = +2
Query: 11 PEHRLKNKKIDPKPAKPTKEP------NKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDL 172
P H L +K IDPK A P + KKIFVGGLS + E +K+YF Q+G VE L
Sbjct: 82 PHHELDSKTIDPKVAFPRRAQPKMVTRTKKIFVGGLSANTVVEDVKQYFEQFGKVEDAML 141
Query: 173 PFDTSKGKRKPYVFLSFTTEDAAK 244
FD + + + + F++F ED +
Sbjct: 142 MFDKTTNRHRGFGFVTFENEDVVE 165
Score = 40.0 bits (92), Expect = 0.008
Identities = 18/73 (24%), Positives = 42/73 (57%)
Frame = +2
Query: 80 KIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIIN 259
K+F+GGLS + + +++YFS++G + + D + + + + F++F + A+ + ++
Sbjct: 22 KMFIGGLSWQTSPDSLRDYFSKFGEIRECMVMRDPTTKRSRGFGFVTF-ADPASVDKVLG 80
Query: 260 EKQDVLGSKLVCP 298
+ L SK + P
Sbjct: 81 QPHHELDSKTIDP 93
>sp|Q96DH6|MSI2H_HUMAN RNA-binding protein Musashi homolog 2 (Musashi-2)
Length = 328
Score = 67.4 bits (163), Expect = 5e-11
Identities = 34/84 (40%), Positives = 47/84 (55%), Gaps = 6/84 (7%)
Frame = +2
Query: 11 PEHRLKNKKIDPKPAKPTKEP------NKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDL 172
P H L +K IDPK A P + KKIFVGGLS + E +K+YF Q+G VE L
Sbjct: 82 PHHELDSKTIDPKVAFPRRAQPKMVTRTKKIFVGGLSANTVVEDVKQYFEQFGKVEDAML 141
Query: 173 PFDTSKGKRKPYVFLSFTTEDAAK 244
FD + + + + F++F ED +
Sbjct: 142 MFDKTTNRHRGFGFVTFENEDVVE 165
Score = 40.0 bits (92), Expect = 0.008
Identities = 18/73 (24%), Positives = 42/73 (57%)
Frame = +2
Query: 80 KIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIIN 259
K+F+GGLS + + +++YFS++G + + D + + + + F++F + A+ + ++
Sbjct: 22 KMFIGGLSWQTSPDSLRDYFSKFGEIRECMVMRDPTTKRSRGFGFVTF-ADPASVDKVLG 80
Query: 260 EKQDVLGSKLVCP 298
+ L SK + P
Sbjct: 81 QPHHELDSKTIDP 93
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: 89,565,011
Number of Sequences: 369166
Number of extensions: 1757531
Number of successful extensions: 5299
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4997
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): 5275
length of database: 68,354,980
effective HSP length: 109
effective length of database: 48,218,865
effective search space used: 8438301375
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)