BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 014217
(428 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 147 bits (370), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 72/172 (41%), Positives = 112/172 (65%), Gaps = 4/172 (2%)
Query: 15 VKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTR--ASRGCCFVICPSRQEADKA 72
+K+FVGQVP+ +E L +F+++ V E+N+++D++ S+GCCFV +R+ A +A
Sbjct: 16 IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 75
Query: 73 VNACHNKKTLPGASSPLQVKYADGELERL--EHKLFIGMLPKNVSEAEVSALFSIYGTIK 130
NA HN K LPG P+Q+K AD E + KLFIGM+ K +E ++ +FS +G I+
Sbjct: 76 QNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIE 135
Query: 131 DLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWAD 182
+ +ILRG S+GCAF+ + T+ A A++A++ MEG S P+VVK+AD
Sbjct: 136 ECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD 187
Score = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 50/85 (58%), Gaps = 3/85 (3%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQT---SKGCAFLKYETKEQALAAL 160
K+F+G +P+ SE ++ LF YG + ++ +LR Q SKGC F+ + T++ AL A
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 76
Query: 161 EAINGKHKMEGSSVPLVVKWADTEK 185
A++ + G P+ +K AD+EK
Sbjct: 77 NALHNMKVLPGMHHPIQMKPADSEK 101
Score = 31.6 bits (70), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI I ++ + ++ F +FG++ ++ + G+S+ FV++ + A AQ AI M
Sbjct: 110 LFIGMISKKCTENDIRVMFSSFGQIEECRI-LRGPDGLSRGCAFVTFTTRAMAQTAIKAM 168
Query: 405 N 405
+
Sbjct: 169 H 169
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 5/65 (7%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATG--VSK--CF-GFVSYESPASAQN 399
+F+ +P+ + +++L F+ +G V V D++ SK CF F + ++ AQN
Sbjct: 18 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 77
Query: 400 AIAMM 404
A+ M
Sbjct: 78 ALHNM 82
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 147 bits (370), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 72/172 (41%), Positives = 112/172 (65%), Gaps = 4/172 (2%)
Query: 15 VKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTR--ASRGCCFVICPSRQEADKA 72
+K+FVGQVP+ +E L +F+++ V E+N+++D++ S+GCCFV +R+ A +A
Sbjct: 4 IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
Query: 73 VNACHNKKTLPGASSPLQVKYADGELERL--EHKLFIGMLPKNVSEAEVSALFSIYGTIK 130
NA HN K LPG P+Q+K AD E + KLFIGM+ K +E ++ +FS +G I+
Sbjct: 64 QNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIE 123
Query: 131 DLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWAD 182
+ +ILRG S+GCAF+ + T+ A A++A++ MEG S P+VVK+AD
Sbjct: 124 ECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD 175
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 50/85 (58%), Gaps = 3/85 (3%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQT---SKGCAFLKYETKEQALAAL 160
K+F+G +P+ SE ++ LF YG + ++ +LR Q SKGC F+ + T++ AL A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 161 EAINGKHKMEGSSVPLVVKWADTEK 185
A++ + G P+ +K AD+EK
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADSEK 89
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI I ++ + ++ F +FG++ ++ + G+S+ FV++ + A AQ AI M
Sbjct: 98 LFIGMISKKCTENDIRVMFSSFGQIEECRI-LRGPDGLSRGCAFVTFTTRAMAQTAIKAM 156
Query: 405 N 405
+
Sbjct: 157 H 157
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 5/65 (7%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATG--VSK--CF-GFVSYESPASAQN 399
+F+ +P+ + +++L F+ +G V V D++ SK CF F + ++ AQN
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 400 AIAMM 404
A+ M
Sbjct: 66 ALHNM 70
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 136 bits (343), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 70/172 (40%), Positives = 105/172 (61%), Gaps = 4/172 (2%)
Query: 15 VKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTR--ASRGCCFVICPSRQEADKA 72
+K FVGQVP+ +E L +F+++ V E+N+++D++ S+GCCFV +R+ A +A
Sbjct: 4 IKXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
Query: 73 VNACHNKKTLPGASSPLQVKYADGELERL--EHKLFIGMLPKNVSEAEVSALFSIYGTIK 130
NA HN K LPG P+Q K AD E + KLFIG + K +E ++ FS +G I+
Sbjct: 64 QNALHNXKVLPGXHHPIQXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQIE 123
Query: 131 DLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWAD 182
+ +ILRG S+GCAF+ + T+ A A++A + EG S P VVK+AD
Sbjct: 124 ECRILRGPDGLSRGCAFVTFTTRAXAQTAIKAXHQAQTXEGCSSPXVVKFAD 175
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 48/85 (56%), Gaps = 3/85 (3%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQT---SKGCAFLKYETKEQALAAL 160
K F+G +P+ SE ++ LF YG + ++ +LR Q SKGC F+ + T++ AL A
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 161 EAINGKHKMEGSSVPLVVKWADTEK 185
A++ + G P+ K AD+EK
Sbjct: 65 NALHNXKVLPGXHHPIQXKPADSEK 89
>pdb|2CPZ|A Chain A, Solution Structure Of Rna Binding Domain 3 In Cug Triplet
Repeat Rna-Binding Protein 1
pdb|2RQ4|A Chain A, Refinement Of Rna Binding Domain 3 In Cug Triplet Repeat
Rna-Binding Protein 1
pdb|2RQC|A Chain A, Solution Structure Of Rna-Binding Domain 3 Of Cugbp1 In
Complex With Rna (Ug)3
Length = 115
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 43/62 (69%), Positives = 50/62 (80%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFIYH+PQEFGDQ+L F FG V+SAKVF+DK T +SKCFGFVSY++P SAQ AI M
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 405 NG 406
NG
Sbjct: 88 NG 89
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGC-AFLKYETKEQALAALEAI 163
LFI LP+ + ++ +F +G + ++ Q C F+ Y+ A AA++++
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 164 NG 165
NG
Sbjct: 88 NG 89
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 89.4 bits (220), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 40/62 (64%), Positives = 49/62 (79%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFIYH+PQEF D +L + F FG V+SAKVF+DK T +SKCFGFVS+++P SAQ AI M
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 405 NG 406
NG
Sbjct: 103 NG 104
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGC-AFLKYETKEQALAALEAI 163
LFI LP+ ++ ++++ F +G + ++ Q + C F+ ++ + A A++A+
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 164 NG 165
NG
Sbjct: 103 NG 104
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 89.0 bits (219), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 43/83 (51%), Positives = 57/83 (68%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
KLF+GML K SE +V LF +G I++ ILRG SKGCAF+KY + +A AA+ A+
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFVKYSSHAEAQAAINAL 76
Query: 164 NGKHKMEGSSVPLVVKWADTEKE 186
+G M G+S LVVK+ADT+KE
Sbjct: 77 HGSQTMPGASSSLVVKFADTDKE 99
Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 35/84 (41%), Positives = 50/84 (59%), Gaps = 1/84 (1%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLFVG + K +E + +F+ F ++E I++ S+GC FV S EA A+NA
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGN-SKGCAFVKYSSHAEAQAAINA 75
Query: 76 CHNKKTLPGASSPLQVKYADGELE 99
H +T+PGASS L VK+AD + E
Sbjct: 76 LHGSQTMPGASSSLVVKFADTDKE 99
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 84.3 bits (207), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 54/171 (31%), Positives = 97/171 (56%), Gaps = 8/171 (4%)
Query: 14 RVKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
R L V +P++MT+ +L ++F V+ +I+DK S G FV + ++A++A+
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 74 NACHNKKTLPGASSPLQVKYADGELERL-EHKLFIGMLPKNVSEAEVSALFSIYGTIKDL 132
N + L S ++V YA E + + L+I LP+ +++ +V +FS +G I +
Sbjct: 62 NTLNG---LRLQSKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINS 118
Query: 133 QILRGSQQT--SKGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWA 181
++L Q T S+G AF++++ + +A A+ + NG HK GSS P+ VK+A
Sbjct: 119 RVL-VDQTTGLSRGVAFIRFDKRSEAEEAITSFNG-HKPPGSSEPITVKFA 167
Score = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 39/62 (62%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L+I +P+ +++ + F FGR+++++V VD+ TG+S+ F+ ++ + A+ AI
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 405 NG 406
NG
Sbjct: 151 NG 152
Score = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 35/63 (55%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + ++PQ EL + F + G V SAK+ DK G S +GFV+Y + A+ AI +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 405 NGC 407
NG
Sbjct: 65 NGL 67
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 82.8 bits (203), Expect = 4e-16, Method: Composition-based stats.
Identities = 41/85 (48%), Positives = 58/85 (68%)
Query: 102 EHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALE 161
+ KLF+GML K SE +V LF +G I + +LRG +SKGCAF+K+ + +A AA+
Sbjct: 15 DRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIH 74
Query: 162 AINGKHKMEGSSVPLVVKWADTEKE 186
A++G M G+S LVVK+ADT+KE
Sbjct: 75 ALHGSQTMPGASSSLVVKFADTDKE 99
Score = 68.9 bits (167), Expect = 6e-12, Method: Composition-based stats.
Identities = 35/84 (41%), Positives = 53/84 (63%), Gaps = 1/84 (1%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLFVG + K +E +L +F+ F ++DE +++ +S+GC FV S EA A++A
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDG-SSKGCAFVKFSSHTEAQAAIHA 75
Query: 76 CHNKKTLPGASSPLQVKYADGELE 99
H +T+PGASS L VK+AD + E
Sbjct: 76 LHGSQTMPGASSSLVVKFADTDKE 99
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 82.0 bits (201), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 53/171 (30%), Positives = 96/171 (56%), Gaps = 8/171 (4%)
Query: 14 RVKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
R L V +P++MT+ +L ++F V+ +I+DK S G FV + ++A++A+
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 74 NACHNKKTLPGASSPLQVKYADGELERL-EHKLFIGMLPKNVSEAEVSALFSIYGTIKDL 132
N + L S ++V YA E + + L+I LP+ +++ +V +FS +G I +
Sbjct: 62 NTLNG---LRLQSKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINS 118
Query: 133 QILRGSQQT--SKGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWA 181
++L Q T S+G AF++++ + +A A+ + NG HK GSS P+ V +A
Sbjct: 119 RVL-VDQTTGLSRGVAFIRFDKRSEAEEAITSFNG-HKPPGSSEPITVXFA 167
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 39/62 (62%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L+I +P+ +++ + F FGR+++++V VD+ TG+S+ F+ ++ + A+ AI
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 405 NG 406
NG
Sbjct: 151 NG 152
Score = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 35/63 (55%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + ++PQ EL + F + G V SAK+ DK G S +GFV+Y + A+ AI +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 405 NGC 407
NG
Sbjct: 65 NGL 67
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 82.0 bits (201), Expect = 5e-16, Method: Composition-based stats.
Identities = 39/85 (45%), Positives = 58/85 (68%)
Query: 102 EHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALE 161
+ KLF+GML K ++ +V +F +GTI + +LRG TSKGCAF+K++T +A AA+
Sbjct: 12 DRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAAIN 71
Query: 162 AINGKHKMEGSSVPLVVKWADTEKE 186
++ + G+S LVVK+ADTEKE
Sbjct: 72 TLHSSRTLPGASSSLVVKFADTEKE 96
Score = 69.3 bits (168), Expect = 4e-12, Method: Composition-based stats.
Identities = 36/84 (42%), Positives = 50/84 (59%), Gaps = 1/84 (1%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLFVG + K T+ + MF+ F +DE +++ S+GC FV + EA A+N
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDG-TSKGCAFVKFQTHAEAQAAINT 72
Query: 76 CHNKKTLPGASSPLQVKYADGELE 99
H+ +TLPGASS L VK+AD E E
Sbjct: 73 LHSSRTLPGASSSLVVKFADTEKE 96
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
Length = 88
Score = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 37/85 (43%), Positives = 57/85 (67%), Gaps = 2/85 (2%)
Query: 15 VKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTR--ASRGCCFVICPSRQEADKA 72
+K+FVGQVP+ +E L +F+++ V E+N+++D++ S+GCCFV +R+ A +A
Sbjct: 4 IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
Query: 73 VNACHNKKTLPGASSPLQVKYADGE 97
NA HN K LPG P+Q+K AD E
Sbjct: 64 QNALHNMKVLPGMHHPIQMKPADSE 88
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQT---SKGCAFLKYETKEQALAAL 160
K+F+G +P+ SE ++ LF YG + ++ +LR Q SKGC F+ + T++ AL A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 161 EAINGKHKMEGSSVPLVVKWADTE 184
A++ + G P+ +K AD+E
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADSE 88
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 5/65 (7%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSK----CF-GFVSYESPASAQN 399
+F+ +P+ + +++L F+ +G V V D++ + CF F + ++ AQN
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 400 AIAMM 404
A+ M
Sbjct: 66 ALHNM 70
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 79.0 bits (193), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 35/81 (43%), Positives = 55/81 (67%)
Query: 15 VKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVN 74
+KLF+GQ+P+++ E L +F+EF + E+ ++KD+ T +GC F+ R+ A KA +
Sbjct: 14 IKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQS 73
Query: 75 ACHNKKTLPGASSPLQVKYAD 95
A H +KTLPG + P+QVK AD
Sbjct: 74 ALHEQKTLPGMNRPIQVKPAD 94
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/80 (40%), Positives = 48/80 (60%), Gaps = 1/80 (1%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEA 162
KLFIG +P+N+ E ++ LF +G I +L +L+ KGCAFL Y +E AL A A
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 163 INGKHKMEGSSVPLVVKWAD 182
++ + + G + P+ VK AD
Sbjct: 75 LHEQKTLPGMNRPIQVKPAD 94
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 3/60 (5%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSY---ESPASAQNAI 401
LFI IP+ +++L F+ FG++ V D+ TG+ K F++Y ES AQ+A+
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSAL 75
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 36/83 (43%), Positives = 54/83 (65%)
Query: 15 VKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVN 74
+KLFVGQ+P+ + E L +F+EF + E+ ++KD+ T +GC F+ +R A KA +
Sbjct: 16 IKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQS 75
Query: 75 ACHNKKTLPGASSPLQVKYADGE 97
A H +KTLPG + P+QVK A E
Sbjct: 76 ALHEQKTLPGMNRPIQVKPAASE 98
Score = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 48/82 (58%), Gaps = 1/82 (1%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEA 162
KLF+G +P+ + E ++ LF +G I +L +L+ KGCAFL Y ++ AL A A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 163 INGKHKMEGSSVPLVVKWADTE 184
++ + + G + P+ VK A +E
Sbjct: 77 LHEQKTLPGMNRPIQVKPAASE 98
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 3/60 (5%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSY---ESPASAQNAI 401
LF+ IP+ +Q+L F+ FGR+ V D+ TG+ K F++Y +S AQ+A+
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSAL 77
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 48/171 (28%), Positives = 93/171 (54%), Gaps = 6/171 (3%)
Query: 14 RVKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
+ L V +P++MT+ + ++F ++ +++DK T S G FV +ADKA+
Sbjct: 4 KTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
Query: 74 NACHNKKTLPGASSPLQVKYADGELERL-EHKLFIGMLPKNVSEAEVSALFSIYGTIKDL 132
N + K + ++V YA + + L++ LPK +S+ E+ LFS YG I
Sbjct: 64 NTLNGLKL---QTKTIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITS 120
Query: 133 QILRG-SQQTSKGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWAD 182
+IL + S+G F++++ + +A A++ +NG+ + G++ P+ VK+A+
Sbjct: 121 RILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPL-GAAEPITVKFAN 170
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 40/62 (64%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L++ +P+ +E+ F +GR++++++ +D+ATGVS+ GF+ ++ A+ AI +
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 405 NG 406
NG
Sbjct: 153 NG 154
Score = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 33/63 (52%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + ++PQ E + F + G + S K+ DK TG S +GFV+Y P A AI +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 405 NGC 407
NG
Sbjct: 67 NGL 69
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 48/167 (28%), Positives = 86/167 (51%), Gaps = 6/167 (3%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
L V +P+ MT+ +L A+F+ ++ I++D T S G FV S ++ +A+
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 77 HNKKTLPGASSPLQVKYADGELERL-EHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQIL 135
+ + + L+V YA E + + L++ LP+ +++ ++ +F YG+I IL
Sbjct: 66 NG---ITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNIL 122
Query: 136 RGSQQTS-KGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWA 181
R +G AF++Y +E+A A+ A+N EG S PL V+ A
Sbjct: 123 RDKLTGRPRGVAFVRYNKREEAQEAISALNNVIP-EGGSQPLSVRLA 168
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 36/63 (57%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + ++PQ+ D+EL F+A G + + ++ D TG S + FV + S +Q AI ++
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 405 NGC 407
NG
Sbjct: 66 NGI 68
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 72.8 bits (177), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 47/170 (27%), Positives = 91/170 (53%), Gaps = 6/170 (3%)
Query: 14 RVKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
+ L V +P++MT+ + ++F ++ +++DK T S G FV ++A+KA+
Sbjct: 2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61
Query: 74 NACHNKKTLPGASSPLQVKYADGELERL-EHKLFIGMLPKNVSEAEVSALFSIYGTIKDL 132
N + L + ++V YA + + L++ LPK +++ E+ LFS YG I
Sbjct: 62 NTLNG---LRLQTKTIKVSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITS 118
Query: 133 QILRGSQQ-TSKGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWA 181
+IL S+G F++++ + +A A++ +NG K G++ P+ VK+A
Sbjct: 119 RILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNG-QKPSGATEPITVKFA 167
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 39/62 (62%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L++ +P+ +EL F +GR++++++ VD+ TGVS+ GF+ ++ A+ AI +
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 405 NG 406
NG
Sbjct: 151 NG 152
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 35/63 (55%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + ++PQ +E + F + G + S K+ DK TG S +GFV+Y P A+ AI +
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 405 NGC 407
NG
Sbjct: 65 NGL 67
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 47/168 (27%), Positives = 85/168 (50%), Gaps = 6/168 (3%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
L V +P+ T+ +L A+F+ ++ I +D T S G FV S ++ +A+
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 77 HNKKTLPGASSPLQVKYADGELERL-EHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQIL 135
+ + + L+V YA E + + L++ LP+ +++ ++ +F YG+I IL
Sbjct: 77 NG---ITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNIL 133
Query: 136 RGSQQTS-KGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWAD 182
R +G AF++Y +E+A A+ A+N EG S PL V+ A+
Sbjct: 134 RDKLTGRPRGVAFVRYNKREEAQEAISALNNVIP-EGGSQPLSVRLAE 180
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 36/63 (57%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + ++PQ+ D+EL F+A G + + ++ D TG S + FV + S +Q AI ++
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 405 NGC 407
NG
Sbjct: 77 NGI 79
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 40/150 (26%), Positives = 70/150 (46%), Gaps = 3/150 (2%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
L+VG + +TEA L F + + + +D TR S G +V +A++A++
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 77
Query: 77 HNKKTLPGASSPLQVKYADGELERL-EHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQIL 135
N + G + D L + +FI L K++ + FS +G I +++
Sbjct: 78 -NFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVV 136
Query: 136 RGSQQTSKGCAFLKYETKEQALAALEAING 165
+ SKG F+ +ET+E A A+E +NG
Sbjct: 137 -CDENGSKGYGFVHFETQEAAERAIEKMNG 165
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 38/62 (61%), Gaps = 2/62 (3%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+FI ++ + ++ L + F AFG +LS KV D+ SK +GFV +E+ +A+ AI M
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 163
Query: 405 NG 406
NG
Sbjct: 164 NG 165
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 31/61 (50%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L++ + + + L F G +LS +V D T S + +V+++ PA A+ A+ M
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 77
Query: 405 N 405
N
Sbjct: 78 N 78
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 40/62 (64%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L++ +P+ +E+ F +GR++++++ +D+ATGVS+ GF+ ++ A+ AI +
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 405 NG 406
NG
Sbjct: 64 NG 65
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 47/79 (59%), Gaps = 1/79 (1%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
L+V +PK M++ ++ +F ++ + I+ D+ T SRG F+ R EA++A+
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 77 HNKKTLPGASSPLQVKYAD 95
+ +K L GA+ P+ VK+A+
Sbjct: 64 NGQKPL-GAAEPITVKFAN 81
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 50/79 (63%), Gaps = 2/79 (2%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEAI 163
L++ LPK +S+ E+ LFS YG I +IL + S+G F++++ + +A A++ +
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 164 NGKHKMEGSSVPLVVKWAD 182
NG+ + G++ P+ VK+A+
Sbjct: 64 NGQKPL-GAAEPITVKFAN 81
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 39/61 (63%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+++ + Q+ D ++ + F+AFG++ SA + D TG K +GF+ YE S+Q+A++ M
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 187
Query: 405 N 405
N
Sbjct: 188 N 188
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 31/63 (49%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+++ I E G+ + AF FG + S + D T K F FV YE P +AQ A+ M
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 405 NGC 407
N
Sbjct: 91 NSV 93
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEA 162
++++G + + E + F+ +G IK + + S KG AF++YE E A ALE
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 89
Query: 163 IN 164
+N
Sbjct: 90 MN 91
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 70/141 (49%), Gaps = 6/141 (4%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLF+G + T+ L + F+++ + + +++D T+ SRG FV + +E D A+NA
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 76 CHNKKTLPGASSPLQVKYADGEL---ERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDL 132
+K V D + K+F+G + ++ E + F YG I+ +
Sbjct: 76 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 135
Query: 133 QIL--RGSQQTSKGCAFLKYE 151
+I+ RGS + +G AF+ ++
Sbjct: 136 EIMTDRGSGK-KRGFAFVTFD 155
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEA 162
KLFIG L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 163 INGKHKMEGSSV 174
HK++G V
Sbjct: 76 --RPHKVDGRVV 85
Score = 35.4 bits (80), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
K+FVG + + E L F+++ ++ + I+ D+ + RG FV DK V
Sbjct: 107 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 164
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A M
Sbjct: 17 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAAM 73
Query: 405 N 405
N
Sbjct: 74 N 74
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 11/57 (19%), Positives = 30/57 (52%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
+F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++ S +
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 164
>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|B Chain B, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|C Chain C, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|D Chain D, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|E Chain E, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|F Chain F, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|G Chain G, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|H Chain H, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
Length = 190
Score = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 40/150 (26%), Positives = 70/150 (46%), Gaps = 3/150 (2%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
L+VG + +TEA L F + + + +D TR S G +V +A++A++
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 77 HNKKTLPGASSPLQVKYADGELERL-EHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQIL 135
N + G + D L + +FI L K++ + FS +G I +++
Sbjct: 73 -NFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVV 131
Query: 136 RGSQQTSKGCAFLKYETKEQALAALEAING 165
+ SKG F+ +ET+E A A+E +NG
Sbjct: 132 -CDENGSKGYGFVHFETQEAAERAIEKMNG 160
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 38/62 (61%), Gaps = 2/62 (3%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+FI ++ + ++ L + F AFG +LS KV D+ SK +GFV +E+ +A+ AI M
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 158
Query: 405 NG 406
NG
Sbjct: 159 NG 160
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 31/61 (50%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L++ + + + L F G +LS +V D T S + +V+++ PA A+ A+ M
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 405 N 405
N
Sbjct: 73 N 73
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 70/141 (49%), Gaps = 6/141 (4%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLF+G + T+ L + F+++ + + +++D T+ SRG FV + +E D A+NA
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 76 CHNKKTLPGASSPLQVKYADGEL---ERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDL 132
+K V D + K+F+G + ++ E + F YG I+ +
Sbjct: 74 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 133
Query: 133 QIL--RGSQQTSKGCAFLKYE 151
+I+ RGS + +G AF+ ++
Sbjct: 134 EIMTDRGSGK-KRGFAFVTFD 153
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEA 162
KLFIG L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 163 INGKHKMEGSSV 174
HK++G V
Sbjct: 74 --RPHKVDGRVV 83
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
K+FVG + + E L F+++ ++ + I+ D+ + RG FV DK V
Sbjct: 105 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 162
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A M
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAAM 71
Query: 405 N 405
N
Sbjct: 72 N 72
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 11/57 (19%), Positives = 30/57 (52%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
+F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++ S +
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 162
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 70/141 (49%), Gaps = 6/141 (4%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLF+G + T+ L + F+++ + + +++D T+ SRG FV + +E D A+NA
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 76 CHNKKTLPGASSPLQVKYADGEL---ERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDL 132
+K V D + K+F+G + ++ E + F YG I+ +
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 134
Query: 133 QIL--RGSQQTSKGCAFLKYE 151
+I+ RGS + +G AF+ ++
Sbjct: 135 EIMTDRGSGK-KRGFAFVTFD 154
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEA 162
KLFIG L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 163 INGKHKMEGSSV 174
HK++G V
Sbjct: 75 --RPHKVDGRVV 84
Score = 35.0 bits (79), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
K+FVG + + E L F+++ ++ + I+ D+ + RG FV DK V
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A M
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAAM 72
Query: 405 NG 406
N
Sbjct: 73 NA 74
Score = 33.5 bits (75), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 11/57 (19%), Positives = 30/57 (52%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
+F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++ S +
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 70/141 (49%), Gaps = 6/141 (4%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLF+G + T+ L + F+++ + + +++D T+ SRG FV + +E D A+NA
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 76 CHNKKTLPGASSPLQVKYADGEL---ERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDL 132
+K V D + K+F+G + ++ E + F YG I+ +
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 134
Query: 133 QIL--RGSQQTSKGCAFLKYE 151
+I+ RGS + +G AF+ ++
Sbjct: 135 EIMTDRGSGK-KRGFAFVTFD 154
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEA 162
KLFIG L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 163 INGKHKMEGSSV 174
HK++G V
Sbjct: 75 --RPHKVDGRVV 84
Score = 35.0 bits (79), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
K+FVG + + E L F+++ ++ + I+ D+ + RG FV DK V
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A M
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAAM 72
Query: 405 N 405
N
Sbjct: 73 N 73
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 11/57 (19%), Positives = 30/57 (52%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
+F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++ S +
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 70/141 (49%), Gaps = 6/141 (4%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLF+G + T+ L + F+++ + + +++D T+ SRG FV + +E D A+NA
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 76 CHNKKTLPGASSPLQVKYADGEL---ERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDL 132
+K V D + K+F+G + ++ E + F YG I+ +
Sbjct: 73 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 132
Query: 133 QIL--RGSQQTSKGCAFLKYE 151
+I+ RGS + +G AF+ ++
Sbjct: 133 EIMTDRGSGK-KRGFAFVTFD 152
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEA 162
KLFIG L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 163 INGKHKMEGSSV 174
HK++G V
Sbjct: 73 --RPHKVDGRVV 82
Score = 35.0 bits (79), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
K+FVG + + E L F+++ ++ + I+ D+ + RG FV DK V
Sbjct: 104 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 161
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A M
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAAM 70
Query: 405 N 405
N
Sbjct: 71 N 71
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 11/57 (19%), Positives = 30/57 (52%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
+F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++ S +
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 161
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The
Second Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 52.0 bits (123), Expect = 7e-07, Method: Composition-based stats.
Identities = 29/80 (36%), Positives = 49/80 (61%), Gaps = 3/80 (3%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
L+V +P+ +T+ QL +F ++ + + NI++DK T RG FV R+EA +A++A
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 77 HNKKTLP-GASSPLQVKYAD 95
+N +P G S PL V+ A+
Sbjct: 76 NN--VIPEGGSQPLSVRLAE 93
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 45/79 (56%), Gaps = 2/79 (2%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAI 163
L++ LP+ +++ ++ +F YG+I ILR +G AF++Y +E+A A+ A+
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 164 NGKHKMEGSSVPLVVKWAD 182
N EG S PL V+ A+
Sbjct: 76 NNVIP-EGGSQPLSVRLAE 93
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 70/141 (49%), Gaps = 6/141 (4%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLF+G + T+ L + F+++ + + +++D T+ SRG FV + +E D A+NA
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 76 CHNKKTLPGASSPLQVKYADGEL---ERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDL 132
+K V D + K+F+G + ++ E + F YG I+ +
Sbjct: 68 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 127
Query: 133 QIL--RGSQQTSKGCAFLKYE 151
+I+ RGS + +G AF+ ++
Sbjct: 128 EIMTDRGSGK-KRGFAFVTFD 147
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEA 162
KLFIG L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 163 INGKHKMEGSSV 174
HK++G V
Sbjct: 68 --RPHKVDGRVV 77
Score = 35.0 bits (79), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
K+FVG + + E L F+++ ++ + I+ D+ + RG FV DK V
Sbjct: 99 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 156
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A M
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAAM 65
Query: 405 NG 406
N
Sbjct: 66 NA 67
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 11/57 (19%), Positives = 30/57 (52%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
+F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++ S +
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 156
>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex
With Rna
pdb|2KM8|C Chain C, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 167
Score = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 40/141 (28%), Positives = 62/141 (43%), Gaps = 11/141 (7%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
K+F+G + TE L F ++ V ++ I+KD T SRG F+ D+ V
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 76 CH---NKKTLPGASSPLQVKYADGELERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDL 132
H K P + P + G K+F+G + +V E FS +GTI D
Sbjct: 65 QHILDGKVIDPKRAIPRDEQDKTG-------KIFVGGIGPDVRPKEFEEFFSQWGTIIDA 117
Query: 133 QI-LRGSQQTSKGCAFLKYET 152
Q+ L S+G F+ Y++
Sbjct: 118 QLMLDKDTGQSRGFGFVTYDS 138
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
+FI + + + L F +G V K+ D ATG S+ FGF+S+E P+S +
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVV 62
Score = 37.7 bits (86), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 26/44 (59%)
Query: 357 QELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 400
+E F +G ++ A++ +DK TG S+ FGFV+Y+S +
Sbjct: 102 KEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRV 145
Score = 32.3 bits (72), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 3/64 (4%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
K+FVG + + + F ++ + + ++ DK T SRG FV S AD
Sbjct: 89 KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDS---ADAVDRV 145
Query: 76 CHNK 79
C NK
Sbjct: 146 CQNK 149
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 38/61 (62%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+++ + Q+ D ++ + F+AFG++ S + D TG K +GF+ YE S+Q+A++ M
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 172
Query: 405 N 405
N
Sbjct: 173 N 173
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 31/61 (50%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+++ I E G+ + AF FG + S + D T K F FV YE P +AQ A+ M
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 405 N 405
N
Sbjct: 76 N 76
Score = 32.7 bits (73), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEA 162
++++G + + E + F+ +G IK + + S KG AF++YE E A ALE
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 163 IN 164
+N
Sbjct: 75 MN 76
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 38/62 (61%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + +IP + +L F+ +G + S K+ D+ T S+ +GFV ++S +SAQ AIA +
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 405 NG 406
NG
Sbjct: 105 NG 106
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 37/65 (56%), Gaps = 3/65 (4%)
Query: 103 HKLFIGMLPKNVSEAEVSALFSIYGTIKDLQIL--RGSQQTSKGCAFLKYETKEQALAAL 160
L + +P V E ++ LF YG I+ ++I+ R ++Q S+G F+K+++ A A+
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQ-SRGYGFVKFQSGSSAQQAI 101
Query: 161 EAING 165
+NG
Sbjct: 102 AGLNG 106
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 48.9 bits (115), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 37/61 (60%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+++ + Q+ D ++ + F+AFG++ S + D TG K +GF+ YE S+Q+A++
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSX 171
Query: 405 N 405
N
Sbjct: 172 N 172
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 29/61 (47%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+++ I E G+ + AF FG + S D T K F FV YE P +AQ A+
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 405 N 405
N
Sbjct: 75 N 75
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEA 162
++++G + + E + F+ +G IK + S KG AF++YE E A ALE
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 163 IN 164
N
Sbjct: 74 XN 75
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 34/62 (54%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ + D+ L NAF+ F LS V D TG S+ +GFVS+ S AQNA+ M
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 405 NG 406
G
Sbjct: 150 QG 151
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 41/77 (53%), Gaps = 3/77 (3%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
L++G L K ++E + F + G I +++I+ + AF++Y A AL+ +N
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLN 62
Query: 165 GKHKMEGSSVPLVVKWA 181
GK ++E + V + WA
Sbjct: 63 GK-QIENNIVK--INWA 76
Score = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 36/169 (21%), Positives = 78/169 (46%), Gaps = 11/169 (6%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
L+VG + K +TE L F+ + + I+ DK + + FV +A+ A+
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNK-NVNYAFVEYHQSHDANIALQTL 61
Query: 77 HNKKTLPGASSPLQVKYADGELERLEH---KLFIGMLPKNVSEAEVSALFSIYGTIKDLQ 133
+ K+ ++ +++ +A + LF+G L NV + + F + +
Sbjct: 62 NGKQI---ENNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGH 118
Query: 134 ILRGSQQ-TSKGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWA 181
++ Q +S+G F+ + +++ A A++++ G+ + G PL + WA
Sbjct: 119 VMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQ-DLNGR--PLRINWA 164
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 48.5 bits (114), Expect = 8e-06, Method: Composition-based stats.
Identities = 26/62 (41%), Positives = 34/62 (54%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ + D+ L NAF+ F LS V D TG S+ +GFVS+ S AQNA+ M
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 405 NG 406
G
Sbjct: 64 QG 65
Score = 32.7 bits (73), Expect = 0.35, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 7/87 (8%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
LFVG + ++ + L FK+F +++ D T +SRG FV S+ +A A+++
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 77 HNKKTLPGASSPLQVKYADGELERLEH 103
+ L G PL++ +A +LEH
Sbjct: 64 QGQD-LNG--RPLRINWA----AKLEH 83
>pdb|1HL6|A Chain A, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|C Chain C, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1RK8|A Chain A, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|A Chain A, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|C Chain C, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 165
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 43/77 (55%), Gaps = 4/77 (5%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
LF+ + + E E+ F YG IK++ + L SKG A ++YET +QALAA EA+
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 164 NGKHKMEGSSVPLVVKW 180
NG M G ++ V W
Sbjct: 135 NGAEIM-GQTIQ--VDW 148
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ I +E + E+ F +G + + + +D+ TG SK + V YE+ A A +
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 405 NGC 407
NG
Sbjct: 135 NGA 137
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 47.8 bits (112), Expect = 1e-05, Method: Composition-based stats.
Identities = 24/62 (38%), Positives = 38/62 (61%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+F+ + E +++ +AF FG++ A+V D ATG SK +GFVS+ + A+NAI M
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 405 NG 406
G
Sbjct: 78 GG 79
Score = 30.8 bits (68), Expect = 1.6, Method: Composition-based stats.
Identities = 15/57 (26%), Positives = 30/57 (52%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
+FVG + +T + + F F + + ++KD T S+G FV ++ +A+ A+
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAI 74
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 47.8 bits (112), Expect = 1e-05, Method: Composition-based stats.
Identities = 25/62 (40%), Positives = 37/62 (59%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+F+ + E +++ AF FGR+ A+V D ATG SK +GFVS+ + A+NAI M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 405 NG 406
G
Sbjct: 78 GG 79
Score = 32.0 bits (71), Expect = 0.74, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 30/57 (52%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
+FVG + +T + A F F + + ++KD T S+G FV ++ +A+ A+
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAI 74
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 36/61 (59%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L+I + DQ+L Q +G+++S K +DK T K +GFV ++SP++AQ A+ +
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 405 N 405
Sbjct: 68 K 68
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 24/62 (38%), Positives = 35/62 (56%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + ++PQ EL + F + G V SAK+ DK G S +GFV+Y + A+ AI +
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 405 NG 406
NG
Sbjct: 82 NG 83
Score = 36.6 bits (83), Expect = 0.031, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
L V +P++ T+ +L ++F V+ +I+DK S G FV + ++A++A+N
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 77 HNKKTLPGASSPLQVKYA 94
+ + S ++V YA
Sbjct: 82 NGLRL---QSKTIKVSYA 96
Score = 36.2 bits (82), Expect = 0.040, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAI 163
L + LP+N ++ E+ +LFS G ++ +++R S G F+ Y T + A A+ +
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 164 NG 165
NG
Sbjct: 82 NG 83
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 47.4 bits (111), Expect = 2e-05, Method: Composition-based stats.
Identities = 27/66 (40%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
LF+ + + E E+ F YG IK++ + L SKG A ++YET +QALAA EA+
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 164 NGKHKM 169
NG M
Sbjct: 89 NGAEIM 94
Score = 37.4 bits (85), Expect = 0.015, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 32/62 (51%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ I +E + E+ F +G + + + +D+ TG SK + V YE+ A A +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 405 NG 406
NG
Sbjct: 89 NG 90
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 47.4 bits (111), Expect = 2e-05, Method: Composition-based stats.
Identities = 24/62 (38%), Positives = 35/62 (56%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + ++PQ EL + F + G V SAK+ DK G S +GFV+Y + A+ AI +
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 405 NG 406
NG
Sbjct: 67 NG 68
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 43/81 (53%), Gaps = 3/81 (3%)
Query: 14 RVKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
R L V +P++MT+ +L ++F V+ +I+DK S G FV + ++A++A+
Sbjct: 4 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 63
Query: 74 NACHNKKTLPGASSPLQVKYA 94
N + + S ++V YA
Sbjct: 64 NTLNGLRL---QSKTIKVSYA 81
Score = 36.2 bits (82), Expect = 0.037, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAI 163
L + LP+N+++ E+ +LFS G ++ +++R S G F+ Y T + A A+ +
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 164 NG 165
NG
Sbjct: 67 NG 68
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 47.4 bits (111), Expect = 2e-05, Method: Composition-based stats.
Identities = 23/62 (37%), Positives = 33/62 (53%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + ++PQ E + F + G + S K+ DK TG S +GFV+Y P A AI +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 405 NG 406
NG
Sbjct: 67 NG 68
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 14 RVKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
+ L V +P++MT+ + ++F ++ +++DK T S G FV +ADKA+
Sbjct: 4 KTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
Query: 74 NACHNKKTLPGASSPLQVKYA 94
N + K + ++V YA
Sbjct: 64 NTLNGLKL---QTKTIKVSYA 81
Score = 33.1 bits (74), Expect = 0.28, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAI 163
L + LP+N+++ E +LF G I+ +++R S G F+ Y A A+ +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 164 NG 165
NG
Sbjct: 67 NG 68
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 47.4 bits (111), Expect = 2e-05, Method: Composition-based stats.
Identities = 24/62 (38%), Positives = 38/62 (61%), Gaps = 2/62 (3%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+FI ++ + ++ L + F AFG +LS KV D+ SK +GFV +E+ +A+ AI M
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 71
Query: 405 NG 406
NG
Sbjct: 72 NG 73
Score = 37.0 bits (84), Expect = 0.022, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
+FI L K++ + FS +G I +++ + SKG F+ +ET+E A A+E +N
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVV-CDENGSKGYGFVHFETQEAAERAIEKMN 72
Query: 165 G 165
G
Sbjct: 73 G 73
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 40/64 (62%)
Query: 102 EHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALE 161
+HKLFI LP + ++ E+ + +GT+KDL+++ KG A+++YE + QA A+
Sbjct: 17 KHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVM 76
Query: 162 AING 165
++G
Sbjct: 77 KMDG 80
Score = 31.6 bits (70), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI +P +EL +A G V ++ ++A G K +V YE+ + A A+ M
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRA-GKPKGLAYVEYENESQASQAVMKM 78
Query: 405 NG 406
+G
Sbjct: 79 DG 80
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L++ ++ D+ L AF FG + SAKV ++ G SK FGFV + SP A A+ M
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG--GRSKGFGFVCFSSPEEATKAVTEM 75
Query: 405 NG 406
NG
Sbjct: 76 NG 77
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 21/82 (25%), Positives = 42/82 (51%), Gaps = 4/82 (4%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
L++ L + + + FS +GTI +++ + SKG F+ + + E+A A+ +N
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGR-SKGFGFVCFSSPEEATKAVTEMN 76
Query: 165 GKHKMEGSSVPLVVKWADTEKE 186
G+ ++ PL V A ++E
Sbjct: 77 GRIV---ATKPLYVALAQRKEE 95
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 36/62 (58%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + ++PQ+ D+EL F+A G + + ++ D TG S + FV + S +Q AI ++
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 405 NG 406
NG
Sbjct: 66 NG 67
Score = 35.4 bits (80), Expect = 0.064, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 9/81 (11%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
L V +P+ MT+ +L A+F+ ++ I++D T S G FV S ++ +A+
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAI--- 62
Query: 77 HNKKTLPGAS---SPLQVKYA 94
K L G + L+V YA
Sbjct: 63 ---KVLNGITVRNKRLKVSYA 80
Score = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQT-SKGCAFLKYETKEQALAALEAI 163
L + LP+++++ E+ ALF G I +I+R + S G AF+ + ++ + A++ +
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 164 NG 165
NG
Sbjct: 66 NG 67
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
A Ph 9.0
Length = 115
Score = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 24/62 (38%), Positives = 38/62 (61%), Gaps = 2/62 (3%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+FI ++ + ++ L + F AFG +LS KV D+ SK +GFV +E+ +A+ AI M
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 65
Query: 405 NG 406
NG
Sbjct: 66 NG 67
Score = 36.2 bits (82), Expect = 0.036, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
+FI L K++ + FS +G I +++ + SKG F+ +ET+E A A+E +N
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVV-CDENGSKGYGFVHFETQEAAERAIEKMN 66
Query: 165 G 165
G
Sbjct: 67 G 67
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 45/181 (24%), Positives = 75/181 (41%), Gaps = 40/181 (22%)
Query: 16 KLFVGQVPKHMTEAQLLAMF-------------------------KEFALVDEVNIIKDK 50
+L+VG +P +TE ++ F K FA ++ ++ +
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65
Query: 51 TTRASRGCCFVICPSRQEADKAVNACHNKKTLPGASSPLQVKYADGELERL----EHKLF 106
A G F Q + H+ + LPG S V Y G + + HKLF
Sbjct: 66 QAMAFDGIIF------QGQSLKIRRPHDYQPLPGMSENPSV-YVPGVVSTVVPDSAHKLF 118
Query: 107 IGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKY---ETKEQALAALEA 162
IG LP +++ +V L + +G +K +++ S SKG AF +Y +QA+A L
Sbjct: 119 IGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNG 178
Query: 163 I 163
+
Sbjct: 179 M 179
Score = 37.4 bits (85), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI +P D ++ +FG + + + D ATG+SK + F Y AIA +
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 176
Query: 405 NG 406
NG
Sbjct: 177 NG 178
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 45.4 bits (106), Expect = 5e-05, Method: Composition-based stats.
Identities = 23/57 (40%), Positives = 33/57 (57%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKA 72
K+FVG +P H T+A L F+ F ++E +I D+ T SRG FV R A++A
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA 75
Score = 38.5 bits (88), Expect = 0.008, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 30/56 (53%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 400
+F+ +P D L F+ FG + A V D+ TG S+ +GFV+ A+A+ A
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA 75
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 45.4 bits (106), Expect = 6e-05, Method: Composition-based stats.
Identities = 23/59 (38%), Positives = 33/59 (55%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVN 74
K+FVG +P + E +L FK+F +V EV +I D + RG F+ Q D+AVN
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN 70
Score = 36.6 bits (83), Expect = 0.027, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 28/59 (47%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 403
+F+ IP G+ EL F+ FG V + D + FGF+++E S A+ M
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Score = 33.1 bits (74), Expect = 0.31, Method: Composition-based stats.
Identities = 15/59 (25%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 103 HKLFIGMLPKNVSEAEVSALFSIYGTIKD-LQILRGSQQTSKGCAFLKYETKEQALAAL 160
+K+F+G +P N E E+ F +G + + + I +Q +G F+ +E ++ A+
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV 69
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 40/66 (60%), Gaps = 1/66 (1%)
Query: 102 EHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAAL 160
E KLF+G L + +E + +FS YG I ++ +++ + Q S+G F+ +E + A A+
Sbjct: 12 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAM 71
Query: 161 EAINGK 166
A+NGK
Sbjct: 72 MAMNGK 77
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 35/62 (56%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ + + +Q L F +G++ V D+ T S+ FGFV++E+ A++A+ M
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 405 NG 406
NG
Sbjct: 75 NG 76
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 35/64 (54%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLFVG + E L +F ++ + EV ++KD+ T+ SRG FV + +A A+ A
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 76 CHNK 79
+ K
Sbjct: 74 MNGK 77
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L+I ++P +QEL N + FG+V+S ++ D ++G S+ GF ES + I
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAVIGHF 86
Query: 405 NG 406
NG
Sbjct: 87 NG 88
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 34/62 (54%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
L+I LP ++ E E+ + +G + +ILR S TS+G F + E+ E+ A + N
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFN 87
Query: 165 GK 166
GK
Sbjct: 88 GK 89
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 38/148 (25%), Positives = 68/148 (45%), Gaps = 14/148 (9%)
Query: 14 RVKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
R +LFVG +P +TE ++ +F+++ EV I KDK G F+ +R A+ A
Sbjct: 22 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIAK 75
Query: 74 NACHNKKTLPGASSPLQVKYADGELERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQ 133
N +P L+V++A L + LP+ VS + FS++G ++
Sbjct: 76 VELDN---MPLRGKQLRVRFACHSA-----SLTVRNLPQYVSNELLEEAFSVFGQVERAV 127
Query: 134 ILRGSQQTSKGCAFLKYETKEQALAALE 161
++ + G +++ K A AL+
Sbjct: 128 VIVDDRGRPSGKGIVEFSGKPAARKALD 155
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 34/61 (55%), Gaps = 6/61 (9%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ ++P + ++E+ F+ +G+ + +VF+ K G FGF+ E+ A+ A +
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGK--AGEVFIHKDKG----FGFIRLETRTLAEIAKVEL 78
Query: 405 N 405
+
Sbjct: 79 D 79
Score = 28.1 bits (61), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
L + ++PQ ++ L AF FG+V A V VD G G V + +A+ A+
Sbjct: 99 LTVRNLPQYVSNELLEEAFSVFGQVERAVVIVDD-RGRPSGKGIVEFSGKPAARKAL 154
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 42/177 (23%), Positives = 70/177 (39%), Gaps = 52/177 (29%)
Query: 16 KLFVGQVPKHMTEAQLLAMF-------------------------KEFALVDEVNIIKDK 50
+L+VG +P +TE ++ F K FA ++ ++ +
Sbjct: 8 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 67
Query: 51 TTRASRGCCFVICPSRQEADKAVNACHNKKTLPGASSPLQVKYADGELERLEHKLFIGML 110
A G F Q + H+ + LPGA HKLFIG L
Sbjct: 68 QAMAFDGIIF------QGQSLKIRRPHDYQPLPGA-----------------HKLFIGGL 104
Query: 111 PKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKY---ETKEQALAALEAI 163
P +++ +V L + +G +K +++ S SKG AF +Y +QA+A L +
Sbjct: 105 PNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGM 161
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI +P D ++ +FG + + + D ATG+SK + F Y AIA +
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 158
Query: 405 NG 406
NG
Sbjct: 159 NG 160
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 40/64 (62%), Gaps = 2/64 (3%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIK--DLQILRGSQQTSKGCAFLKYETKEQALAALE 161
K+ IG L +NV++ + +FS YG IK D+ + R SKG A++++E ++A AL+
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
Query: 162 AING 165
++G
Sbjct: 66 HMDG 69
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 35/64 (54%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
++V +P +T L +F ++ V +V I+KDK TR S+G F++ + A A
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 77 HNKK 80
+NK+
Sbjct: 79 NNKQ 82
Score = 34.7 bits (78), Expect = 0.10, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAALEAI 163
+++ LP +++ ++ +FS YG + + I++ + SKG AF+ + K+ A AI
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 164 NGKH 167
N K
Sbjct: 79 NNKQ 82
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 16/61 (26%), Positives = 30/61 (49%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+++ ++P + +L F +G+V+ + DK T SK F+ + SAQN +
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 405 N 405
N
Sbjct: 79 N 79
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 43/72 (59%), Gaps = 9/72 (12%)
Query: 95 DGELERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKE 154
+GEL +LF+ P +V E+E++ +F +G +K+++IL G AF+++E E
Sbjct: 26 EGELSNT--RLFVRPFPLDVQESELNEIFGPFGPMKEVKIL-------NGFAFVEFEEAE 76
Query: 155 QALAALEAINGK 166
A A+E ++GK
Sbjct: 77 SAAKAIEEVHGK 88
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 42/177 (23%), Positives = 70/177 (39%), Gaps = 52/177 (29%)
Query: 16 KLFVGQVPKHMTEAQLLAMF-------------------------KEFALVDEVNIIKDK 50
+L+VG +P +TE ++ F K FA ++ ++ +
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65
Query: 51 TTRASRGCCFVICPSRQEADKAVNACHNKKTLPGASSPLQVKYADGELERLEHKLFIGML 110
A G F Q + H+ + LPGA HKLFIG L
Sbjct: 66 QAMAFDGIIF------QGQSLKIRRPHDYQPLPGA-----------------HKLFIGGL 102
Query: 111 PKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKY---ETKEQALAALEAI 163
P +++ +V L + +G +K +++ S SKG AF +Y +QA+A L +
Sbjct: 103 PNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGM 159
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI +P D ++ +FG + + + D ATG+SK + F Y AIA +
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 156
Query: 405 NG 406
NG
Sbjct: 157 NG 158
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 36/63 (57%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
KLFIG L + +E + A+F +G I ++ +++ S+G AF+ +E A A + +
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDM 68
Query: 164 NGK 166
NGK
Sbjct: 69 NGK 71
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLF+G + + E L A+F + + EV +IKD+T++ SRG F+ + +A A
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSK-SRGFAFITFENPADAKNAAKD 67
Query: 76 CHNKKTLPG 84
N K+L G
Sbjct: 68 M-NGKSLHG 75
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI + +E ++ L F G + + D+ T S+ F F+++E+PA A+NA M
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKDM 68
Query: 405 NG 406
NG
Sbjct: 69 NG 70
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 42.4 bits (98), Expect = 5e-04, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 37/62 (59%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+F+ +IP E +++L + F G V+S ++ D+ TG K +GF Y+ +A +A+ +
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 405 NG 406
NG
Sbjct: 71 NG 72
Score = 38.1 bits (87), Expect = 0.009, Method: Composition-based stats.
Identities = 25/89 (28%), Positives = 47/89 (52%), Gaps = 4/89 (4%)
Query: 98 LERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQA 156
++R +F+G +P +E ++ +FS G + +++ + KG F +Y+ +E A
Sbjct: 4 VDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETA 63
Query: 157 LAALEAINGKHKMEGSSVPLVVKWADTEK 185
L+A+ +NG+ E S L V A +EK
Sbjct: 64 LSAMRNLNGR---EFSGRALRVDNAASEK 89
Score = 33.1 bits (74), Expect = 0.29, Method: Composition-based stats.
Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 3/88 (3%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
+FVG +P TE QL +F E V ++ D+ T +G F Q+ + A++A
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFC---EYQDQETALSAM 67
Query: 77 HNKKTLPGASSPLQVKYADGELERLEHK 104
N + L+V A E + E K
Sbjct: 68 RNLNGREFSGRALRVDNAASEKNKEELK 95
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 45/172 (26%), Positives = 76/172 (44%), Gaps = 25/172 (14%)
Query: 14 RVKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
R +LFVG +P +TE +F+ + EV I +D RG F+ SR A+ A
Sbjct: 22 RCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRLESRTLAEIA- 74
Query: 74 NACHNKKTLPGA---SSPLQVKYADGELERLEH--KLFIGMLPKNVSEAEVSALFSIYGT 128
K L G S PL++++A H L + L VS + FS +G
Sbjct: 75 -----KAELDGTILKSRPLRIRFAT-------HGAALTVKNLSPVVSNELLEQAFSQFGP 122
Query: 129 IKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI-NGKHKMEGSSVPLVVK 179
++ ++ + + G F+++ K A ALE +G + + P++V+
Sbjct: 123 VEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVE 174
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 42.0 bits (97), Expect = 6e-04, Method: Composition-based stats.
Identities = 21/41 (51%), Positives = 27/41 (65%)
Query: 366 FGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNG 406
FGR+ A+V D ATG SK +GFVS+ + A+NAI M G
Sbjct: 30 FGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGG 70
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 39/63 (61%), Gaps = 7/63 (11%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
+LF+ P +V E+E++ +F +G +K+++IL G AF+++E E A A+E +
Sbjct: 6 RLFVRPFPLDVQESELNEIFGPFGPMKEVKILN-------GFAFVEFEEAESAAKAIEEV 58
Query: 164 NGK 166
+GK
Sbjct: 59 HGK 61
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
LF+ + + +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 164 NGKHKMEGSSVPLVVKW 180
NG+ M P+ V W
Sbjct: 85 NGQDLM---GQPISVDW 98
Score = 37.7 bits (86), Expect = 0.012, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 35/62 (56%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A+ +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 405 NG 406
NG
Sbjct: 85 NG 86
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
LF+ + + +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 164 NGKHKMEGSSVPLVVKW 180
NG+ M P+ V W
Sbjct: 70 NGQDLM---GQPISVDW 83
Score = 37.7 bits (86), Expect = 0.012, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 35/62 (56%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A+ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 405 NG 406
NG
Sbjct: 70 NG 71
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
LF+ + + +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 164 NGKHKMEGSSVPLVVKW 180
NG+ M P+ V W
Sbjct: 70 NGQDLM---GQPISVDW 83
Score = 37.7 bits (86), Expect = 0.013, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 35/62 (56%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A+ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 405 NG 406
NG
Sbjct: 70 NG 71
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEA 162
+L++G L N++E + +F +G I+ +Q++ S+ SKG F+ + E A ALE
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 163 ING 165
+NG
Sbjct: 88 LNG 90
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 28/44 (63%)
Query: 363 FQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNG 406
F+ FGR+ S ++ +D TG SK +GF+++ A+ A+ +NG
Sbjct: 47 FEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNG 90
Score = 33.1 bits (74), Expect = 0.30, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 33/59 (55%)
Query: 15 VKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
++L+VG + ++TE L +F+ F ++ + ++ D T S+G F+ + A KA+
Sbjct: 27 MRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKAL 85
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
LF+ + + +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 164 NGKHKMEGSSVPLVVKW 180
NG+ M P+ V W
Sbjct: 70 NGQDLM---GQPISVDW 83
Score = 37.4 bits (85), Expect = 0.016, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 35/62 (56%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A+ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 405 NG 406
NG
Sbjct: 70 NG 71
>pdb|3MDF|A Chain A, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
pdb|3MDF|B Chain B, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
Length = 85
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 39/70 (55%), Gaps = 1/70 (1%)
Query: 96 GELERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKE 154
G + + L++G L + V + + A F +G I D+QI L + +G AF+++E E
Sbjct: 1 GSMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 60
Query: 155 QALAALEAIN 164
A AA++ +N
Sbjct: 61 DAAAAIDNMN 70
Score = 33.9 bits (76), Expect = 0.18, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L++ + +E D+ L AF FG + ++ +D T + F FV +E A AI M
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 405 N 405
N
Sbjct: 70 N 70
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
LF+ + + +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 164 NGKHKMEGSSVPLVVKW 180
NG+ M P+ V W
Sbjct: 72 NGQDLM---GQPISVDW 85
Score = 37.4 bits (85), Expect = 0.018, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 35/62 (56%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A+ +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 405 NG 406
NG
Sbjct: 72 NG 73
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
LF+ + + +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 164 NGKHKMEGSSVPLVVKW 180
NG+ M P+ V W
Sbjct: 86 NGQDLM---GQPISVDW 99
Score = 37.0 bits (84), Expect = 0.019, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 35/62 (56%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A+ +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 405 NG 406
NG
Sbjct: 86 NG 87
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 45/82 (54%), Gaps = 2/82 (2%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAI 163
LF+ + + +E+++ F +YG IK + ++ + +G AF++YE + +A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 164 NGKHKMEGSSVPLVVKWADTEK 185
+GK K++G V + V+ T K
Sbjct: 165 DGK-KIDGRRVLVDVERGRTVK 185
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 37/65 (56%), Gaps = 4/65 (6%)
Query: 103 HKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKY---ETKEQALA 158
HKLFIG LP +++ +V L + +G +K +++ S SKG AF +Y +QA+A
Sbjct: 2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61
Query: 159 ALEAI 163
L +
Sbjct: 62 GLNGM 66
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LFI +P D ++ +FG + + + D ATG+SK + F Y AIA +
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 405 NG 406
NG
Sbjct: 64 NG 65
Score = 35.4 bits (80), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 29/58 (50%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
KLF+G +P ++ + Q+ + F + N++KD T S+G F D+A+
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 32/58 (55%), Gaps = 5/58 (8%)
Query: 106 FIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
+IG +P +EA++ LF +G I D + KGC F+KY+T EQA + A+
Sbjct: 31 YIGNIPHFATEADLIPLFQNFGFILDFK-----HYPEKGCCFIKYDTHEQAAVCIVAL 83
Score = 33.1 bits (74), Expect = 0.33, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 6/61 (9%)
Query: 18 FVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNACH 77
++G +P TEA L+ +F+ F I D +GCCF+ + ++A + A
Sbjct: 31 YIGNIPHFATEADLIPLFQNFGF------ILDFKHYPEKGCCFIKYDTHEQAAVCIVALA 84
Query: 78 N 78
N
Sbjct: 85 N 85
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 23/62 (37%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+F+ ++P +F + L + F G VL A + ++ G SK G V +ESP A+ A MM
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACRMM 65
Query: 405 NG 406
NG
Sbjct: 66 NG 67
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 23/62 (37%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+F+ ++P +F + L + F G VL A + ++ G SK G V +ESP A+ A MM
Sbjct: 11 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACRMM 68
Query: 405 NG 406
NG
Sbjct: 69 NG 70
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 45/82 (54%), Gaps = 2/82 (2%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAI 163
LF+ + + +E+++ F +YG IK + ++ + +G AF++YE + +A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 164 NGKHKMEGSSVPLVVKWADTEK 185
+GK K++G V + V+ T K
Sbjct: 165 DGK-KIDGRRVLVDVERGRTVK 185
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + +IP F D +L F FG++L ++ ++ SK FGFV++E+ A A A +
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKL 75
Query: 405 NG 406
+G
Sbjct: 76 HG 77
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L + +IP F D +L F FG++L ++ ++ SK FGFV++E+ A A A +
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKL 89
Query: 405 NG 406
+G
Sbjct: 90 HG 91
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
L++G L + V + + A F +G I D+QI L + +G AF+++E E A AA++ +
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 164 N 164
N
Sbjct: 68 N 68
Score = 33.9 bits (76), Expect = 0.18, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L++ + +E D+ L AF FG + ++ +D T + F FV +E A AI M
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 405 N 405
N
Sbjct: 68 N 68
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
L++G L + V + + A F +G I D+QI L + +G AF+++E E A AA++ +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 164 N 164
N
Sbjct: 65 N 65
Score = 33.9 bits (76), Expect = 0.18, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L++ + +E D+ L AF FG + ++ +D T + F FV +E A AI M
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 405 N 405
N
Sbjct: 65 N 65
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
L++G L + V + + A F +G I D+QI L + +G AF+++E E A AA++ +
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 164 N 164
N
Sbjct: 126 N 126
Score = 33.9 bits (76), Expect = 0.18, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L++ + +E D+ L AF FG + ++ +D T + F FV +E A AI M
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 405 N 405
N
Sbjct: 126 N 126
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSA-KVFVDKATGVSKCFGFVSYESPASAQNAIAM 403
+FI ++ E ++ L + F AFG +L K+ D TG SK + F+++ S ++ AI
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 404 MNG 406
MNG
Sbjct: 68 MNG 70
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 43/79 (54%), Gaps = 5/79 (6%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDL-QILRG-SQQTSKGCAFLKYETKEQALAALEA 162
+FIG L + E + FS +G I +I+R SKG AF+ + + + + AA+EA
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 163 INGKHKMEGSSVPLVVKWA 181
+NG++ + P+ V +A
Sbjct: 68 MNGQYLC---NRPITVSYA 83
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 38.1 bits (87), Expect = 0.008, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFV---SYESPASAQNAI 401
L + +P + +Q+L F FG VL +V D TG SK FGFV YE+ +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR 77
Query: 402 AMMNG 406
M++G
Sbjct: 78 HMIDG 82
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 37.7 bits (86), Expect = 0.011, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAI 163
L++G L + V + + A F +G I D+QI L + +G AF+++E E A AA++ +
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 164 N 164
N
Sbjct: 75 N 75
Score = 33.1 bits (74), Expect = 0.32, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
L++ + +E D+ L AF FG + ++ +D T + F FV +E A AI M
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 405 N 405
N
Sbjct: 75 N 75
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 37.7 bits (86), Expect = 0.013, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
KL + L VS+A++ LF+ +GT+K + S G A + +E K AL A++
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY 89
Query: 164 NG 165
NG
Sbjct: 90 NG 91
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 37.4 bits (85), Expect = 0.016, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAI 163
L++G L N++E + +F +G I ++ +++ S SKG F+ + E A ALE +
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 164 NG 165
NG
Sbjct: 68 NG 69
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 363 FQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNG 406
F+ FG++ + + D TG SK +GF+++ A+ A+ +NG
Sbjct: 26 FEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNG 69
Score = 33.5 bits (75), Expect = 0.26, Method: Composition-based stats.
Identities = 21/83 (25%), Positives = 42/83 (50%), Gaps = 3/83 (3%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
L+VG + ++TE L +F+ F +D + ++KD T S+G F+ + A +A+
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 77 HNKKTLPGASSPLQVKYADGELE 99
+ + A P++V + L+
Sbjct: 68 NGFEL---AGRPMRVGHVTERLD 87
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 37.4 bits (85), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 41/73 (56%), Gaps = 8/73 (10%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
LF+ L V+E + FS +G ++ ++ L K AF+ ++ ++ A+ A+E +N
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKL-------KDYAFIHFDERDGAVKAMEEMN 66
Query: 165 GKHKMEGSSVPLV 177
GK +EG ++ +V
Sbjct: 67 GKD-LEGENIEIV 78
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 36.6 bits (83), Expect = 0.027, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 36/66 (54%), Gaps = 8/66 (12%)
Query: 15 VKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVN 74
VKLF+G +P+ TE ++ ++F+++ V E +IIK+ FV + A+ A+
Sbjct: 9 VKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKNYG--------FVHIEDKTAAEDAIR 60
Query: 75 ACHNKK 80
H+ K
Sbjct: 61 NLHHYK 66
Score = 36.2 bits (82), Expect = 0.032, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 33/57 (57%), Gaps = 8/57 (14%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
LFI ++P+E +QE+ + F+ +G+VL + K +GFV E +A++AI
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAI 59
Score = 35.4 bits (80), Expect = 0.056, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 37/71 (52%), Gaps = 8/71 (11%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
KLFIG LP+ +E E+ +LF YG + + I+ K F+ E K A A+ +
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII-------KNYGFVHIEDKTAAEDAIRNL 62
Query: 164 NGKHKMEGSSV 174
+ +K+ G ++
Sbjct: 63 H-HYKLHGVNI 72
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 36.6 bits (83), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 32/62 (51%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
KL + L VS+A++ LF+ +GT+K + S G A + +E + AL A++
Sbjct: 90 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQY 149
Query: 164 NG 165
G
Sbjct: 150 KG 151
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 36.2 bits (82), Expect = 0.033, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 32/62 (51%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
KL + L VS+A++ LF+ +GT+K + S G A + +E K AL A +
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAXKQY 90
Query: 164 NG 165
NG
Sbjct: 91 NG 92
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 35.8 bits (81), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 37/63 (58%), Gaps = 4/63 (6%)
Query: 103 HKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEA 162
H LF+ LP+ +E +S LF+ + K+++++ G AF++++ + QA AA +A
Sbjct: 208 HILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHD----IAFVEFDNEVQAGAARDA 263
Query: 163 ING 165
+ G
Sbjct: 264 LQG 266
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 35.4 bits (80), Expect = 0.060, Method: Composition-based stats.
Identities = 23/72 (31%), Positives = 38/72 (52%), Gaps = 3/72 (4%)
Query: 97 ELERLEHK---LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETK 153
E E+L K L++G L +E ++ LFS G IK + + +T+ G F++Y ++
Sbjct: 10 EQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSR 69
Query: 154 EQALAALEAING 165
A A+ ING
Sbjct: 70 ADAENAMRYING 81
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 35.4 bits (80), Expect = 0.062, Method: Composition-based stats.
Identities = 20/46 (43%), Positives = 27/46 (58%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFV 61
KLFVG + T+ L + F ++ V + I+KDKTT SRG FV
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFV 63
Score = 31.2 bits (69), Expect = 1.2, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 27/58 (46%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 402
LF+ + + L + F +G V+ + DK T S+ FGFV ++ P +A
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLA 76
Score = 29.3 bits (64), Expect = 4.3, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYE 151
KLF+G L + ++ + + FS YG + D I++ + S+G F+K++
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFK 66
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 35.0 bits (79), Expect = 0.074, Method: Composition-based stats.
Identities = 13/50 (26%), Positives = 30/50 (60%)
Query: 101 LEHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKY 150
+ + +F+G + + E E+ + F+ YG++K+++I+ SKG F+ +
Sbjct: 8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 57
Score = 33.9 bits (76), Expect = 0.18, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
+F+ I + E+ + F +G V K+ D+ TGVSK +GFVS+ + Q +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 67
Score = 31.6 bits (70), Expect = 0.77, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFV 61
+FVG + M E ++ + F + V EV II D+T S+G FV
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTG-VSKGYGFV 55
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
Length = 99
Score = 35.0 bits (79), Expect = 0.075, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 13/73 (17%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
+LF+G LP +++E E+ LF YG ++ I KG F++ ET+ A A
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFI-----HKDKGFGFIRLETRTLAEIA---- 67
Query: 164 NGKHKMEGSSVPL 176
K+E ++PL
Sbjct: 68 ----KVELDNMPL 76
Score = 35.0 bits (79), Expect = 0.083, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 41/81 (50%), Gaps = 9/81 (11%)
Query: 14 RVKLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
R +LFVG +P +TE ++ +F+++ EV I KDK G F+ +R A+ A
Sbjct: 15 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIAK 68
Query: 74 NACHNKKTLPGASSPLQVKYA 94
N +P L+V++A
Sbjct: 69 VELDN---MPLRGKQLRVRFA 86
Score = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 32/56 (57%), Gaps = 6/56 (10%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 400
LF+ ++P + ++E+ F+ +G+ + +VF+ K G FGF+ E+ A+ A
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGK--AGEVFIHKDKG----FGFIRLETRTLAEIA 67
>pdb|2U1A|A Chain A, Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20
Structures
Length = 88
Score = 35.0 bits (79), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 37/63 (58%), Gaps = 4/63 (6%)
Query: 103 HKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEA 162
H LF+ LP+ +E +S LF+ + K+++++ G AF++++ + QA AA +A
Sbjct: 14 HILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRH----DIAFVEFDNEVQAGAARDA 69
Query: 163 ING 165
+ G
Sbjct: 70 LQG 72
>pdb|3HLR|A Chain A, Donor Strand Complemented Faeg Of F4ad Fimbriae
Length = 276
Score = 35.0 bits (79), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 10/90 (11%)
Query: 56 RGCCFVICPSRQEADKAVNACHNKKTLPGASSPLQVKYADGELERL----EHKLFIGMLP 111
+G + + P + V + + GA V ADGEL L H +F G LP
Sbjct: 85 KGLAYFVLPMKNAEGTKVGSVKVNASYAGALGRGGVTSADGELMSLFAEGSHAIFYGGLP 144
Query: 112 KNVSEAEV------SALFSIYGTIKDLQIL 135
NV +E+ +A ++G++ IL
Sbjct: 145 TNVKNSELKGGSAAAARTELFGSLSKNDIL 174
>pdb|3GEA|A Chain A, Donor Strand Complemented Faeg Monomer Of F4 Variant Ad
pdb|3GEA|B Chain B, Donor Strand Complemented Faeg Monomer Of F4 Variant Ad
Length = 274
Score = 35.0 bits (79), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 10/90 (11%)
Query: 56 RGCCFVICPSRQEADKAVNACHNKKTLPGASSPLQVKYADGELERL----EHKLFIGMLP 111
+G + + P + V + + GA V ADGEL L H +F G LP
Sbjct: 93 KGLAYFVLPMKNAEGTKVGSVKVNASYAGALGRGGVTSADGELMSLFAEGSHAIFYGGLP 152
Query: 112 KNVSEAEV------SALFSIYGTIKDLQIL 135
NV +E+ +A ++G++ IL
Sbjct: 153 TNVKNSELKGGSAAAARTELFGSLSKNDIL 182
>pdb|3GGH|A Chain A, Donor Strand Complemented Faeg Of F4ad Fimbriae
pdb|3GGH|B Chain B, Donor Strand Complemented Faeg Of F4ad Fimbriae
Length = 275
Score = 35.0 bits (79), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 10/90 (11%)
Query: 56 RGCCFVICPSRQEADKAVNACHNKKTLPGASSPLQVKYADGELERL----EHKLFIGMLP 111
+G + + P + V + + GA V ADGEL L H +F G LP
Sbjct: 94 KGLAYFVLPMKNAEGTKVGSVKVNASYAGALGRGGVTSADGELMSLFAEGSHAIFYGGLP 153
Query: 112 KNVSEAEV------SALFSIYGTIKDLQIL 135
NV +E+ +A ++G++ IL
Sbjct: 154 TNVKNSELKGGSAAAARTELFGSLSKNDIL 183
>pdb|3GEW|D Chain D, Faee-Faeg Chaperone-Major Pilin Complex Of F4 Ad Fimbriae
pdb|3GEW|A Chain A, Faee-Faeg Chaperone-Major Pilin Complex Of F4 Ad Fimbriae
Length = 253
Score = 35.0 bits (79), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 10/90 (11%)
Query: 56 RGCCFVICPSRQEADKAVNACHNKKTLPGASSPLQVKYADGELERL----EHKLFIGMLP 111
+G + + P + V + + GA V ADGEL L H +F G LP
Sbjct: 93 KGLAYFVLPMKNAEGTKVGSVKVNASYAGALGRGGVTSADGELMSLFAEGSHAIFYGGLP 152
Query: 112 KNVSEAEV------SALFSIYGTIKDLQIL 135
NV +E+ +A ++G++ IL
Sbjct: 153 TNVKNSELKGGSAAAARTELFGSLSKNDIL 182
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 35.0 bits (79), Expect = 0.091, Method: Composition-based stats.
Identities = 13/50 (26%), Positives = 30/50 (60%)
Query: 101 LEHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKY 150
+ + +F+G + + E E+ + F+ YG++K+++I+ SKG F+ +
Sbjct: 9 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 58
Score = 33.5 bits (75), Expect = 0.21, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
+F+ I + E+ + F +G V K+ D+ TGVSK +GFVS+ + Q +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 68
Score = 31.6 bits (70), Expect = 0.95, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFV 61
+FVG + M E ++ + F + V EV II D+T S+G FV
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTG-VSKGYGFV 56
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 34.7 bits (78), Expect = 0.093, Method: Composition-based stats.
Identities = 21/50 (42%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 357 QELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNG 406
QEL F + R+ AK DK TG SK F F+S+ A AIA ++G
Sbjct: 33 QELFRPFGSISRIYLAK---DKTTGQSKGFAFISFHRREDAARAIAGVSG 79
Score = 33.5 bits (75), Expect = 0.24, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 29/55 (52%)
Query: 19 VGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
V + + E L +F+ F + + + KDKTT S+G F+ R++A +A+
Sbjct: 20 VTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
Score = 30.0 bits (66), Expect = 2.8, Method: Composition-based stats.
Identities = 15/57 (26%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 110 LPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEAING 165
L ++ E ++ LF +G+I + + + + SKG AF+ + +E A A+ ++G
Sbjct: 23 LSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG 79
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 34.7 bits (78), Expect = 0.10, Method: Composition-based stats.
Identities = 13/50 (26%), Positives = 30/50 (60%)
Query: 101 LEHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKY 150
+ + +F+G + + E E+ + F+ YG++K+++I+ SKG F+ +
Sbjct: 8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 57
Score = 33.5 bits (75), Expect = 0.24, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
+F+ I + E+ + F +G V K+ D+ TGVSK +GFVS+ + Q +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 67
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFV 61
+FVG + M E ++ + F + V EV II D+T S+G FV
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTG-VSKGYGFV 55
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 29/58 (50%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
K+F+G + T+ L F +F V E +++D T+ SRG FV + DK +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL 59
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 359 LGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNGC 407
L F+ +GRV + D+ T S+ F FV + A++A+ M+G
Sbjct: 87 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGA 135
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAI 163
L + L S + +F YG + D+ I R + S+G AF+++ K A A++A+
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 164 NG 165
+G
Sbjct: 133 DG 134
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 33.9 bits (76), Expect = 0.16, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 32/62 (51%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
KL + L VS+A++ LF+ +GT+K + S G A + +E + AL A++
Sbjct: 37 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQY 96
Query: 164 NG 165
G
Sbjct: 97 KG 98
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 33.9 bits (76), Expect = 0.16, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 32/62 (51%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
KL + L VS+A++ LF+ +GT+K + S G A + +E + AL A++
Sbjct: 37 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQY 96
Query: 164 NG 165
G
Sbjct: 97 KG 98
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 33.9 bits (76), Expect = 0.17, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 24/37 (64%)
Query: 357 QELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYES 393
+++ + F+ FG+V A + DK T + FGFV++ES
Sbjct: 14 EDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFES 50
Score = 32.0 bits (71), Expect = 0.75, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 28/55 (50%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADK 71
+FVG + + T + F++F VD+ ++ DKTT RG FV S +K
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEK 56
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 33.9 bits (76), Expect = 0.17, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 32/60 (53%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNA 75
KLF+G + TE L ++++ + + +++D ++ SRG FV S E D A+ A
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEA 162
+LF+ L SE ++ LFS YG + +L + + KG AF+ + E A+ A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 163 INGK 166
++G+
Sbjct: 70 VDGQ 73
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 30/62 (48%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
LF+ ++ +++L F A+G + +D T K F FV++ P A A A +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 405 NG 406
+G
Sbjct: 71 DG 72
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 33.5 bits (75), Expect = 0.23, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 115 SEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAALEAING 165
+E ++ +FS YG I D+ I+ Q + S+G AF+ +E + A A E NG
Sbjct: 25 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 76
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 33.5 bits (75), Expect = 0.23, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 115 SEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAALEAING 165
+E ++ +FS YG I D+ I+ Q + S+G AF+ +E + A A E NG
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
>pdb|1OWX|A Chain A, Solution Structure Of The C-Terminal Rrm Of Human La
(La225- 334)
Length = 121
Score = 33.5 bits (75), Expect = 0.23, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 3/81 (3%)
Query: 106 FIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 165
F G L ++ LFS +G IK + +RG+++ G K + KE A +A NG
Sbjct: 23 FSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKE---GIILFKEKAKEALGKAKDANNG 79
Query: 166 KHKMEGSSVPLVVKWADTEKE 186
++ V V + EKE
Sbjct: 80 NLQLRNKEVTWEVLEGEVEKE 100
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 33.5 bits (75), Expect = 0.24, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 6/73 (8%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQ-----ALA 158
+FI L + E + + +G +K +++ L + SKGCAF ++ T+E A A
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77
Query: 159 ALEAINGKHKMEG 171
+LEA G K++G
Sbjct: 78 SLEAEGGGLKLDG 90
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 31/67 (46%)
Query: 100 RLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAA 159
RL +F+ L V ++ +FS+ G + IL S+G + +E +A+ A
Sbjct: 13 RLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQA 72
Query: 160 LEAINGK 166
+ NG+
Sbjct: 73 ISMFNGQ 79
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 33.5 bits (75), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 40/73 (54%), Gaps = 4/73 (5%)
Query: 97 ELERLEHK---LFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYET 152
E E+L K L++G L +E ++ LFS G IK + + L ++T+ G F++Y +
Sbjct: 31 EQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYS 90
Query: 153 KEQALAALEAING 165
+ A A+ ING
Sbjct: 91 RADAENAMRYING 103
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 33.1 bits (74), Expect = 0.27, Method: Composition-based stats.
Identities = 15/56 (26%), Positives = 29/56 (51%)
Query: 346 FIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
F+ + + ++L + F FG V+ + D TG S+ FGF+ ++ AS + +
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVL 70
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 33.1 bits (74), Expect = 0.32, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 115 SEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAALEAING 165
+E ++ +FS YG I D+ I+ Q + S+G AF+ +E + A A E NG
Sbjct: 59 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 110
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 33.1 bits (74), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 34/67 (50%), Gaps = 8/67 (11%)
Query: 101 LEHKLFIGMLPKN-VSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAA 159
+ ++FIG L V +++V +FS YG + + KG AF++Y + A AA
Sbjct: 26 INSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV-------HKGYAFVQYSNERHARAA 78
Query: 160 LEAINGK 166
+ NG+
Sbjct: 79 VLGENGR 85
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 32.7 bits (73), Expect = 0.37, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 29/58 (50%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
K+F+G + T+ L F +F V E +++D T+ SRG FV + DK +
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL 84
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 32.7 bits (73), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAI 163
+++G +P + +E ++ L S G + +L+++ Q SKG AF+++ E + +A+ +
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 164 NG 165
NG
Sbjct: 67 NG 68
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 101 LEHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAAL 160
L+ K+++G L N ++ E+ F YG ++ + + R G AF+++E A A+
Sbjct: 72 LDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVAR----NPPGFAFVEFEDPRDAADAV 127
Query: 161 EAINGK 166
++G+
Sbjct: 128 RELDGR 133
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 32.7 bits (73), Expect = 0.41, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 8/62 (12%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 404
+F+ ++ QEL + F+ GRV+ V D + FV E A A+ AIA +
Sbjct: 12 IFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIAQL 63
Query: 405 NG 406
NG
Sbjct: 64 NG 65
Score = 28.1 bits (61), Expect = 9.5, Method: Composition-based stats.
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
K+F+G + + E+ +LF G + + ++ K AF+ E + A AA+ +
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVV-------KDYAFVHMEKEADAKAAIAQL 63
Query: 164 NGK 166
NGK
Sbjct: 64 NGK 66
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 32.7 bits (73), Expect = 0.41, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 115 SEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAALEAING 165
+E ++ +FS YG I D+ I+ Q + S+G AF+ +E + A A E NG
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 32.7 bits (73), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 101 LEHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAAL 160
L+ K+++G L N ++ E+ F YG ++ + + R G AF+++E A A+
Sbjct: 72 LDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVAR----NPPGFAFVEFEDPRDAADAV 127
Query: 161 EAINGK 166
++G+
Sbjct: 128 RDLDGR 133
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 32.3 bits (72), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 35/67 (52%), Gaps = 8/67 (11%)
Query: 101 LEHKLFIGMLPK-NVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAA 159
+ ++FIG L V +++V A+FS YG I + KG AF++Y + A AA
Sbjct: 14 MNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV-------HKGFAFVQYVNERNARAA 66
Query: 160 LEAINGK 166
+ +G+
Sbjct: 67 VAGEDGR 73
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 32.3 bits (72), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAI 163
+++G +P + +E ++ L S G + +L+++ Q SKG AF+++ E + +A+ +
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 164 NG 165
NG
Sbjct: 66 NG 67
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 32.3 bits (72), Expect = 0.59, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 29/57 (50%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 401
+FI + + ++L + F FG V+ + +D TG S+ FGFV ++ S +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVM 58
Score = 28.5 bits (62), Expect = 7.1, Method: Composition-based stats.
Identities = 17/63 (26%), Positives = 29/63 (46%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNAC 76
+F+G + T+ L F +F V + + D T SRG FV+ + DK ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 77 HNK 79
+K
Sbjct: 62 EHK 64
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 32.0 bits (71), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 104 KLFIGMLP-KNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEA 162
+LFIG LP KNVS+ ++ +FS YG I + I F++++ + A+E
Sbjct: 12 RLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI-------KNAFGFIQFDNPQSVRDAIEC 64
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 32.0 bits (71), Expect = 0.67, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 35/61 (57%), Gaps = 2/61 (3%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
L+I LP ++ E+ +F YG I+ +++ G+ ++G A++ YE A A++ ++
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV--GNTPETRGTAYVVYEDIFDAKNAVDHLS 68
Query: 165 G 165
G
Sbjct: 69 G 69
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 32.0 bits (71), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAI 163
+++G +P + +E ++ L S G + +L+++ Q SKG AF+++ E + +A+ +
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 164 NG 165
NG
Sbjct: 65 NG 66
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 8/62 (12%)
Query: 101 LEHKLFIGMLP-KNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAA 159
++ +LFIG LP KNVS+ ++ +FS YG I + I F++++ + A
Sbjct: 21 MKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI-------KNAFGFIQFDNPQSVRDA 73
Query: 160 LE 161
+E
Sbjct: 74 IE 75
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 31.6 bits (70), Expect = 0.80, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
K+++G L + E+ FS YG ++ + I R G AF+++E A A+ +
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIAR----NPPGFAFVEFEDPRDAEDAVRGL 57
Query: 164 NGK 166
+GK
Sbjct: 58 DGK 60
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 31.6 bits (70), Expect = 0.86, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
L+I LP ++ E+ +F YG I+ +++ G+ ++G A++ YE A A + ++
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV--GNTPETRGTAYVVYEDIFDAKNACDHLS 72
Query: 165 G 165
G
Sbjct: 73 G 73
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 31.6 bits (70), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 8/62 (12%)
Query: 101 LEHKLFIGMLP-KNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAA 159
++ +LFIG LP KNVS+ ++ +FS YG I + I F++++ + A
Sbjct: 21 MKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI-------KNAFGFIQFDNPQSVRDA 73
Query: 160 LE 161
+E
Sbjct: 74 IE 75
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 31.6 bits (70), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 350 IPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNG 406
I DQ + F FG+++ +VF +K + FV + + SA +AI +NG
Sbjct: 33 IASGLTDQLMRQTFSPFGQIMEIRVFPEKG------YSFVRFSTHESAAHAIVSVNG 83
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 37/70 (52%), Gaps = 6/70 (8%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
++ G + +++ + FS +G I ++++ KG +F+++ T E A A+ ++N
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVF-----PEKGYSFVRFSTHESAAHAIVSVN 82
Query: 165 GKHKMEGSSV 174
G +EG V
Sbjct: 83 GT-TIEGHVV 91
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 31.6 bits (70), Expect = 0.98, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 357 QELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMN 405
+++ F FG+V + K+ D+ T K FGFV + S AIA ++
Sbjct: 16 EQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAKLD 63
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 36/70 (51%), Gaps = 7/70 (10%)
Query: 103 HKLFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALE 161
+KL+IG L V+ ++ LF D ++ L G G AF+ Y + A+ A+E
Sbjct: 9 NKLYIGNLSPAVTADDLRQLFG------DRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIE 62
Query: 162 AINGKHKMEG 171
++GK ++ G
Sbjct: 63 TLSGKVELHG 72
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 50/100 (50%), Gaps = 7/100 (7%)
Query: 88 PLQVKYADGELERLEHKLFIGMLPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCA 146
P+ Y GE ++ L++ L V+E ++ +LF+ + K I R +G A
Sbjct: 14 PMFSSYNPGEPNKV---LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQA 70
Query: 147 FLKYETKEQALAALEAINGKHKMEGSSVPLVVKWADTEKE 186
F+ + KE A AL +NG +K+ G LV+++ +K+
Sbjct: 71 FITFPNKEIAWQALHLVNG-YKLYGKI--LVIEFGKNKKQ 107
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 31.2 bits (69), Expect = 1.3, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
L+I LP ++ E+ +F YG I+ +++ G+ ++G A++ YE A A + ++
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV--GNTPETRGTAYVVYEDIFDAKNACDHLS 78
Query: 165 G 165
G
Sbjct: 79 G 79
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 31.2 bits (69), Expect = 1.3, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 18 FVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAVNACH 77
+VG +P + + + A+FK+ + + V +++DK T +G C+V E D A
Sbjct: 19 YVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYV---EFDEVDSLKEALT 74
Query: 78 NKKTLPGASSPLQVKYADG 96
L G S L+V A+G
Sbjct: 75 YDGALLGDRS-LRVDIAEG 92
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 123 FSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKH 167
FS +G I DL S + CAF+ YE E A A+ +NG
Sbjct: 58 FSPFGNIIDL-----SMDPPRNCAFVTYEKMESADQAVAELNGTQ 97
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 104 KLFIGMLP-KNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEA 162
+LFIG LP KNVS+ ++ +FS YG I + I F++++ + A+E
Sbjct: 4 RLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI-------KNAFGFIQFDNPQSVRDAIEC 56
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 345 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDK-ATGV--SKCFGFVSYESPASAQNAI 401
LFI ++ ++ L F G + S + K GV S FGFV Y+ P AQ A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 402 AMMNG 406
+ G
Sbjct: 68 KQLQG 72
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 123 FSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKH 167
FS +G I DL S + CAF+ YE E A A+ +NG
Sbjct: 34 FSPFGNIIDL-----SMDPPRNCAFVTYEKMESADQAVAELNGTQ 73
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 381 GVSKCFGFVSYESPASAQNAIAMMNG 406
G K FGFV ++ P S AIA++NG
Sbjct: 54 GKPKSFGFVCFKHPESVSYAIALLNG 79
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 374 VFVDKATGVSKCFGFVSYESPASAQNAIAMMNG 406
+++DK TG K VSYE P +A+ A+ +G
Sbjct: 55 IYLDKETGKPKGDATVSYEDPPTAKAAVEWFDG 87
>pdb|2B0G|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
pdb|2AYM|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
Length = 83
Score = 30.0 bits (66), Expect = 2.7, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 35/61 (57%), Gaps = 4/61 (6%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
LF+ LP+ +E +S LF+ + K+++++ AF+++ T+ Q+ AA EA+
Sbjct: 11 LFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHDI----AFVEFTTELQSNAAKEALQ 66
Query: 165 G 165
G
Sbjct: 67 G 67
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 29.6 bits (65), Expect = 3.2, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 25/48 (52%)
Query: 359 LGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNG 406
L F+ +GRV + D+ T S+ F FV + A++A+ M+G
Sbjct: 64 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 111
Score = 28.5 bits (62), Expect = 7.3, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 122 LFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAING 165
+F YG + D+ I R + S+G AF+++ K A A++A++G
Sbjct: 67 VFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 111
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 31/57 (54%)
Query: 17 LFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKDKTTRASRGCCFVICPSRQEADKAV 73
++VG + + ++E L +F + V ++ KD+ T +G FV S ++AD A+
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 29.3 bits (64), Expect = 4.8, Method: Composition-based stats.
Identities = 20/81 (24%), Positives = 39/81 (48%), Gaps = 7/81 (8%)
Query: 105 LFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAIN 164
LF+ L V+E + FS +G ++ ++ L K AF+ +E + A+ A++ +N
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVKKL-------KDYAFVHFEDRGAAVKAMDEMN 70
Query: 165 GKHKMEGSSVPLVVKWADTEK 185
GK ++ K D ++
Sbjct: 71 GKEIEGEEIEIVLAKPPDKKR 91
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 28.9 bits (63), Expect = 6.4, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 16 KLFVGQVPKHMTEAQLLAMFKEFALVDEVNIIKD 49
KL VG + T +L A F+E+ V E +I+KD
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD 45
>pdb|1X4F|A Chain A, Solution Structure Of The Second Rrm Domain In Matrin 3
Length = 112
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 9/66 (13%)
Query: 97 ELERLEHKLFIGMLPKN-VSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQ 155
EL R+ H + LP + S++ V L YG IK+ ++R Q AF++ ET+E
Sbjct: 23 ELGRVIH---LSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQ-----AFIEMETRED 74
Query: 156 ALAALE 161
A+A ++
Sbjct: 75 AMAMVD 80
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 28.1 bits (61), Expect = 9.2, Method: Composition-based stats.
Identities = 14/62 (22%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 104 KLFIGMLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 163
++++G LP ++ ++ +F YG I+D+ + +++ AF+++E A A+
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL--KNRRGGPPFAFVEFEDPRDAEDAVYGR 81
Query: 164 NG 165
+G
Sbjct: 82 DG 83
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 28.1 bits (61), Expect = 9.9, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 25 HMTEAQLLAMFKEFALVDEVNI--IKDKTTRASRGCCFVICPSRQEAD--KAVNACHNKK 80
H T +L +A++ N+ IKDK T+ +RG F+ + + A + + A H
Sbjct: 34 HSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTIEAAQLLQILQALHPPL 93
Query: 81 TLPGASSPLQVKYADG 96
T+ G + + V++A G
Sbjct: 94 TIDGKT--INVEFAKG 107
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.134 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,432,720
Number of Sequences: 62578
Number of extensions: 440179
Number of successful extensions: 1282
Number of sequences better than 100.0: 162
Number of HSP's better than 100.0 without gapping: 117
Number of HSP's successfully gapped in prelim test: 45
Number of HSP's that attempted gapping in prelim test: 874
Number of HSP's gapped (non-prelim): 369
length of query: 428
length of database: 14,973,337
effective HSP length: 102
effective length of query: 326
effective length of database: 8,590,381
effective search space: 2800464206
effective search space used: 2800464206
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)