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_C13
(996 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... 72 2e-12
sp|Q08473|SQD_DROME RNA-binding protein squid (Heterogeneou... 66 1e-10
sp|Q14103|HNRPD_HUMAN Heterogeneous nuclear ribonucleoprote... 65 4e-10
sp|P17132|HNRPC_RAT Heterogeneous nuclear ribonucleoprotein... 65 4e-10
sp|Q9JJ54|HNRPD_RAT Heterogeneous nuclear ribonucleoprotein... 65 4e-10
sp|Q60668|HNRPD_MOUSE Heterogeneous nuclear ribonucleoprote... 65 4e-10
sp|Q99729|ROAA_HUMAN Heterogeneous nuclear ribonucleoprotei... 64 5e-10
sp|P07029|HNRU2_HUMAN Heterogeneous nuclear ribonucleoprote... 63 1e-09
sp|P17130|ROA1_XENLA Heterogeneous nuclear ribonucleoprotei... 55 3e-07
sp|P09867|ROA1_BOVIN Heterogeneous nuclear ribonucleoprotei... 54 5e-07
>sp|Q99020|ROAA_MOUSE Heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B)
(CArG-binding factor-A) (CBF-A)
Length = 285
Score = 72.4 bits (176), Expect = 2e-12
Identities = 31/67 (46%), Positives = 46/67 (68%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
FVGGL+P+ TEE+I+EYF Q+G +E+++LP D KR+ +VF++F ED K + +
Sbjct: 162 FVGGLNPEATEEKIREYFGQFGEIEAIELPIDPKLNKRRGFVFITFKEEDPVKKVLEKKF 221
Query: 232 QDVLGSK 252
V GSK
Sbjct: 222 HTVSGSK 228
Score = 43.5 bits (101), Expect = 0.001
Identities = 19/68 (27%), Positives = 42/68 (61%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
FVGGLS D +++ +K+YF+++G V + D + G+ + + F+ F + ++ ++++K
Sbjct: 78 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILF-KDSSSVEKVLDQK 136
Query: 232 QDVLGSKV 255
+ L +V
Sbjct: 137 EHRLDGRV 144
>sp|Q08473|SQD_DROME RNA-binding protein squid (Heterogeneous nuclear ribonucleoprotein
40) (HNRNP 40)
Length = 344
Score = 66.2 bits (160), Expect = 1e-10
Identities = 26/69 (37%), Positives = 47/69 (68%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
FVGGL+ ++++E+IK YF Q+G++ V++PFD K +RK + F++F +E + + K
Sbjct: 139 FVGGLTTEISDEEIKTYFGQFGNIVEVEMPFDKQKSQRKGFCFITFDSEQVVTDLLKTPK 198
Query: 232 QDVLGSKVN 258
Q + G +V+
Sbjct: 199 QKIAGKEVD 207
Score = 52.0 bits (123), Expect = 3e-06
Identities = 24/67 (35%), Positives = 42/67 (62%), Gaps = 6/67 (8%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTED------AAKN 213
FVGGLS + TE++++++F +YG +ES+++ D G+ + + F+ FT + AA
Sbjct: 59 FVGGLSWETTEKELRDHFGKYGEIESINVKTDPQTGRSRGFAFIVFTNTEAIDKVSAADE 118
Query: 214 AIINEKQ 234
IIN K+
Sbjct: 119 HIINSKK 125
>sp|Q14103|HNRPD_HUMAN Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 355
Score = 64.7 bits (156), Expect = 4e-10
Identities = 30/67 (44%), Positives = 43/67 (64%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
FVGGLSPD EE+I+EYF +G VES++LP D KR+ + F++F E+ K + +
Sbjct: 185 FVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKY 244
Query: 232 QDVLGSK 252
+V SK
Sbjct: 245 HNVGLSK 251
Score = 47.4 bits (111), Expect = 6e-05
Identities = 23/68 (33%), Positives = 41/68 (60%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
F+GGLS D T++ +K+YFS++G V L D G+ + + F+ F E + + ++++K
Sbjct: 100 FIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF-KESESVDKVMDQK 158
Query: 232 QDVLGSKV 255
+ L KV
Sbjct: 159 EHKLNGKV 166
>sp|P17132|HNRPC_RAT Heterogeneous nuclear ribonucleoprotein C (hnRNP C) (hnRNP core
protein C)
Length = 158
Score = 64.7 bits (156), Expect = 4e-10
Identities = 30/67 (44%), Positives = 43/67 (64%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
FVGGLSPD EE+I+EYF +G VES++LP D KR+ + F++F E+ K + +
Sbjct: 37 FVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKY 96
Query: 232 QDVLGSK 252
+V SK
Sbjct: 97 HNVGLSK 103
>sp|Q9JJ54|HNRPD_RAT Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 353
Score = 64.7 bits (156), Expect = 4e-10
Identities = 30/67 (44%), Positives = 43/67 (64%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
FVGGLSPD EE+I+EYF +G VES++LP D KR+ + F++F E+ K + +
Sbjct: 183 FVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKY 242
Query: 232 QDVLGSK 252
+V SK
Sbjct: 243 HNVGLSK 249
Score = 47.4 bits (111), Expect = 6e-05
Identities = 23/68 (33%), Positives = 41/68 (60%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
F+GGLS D T++ +K+YFS++G V L D G+ + + F+ F E + + ++++K
Sbjct: 98 FIGGLSWDTTKKDLKDYFSKFGDVVDCTLKLDPITGRSRGFGFVLF-KESESVDKVMDQK 156
Query: 232 QDVLGSKV 255
+ L KV
Sbjct: 157 EHKLNGKV 164
>sp|Q60668|HNRPD_MOUSE Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 355
Score = 64.7 bits (156), Expect = 4e-10
Identities = 30/67 (44%), Positives = 43/67 (64%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
FVGGLSPD EE+I+EYF +G VES++LP D KR+ + F++F E+ K + +
Sbjct: 185 FVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKY 244
Query: 232 QDVLGSK 252
+V SK
Sbjct: 245 HNVGLSK 251
Score = 47.4 bits (111), Expect = 6e-05
Identities = 23/68 (33%), Positives = 41/68 (60%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
F+GGLS D T++ +K+YFS++G V L D G+ + + F+ F E + + ++++K
Sbjct: 100 FIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF-KESESVDKVMDQK 158
Query: 232 QDVLGSKV 255
+ L KV
Sbjct: 159 EHKLNGKV 166
>sp|Q99729|ROAA_HUMAN Heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B) (APOBEC-1
binding protein 1) (ABBP-1)
Length = 331
Score = 64.3 bits (155), Expect = 5e-10
Identities = 29/68 (42%), Positives = 46/68 (67%), Gaps = 1/68 (1%)
Frame = +1
Query: 52 FVGGLSPDV-TEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINE 228
FVGGL+P+ TEE+I+EYF ++G +E+++LP D KR+ +VF++F E+ K + +
Sbjct: 155 FVGGLNPESPTEEKIREYFGEFGEIEAIELPMDPKLNKRRGFVFITFKEEEPVKKVLEKK 214
Query: 229 KQDVLGSK 252
V GSK
Sbjct: 215 FHTVSGSK 222
Score = 43.9 bits (102), Expect = 7e-04
Identities = 20/68 (29%), Positives = 42/68 (61%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
FVGGLS D +++ +K+YF+++G V + D + G+ + + F+ F + A+ ++++K
Sbjct: 71 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILF-KDAASVEKVLDQK 129
Query: 232 QDVLGSKV 255
+ L +V
Sbjct: 130 EHRLDGRV 137
>sp|P07029|HNRU2_HUMAN Heterogeneous nuclear ribonucleoprotein UP2
Length = 225
Score = 62.8 bits (151), Expect = 1e-09
Identities = 26/50 (52%), Positives = 36/50 (72%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTED 201
FVGGLSPD EE+I+EYF +G VES++LP D KR+ + F++F E+
Sbjct: 175 FVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFNQEE 224
>sp|P17130|ROA1_XENLA Heterogeneous nuclear ribonucleoproteins A1 homolog (hnRNP A1)
(Helix-destabilizing protein) (Single-strand binding
protein) (hnRNP core protein A1)
Length = 365
Score = 55.1 bits (131), Expect = 3e-07
Identities = 21/63 (33%), Positives = 37/63 (58%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
FVGG+ D E+ ++EYF QYG +E +++ D GK++ + F++F D+ +I +
Sbjct: 108 FVGGIKEDTEEDHLREYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFEDHDSVDKIVIQKY 167
Query: 232 QDV 240
V
Sbjct: 168 HTV 170
Score = 37.7 bits (86), Expect = 0.051
Identities = 18/68 (26%), Positives = 37/68 (54%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
F+GGLS + T+E ++E+F Q+G++ + D + + + + F+++ + D A+
Sbjct: 17 FIGGLSFETTDESLREHFEQWGTLTDCVVMRDPNSKRSRGFGFVTYLSTDEVDAAMTARP 76
Query: 232 QDVLGSKV 255
V G V
Sbjct: 77 HKVDGRVV 84
>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 = 54.3 bits (129), Expect = 5e-07
Identities = 21/65 (32%), Positives = 37/65 (56%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEK 231
FVGG+ D E +++YF QYG +E +++ D GK++ + F++F D+ +I +
Sbjct: 107 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 166
Query: 232 QDVLG 246
V G
Sbjct: 167 HTVNG 171
Score = 37.0 bits (84), Expect = 0.087
Identities = 18/58 (31%), Positives = 35/58 (60%), Gaps = 3/58 (5%)
Frame = +1
Query: 52 FVGGLSPDVTEEQIKEYFSQYGSVESVDLPFDTSKGKRKPYVFLSFTT---EDAAKNA 216
F+GGLS + T+E ++ +F Q+G++ + D + + + + F+++ T DAA NA
Sbjct: 16 FIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
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: 101,007,321
Number of Sequences: 369166
Number of extensions: 1917733
Number of successful extensions: 4684
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4438
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): 4683
length of database: 68,354,980
effective HSP length: 111
effective length of database: 47,849,395
effective search space used: 10526866900
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)