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_026_I08
(789 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... 143 5e-34
sp|Q14103|HNRPD_HUMAN Heterogeneous nuclear ribonucleoprote... 142 1e-33
sp|Q60668|HNRPD_MOUSE Heterogeneous nuclear ribonucleoprote... 142 1e-33
sp|Q9JJ54|HNRPD_RAT Heterogeneous nuclear ribonucleoprotein... 141 2e-33
sp|Q99729|ROAA_HUMAN Heterogeneous nuclear ribonucleoprotei... 134 3e-31
sp|Q08473|SQD_DROME RNA-binding protein squid (Heterogeneou... 117 5e-26
sp|P17132|HNRPC_RAT Heterogeneous nuclear ribonucleoprotein... 110 3e-24
sp|P09867|ROA1_BOVIN Heterogeneous nuclear ribonucleoprotei... 103 4e-22
sp|P49312|ROA1_MOUSE Heterogeneous nuclear ribonucleoprotei... 103 4e-22
sp|P09651|ROA1_HUMAN Heterogeneous nuclear ribonucleoprotei... 103 4e-22
>sp|Q99020|ROAA_MOUSE Heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B)
(CArG-binding factor-A) (CBF-A)
Length = 285
Score = 143 bits (361), Expect = 5e-34
Identities = 67/141 (47%), Positives = 96/141 (68%), Gaps = 1/141 (0%)
Frame = +1
Query: 1 WGKVAHCVIKLDKMTGNSRGFGFVTMDTEDSLKKVLEVPEHRLKNKKIDPKPAKPTK-EP 177
+G+V C IK+D TG SRGFGF+ S++KVL+ EHRL + IDPK A K +P
Sbjct: 98 FGEVVDCTIKMDPNTGRSRGFGFILFKDSSSVEKVLDQKEHRLDGRVIDPKKAMAMKKDP 157
Query: 178 NKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAI 357
KKIFVGGL+P+ TEE+I+EYF Q+G +E+++LP D KR+ +VF++F ED K +
Sbjct: 158 VKKIFVGGLNPEATEEKIREYFGQFGEIEAIELPIDPKLNKRRGFVFITFKEEDPVKKVL 217
Query: 358 INEKQDVLGSKCDVRMAVPKD 420
+ V GSKC++++A PK+
Sbjct: 218 EKKFHTVSGSKCEIKVAQPKE 238
Score = 51.6 bits (122), Expect = 2e-06
Identities = 27/94 (28%), Positives = 51/94 (54%), Gaps = 2/94 (2%)
Frame = +1
Query: 157 AKPTKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTE 336
A +E K+FVGGLS D +++ +K+YF+++G V + D + G+ + + F+ F
Sbjct: 67 ASKNEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDS 126
Query: 337 DAAKNAIINEKQDVLGSKCDVR--MAVPKDQVNK 432
+ + + ++ + G D + MA+ KD V K
Sbjct: 127 SSVEKVLDQKEHRLDGRVIDPKKAMAMKKDPVKK 160
>sp|Q14103|HNRPD_HUMAN Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 355
Score = 142 bits (358), Expect = 1e-33
Identities = 69/148 (46%), Positives = 99/148 (66%), Gaps = 2/148 (1%)
Frame = +1
Query: 1 WGKVAHCVIKLDKMTGNSRGFGFVTMDTEDSLKKVLEVPEHRLKNKKIDPKPAKP--TKE 174
+G+V C +KLD +TG SRGFGFV +S+ KV++ EH+L K IDPK AK TKE
Sbjct: 120 FGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKRAKAMKTKE 179
Query: 175 PNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNA 354
P KKIFVGGLSPD EE+I+EYF +G VES++LP D KR+ + F++F E+ K
Sbjct: 180 PVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKI 239
Query: 355 IINEKQDVLGSKCDVRMAVPKDQVNKNK 438
+ + +V SKC++++A+ K+Q + +
Sbjct: 240 MEKKYHNVGLSKCEIKVAMSKEQYQQQQ 267
Score = 48.1 bits (113), Expect = 3e-05
Identities = 23/69 (33%), Positives = 42/69 (60%)
Frame = +1
Query: 184 KIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIIN 363
K+F+GGLS D T++ +K+YFS++G V L D G+ + + F+ F E + + +++
Sbjct: 98 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF-KESESVDKVMD 156
Query: 364 EKQDVLGSK 390
+K+ L K
Sbjct: 157 QKEHKLNGK 165
>sp|Q60668|HNRPD_MOUSE Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 355
Score = 142 bits (358), Expect = 1e-33
Identities = 69/148 (46%), Positives = 99/148 (66%), Gaps = 2/148 (1%)
Frame = +1
Query: 1 WGKVAHCVIKLDKMTGNSRGFGFVTMDTEDSLKKVLEVPEHRLKNKKIDPKPAKP--TKE 174
+G+V C +KLD +TG SRGFGFV +S+ KV++ EH+L K IDPK AK TKE
Sbjct: 120 FGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKRAKAMKTKE 179
Query: 175 PNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNA 354
P KKIFVGGLSPD EE+I+EYF +G VES++LP D KR+ + F++F E+ K
Sbjct: 180 PVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKI 239
Query: 355 IINEKQDVLGSKCDVRMAVPKDQVNKNK 438
+ + +V SKC++++A+ K+Q + +
Sbjct: 240 MEKKYHNVGLSKCEIKVAMSKEQYQQQQ 267
Score = 48.1 bits (113), Expect = 3e-05
Identities = 23/69 (33%), Positives = 42/69 (60%)
Frame = +1
Query: 184 KIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIIN 363
K+F+GGLS D T++ +K+YFS++G V L D G+ + + F+ F E + + +++
Sbjct: 98 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF-KESESVDKVMD 156
Query: 364 EKQDVLGSK 390
+K+ L K
Sbjct: 157 QKEHKLNGK 165
>sp|Q9JJ54|HNRPD_RAT Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 353
Score = 141 bits (356), Expect = 2e-33
Identities = 69/148 (46%), Positives = 98/148 (66%), Gaps = 2/148 (1%)
Frame = +1
Query: 1 WGKVAHCVIKLDKMTGNSRGFGFVTMDTEDSLKKVLEVPEHRLKNKKIDPKPAKP--TKE 174
+G V C +KLD +TG SRGFGFV +S+ KV++ EH+L K IDPK AK TKE
Sbjct: 118 FGDVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKRAKAMKTKE 177
Query: 175 PNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNA 354
P KKIFVGGLSPD EE+I+EYF +G VES++LP D KR+ + F++F E+ K
Sbjct: 178 PVKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKI 237
Query: 355 IINEKQDVLGSKCDVRMAVPKDQVNKNK 438
+ + +V SKC++++A+ K+Q + +
Sbjct: 238 MEKKYHNVGLSKCEIKVAMSKEQYQQQQ 265
Score = 48.1 bits (113), Expect = 3e-05
Identities = 23/69 (33%), Positives = 42/69 (60%)
Frame = +1
Query: 184 KIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIIN 363
K+F+GGLS D T++ +K+YFS++G V L D G+ + + F+ F E + + +++
Sbjct: 96 KMFIGGLSWDTTKKDLKDYFSKFGDVVDCTLKLDPITGRSRGFGFVLF-KESESVDKVMD 154
Query: 364 EKQDVLGSK 390
+K+ L K
Sbjct: 155 QKEHKLNGK 163
>sp|Q99729|ROAA_HUMAN Heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B) (APOBEC-1
binding protein 1) (ABBP-1)
Length = 331
Score = 134 bits (337), Expect = 3e-31
Identities = 65/142 (45%), Positives = 96/142 (67%), Gaps = 2/142 (1%)
Frame = +1
Query: 1 WGKVAHCVIKLDKMTGNSRGFGFVTMDTEDSLKKVLEVPEHRLKNKKIDPKPAKPTK-EP 177
+G+V C IK+D TG SRGFGF+ S++KVL+ EHRL + IDPK A K +P
Sbjct: 91 FGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDPKKAMAMKKDP 150
Query: 178 NKKIFVGGLSPDV-TEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNA 354
KKIFVGGL+P+ TEE+I+EYF ++G +E+++LP D KR+ +VF++F E+ K
Sbjct: 151 VKKIFVGGLNPESPTEEKIREYFGEFGEIEAIELPMDPKLNKRRGFVFITFKEEEPVKKV 210
Query: 355 IINEKQDVLGSKCDVRMAVPKD 420
+ + V GSKC++++A PK+
Sbjct: 211 LEKKFHTVSGSKCEIKVAQPKE 232
Score = 51.2 bits (121), Expect = 3e-06
Identities = 29/108 (26%), Positives = 55/108 (50%), Gaps = 2/108 (1%)
Frame = +1
Query: 115 PEHRLKNKKIDPKPAKPTKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSK 294
P ++ D A +E K+FVGGLS D +++ +K+YF+++G V + D +
Sbjct: 46 PRAGIRTAPRDQINASKNEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNT 105
Query: 295 GKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVR--MAVPKDQVNK 432
G+ + + F+ F + + + ++ + G D + MA+ KD V K
Sbjct: 106 GRSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDPKKAMAMKKDPVKK 153
>sp|Q08473|SQD_DROME RNA-binding protein squid (Heterogeneous nuclear ribonucleoprotein
40) (HNRNP 40)
Length = 344
Score = 117 bits (292), Expect = 5e-26
Identities = 53/141 (37%), Positives = 87/141 (61%)
Frame = +1
Query: 1 WGKVAHCVIKLDKMTGNSRGFGFVTMDTEDSLKKVLEVPEHRLKNKKIDPKPAKPTKEPN 180
+G++ +K D TG SRGF F+ +++ KV EH + +KK+DPK AK +
Sbjct: 79 YGEIESINVKTDPQTGRSRGFAFIVFTNTEAIDKVSAADEHIINSKKVDPKKAKAR---H 135
Query: 181 KKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAII 360
KIFVGGL+ ++++E+IK YF Q+G++ V++PFD K +RK + F++F +E + +
Sbjct: 136 GKIFVGGLTTEISDEEIKTYFGQFGNIVEVEMPFDKQKSQRKGFCFITFDSEQVVTDLLK 195
Query: 361 NEKQDVLGSKCDVRMAVPKDQ 423
KQ + G + DV+ A PK +
Sbjct: 196 TPKQKIAGKEVDVKRATPKPE 216
Score = 58.2 bits (139), Expect = 3e-08
Identities = 24/84 (28%), Positives = 50/84 (59%)
Frame = +1
Query: 157 AKPTKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTE 336
A ++ ++K+FVGGLS + TE++++++F +YG +ES+++ D G+ + + F+ FT
Sbjct: 48 ASGQRDDDRKLFVGGLSWETTEKELRDHFGKYGEIESINVKTDPQTGRSRGFAFIVFTNT 107
Query: 337 DAAKNAIINEKQDVLGSKCDVRMA 408
+A ++ + K D + A
Sbjct: 108 EAIDKVSAADEHIINSKKVDPKKA 131
>sp|P17132|HNRPC_RAT Heterogeneous nuclear ribonucleoprotein C (hnRNP C) (hnRNP core
protein C)
Length = 158
Score = 110 bits (276), Expect = 3e-24
Identities = 54/119 (45%), Positives = 80/119 (67%), Gaps = 2/119 (1%)
Frame = +1
Query: 88 DSLKKVLEVPEHRLKNKKIDPKPAKP--TKEPNKKIFVGGLSPDVTEEQIKEYFSQYGSV 261
+S+ KV++ EH+L K IDPK AK TKEP KKIFVGGLSPD EE+I+EYF +G V
Sbjct: 1 ESVDKVMDQKEHKLNGKVIDPKRAKAMKTKEPVKKIFVGGLSPDTPEEKIREYFGGFGEV 60
Query: 262 ESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVRMAVPKDQVNKNK 438
ES++LP D KR+ + F++F E+ K + + +V SKC++++A+ K+Q + +
Sbjct: 61 ESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVAMSKEQYQQQQ 119
Score = 35.8 bits (81), Expect = 0.14
Identities = 17/53 (32%), Positives = 28/53 (52%)
Frame = +1
Query: 1 WGKVAHCVIKLDKMTGNSRGFGFVTMDTEDSLKKVLEVPEHRLKNKKIDPKPA 159
+G+V + +D T RGF F+T E+ +KK++E H + K + K A
Sbjct: 57 FGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVA 109
>sp|P09867|ROA1_BOVIN Heterogeneous nuclear ribonucleoprotein A1 (Helix-destabilizing
protein) (Single-strand binding protein) (hnRNP core
protein A1) (Unwinding protein 1) (UP1)
Length = 195
Score = 103 bits (258), Expect = 4e-22
Identities = 48/150 (32%), Positives = 80/150 (53%), Gaps = 8/150 (5%)
Frame = +1
Query: 1 WGKVAHCVIKLDKMTGNSRGFGFVTMDTEDSLKKVLEVPEHRLKNKKIDPKPAKPTKEPN 180
WG + CV+ D T SRGFGFVT T + + + H++ + ++PK A ++
Sbjct: 36 WGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQ 95
Query: 181 --------KKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTE 336
KKIFVGG+ D E +++YF QYG +E +++ D GK++ + F++F
Sbjct: 96 RPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 155
Query: 337 DAAKNAIINEKQDVLGSKCDVRMAVPKDQV 426
D+ +I + V G C+VR A+ K ++
Sbjct: 156 DSVDKIVIQKYHTVNGHNCEVRKALSKQEM 185
Score = 43.1 bits (100), Expect = 9e-04
Identities = 28/93 (30%), Positives = 50/93 (53%), Gaps = 5/93 (5%)
Frame = +1
Query: 169 KEPN--KKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTT--- 333
KEP +K+F+GGLS + T+E ++ +F Q+G++ + D + + + + F+++ T
Sbjct: 7 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 66
Query: 334 EDAAKNAIINEKQDVLGSKCDVRMAVPKDQVNK 432
DAA NA K D R+ PK V++
Sbjct: 67 VDAAMNA--------RPHKVDGRVVEPKRAVSR 91
>sp|P49312|ROA1_MOUSE Heterogeneous nuclear ribonucleoprotein A1 (Helix-destabilizing
protein) (Single-strand binding protein) (hnRNP core
protein A1) (HDP-1) (Topoisomerase-inhibitor suppressed)
Length = 320
Score = 103 bits (258), Expect = 4e-22
Identities = 48/150 (32%), Positives = 80/150 (53%), Gaps = 8/150 (5%)
Frame = +1
Query: 1 WGKVAHCVIKLDKMTGNSRGFGFVTMDTEDSLKKVLEVPEHRLKNKKIDPKPAKPTKEPN 180
WG + CV+ D T SRGFGFVT T + + + H++ + ++PK A ++
Sbjct: 37 WGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQ 96
Query: 181 --------KKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTE 336
KKIFVGG+ D E +++YF QYG +E +++ D GK++ + F++F
Sbjct: 97 RPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 156
Query: 337 DAAKNAIINEKQDVLGSKCDVRMAVPKDQV 426
D+ +I + V G C+VR A+ K ++
Sbjct: 157 DSVDKIVIQKYHTVNGHNCEVRKALSKQEM 186
Score = 43.1 bits (100), Expect = 9e-04
Identities = 28/93 (30%), Positives = 50/93 (53%), Gaps = 5/93 (5%)
Frame = +1
Query: 169 KEPN--KKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTT--- 333
KEP +K+F+GGLS + T+E ++ +F Q+G++ + D + + + + F+++ T
Sbjct: 8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 67
Query: 334 EDAAKNAIINEKQDVLGSKCDVRMAVPKDQVNK 432
DAA NA K D R+ PK V++
Sbjct: 68 VDAAMNA--------RPHKVDGRVVEPKRAVSR 92
>sp|P09651|ROA1_HUMAN Heterogeneous nuclear ribonucleoprotein A1 (Helix-destabilizing
protein) (Single-strand binding protein) (hnRNP core
protein A1)
Length = 372
Score = 103 bits (258), Expect = 4e-22
Identities = 48/150 (32%), Positives = 80/150 (53%), Gaps = 8/150 (5%)
Frame = +1
Query: 1 WGKVAHCVIKLDKMTGNSRGFGFVTMDTEDSLKKVLEVPEHRLKNKKIDPKPAKPTKEPN 180
WG + CV+ D T SRGFGFVT T + + + H++ + ++PK A ++
Sbjct: 37 WGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQ 96
Query: 181 --------KKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTE 336
KKIFVGG+ D E +++YF QYG +E +++ D GK++ + F++F
Sbjct: 97 RPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 156
Query: 337 DAAKNAIINEKQDVLGSKCDVRMAVPKDQV 426
D+ +I + V G C+VR A+ K ++
Sbjct: 157 DSVDKIVIQKYHTVNGHNCEVRKALSKQEM 186
Score = 43.1 bits (100), Expect = 9e-04
Identities = 28/93 (30%), Positives = 50/93 (53%), Gaps = 5/93 (5%)
Frame = +1
Query: 169 KEPN--KKIFVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTT--- 333
KEP +K+F+GGLS + T+E ++ +F Q+G++ + D + + + + F+++ T
Sbjct: 8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 67
Query: 334 EDAAKNAIINEKQDVLGSKCDVRMAVPKDQVNK 432
DAA NA K D R+ PK V++
Sbjct: 68 VDAAMNA--------RPHKVDGRVVEPKRAVSR 92
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: 79,522,277
Number of Sequences: 369166
Number of extensions: 1463562
Number of successful extensions: 5191
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4622
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): 5059
length of database: 68,354,980
effective HSP length: 108
effective length of database: 48,403,600
effective search space used: 7454154400
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)