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= 005357
(700 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 146 bits (368), Expect = 4e-35, Method: Composition-based stats.
Identities = 75/177 (42%), Positives = 112/177 (63%), Gaps = 5/177 (2%)
Query: 49 SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTG--QQQGCCFIKYATSEEA 106
S K+FVG VP+T E+D+R LFE++G V E+ +++D+ Q +GCCF+ + T + A
Sbjct: 1 SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAA 60
Query: 107 DRAIRALHNQHTLPGGVGPIQVRYADGERERLGAVE-YKLFVGSLNKQATEKEVEEIFSP 165
A ALHN LPG PIQ++ AD E+ AVE KLF+G ++K+ TE ++ +FS
Sbjct: 61 LEAQNALHNMKVLPGMHHPIQMKPADSEKN--NAVEDRKLFIGMISKKCTENDIRVMFSS 118
Query: 166 YGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALNGIYTMRGCDQPLTVRFAD 222
+G++E+ ++R SRGC FV ++ R MA AI A++ TM GC P+ V+FAD
Sbjct: 119 FGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD 175
Score = 60.1 bits (144), Expect = 4e-09, Method: Composition-based stats.
Identities = 30/85 (35%), Positives = 52/85 (61%), Gaps = 3/85 (3%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK---QSRGCGFVKYSHRDMALAAI 200
K+FVG + + +EK++ E+F YG V ++ ++RD + QS+GC FV + R AL A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 201 NALNGIYTMRGCDQPLTVRFADPKR 225
NAL+ + + G P+ ++ AD ++
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADSEK 89
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 145 bits (365), Expect = 1e-34, Method: Composition-based stats.
Identities = 77/183 (42%), Positives = 115/183 (62%), Gaps = 6/183 (3%)
Query: 43 PDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTG--QQQGCCFIKY 100
PD D + K+FVG VP+T E+D+R LFE++G V E+ +++D+ Q +GCCF+ +
Sbjct: 8 PDQPDLDAI-KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 66
Query: 101 ATSEEADRAIRALHNQHTLPGGVGPIQVRYADGERERLGAVE-YKLFVGSLNKQATEKEV 159
T + A A ALHN LPG PIQ++ AD E+ AVE KLF+G ++K+ TE ++
Sbjct: 67 YTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKN--NAVEDRKLFIGMISKKCTENDI 124
Query: 160 EEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALNGIYTMRGCDQPLTVR 219
+FS +G++E+ ++R SRGC FV ++ R MA AI A++ TM GC P+ V+
Sbjct: 125 RVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVK 184
Query: 220 FAD 222
FAD
Sbjct: 185 FAD 187
Score = 59.3 bits (142), Expect = 7e-09, Method: Composition-based stats.
Identities = 30/85 (35%), Positives = 52/85 (61%), Gaps = 3/85 (3%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK---QSRGCGFVKYSHRDMALAAI 200
K+FVG + + +EK++ E+F YG V ++ ++RD + QS+GC FV + R AL A
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 76
Query: 201 NALNGIYTMRGCDQPLTVRFADPKR 225
NAL+ + + G P+ ++ AD ++
Sbjct: 77 NALHNMKVLPGMHHPIQMKPADSEK 101
>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 = 134 bits (337), Expect = 2e-31, Method: Composition-based stats.
Identities = 73/177 (41%), Positives = 105/177 (59%), Gaps = 5/177 (2%)
Query: 49 SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTG--QQQGCCFIKYATSEEA 106
S K FVG VP+T E+D+R LFE++G V E+ +++D+ Q +GCCF+ + T + A
Sbjct: 1 SDAIKXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAA 60
Query: 107 DRAIRALHNQHTLPGGVGPIQVRYADGERERLGAVE-YKLFVGSLNKQATEKEVEEIFSP 165
A ALHN LPG PIQ + AD E+ AVE KLF+G ++K+ TE ++ FS
Sbjct: 61 LEAQNALHNXKVLPGXHHPIQXKPADSEKN--NAVEDRKLFIGXISKKCTENDIRVXFSS 118
Query: 166 YGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALNGIYTMRGCDQPLTVRFAD 222
+G++E+ ++R SRGC FV ++ R A AI A + T GC P V+FAD
Sbjct: 119 FGQIEECRILRGPDGLSRGCAFVTFTTRAXAQTAIKAXHQAQTXEGCSSPXVVKFAD 175
Score = 55.8 bits (133), Expect = 8e-08, Method: Composition-based stats.
Identities = 30/85 (35%), Positives = 49/85 (57%), Gaps = 3/85 (3%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK---QSRGCGFVKYSHRDMALAAI 200
K FVG + + +EK++ E+F YG V ++ ++RD + QS+GC FV + R AL A
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 201 NALNGIYTMRGCDQPLTVRFADPKR 225
NAL+ + G P+ + AD ++
Sbjct: 65 NALHNXKVLPGXHHPIQXKPADSEK 89
>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 = 88.2 bits (217), Expect = 2e-17, Method: Composition-based stats.
Identities = 59/173 (34%), Positives = 91/173 (52%), Gaps = 7/173 (4%)
Query: 50 SFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRA 109
S L V +P+ +E+ R LF G + L++DK TGQ G F+ Y ++A++A
Sbjct: 1 SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKA 60
Query: 110 IRALHNQHTLPGGVGPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRV 169
I L+ L I+V YA + + L+V L K T+KE+E++FS YGR+
Sbjct: 61 INTLNG---LRLQTKTIKVSYARPSSASIR--DANLYVSGLPKTMTQKELEQLFSQYGRI 115
Query: 170 EDVYLMRDELKQ-SRGCGFVKYSHRDMALAAINALNGIYTMRGCDQPLTVRFA 221
++ D++ SRG GF+++ R A AI LNG G +P+TV+FA
Sbjct: 116 ITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNG-QKPSGATEPITVKFA 167
>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 = 87.4 bits (215), Expect = 2e-17, Method: Composition-based stats.
Identities = 55/169 (32%), Positives = 92/169 (54%), Gaps = 7/169 (4%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
L V +P+ ++++R LF G V LI+DK G G F+ Y T+++A+RAI L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 114 HNQHTLPGGVGPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVY 173
+ L I+V YA E + + L++ L + T+K+VE++FS +GR+ +
Sbjct: 65 NG---LRLQSKTIKVSYARPSSEVIK--DANLYISGLPRTMTQKDVEDMFSRFGRIINSR 119
Query: 174 LMRDELKQ-SRGCGFVKYSHRDMALAAINALNGIYTMRGCDQPLTVRFA 221
++ D+ SRG F+++ R A AI + NG + G +P+TV+FA
Sbjct: 120 VLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG-HKPPGSSEPITVKFA 167
Score = 57.0 bits (136), Expect = 4e-08, Method: Composition-based stats.
Identities = 28/91 (30%), Positives = 50/91 (54%), Gaps = 4/91 (4%)
Query: 41 PSPDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKY 100
PS +++ A L++ +P+T ++D+ +F G +I ++ D+ TG +G FI++
Sbjct: 81 PSSEVIKD---ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
Query: 101 ATSEEADRAIRALHNQHTLPGGVGPIQVRYA 131
EA+ AI + N H PG PI V++A
Sbjct: 138 DKRSEAEEAITSF-NGHKPPGSSEPITVKFA 167
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 86.3 bits (212), Expect = 5e-17, Method: Composition-based stats.
Identities = 55/169 (32%), Positives = 91/169 (53%), Gaps = 7/169 (4%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
L V +P+ ++++R LF G V LI+DK G G F+ Y T+++A+RAI L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 114 HNQHTLPGGVGPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVY 173
+ L I+V YA E + + L++ L + T+K+VE++FS +GR+ +
Sbjct: 65 NG---LRLQSKTIKVSYARPSSEVIK--DANLYISGLPRTMTQKDVEDMFSRFGRIINSR 119
Query: 174 LMRDELKQ-SRGCGFVKYSHRDMALAAINALNGIYTMRGCDQPLTVRFA 221
++ D+ SRG F+++ R A AI + NG + G +P+TV FA
Sbjct: 120 VLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG-HKPPGSSEPITVXFA 167
Score = 55.8 bits (133), Expect = 9e-08, Method: Composition-based stats.
Identities = 28/91 (30%), Positives = 49/91 (53%), Gaps = 4/91 (4%)
Query: 41 PSPDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKY 100
PS +++ A L++ +P+T ++D+ +F G +I ++ D+ TG +G FI++
Sbjct: 81 PSSEVIKD---ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
Query: 101 ATSEEADRAIRALHNQHTLPGGVGPIQVRYA 131
EA+ AI + N H PG PI V +A
Sbjct: 138 DKRSEAEEAITSF-NGHKPPGSSEPITVXFA 167
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 85.9 bits (211), Expect = 6e-17, Method: Composition-based stats.
Identities = 57/174 (32%), Positives = 93/174 (53%), Gaps = 7/174 (4%)
Query: 50 SFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRA 109
S L V +P+ +++ + LF G++ L++DK TGQ G F+ Y+ +AD+A
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
Query: 110 IRALHNQHTLPGGVGPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRV 169
I L+ L I+V YA + + L+V L K ++KE+E++FS YGR+
Sbjct: 63 INTLNG---LKLQTKTIKVSYARPSSASIR--DANLYVSGLPKTMSQKEMEQLFSQYGRI 117
Query: 170 EDVYLMRDELKQ-SRGCGFVKYSHRDMALAAINALNGIYTMRGCDQPLTVRFAD 222
++ D+ SRG GF+++ R A AI LNG + G +P+TV+FA+
Sbjct: 118 ITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPL-GAAEPITVKFAN 170
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 85.5 bits (210), Expect = 1e-16, Method: Composition-based stats.
Identities = 39/80 (48%), Positives = 54/80 (67%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLF+G +P+ E+D++PLFEE G + E+ ++KD+ TG +GC F+ Y E A +A A
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 113 LHNQHTLPGGVGPIQVRYAD 132
LH Q TLPG PIQV+ AD
Sbjct: 75 LHEQKTLPGMNRPIQVKPAD 94
Score = 53.9 bits (128), Expect = 3e-07, Method: Composition-based stats.
Identities = 25/80 (31%), Positives = 50/80 (62%), Gaps = 1/80 (1%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINA 202
KLF+G + + EK+++ +F +G++ ++ +++D +GC F+ Y R+ AL A +A
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 203 LNGIYTMRGCDQPLTVRFAD 222
L+ T+ G ++P+ V+ AD
Sbjct: 75 LHEQKTLPGMNRPIQVKPAD 94
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 39/82 (47%), Positives = 54/82 (65%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLFVG +P+ E+D++PLFEE G + E+ ++KD+ TG +GC F+ Y + A +A A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 113 LHNQHTLPGGVGPIQVRYADGE 134
LH Q TLPG PIQV+ A E
Sbjct: 77 LHEQKTLPGMNRPIQVKPAASE 98
Score = 55.8 bits (133), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 49/77 (63%), Gaps = 1/77 (1%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINA 202
KLFVG + + E++++ +F +GR+ ++ +++D L +GC F+ Y RD AL A +A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 203 LNGIYTMRGCDQPLTVR 219
L+ T+ G ++P+ V+
Sbjct: 77 LHEQKTLPGMNRPIQVK 93
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 81.6 bits (200), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 39/82 (47%), Positives = 51/82 (62%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINAL 203
KLFVG LNKQ +E +V +F +G +E+ ++R S+GC FVKYS A AAINAL
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFVKYSSHAEAQAAINAL 76
Query: 204 NGIYTMRGCDQPLTVRFADPKR 225
+G TM G L V+FAD +
Sbjct: 77 HGSQTMPGASSSLVVKFADTDK 98
Score = 77.4 bits (189), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 53/87 (60%), Gaps = 1/87 (1%)
Query: 50 SFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRA 109
S KLFVG + K E+D+R LFE GN+ E +++ G +GC F+KY++ EA A
Sbjct: 14 SHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPD-GNSKGCAFVKYSSHAEAQAA 72
Query: 110 IRALHNQHTLPGGVGPIQVRYADGERE 136
I ALH T+PG + V++AD ++E
Sbjct: 73 INALHGSQTMPGASSSLVVKFADTDKE 99
>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 = 81.6 bits (200), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 39/88 (44%), Positives = 56/88 (63%), Gaps = 2/88 (2%)
Query: 49 SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTG--QQQGCCFIKYATSEEA 106
S K+FVG VP+T E+D+R LFE++G V E+ +++D+ Q +GCCF+ + T + A
Sbjct: 1 SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAA 60
Query: 107 DRAIRALHNQHTLPGGVGPIQVRYADGE 134
A ALHN LPG PIQ++ AD E
Sbjct: 61 LEAQNALHNMKVLPGMHHPIQMKPADSE 88
Score = 59.7 bits (143), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 50/82 (60%), Gaps = 3/82 (3%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK---QSRGCGFVKYSHRDMALAAI 200
K+FVG + + +EK++ E+F YG V ++ ++RD + QS+GC FV + R AL A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 201 NALNGIYTMRGCDQPLTVRFAD 222
NAL+ + + G P+ ++ AD
Sbjct: 65 NALHNMKVLPGMHHPIQMKPAD 86
>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 = 77.4 bits (189), Expect = 3e-14, Method: Composition-based stats.
Identities = 46/143 (32%), Positives = 73/143 (51%), Gaps = 8/143 (5%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
K+F+G + E+++R F ++G V ++ ++KD TG+ +G F+ + D ++
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK- 63
Query: 113 LHNQHTLPGGVGPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDV 172
QH L G V + E+++ G K+FVG + KE EE FS +G + D
Sbjct: 64 --TQHILDGKVIDPKRAIPRDEQDKTG----KIFVGGIGPDVRPKEFEEFFSQWGTIIDA 117
Query: 173 YLMRD-ELKQSRGCGFVKYSHRD 194
LM D + QSRG GFV Y D
Sbjct: 118 QLMLDKDTGQSRGFGFVTYDSAD 140
Score = 45.4 bits (106), Expect = 1e-04, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 32/57 (56%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADR 108
K+FVG + R ++ F + G +I+ L+ DK TGQ +G F+ Y +++ DR
Sbjct: 88 GKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDR 144
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 77.4 bits (189), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 37/84 (44%), Positives = 54/84 (64%)
Query: 142 EYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAIN 201
+ KLFVG LNKQ +E++V +F P+G +++ ++R S+GC FVK+S A AAI+
Sbjct: 15 DRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIH 74
Query: 202 ALNGIYTMRGCDQPLTVRFADPKR 225
AL+G TM G L V+FAD +
Sbjct: 75 ALHGSQTMPGASSSLVVKFADTDK 98
Score = 67.4 bits (163), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/84 (38%), Positives = 50/84 (59%), Gaps = 1/84 (1%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLFVG + K EED+ LF+ G + E +++ G +GC F+K+++ EA AI A
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD-GSSKGCAFVKFSSHTEAQAAIHA 75
Query: 113 LHNQHTLPGGVGPIQVRYADGERE 136
LH T+PG + V++AD ++E
Sbjct: 76 LHGSQTMPGASSSLVVKFADTDKE 99
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 76.3 bits (186), Expect = 6e-14, Method: Composition-based stats.
Identities = 53/174 (30%), Positives = 92/174 (52%), Gaps = 7/174 (4%)
Query: 49 SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADR 108
+S L V +P+ + ++ LF G + +++D KTG G F+ + + ++ R
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 109 AIRALHNQHTLPGGVGPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGR 168
AI+ L N T+ ++V YA E + + L+V +L + T+ +++ IF YG
Sbjct: 61 AIKVL-NGITVRN--KRLKVSYARPGGESIK--DTNLYVTNLPRTITDDQLDTIFGKYGS 115
Query: 169 VEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINALNGIYTMRGCDQPLTVRFA 221
+ ++RD+L + RG FV+Y+ R+ A AI+ALN + G QPL+VR A
Sbjct: 116 IVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIP-EGGSQPLSVRLA 168
>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 = 75.1 bits (183), Expect = 1e-13, Method: Composition-based stats.
Identities = 56/184 (30%), Positives = 97/184 (52%), Gaps = 9/184 (4%)
Query: 42 SPDLVDG--SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIK 99
S DL++ +S L V +P+ + ++ LF G + + +D KTG G F+
Sbjct: 3 SDDLMNDPRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVD 62
Query: 100 YATSEEADRAIRALHNQHTLPGGVGPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEV 159
+ + ++ RAI+ L N T+ ++V YA E + + L+V +L + T+ ++
Sbjct: 63 FTSEXDSQRAIKVL-NGITVRN--KRLKVSYARPGGESIK--DTNLYVTNLPRTITDDQL 117
Query: 160 EEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINALNGIYTMRGCDQPLTV 218
+ IF YG + ++RD+L + RG FV+Y+ R+ A AI+ALN + G QPL+V
Sbjct: 118 DTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIP-EGGSQPLSV 176
Query: 219 RFAD 222
R A+
Sbjct: 177 RLAE 180
>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 = 70.5 bits (171), Expect = 3e-12, Method: Composition-based stats.
Identities = 43/145 (29%), Positives = 73/145 (50%), Gaps = 5/145 (3%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLF+G + +E +R FE+ G + + +++D T + +G F+ YAT EE D A+ A
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 113 LHNQHTLPGGVGPIQVRYADGERERLGA--VEYKLFVGSLNKQATEKEVEEIFSPYGRVE 170
H + G V + + + +R GA K+FVG + + E + + F YG++E
Sbjct: 68 --RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 125
Query: 171 DVYLMRDELK-QSRGCGFVKYSHRD 194
+ +M D + RG FV + D
Sbjct: 126 VIEIMTDRGSGKKRGFAFVTFDDHD 150
Score = 47.4 bits (111), Expect = 3e-05, Method: Composition-based stats.
Identities = 29/84 (34%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINA 202
KLF+G L+ + T++ + F +G + D +MRD K+SRG GFV Y+ + AA+NA
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 203 LNGIYTMRGCDQPLTVRFADPKRP 226
R + V D +RP
Sbjct: 68 RPHKVDGRVVEPKRAVSREDSQRP 91
Score = 43.1 bits (100), Expect = 5e-04, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 39/69 (56%), Gaps = 2/69 (2%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
K+FVG + + E +R FE++G + + ++ D+ +G+++G F+ + + D+ +
Sbjct: 99 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV-- 156
Query: 113 LHNQHTLPG 121
+ HT+ G
Sbjct: 157 IQKYHTVNG 165
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 70.1 bits (170), Expect = 4e-12, Method: Composition-based stats.
Identities = 43/145 (29%), Positives = 73/145 (50%), Gaps = 5/145 (3%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLF+G + +E +R FE+ G + + +++D T + +G F+ YAT EE D A+ A
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 113 LHNQHTLPGGVGPIQVRYADGERERLGA--VEYKLFVGSLNKQATEKEVEEIFSPYGRVE 170
H + G V + + + +R GA K+FVG + + E + + F YG++E
Sbjct: 73 --RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 130
Query: 171 DVYLMRDELK-QSRGCGFVKYSHRD 194
+ +M D + RG FV + D
Sbjct: 131 VIEIMTDRGSGKKRGFAFVTFDDHD 155
Score = 47.0 bits (110), Expect = 3e-05, Method: Composition-based stats.
Identities = 29/84 (34%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINA 202
KLF+G L+ + T++ + F +G + D +MRD K+SRG GFV Y+ + AA+NA
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 203 LNGIYTMRGCDQPLTVRFADPKRP 226
R + V D +RP
Sbjct: 73 RPHKVDGRVVEPKRAVSREDSQRP 96
Score = 42.7 bits (99), Expect = 7e-04, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 39/69 (56%), Gaps = 2/69 (2%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
K+FVG + + E +R FE++G + + ++ D+ +G+++G F+ + + D+ +
Sbjct: 104 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV-- 161
Query: 113 LHNQHTLPG 121
+ HT+ G
Sbjct: 162 IQKYHTVNG 170
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 70.1 bits (170), Expect = 4e-12, Method: Composition-based stats.
Identities = 43/145 (29%), Positives = 73/145 (50%), Gaps = 5/145 (3%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLF+G + +E +R FE+ G + + +++D T + +G F+ YAT EE D A+ A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 113 LHNQHTLPGGVGPIQVRYADGERERLGA--VEYKLFVGSLNKQATEKEVEEIFSPYGRVE 170
H + G V + + + +R GA K+FVG + + E + + F YG++E
Sbjct: 75 --RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 132
Query: 171 DVYLMRDELK-QSRGCGFVKYSHRD 194
+ +M D + RG FV + D
Sbjct: 133 VIEIMTDRGSGKKRGFAFVTFDDHD 157
Score = 47.0 bits (110), Expect = 3e-05, Method: Composition-based stats.
Identities = 29/84 (34%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINA 202
KLF+G L+ + T++ + F +G + D +MRD K+SRG GFV Y+ + AA+NA
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 203 LNGIYTMRGCDQPLTVRFADPKRP 226
R + V D +RP
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQRP 98
Score = 42.7 bits (99), Expect = 7e-04, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 39/69 (56%), Gaps = 2/69 (2%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
K+FVG + + E +R FE++G + + ++ D+ +G+++G F+ + + D+ +
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV-- 163
Query: 113 LHNQHTLPG 121
+ HT+ G
Sbjct: 164 IQKYHTVNG 172
>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 = 68.9 bits (167), Expect = 8e-12, Method: Composition-based stats.
Identities = 43/145 (29%), Positives = 73/145 (50%), Gaps = 5/145 (3%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLF+G + +E +R FE+ G + + +++D T + +G F+ YAT EE D A+ A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 113 LHNQHTLPGGVGPIQVRYADGERERLGA--VEYKLFVGSLNKQATEKEVEEIFSPYGRVE 170
H + G V + + + +R GA K+FVG + + E + + F YG++E
Sbjct: 75 --RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 132
Query: 171 DVYLMRDELK-QSRGCGFVKYSHRD 194
+ +M D + RG FV + D
Sbjct: 133 VIEIMTDRGSGKKRGFAFVTFDDHD 157
Score = 46.6 bits (109), Expect = 5e-05, Method: Composition-based stats.
Identities = 29/84 (34%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINA 202
KLF+G L+ + T++ + F +G + D +MRD K+SRG GFV Y+ + AA+NA
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 203 LNGIYTMRGCDQPLTVRFADPKRP 226
R + V D +RP
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQRP 98
Score = 42.4 bits (98), Expect = 0.001, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 39/69 (56%), Gaps = 2/69 (2%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
K+FVG + + E +R FE++G + + ++ D+ +G+++G F+ + + D+ +
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV-- 163
Query: 113 LHNQHTLPG 121
+ HT+ G
Sbjct: 164 IQKYHTVNG 172
>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 = 68.9 bits (167), Expect = 9e-12, Method: Composition-based stats.
Identities = 43/145 (29%), Positives = 73/145 (50%), Gaps = 5/145 (3%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLF+G + +E +R FE+ G + + +++D T + +G F+ YAT EE D A+ A
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 113 LHNQHTLPGGVGPIQVRYADGERERLGA--VEYKLFVGSLNKQATEKEVEEIFSPYGRVE 170
H + G V + + + +R GA K+FVG + + E + + F YG++E
Sbjct: 74 --RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 131
Query: 171 DVYLMRDELK-QSRGCGFVKYSHRD 194
+ +M D + RG FV + D
Sbjct: 132 VIEIMTDRGSGKKRGFAFVTFDDHD 156
Score = 46.2 bits (108), Expect = 6e-05, Method: Composition-based stats.
Identities = 29/84 (34%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINA 202
KLF+G L+ + T++ + F +G + D +MRD K+SRG GFV Y+ + AA+NA
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 203 LNGIYTMRGCDQPLTVRFADPKRP 226
R + V D +RP
Sbjct: 74 RPHKVDGRVVEPKRAVSREDSQRP 97
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 39/69 (56%), Gaps = 2/69 (2%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
K+FVG + + E +R FE++G + + ++ D+ +G+++G F+ + + D+ +
Sbjct: 105 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV-- 162
Query: 113 LHNQHTLPG 121
+ HT+ G
Sbjct: 163 IQKYHTVNG 171
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 68.6 bits (166), Expect = 1e-11, Method: Composition-based stats.
Identities = 43/145 (29%), Positives = 73/145 (50%), Gaps = 5/145 (3%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLF+G + +E +R FE+ G + + +++D T + +G F+ YAT EE D A+ A
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 113 LHNQHTLPGGVGPIQVRYADGERERLGA--VEYKLFVGSLNKQATEKEVEEIFSPYGRVE 170
H + G V + + + +R GA K+FVG + + E + + F YG++E
Sbjct: 76 --RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 133
Query: 171 DVYLMRDELK-QSRGCGFVKYSHRD 194
+ +M D + RG FV + D
Sbjct: 134 VIEIMTDRGSGKKRGFAFVTFDDHD 158
Score = 46.2 bits (108), Expect = 6e-05, Method: Composition-based stats.
Identities = 29/84 (34%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINA 202
KLF+G L+ + T++ + F +G + D +MRD K+SRG GFV Y+ + AA+NA
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 203 LNGIYTMRGCDQPLTVRFADPKRP 226
R + V D +RP
Sbjct: 76 RPHKVDGRVVEPKRAVSREDSQRP 99
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 39/69 (56%), Gaps = 2/69 (2%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
K+FVG + + E +R FE++G + + ++ D+ +G+++G F+ + + D+ +
Sbjct: 107 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV-- 164
Query: 113 LHNQHTLPG 121
+ HT+ G
Sbjct: 165 IQKYHTVNG 173
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 67.8 bits (164), Expect = 2e-11, Method: Composition-based stats.
Identities = 34/84 (40%), Positives = 50/84 (59%), Gaps = 1/84 (1%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLFVG + K +ED+R +FE G + E +++ G +GC F+K+ T EA AI
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAEAQAAINT 72
Query: 113 LHNQHTLPGGVGPIQVRYADGERE 136
LH+ TLPG + V++AD E+E
Sbjct: 73 LHSSRTLPGASSSLVVKFADTEKE 96
Score = 66.6 bits (161), Expect = 4e-11, Method: Composition-based stats.
Identities = 33/82 (40%), Positives = 51/82 (62%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINAL 203
KLFVG L KQ T+++V ++F P+G +++ ++R S+GC FVK+ A AAIN L
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAAINTL 73
Query: 204 NGIYTMRGCDQPLTVRFADPKR 225
+ T+ G L V+FAD ++
Sbjct: 74 HSSRTLPGASSSLVVKFADTEK 95
>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 = 59.3 bits (142), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 53/80 (66%), Gaps = 3/80 (3%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
L+V ++P+T ++ + +F ++G++++ +++DK TG+ +G F++Y EEA AI AL
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 114 HNQHTLP-GGVGPIQVRYAD 132
+N +P GG P+ VR A+
Sbjct: 76 NN--VIPEGGSQPLSVRLAE 93
Score = 55.5 bits (132), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 49/79 (62%), Gaps = 2/79 (2%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINAL 203
L+V +L + T+ +++ IF YG + ++RD+L + RG FV+Y+ R+ A AI+AL
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 204 NGIYTMRGCDQPLTVRFAD 222
N + G QPL+VR A+
Sbjct: 76 NNVIP-EGGSQPLSVRLAE 93
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 49/81 (60%), Gaps = 1/81 (1%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIR 111
A L+V +PKT ++++ LF ++G +I ++ D+ TG +G FI++ EA+ AI+
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 112 ALHNQHTLPGGVGPIQVRYAD 132
L+ Q L G PI V++A+
Sbjct: 62 GLNGQKPL-GAAEPITVKFAN 81
Score = 57.4 bits (137), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 49/79 (62%), Gaps = 2/79 (2%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINAL 203
L+V L K ++KE+E++FS YGR+ ++ D+ SRG GF+++ R A AI L
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 204 NGIYTMRGCDQPLTVRFAD 222
NG + G +P+TV+FA+
Sbjct: 64 NGQKPL-GAAEPITVKFAN 81
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 56.6 bits (135), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 50/168 (29%), Positives = 86/168 (51%), Gaps = 18/168 (10%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIR 111
++LFVG++P EE++R LFE++G EV + KDK G FI+ T A+ A
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIAKV 76
Query: 112 ALHNQHTLPGGVGPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVED 171
L N +P ++VR+A L V +L + + + +EE FS +G+VE
Sbjct: 77 ELDN---MPLRGKQLRVRFA--------CHSASLTVRNLPQYVSNELLEEAFSVFGQVER 125
Query: 172 VYLMRDELKQSRGCGFVKYSHRDMALAAINALN-GIYTMRGCDQPLTV 218
++ D+ + G G V++S + A A++ + G + + +P+TV
Sbjct: 126 AVVIVDDRGRPSGKGIVEFSGKPAARKALDRCSEGSFLLTTFPRPVTV 173
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 54.7 bits (130), Expect = 2e-07, Method: Composition-based stats.
Identities = 28/69 (40%), Positives = 47/69 (68%), Gaps = 1/69 (1%)
Query: 138 LGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMA 196
+ + E KLFVG L+ E+ +E++FS YG++ +V +++D E ++SRG GFV + + D A
Sbjct: 8 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDA 67
Query: 197 LAAINALNG 205
A+ A+NG
Sbjct: 68 KDAMMAMNG 76
Score = 42.7 bits (99), Expect = 7e-04, Method: Composition-based stats.
Identities = 19/69 (27%), Positives = 40/69 (57%)
Query: 48 GSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEAD 107
S KLFVG + E+ + +F ++G + EV ++KD++T + +G F+ + ++A
Sbjct: 9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAK 68
Query: 108 RAIRALHNQ 116
A+ A++ +
Sbjct: 69 DAMMAMNGK 77
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 53.1 bits (126), Expect = 4e-07, Method: Composition-based stats.
Identities = 27/63 (42%), Positives = 40/63 (63%), Gaps = 1/63 (1%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINA 202
+L+VGSL+ TE + IF P+GR+E + LM D E +S+G GF+ +S + A A+
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 203 LNG 205
LNG
Sbjct: 88 LNG 90
Score = 42.7 bits (99), Expect = 7e-04, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 38/62 (61%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
+L+VGS+ E+ +R +FE G + + L+ D +TG+ +G FI ++ SE A +A+
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 113 LH 114
L+
Sbjct: 88 LN 89
>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 = 4e-07, Method: Compositional matrix adjust.
Identities = 35/166 (21%), Positives = 81/166 (48%), Gaps = 17/166 (10%)
Query: 51 FAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAI 110
++++VGS+ E+ IR F G + + + D T + +G F++Y E A A+
Sbjct: 28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLAL 87
Query: 111 RALHN--------QHTLPGGVG---PIQVRYADGERERLGAVEYKLFVGSLNKQATEKEV 159
+++ + P +G PI + A+ R +++V S+++ ++ ++
Sbjct: 88 EQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEAR-----AFNRIYVASVHQDLSDDDI 142
Query: 160 EEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINALN 204
+ +F +G+++ L RD + +G GF++Y + A++++N
Sbjct: 143 KSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMN 188
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 40/68 (58%)
Query: 47 DGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEA 106
+ +F +++V SV + ++DI+ +FE G + L +D TG+ +G FI+Y ++ +
Sbjct: 121 EARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSS 180
Query: 107 DRAIRALH 114
A+ +++
Sbjct: 181 QDAVSSMN 188
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 52.4 bits (124), Expect = 8e-07, Method: Composition-based stats.
Identities = 41/172 (23%), Positives = 85/172 (49%), Gaps = 14/172 (8%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
L+VG++ K E+ ++ F+ G + + ++ DK + F++Y S +A+ A++ L
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNN-KNVNYAFVEYHQSHDANIALQTL 61
Query: 114 HNQHTLPGGVGPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVY 173
N + + +++ +A ++ + LFVG LN ++ + F + +
Sbjct: 62 -NGKQIENNI--VKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGH 118
Query: 174 LMRD-ELKQSRGCGFVKYSHRDMALAAINALNGIYTMRGCD---QPLTVRFA 221
+M D + SRG GFV ++ +D +A N + +M+G D +PL + +A
Sbjct: 119 VMWDMQTGSSRGYGFVSFTSQD------DAQNAMDSMQGQDLNGRPLRINWA 164
>pdb|2L5F|A Chain A, Solution Structure Of The Tandem Ww Domains From HypaFBP11
Length = 92
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/43 (55%), Positives = 30/43 (69%)
Query: 547 APVSSQTVAPAKSSWTEHTSPDGYKYYYNCVTGVSKWEKPEEL 589
+ V++ T + AKS WTEH SPDG YYYN T S WEKP++L
Sbjct: 2 SDVAAGTASGAKSMWTEHKSPDGRTYYYNTETKQSTWEKPDDL 44
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 21/37 (56%)
Query: 557 AKSSWTEHTSPDGYKYYYNCVTGVSKWEKPEELTLFE 593
+K W E+ S G YYYN T S+W KP+EL E
Sbjct: 53 SKCPWKEYKSDSGKTYYYNSQTKESRWAKPKELEDLE 89
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 42/77 (54%), Gaps = 3/77 (3%)
Query: 34 GFSGRGGPSPDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQ 93
G SG GP+ D A + V ++ + RE D++ LF G++ + L KDK TGQ +
Sbjct: 1 GSSGSSGPNRRADDN---ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSK 57
Query: 94 GCCFIKYATSEEADRAI 110
G FI + E+A RAI
Sbjct: 58 GFAFISFHRREDAARAI 74
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 44/79 (55%), Gaps = 6/79 (7%)
Query: 147 VGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINALNG 205
V +L++ E +++E+F P+G + +YL +D+ QS+G F+ + R+ A AI ++G
Sbjct: 20 VTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG 79
Query: 206 IYTMRGCDQ-PLTVRFADP 223
G D L V +A P
Sbjct: 80 F----GYDHLILNVEWAKP 94
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 46/171 (26%), Positives = 85/171 (49%), Gaps = 24/171 (14%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIR 111
+LFVG++P EED + LFE +G EV + +D+ G FI+ + A+ A
Sbjct: 23 CRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR------GFGFIRLESRTLAEIA-- 74
Query: 112 ALHNQHTLPGGV---GPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGR 168
+ L G + P+++R+A GA L V +L+ + + +E+ FS +G
Sbjct: 75 ----KAELDGTILKSRPLRIRFATH-----GAA---LTVKNLSPVVSNELLEQAFSQFGP 122
Query: 169 VEDVYLMRDELKQSRGCGFVKYSHRDMALAAINAL-NGIYTMRGCDQPLTV 218
VE ++ D+ ++ G GFV+++ + A A+ +G + + +P+ V
Sbjct: 123 VEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIV 173
>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 = 50.1 bits (118), Expect = 4e-06, Method: Composition-based stats.
Identities = 35/155 (22%), Positives = 75/155 (48%), Gaps = 4/155 (2%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIR 111
A L+VG + E + F G ++ + + +D T + G ++ + +A+RA+
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 70
Query: 112 ALHNQHTLPGGVGPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVED 171
+ N + G P+++ ++ + + +F+ +L+K K + + FS +G +
Sbjct: 71 TM-NFDVIKGK--PVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILS 127
Query: 172 VYLMRDELKQSRGCGFVKYSHRDMALAAINALNGI 206
++ DE S+G GFV + ++ A AI +NG+
Sbjct: 128 CKVVCDE-NGSKGYGFVHFETQEAAERAIEKMNGM 161
Score = 30.4 bits (67), Expect = 3.7, Method: Composition-based stats.
Identities = 15/66 (22%), Positives = 33/66 (50%), Gaps = 2/66 (3%)
Query: 49 SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADR 108
S +F+ ++ K+ + + F GN++ ++ D+ + G F+ + T E A+R
Sbjct: 96 SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYG--FVHFETQEAAER 153
Query: 109 AIRALH 114
AI ++
Sbjct: 154 AIEKMN 159
>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 = 49.7 bits (117), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 35/61 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
L V +P+ ++++R LF G V LI+DK G G F+ Y T+++A+RAI L
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 114 H 114
+
Sbjct: 67 N 67
Score = 46.2 bits (108), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 30/80 (37%), Positives = 41/80 (51%), Gaps = 4/80 (5%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINAL 203
L V L + T+ E+ +FS G VE L+RD++ S G GFV Y A AIN L
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 204 NGIYTMRGCDQPLTVRFADP 223
NG +R + + V +A P
Sbjct: 67 NG---LRLQSKTIKVSYARP 83
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 49.3 bits (116), Expect = 7e-06, Method: Composition-based stats.
Identities = 24/62 (38%), Positives = 41/62 (66%), Gaps = 1/62 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
L+VGSL+ TE + IF P+G+++++ LM+D + +S+G GF+ +S + A A+ L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 204 NG 205
NG
Sbjct: 68 NG 69
Score = 46.2 bits (108), Expect = 7e-05, Method: Composition-based stats.
Identities = 30/90 (33%), Positives = 44/90 (48%), Gaps = 13/90 (14%)
Query: 49 SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADR 108
S + L+VGS+ E+ +R +FE G + + L+KD TG+ +G FI ++ SE A R
Sbjct: 3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARR 62
Query: 109 AIRAL-------------HNQHTLPGGVGP 125
A+ L H L GG GP
Sbjct: 63 ALEQLNGFELAGRPMRVGHVTERLDGGSGP 92
>pdb|1YWI|A Chain A, Structure Of The Fbp11ww1 Domain Complexed To The Peptide
Apptppplpp
pdb|1YWJ|A Chain A, Structure Of The Fbp11ww1 Domain
Length = 41
Score = 49.3 bits (116), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 22/36 (61%), Positives = 25/36 (69%)
Query: 553 TVAPAKSSWTEHTSPDGYKYYYNCVTGVSKWEKPEE 588
+V AKS WTEH SPDG YYYN T S WEKP++
Sbjct: 6 SVGSAKSMWTEHKSPDGRTYYYNTETKQSTWEKPDD 41
>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 = 48.9 bits (115), Expect = 8e-06, Method: Composition-based stats.
Identities = 35/155 (22%), Positives = 75/155 (48%), Gaps = 4/155 (2%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIR 111
A L+VG + E + F G ++ + + +D T + G ++ + +A+RA+
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 75
Query: 112 ALHNQHTLPGGVGPIQVRYADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVED 171
+ N + G P+++ ++ + + +F+ +L+K K + + FS +G +
Sbjct: 76 TM-NFDVIKGK--PVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILS 132
Query: 172 VYLMRDELKQSRGCGFVKYSHRDMALAAINALNGI 206
++ DE S+G GFV + ++ A AI +NG+
Sbjct: 133 CKVVCDE-NGSKGYGFVHFETQEAAERAIEKMNGM 166
Score = 29.6 bits (65), Expect = 5.7, Method: Composition-based stats.
Identities = 15/66 (22%), Positives = 33/66 (50%), Gaps = 2/66 (3%)
Query: 49 SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADR 108
S +F+ ++ K+ + + F GN++ ++ D+ + G F+ + T E A+R
Sbjct: 101 SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYG--FVHFETQEAAER 158
Query: 109 AIRALH 114
AI ++
Sbjct: 159 AIEKMN 164
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 48.5 bits (114), Expect = 1e-05, Method: Composition-based stats.
Identities = 24/67 (35%), Positives = 40/67 (59%)
Query: 50 SFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRA 109
S +FVG++P A EE ++ +F E G V+ L+ D++TG+ +G F +Y E A A
Sbjct: 7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSA 66
Query: 110 IRALHNQ 116
+R L+ +
Sbjct: 67 MRNLNGR 73
Score = 44.3 bits (103), Expect = 3e-04, Method: Composition-based stats.
Identities = 24/62 (38%), Positives = 41/62 (66%), Gaps = 1/62 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
+FVG++ +ATE+++++IFS G V L+ D E + +G GF +Y ++ AL+A+ L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 204 NG 205
NG
Sbjct: 71 NG 72
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 42/79 (53%), Gaps = 5/79 (6%)
Query: 41 PSPDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKY 100
P PD++ L V +P T E +R LFE +G + V ++ D++T Q +G F+K+
Sbjct: 37 PEPDVLR-----NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKF 91
Query: 101 ATSEEADRAIRALHNQHTL 119
+ A +AI L+ + L
Sbjct: 92 QSGSSAQQAIAGLNGFNIL 110
Score = 46.2 bits (108), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 44/90 (48%), Gaps = 4/90 (4%)
Query: 141 VEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAA 199
V L V + E ++ ++F YG +E V ++ D E +QSRG GFVK+ A A
Sbjct: 41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQA 100
Query: 200 INALNGIYTMRGCDQPLTVRFADPKRPRPG 229
I LNG + ++ L V A RPG
Sbjct: 101 IAGLNGFNIL---NKRLKVALAASGHQRPG 127
>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 = 1e-05, Method: Composition-based stats.
Identities = 26/66 (39%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQ-SRGCGFVKYSHRDMALAAINAL 203
LFV S++++A E E++E F YG +++++L D S+G V+Y ALAA AL
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 204 NGIYTM 209
NG M
Sbjct: 135 NGAEIM 140
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 24/90 (26%), Positives = 48/90 (53%), Gaps = 8/90 (8%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
LFV S+ + A+E++I+ F ++G + + L D++TG +G ++Y T ++A A AL
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 114 HNQHTLPGGV--------GPIQVRYADGER 135
+ + + GP +V+ ++ R
Sbjct: 135 NGAEIMGQTIQVDWCFVKGPKRVKKSEKRR 164
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 48.1 bits (113), Expect = 2e-05, Method: Composition-based stats.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 8/67 (11%)
Query: 49 SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADR 108
S KLF+G++P+ A E++IR LFE++G V+E +IK+ F+ A+
Sbjct: 6 SGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKNYG--------FVHIEDKTAAED 57
Query: 109 AIRALHN 115
AIR LH+
Sbjct: 58 AIRNLHH 64
Score = 36.6 bits (83), Expect = 0.049, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 39/70 (55%), Gaps = 8/70 (11%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINAL 203
KLF+G+L ++ATE+E+ +F YG+V + ++++ GFV + A AI L
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDIIKNY-------GFVHIEDKTAAEDAIRNL 62
Query: 204 NGIYTMRGCD 213
+ Y + G +
Sbjct: 63 HH-YKLHGVN 71
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 48.1 bits (113), Expect = 2e-05, Method: Composition-based stats.
Identities = 26/66 (39%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQ-SRGCGFVKYSHRDMALAAINAL 203
LFV S++++A E E++E F YG +++++L D S+G V+Y ALAA AL
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 204 NGIYTM 209
NG M
Sbjct: 89 NGAEIM 94
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 38/61 (62%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
LFV S+ + A+E++I+ F ++G + + L D++TG +G ++Y T ++A A AL
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 114 H 114
+
Sbjct: 89 N 89
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 31/88 (35%), Positives = 43/88 (48%), Gaps = 2/88 (2%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDE-LKQSRGCGFVKYSHRDMALAAINA 202
KLFVG L+ T++ + FS YG V D +M+D+ QSRG GFVK+ + + +
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 203 LNGIYTMRGCD-QPLTVRFADPKRPRPG 229
R D +P T R P P G
Sbjct: 78 RPHTLDGRNIDPKPCTPRGMQPSGPSSG 105
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 31/50 (62%)
Query: 51 FAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKY 100
KLFVG + + +E +R F ++G V++ ++KDK T Q +G F+K+
Sbjct: 16 IGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF 65
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 47/80 (58%), Gaps = 3/80 (3%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHG-NVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
+ + +P+ A E+DIR + HG EV L+++K +GQ +G F++++ ++A R + A
Sbjct: 4 VMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEA 63
Query: 113 LHNQHTLPGGVGPIQVRYAD 132
NQH+L + + Y+D
Sbjct: 64 --NQHSLNILGQKVSMHYSD 81
Score = 33.1 bits (74), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 40/73 (54%), Gaps = 4/73 (5%)
Query: 154 ATEKEVEEIFSPYG-RVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINALNGIYTMRG 211
ATE ++ +G + +V LMR++ QSRG FV++SH A + A +++
Sbjct: 13 ATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEA--NQHSLNI 70
Query: 212 CDQPLTVRFADPK 224
Q +++ ++DPK
Sbjct: 71 LGQKVSMHYSDPK 83
>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 = 47.4 bits (111), Expect = 2e-05, Method: Composition-based stats.
Identities = 24/63 (38%), Positives = 36/63 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
LFV V + A EEDI F E+G + + L D++TG +G ++Y T +EA A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 114 HNQ 116
+ Q
Sbjct: 70 NGQ 72
Score = 40.8 bits (94), Expect = 0.003, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 43/75 (57%), Gaps = 4/75 (5%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQS-RGCGFVKYSHRDMALAAINAL 203
LFV ++++ATE+++ + F+ YG +++++L D +G V+Y A AA+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 204 NGIYTMRGCDQPLTV 218
NG M QP++V
Sbjct: 70 NGQDLM---GQPISV 81
>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 = 3e-05, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 35/61 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
L V +P+ ++++R LF G V LI+DK G G F+ Y T+++A+RAI L
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 114 H 114
+
Sbjct: 82 N 82
Score = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 30/80 (37%), Positives = 41/80 (51%), Gaps = 4/80 (5%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINAL 203
L V L + T+ E+ +FS G VE L+RD++ S G GFV Y A AIN L
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 204 NGIYTMRGCDQPLTVRFADP 223
NG +R + + V +A P
Sbjct: 82 NG---LRLQSKTIKVSYARP 98
>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 = 47.0 bits (110), Expect = 4e-05, Method: Composition-based stats.
Identities = 24/63 (38%), Positives = 36/63 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
LFV V + A EEDI F E+G + + L D++TG +G ++Y T +EA A+ L
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 114 HNQ 116
+ Q
Sbjct: 85 NGQ 87
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 43/75 (57%), Gaps = 4/75 (5%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQS-RGCGFVKYSHRDMALAAINAL 203
LFV ++++ATE+++ + F+ YG +++++L D +G V+Y A AA+ L
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 204 NGIYTMRGCDQPLTV 218
NG M QP++V
Sbjct: 85 NGQDLM---GQPISV 96
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 46.6 bits (109), Expect = 4e-05, Method: Composition-based stats.
Identities = 24/63 (38%), Positives = 36/63 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
LFV V + A EEDI F E+G + + L D++TG +G ++Y T +EA A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 114 HNQ 116
+ Q
Sbjct: 70 NGQ 72
Score = 40.0 bits (92), Expect = 0.005, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 46/83 (55%), Gaps = 4/83 (4%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQS-RGCGFVKYSHRDMALAAINAL 203
LFV ++++ATE+++ + F+ YG +++++L D +G V+Y A AA+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 204 NGIYTMRGCDQPLTVRFADPKRP 226
NG M QP++V + + P
Sbjct: 70 NGQDLM---GQPISVDWCFVRGP 89
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 46.6 bits (109), Expect = 5e-05, Method: Composition-based stats.
Identities = 26/61 (42%), Positives = 35/61 (57%), Gaps = 6/61 (9%)
Query: 55 FVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRALH 114
++G++P A E D+ PLF+ G I D K ++GCCFIKY T E+A I AL
Sbjct: 31 YIGNIPHFATEADLIPLFQNFG------FILDFKHYPEKGCCFIKYDTHEQAAVCIVALA 84
Query: 115 N 115
N
Sbjct: 85 N 85
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 46.6 bits (109), Expect = 5e-05, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 37/63 (58%)
Query: 49 SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADR 108
++F K+FVG +P + +R FE G++ E +I D++TG+ +G F+ A A+R
Sbjct: 15 TTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAER 74
Query: 109 AIR 111
A +
Sbjct: 75 ACK 77
Score = 37.0 bits (84), Expect = 0.042, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 41/87 (47%), Gaps = 1/87 (1%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINA 202
K+FVG L T+ + + F +G +E+ ++ D + +SRG GFV + R A A
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 203 LNGIYTMRGCDQPLTVRFADPKRPRPG 229
N I R + L A P+ + G
Sbjct: 79 PNPIIDGRKANVNLAYLGAKPRSLQTG 105
>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 = 46.6 bits (109), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 41/66 (62%), Gaps = 1/66 (1%)
Query: 143 YKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAIN 201
+ +FVG L+ + T ++++ F+P+GR+ D +++D +S+G GFV + ++ A AI
Sbjct: 16 FHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 75
Query: 202 ALNGIY 207
+ G +
Sbjct: 76 QMGGQW 81
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 39/80 (48%)
Query: 37 GRGGPSPDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCC 96
G G S D S+ +FVG + EDI+ F G + + ++KD TG+ +G
Sbjct: 1 GSSGSSGQKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYG 60
Query: 97 FIKYATSEEADRAIRALHNQ 116
F+ + +A+ AI+ + Q
Sbjct: 61 FVSFFNKWDAENAIQQMGGQ 80
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 36/54 (66%), Gaps = 1/54 (1%)
Query: 138 LGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDEL-KQSRGCGFVKY 190
+G+ K+F+G L+ Q T++ + E F +G V++ +MRD L K+SRG GFV +
Sbjct: 21 MGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 74
Score = 37.0 bits (84), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 32/63 (50%)
Query: 48 GSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEAD 107
GSS K+F+G + +E +R F + G V E +++D T + +G F+ + D
Sbjct: 22 GSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVD 81
Query: 108 RAI 110
+ +
Sbjct: 82 KVL 84
>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 = 46.2 bits (108), Expect = 7e-05, Method: Composition-based stats.
Identities = 24/63 (38%), Positives = 36/63 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
LFV V + A EEDI F E+G + + L D++TG +G ++Y T +EA A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 114 HNQ 116
+ Q
Sbjct: 70 NGQ 72
Score = 39.3 bits (90), Expect = 0.007, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 46/83 (55%), Gaps = 4/83 (4%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQS-RGCGFVKYSHRDMALAAINAL 203
LFV ++++ATE+++ + F+ YG +++++L D +G V+Y A AA+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 204 NGIYTMRGCDQPLTVRFADPKRP 226
NG M QP++V + + P
Sbjct: 70 NGQDLM---GQPISVDWCFVRGP 89
>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 = 46.2 bits (108), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDEL-KQSRGCGFVKYSHRDMALAAINAL 203
L V +L + + + +F YGRV DVY+ RD K+SRG FV++ + A A++A+
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 204 NG 205
+G
Sbjct: 110 DG 111
Score = 39.3 bits (90), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 3/81 (3%)
Query: 33 RGFSGRGGPSPDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQ 92
RG G P PD+ L V ++ + +R +FE++G V +V + +D+ T +
Sbjct: 32 RGSMSYGRPPPDV---EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKES 88
Query: 93 QGCCFIKYATSEEADRAIRAL 113
+G F+++ +A+ A+ A+
Sbjct: 89 RGFAFVRFHDKRDAEDAMDAM 109
>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 = 45.8 bits (107), Expect = 7e-05, Method: Composition-based stats.
Identities = 24/63 (38%), Positives = 36/63 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
LFV V + A EEDI F E+G + + L D++TG +G ++Y T +EA A+ L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 114 HNQ 116
+ Q
Sbjct: 72 NGQ 74
Score = 39.3 bits (90), Expect = 0.008, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 46/83 (55%), Gaps = 4/83 (4%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQS-RGCGFVKYSHRDMALAAINAL 203
LFV ++++ATE+++ + F+ YG +++++L D +G V+Y A AA+ L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 204 NGIYTMRGCDQPLTVRFADPKRP 226
NG M QP++V + + P
Sbjct: 72 NGQDLM---GQPISVDWCFVRGP 91
>pdb|2JXW|A Chain A, Solution Structure Of The Tandem Ww Domains Of Fbp21
Length = 75
Score = 45.8 bits (107), Expect = 8e-05, Method: Composition-based stats.
Identities = 16/32 (50%), Positives = 23/32 (71%)
Query: 556 PAKSSWTEHTSPDGYKYYYNCVTGVSKWEKPE 587
P+K W E + +GY YYY+ ++G S+WEKPE
Sbjct: 2 PSKGRWVEGITSEGYHYYYDLISGASQWEKPE 33
Score = 43.5 bits (101), Expect = 4e-04, Method: Composition-based stats.
Identities = 17/31 (54%), Positives = 22/31 (70%)
Query: 558 KSSWTEHTSPDGYKYYYNCVTGVSKWEKPEE 588
K+ W E S DG+ YYYN TG S+WEKP++
Sbjct: 45 KTVWVEGLSEDGFTYYYNTETGESRWEKPDD 75
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 45.8 bits (107), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 40/84 (47%), Gaps = 5/84 (5%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALN 204
L++ +L E+E+E + P+G+V ++RD SRG GF + + A I N
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFN 87
Query: 205 GIYT-----MRGCDQPLTVRFADP 223
G + + +PL +F+ P
Sbjct: 88 GKFIKTPPGVSAPTEPLLCKFSGP 111
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 45.8 bits (107), Expect = 8e-05, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 49/79 (62%), Gaps = 5/79 (6%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRV-EDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINA 202
+F+G+L+ + EK + + FS +G + + +MRD + S+G F+ ++ D + AAI A
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 203 LNGIYTMRGCDQPLTVRFA 221
+NG Y C++P+TV +A
Sbjct: 68 MNGQYL---CNRPITVSYA 83
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 45.8 bits (107), Expect = 8e-05, Method: Composition-based stats.
Identities = 19/68 (27%), Positives = 40/68 (58%)
Query: 50 SFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRA 109
S + ++V ++P + D+ +F ++G V++V ++KDK T + +G FI + + A
Sbjct: 15 SKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNC 74
Query: 110 IRALHNQH 117
RA++N+
Sbjct: 75 TRAINNKQ 82
Score = 38.1 bits (87), Expect = 0.018, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
++V +L T ++ IFS YG+V V +M+D + ++S+G F+ + +D A A+
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 204 N 204
N
Sbjct: 79 N 79
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 45.8 bits (107), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 47/87 (54%), Gaps = 3/87 (3%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIR 111
A ++VG + + E + LF + G V+ + KD+ TGQ QG F+++ + E+AD AI+
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75
Query: 112 ALHNQHTLPGGVGPIQVRYADGERERL 138
+ + L G PI+V A + L
Sbjct: 76 IM-DMIKLYG--KPIRVNKASAHNKNL 99
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINAL 203
++VG L+++ +E + E+F G V + ++ +D + Q +G GFV++ + A AI +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 204 NGI 206
+ I
Sbjct: 78 DMI 80
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 45.8 bits (107), Expect = 9e-05, Method: Composition-based stats.
Identities = 21/48 (43%), Positives = 33/48 (68%), Gaps = 1/48 (2%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDEL-KQSRGCGFVKY 190
K+F+G L+ Q T++ + E F +G V++ +MRD L K+SRG GFV +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 49
>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 = 45.4 bits (106), Expect = 9e-05, Method: Composition-based stats.
Identities = 24/63 (38%), Positives = 36/63 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
LFV V + A EEDI F E+G + + L D++TG +G ++Y T +EA A+ L
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 114 HNQ 116
+ Q
Sbjct: 86 NGQ 88
Score = 38.9 bits (89), Expect = 0.011, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 46/83 (55%), Gaps = 4/83 (4%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQS-RGCGFVKYSHRDMALAAINAL 203
LFV ++++ATE+++ + F+ YG +++++L D +G V+Y A AA+ L
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 204 NGIYTMRGCDQPLTVRFADPKRP 226
NG M QP++V + + P
Sbjct: 86 NGQDLM---GQPISVDWCFVRGP 105
>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 = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 40/68 (58%)
Query: 47 DGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEA 106
+ +F +++V SV + ++DI+ +FE G + L +D TG+ +G FI+Y ++ +
Sbjct: 106 EARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSS 165
Query: 107 DRAIRALH 114
A+ +++
Sbjct: 166 QDAVSSMN 173
Score = 38.1 bits (87), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 131 ADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVK 189
A +R+R A+ +++VGS+ + E + + F+P+G ++ + + D + + +G FV+
Sbjct: 2 AMAQRQRALAIMCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVE 61
Query: 190 YSHRDMALAAINALNGI 206
Y + A A+ +N +
Sbjct: 62 YEVPEAAQLALEQMNSV 78
>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 = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 24/72 (33%), Positives = 43/72 (59%)
Query: 134 ERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHR 193
E+E+L L+VG+L+ TE+++ E+FS G ++ + + D++K + G FV+Y R
Sbjct: 10 EQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSR 69
Query: 194 DMALAAINALNG 205
A A+ +NG
Sbjct: 70 ADAENAMRYING 81
Score = 35.0 bits (79), Expect = 0.14, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 37/62 (59%), Gaps = 3/62 (4%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDK-KTGQQQGCCFIKYATSEEADRAIRA 112
L+VG++ EE I LF + G++ ++ + DK KT G CF++Y + +A+ A+R
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTAC--GFCFVEYYSRADAENAMRY 78
Query: 113 LH 114
++
Sbjct: 79 IN 80
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/63 (41%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINAL 203
L V L + T+ E + +F G +E L+RD++ QS G GFV YS + A AIN L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 204 NGI 206
NG+
Sbjct: 67 NGL 69
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 36/65 (55%)
Query: 50 SFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRA 109
S L V +P+ +++ + LF G++ L++DK TGQ G F+ Y+ +AD+A
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
Query: 110 IRALH 114
I L+
Sbjct: 63 INTLN 67
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 37/60 (61%), Gaps = 4/60 (6%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYS---HRDMALAA 199
KLF+G L+ + TE+ + + +G++ D +MRD K+SRG GFV +S D A+AA
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 37/62 (59%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINAL 203
KLF+G LN++ EK ++ +F +G + +V L++D +SRG F+ + + A A +
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDM 68
Query: 204 NG 205
NG
Sbjct: 69 NG 70
Score = 38.9 bits (89), Expect = 0.009, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 45 LVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSE 104
+V+ KLF+G + + E+ ++ +F +HG + EV LIKD +T + +G FI +
Sbjct: 1 MVEADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKD-RTSKSRGFAFITFENPA 59
Query: 105 EADRAIRALHNQ 116
+A A + ++ +
Sbjct: 60 DAKNAAKDMNGK 71
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 40/65 (61%), Gaps = 1/65 (1%)
Query: 142 EYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAI 200
+ +FVG L+ + T ++++ F+P+G++ D +++D +S+G GFV + ++ A AI
Sbjct: 15 HFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAI 74
Query: 201 NALNG 205
+ G
Sbjct: 75 VHMGG 79
Score = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%)
Query: 37 GRGGPSPDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCC 96
G G S D S+ +FVG + EDI+ F G + + ++KD TG+ +G
Sbjct: 1 GSSGSSGQKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYG 60
Query: 97 FIKYATSEEADRAIRALHNQ 116
F+ + +A+ AI + Q
Sbjct: 61 FVSFYNKLDAENAIVHMGGQ 80
>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 = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 37/64 (57%)
Query: 47 DGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEA 106
+ +F +++V SV + ++DI+ +FE G + L +D TG+ +G FI+Y ++ +
Sbjct: 105 EARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSS 164
Query: 107 DRAI 110
A+
Sbjct: 165 QDAV 168
Score = 35.8 bits (81), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 133 GERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDEL-KQSRGCGFVKYS 191
+R+R A+ +++VGS+ + E + + F+P+G ++ + D + + +G FV+Y
Sbjct: 3 AQRQRALAIXCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYE 62
Query: 192 HRDMALAAINALNGI 206
+ A A+ N +
Sbjct: 63 VPEAAQLALEQXNSV 77
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 44.3 bits (103), Expect = 3e-04, Method: Composition-based stats.
Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDEL-KQSRGCGFVKYSHRDMALAAINAL 203
L V +L + + + +F YGRV DVY+ RD K+SRG FV++ + A A++A+
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 204 NG 205
+G
Sbjct: 133 DG 134
Score = 33.9 bits (76), Expect = 0.30, Method: Composition-based stats.
Identities = 16/68 (23%), Positives = 37/68 (54%)
Query: 46 VDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEE 105
+D L V ++ + +R +FE++G V +V + +D+ T + +G F+++ +
Sbjct: 65 MDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRD 124
Query: 106 ADRAIRAL 113
A+ A+ A+
Sbjct: 125 AEDAMDAM 132
>pdb|1ZR7|A Chain A, Solution Structure Of The First Ww Domain Of Fbp11
pdb|2DYF|A Chain A, Solution Structure Of The First Ww Domain Of Fbp11 HYPA
(Fbp11 Ww1) Complexed With A Pl (Pplp) Motif Peptide
Ligand
Length = 30
Score = 44.3 bits (103), Expect = 3e-04, Method: Composition-based stats.
Identities = 19/29 (65%), Positives = 21/29 (72%)
Query: 560 SWTEHTSPDGYKYYYNCVTGVSKWEKPEE 588
SWTEH SPDG YYYN T S WEKP++
Sbjct: 2 SWTEHKSPDGRTYYYNTETKQSTWEKPDD 30
>pdb|1E0L|A Chain A, Fbp28ww Domain From Mus Musculus
pdb|2JUP|W Chain W, Fbp28ww2 Domain In Complex With The Pplipppp Peptide
pdb|2RLY|W Chain W, Fbp28ww2 Domain In Complex With Ptppplpp Peptide
pdb|2RM0|W Chain W, Fbp28ww2 Domain In Complex With A Ppplipppp Peptide
Length = 37
Score = 43.9 bits (102), Expect = 3e-04, Method: Composition-based stats.
Identities = 20/35 (57%), Positives = 23/35 (65%)
Query: 555 APAKSSWTEHTSPDGYKYYYNCVTGVSKWEKPEEL 589
A A S WTE+ + DG YYYN T S WEKP+EL
Sbjct: 2 ATAVSEWTEYKTADGKTYYYNNRTLESTWEKPQEL 36
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 68/159 (42%), Gaps = 29/159 (18%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
K+ + +P +++ L ++ +K + +G F+ E+A+ AI A
Sbjct: 22 KILIRGLPGDVTNQEVHDLLSDYE-------LKYCFVDKYKGTAFVTLLNGEQAEAAINA 74
Query: 113 LHNQHTLPGGVGPIQVRYADGERERLGAVEYK-----LFVGSLNKQATEKEVEEIFSPYG 167
H RER +V+ + L V +L T+++ EE+ P+G
Sbjct: 75 FHQSRL----------------RERELSVQLQPTDALLCVANLPPSLTQQQFEELVRPFG 118
Query: 168 RVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINALNG 205
+E +L+ E QS+G GF +Y +D A A + L G
Sbjct: 119 SLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 157
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 68/159 (42%), Gaps = 29/159 (18%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
K+ + +P +++ L ++ +K + +G F+ E+A+ AI A
Sbjct: 24 KILIRGLPGDVTNQEVHDLLSDYE-------LKYCFVDKYKGTAFVTLLNGEQAEAAINA 76
Query: 113 LHNQHTLPGGVGPIQVRYADGERERLGAVEYK-----LFVGSLNKQATEKEVEEIFSPYG 167
H RER +V+ + L V +L T+++ EE+ P+G
Sbjct: 77 FHQSRL----------------RERELSVQLQPTDALLCVANLPPSLTQQQFEELVRPFG 120
Query: 168 RVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINALNG 205
+E +L+ E QS+G GF +Y +D A A + L G
Sbjct: 121 SLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 159
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 68/159 (42%), Gaps = 29/159 (18%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
K+ + +P +++ L ++ +K + +G F+ E+A+ AI A
Sbjct: 24 KILIRGLPGDVTNQEVHDLLSDYE-------LKYCFVDKYKGTAFVTLLNGEQAEAAINA 76
Query: 113 LHNQHTLPGGVGPIQVRYADGERERLGAVEYK-----LFVGSLNKQATEKEVEEIFSPYG 167
H RER +V+ + L V +L T+++ EE+ P+G
Sbjct: 77 FHQSRL----------------RERELSVQLQPTDALLCVANLPPSLTQQQFEELVRPFG 120
Query: 168 RVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINALNG 205
+E +L+ E QS+G GF +Y +D A A + L G
Sbjct: 121 SLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 159
>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 = 43.5 bits (101), Expect = 4e-04, Method: Composition-based stats.
Identities = 25/74 (33%), Positives = 45/74 (60%), Gaps = 3/74 (4%)
Query: 134 ERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCG--FVKYS 191
E+E+L L+VG+L+ TE+++ E+FS G ++ + + D++K++ CG FV+Y
Sbjct: 31 EQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKT-ACGFCFVEYY 89
Query: 192 HRDMALAAINALNG 205
R A A+ +NG
Sbjct: 90 SRADAENAMRYING 103
Score = 38.9 bits (89), Expect = 0.011, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 35/61 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
L+VG++ EE I LF + G++ ++ + DK G CF++Y + +A+ A+R +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 114 H 114
+
Sbjct: 102 N 102
>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 = 43.1 bits (100), Expect = 5e-04, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 46/78 (58%), Gaps = 8/78 (10%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINAL 203
+LFVG+L TE+E+ ++F YG+ +V++ +D +G GF++ R +A A L
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-----KGFGFIRLETRTLAEIAKVEL 71
Query: 204 NGIYTMRGCDQPLTVRFA 221
+ + +RG + L VRFA
Sbjct: 72 DNM-PLRG--KQLRVRFA 86
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 9/80 (11%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIR 111
++LFVG++P EE++R LFE++G EV + KDK G FI+ T A+ A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFG------FIRLETRTLAEIAKV 69
Query: 112 ALHNQHTLPGGVGPIQVRYA 131
L N +P ++VR+A
Sbjct: 70 ELDN---MPLRGKQLRVRFA 86
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 48/91 (52%), Gaps = 6/91 (6%)
Query: 137 RLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMA 196
RLG+ +FV +L+ + K+++E+FS G V ++ D+ +SRG G V + A
Sbjct: 13 RLGST---VFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEA 69
Query: 197 LAAINALNGIYTMRGCDQPLTVRFADPKRPR 227
+ AI+ NG D+P+ V+ + P+
Sbjct: 70 VQAISMFNGQLLF---DRPMHVKMDERALPK 97
>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 = 42.7 bits (99), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLF+G +P ++ ++ L G + L+KD TG +G F +Y D+AI
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 175
Query: 113 LH 114
L+
Sbjct: 176 LN 177
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 48/200 (24%), Positives = 84/200 (42%), Gaps = 35/200 (17%)
Query: 48 GSSFAKLFVGSVPKTAREEDIRPLFEEH----------GN-VIEVALIKDKKTGQQQGCC 96
G+ +L+VG++P EE + F GN V+ V + +DK
Sbjct: 1 GAMARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FA 54
Query: 97 FIKYATSEEADRA--------------IRALHNQHTLPGGVGPIQVRYADGERERLGAVE 142
F+++ + +E +A IR H+ LPG V +
Sbjct: 55 FLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSA 114
Query: 143 YKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAIN 201
+KLF+G L + +V+E+ + +G ++ L++D S+G F +Y ++ AI
Sbjct: 115 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 174
Query: 202 ALNGIYTMRGCDQPLTVRFA 221
LNG M+ D+ L V+ A
Sbjct: 175 GLNG---MQLGDKKLLVQRA 191
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 42.7 bits (99), Expect = 8e-04, Method: Composition-based stats.
Identities = 27/82 (32%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
++VG+L AT ++V+E+FS +G+V +V L+ D E K+ +G GFV+ ++ A
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLD 63
Query: 204 NGIYTMRGCDQPLTVRFADPKR 225
N + R + V A+PK+
Sbjct: 64 NTDFMGR----TIRVTEANPKK 81
>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 = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLF+G +P ++ ++ L G + L+KD TG +G F +Y D+AI
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 157
Query: 113 LH 114
L+
Sbjct: 158 LN 159
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 46/195 (23%), Positives = 80/195 (41%), Gaps = 55/195 (28%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEH----------GN-VIEVALIKDKKTGQQQGCCFIKYA 101
+L+VG++P EE + F GN V+ V + +DK F+++
Sbjct: 8 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FAFLEFR 61
Query: 102 TSEEADRA--------------IRALHNQHTLPGGVGPIQVRYADGERERLGAVEYKLFV 147
+ +E +A IR H+ LPG +KLF+
Sbjct: 62 SVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGA--------------------HKLFI 101
Query: 148 GSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINALNGI 206
G L + +V+E+ + +G ++ L++D S+G F +Y ++ AI LNG
Sbjct: 102 GGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNG- 160
Query: 207 YTMRGCDQPLTVRFA 221
M+ D+ L V+ A
Sbjct: 161 --MQLGDKKLLVQRA 173
>pdb|2NNT|A Chain A, General Structural Motifs Of Amyloid Protofilaments
pdb|2NNT|B Chain B, General Structural Motifs Of Amyloid Protofilaments
pdb|2NNT|C Chain C, General Structural Motifs Of Amyloid Protofilaments
pdb|2NNT|D Chain D, General Structural Motifs Of Amyloid Protofilaments
Length = 40
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 19/35 (54%), Positives = 23/35 (65%)
Query: 555 APAKSSWTEHTSPDGYKYYYNCVTGVSKWEKPEEL 589
A A S WTE+ + DG +YYN T S WEKP+EL
Sbjct: 5 ATAVSEWTEYKTADGKTFYYNNRTLESTWEKPQEL 39
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLF+G +P ++ ++ L G + L+KD TG +G F +Y D+AI
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 155
Query: 113 LH 114
L+
Sbjct: 156 LN 157
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 45/193 (23%), Positives = 79/193 (40%), Gaps = 55/193 (28%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEH----------GN-VIEVALIKDKKTGQQQGCCFIKYA 101
+L+VG++P EE + F GN V+ V + +DK F+++
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FAFLEFR 59
Query: 102 TSEEADRA--------------IRALHNQHTLPGGVGPIQVRYADGERERLGAVEYKLFV 147
+ +E +A IR H+ LPG +KLF+
Sbjct: 60 SVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGA--------------------HKLFI 99
Query: 148 GSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINALNGI 206
G L + +V+E+ + +G ++ L++D S+G F +Y ++ AI LNG
Sbjct: 100 GGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNG- 158
Query: 207 YTMRGCDQPLTVR 219
M+ D+ L V+
Sbjct: 159 --MQLGDKKLLVQ 169
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/92 (34%), Positives = 48/92 (52%), Gaps = 12/92 (13%)
Query: 140 AVEYKLFVGSLNKQATEK-EVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALA 198
++ ++F+G+LN +K +VE IFS YGRV + +G FV+YS+ A A
Sbjct: 25 SINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV-------HKGYAFVQYSNERHARA 77
Query: 199 AINALNGIYTMRGCDQPLTVRFA-DPKRPRPG 229
A+ NG + G Q L + A +PK R G
Sbjct: 78 AVLGENG-RVLAG--QTLDINMAGEPKPDRSG 106
>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 = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 35/61 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
+++GS+P EE I L G VI + ++ D +TG+ +G FI++ E + A+R L
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 114 H 114
+
Sbjct: 67 N 67
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
+++GS+ TE+++ ++ S G V ++ +M D + +S+G F+++ + + +A+ L
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 204 NG 205
NG
Sbjct: 67 NG 68
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAI-R 111
K+FVG + EE IR F G V + L D KT +++G CFI + E + + +
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
Query: 112 ALHN 115
HN
Sbjct: 63 KYHN 66
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 35/61 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
+++GS+P EE I L G VI + ++ D +TG+ +G FI++ E + A+R L
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 114 H 114
+
Sbjct: 66 N 66
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
+++GS+ TE+++ ++ S G V ++ +M D + +S+G F+++ + + +A+ L
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 204 NG 205
NG
Sbjct: 66 NG 67
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 36/70 (51%), Gaps = 3/70 (4%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIR 111
+ L V +P E+D++ F G V+ V + KD KTG +G F+++ E + ++
Sbjct: 16 SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFT---EYETQVK 72
Query: 112 ALHNQHTLPG 121
+ +H + G
Sbjct: 73 VMSQRHMIDG 82
>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 = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 19/65 (29%), Positives = 39/65 (60%)
Query: 142 EYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAIN 201
++KLF+ L T++E+EEI +G V+D+ L+ + + +G +V+Y + A A+
Sbjct: 17 KHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVM 76
Query: 202 ALNGI 206
++G+
Sbjct: 77 KMDGM 81
Score = 34.7 bits (78), Expect = 0.18, Method: Composition-based stats.
Identities = 14/58 (24%), Positives = 35/58 (60%), Gaps = 1/58 (1%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAI 110
KLF+ +P + +E++ + + HG V ++ L+ + + G+ +G +++Y +A +A+
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTN-RAGKPKGLAYVEYENESQASQAV 75
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 35/61 (57%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
+++GS+P EE I L G VI + ++ D +TG+ +G FI++ E + A+R L
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 114 H 114
+
Sbjct: 65 N 65
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
+++GS+ TE+++ ++ S G V ++ +M D + +S+G F+++ + + +A+ L
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 204 NG 205
NG
Sbjct: 65 NG 66
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 2/83 (2%)
Query: 37 GRGGPSPDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKK-TGQQQGC 95
G G S + + +K+ V ++P A + +IR LF G + V L K TG +G
Sbjct: 1 GSSGSSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGF 60
Query: 96 CFIKYATSEEADRAIRAL-HNQH 117
F+ + T ++A +A AL H+ H
Sbjct: 61 GFVDFITKQDAKKAFNALCHSTH 83
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 29/83 (34%), Positives = 45/83 (54%), Gaps = 4/83 (4%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDEL-KQSRGCGFVKYSHRDMALAAINAL 203
L V L+ TE+++ E+FS YG + DV ++ D+ ++SRG FV + + D A A
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 74
Query: 204 NGIYTMRGCDQPLTVRFADPKRP 226
NG M + + V F+ KRP
Sbjct: 75 NG---MELDGRRIRVDFSITKRP 94
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 29/83 (34%), Positives = 45/83 (54%), Gaps = 4/83 (4%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDEL-KQSRGCGFVKYSHRDMALAAINAL 203
L V L+ TE+++ E+FS YG + DV ++ D+ ++SRG FV + + D A A
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 204 NGIYTMRGCDQPLTVRFADPKRP 226
NG M + + V F+ KRP
Sbjct: 78 NG---MELDGRRIRVDFSITKRP 97
>pdb|2DK1|A Chain A, Solution Structure Of Ww Domain In Ww Domain Binding
Protein 4 (Wbp-4)
Length = 50
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 20/27 (74%)
Query: 561 WTEHTSPDGYKYYYNCVTGVSKWEKPE 587
W E + +GY YYY+ ++G S+WEKPE
Sbjct: 9 WVEGITSEGYHYYYDLISGASQWEKPE 35
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 31/62 (50%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KLF+G +P ++ ++ L G + L+KD TG +G F +Y D+AI
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 113 LH 114
L+
Sbjct: 63 LN 64
Score = 36.2 bits (82), Expect = 0.067, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 43/80 (53%), Gaps = 4/80 (5%)
Query: 143 YKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQ-SRGCGFVKYSHRDMALAAIN 201
+KLF+G L + +V+E+ + +G ++ L++D S+G F +Y ++ AI
Sbjct: 2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61
Query: 202 ALNGIYTMRGCDQPLTVRFA 221
LNG M+ D+ L V+ A
Sbjct: 62 GLNG---MQLGDKKLLVQRA 78
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 23/63 (36%), Positives = 34/63 (53%), Gaps = 8/63 (12%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
KL VG++ T +++R FEE+G VIE ++KD F+ +E+A AIR
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDY--------AFVHMERAEDAVEAIRG 63
Query: 113 LHN 115
L N
Sbjct: 64 LDN 66
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 40.0 bits (92), Expect = 0.005, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDE-LKQSRGCGFVKYSHRDM 195
+FVG L+ T ++V+ F +G+V+D LM D+ + RG GFV + D+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDI 53
Score = 35.0 bits (79), Expect = 0.14, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 30/55 (54%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADR 108
+FVG + ED++ FE+ G V + L+ DK T + +G F+ + + + ++
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEK 56
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 39.7 bits (91), Expect = 0.006, Method: Composition-based stats.
Identities = 29/83 (34%), Positives = 45/83 (54%), Gaps = 4/83 (4%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDEL-KQSRGCGFVKYSHRDMALAAINAL 203
L V L+ TE+++ E+FS YG + DV ++ D+ ++SRG FV + + D A A
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 108
Query: 204 NGIYTMRGCDQPLTVRFADPKRP 226
NG M + + V F+ KRP
Sbjct: 109 NG---MELDGRRIRVDFSITKRP 128
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 39.3 bits (90), Expect = 0.007, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
L+VG L ++ +K + F P+G + D+ + D E ++ RG FV++ + A AAI+ +
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 204 N 204
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 = 39.3 bits (90), Expect = 0.007, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
L+VG L ++ +K + F P+G + D+ + D E ++ RG FV++ + A AAI+ +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 204 N 204
N
Sbjct: 65 N 65
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 39.3 bits (90), Expect = 0.007, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
L+VG L ++ +K + F P+G + D+ + D E ++ RG FV++ + A AAI+ +
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 204 N 204
N
Sbjct: 126 N 126
Score = 29.6 bits (65), Expect = 5.3, Method: Composition-based stats.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAI 110
L+VG + + ++ + F G++ ++ + D +T + +G F+++ +E+A AI
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 122
>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 = 39.3 bits (90), Expect = 0.007, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
L+VG L ++ +K + F P+G + D+ + D E ++ RG FV++ + A AAI+ +
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 204 N 204
N
Sbjct: 70 N 70
>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 = 0.007, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
+L V ++P R+ D+R +F + G +++V +I +++ +G F+ + S +ADRA
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 88
Query: 113 LH 114
LH
Sbjct: 89 LH 90
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 39.3 bits (90), Expect = 0.008, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAI-RA 112
+FVG + EE IR F G V + L D KT +++G CFI + E + + +
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 113 LHN 115
HN
Sbjct: 62 YHN 64
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 38.9 bits (89), Expect = 0.009, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
+L V ++P R+ D+R +F + G +++V +I +++ +G F+ + S +ADRA
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 74
Query: 113 LH 114
LH
Sbjct: 75 LH 76
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 38.5 bits (88), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 4/83 (4%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALN 204
L+V +L+ ++ + + FSP+G + +M E +S+G GFV +S + A A+ +N
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMM-EGGRSKGFGFVCFSSPEEATKAVTEMN 76
Query: 205 GIYTMRGCDQPLTVRFADPKRPR 227
G +PL V A K R
Sbjct: 77 GRIV---ATKPLYVALAQRKEER 96
>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 = 38.5 bits (88), Expect = 0.014, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 36/70 (51%), Gaps = 2/70 (2%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
+F+G + ++D++ F + G V++ L D TG+ +G F+ + SE D+ +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-- 59
Query: 114 HNQHTLPGGV 123
+H L G V
Sbjct: 60 QKEHKLNGKV 69
Score = 37.0 bits (84), Expect = 0.036, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 10/82 (12%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSHRDMALAAINAL 203
+F+G L+ T+K++++ FS +G V D L D + +SRG GFV + + +++ +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESE----SVDKV 57
Query: 204 NGIYTMRGCDQPLTVRFADPKR 225
M + L + DPKR
Sbjct: 58 -----MDQKEHKLNGKVIDPKR 74
>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 = 38.5 bits (88), Expect = 0.015, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 28/46 (60%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKY 190
+FVG ++ + E E+ F+ YG V++V ++ D S+G GFV +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 57
Score = 37.7 bits (86), Expect = 0.022, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
+FVG + E +IR F +G+V EV +I D +TG +G F+ + + + + +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 114 HNQHTLPGGVGP 125
N H +GP
Sbjct: 71 INFHGKKLKLGP 82
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 38.1 bits (87), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
L V +L + + + +F YGRV DVY+ R+ K RG FV++ R A A A+
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 204 NG 205
+G
Sbjct: 76 DG 77
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 38.1 bits (87), Expect = 0.016, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAINAL 203
L+VG L ++ +K + F P+G + D+ + D E ++ RG FV++ + A AAI+ +
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 204 N 204
N
Sbjct: 75 N 75
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 38.1 bits (87), Expect = 0.018, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 28/46 (60%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKY 190
+FVG ++ + E E+ F+ YG V++V ++ D S+G GFV +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 58
Score = 37.4 bits (85), Expect = 0.028, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
+FVG + E +IR F +G+V EV +I D +TG +G F+ + + + + +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 114 HNQHTLPGGVGP 125
N H +GP
Sbjct: 72 INFHGKKLKLGP 83
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 37.7 bits (86), Expect = 0.022, Method: Composition-based stats.
Identities = 23/63 (36%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDEL-KQSRGCGFVKYSHRDMALAAINAL 203
L V L+ TE+++ E+FS YG + DV ++ D+ ++SRG FV + + D A A
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 204 NGI 206
NG+
Sbjct: 78 NGM 80
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 37.7 bits (86), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGC-GFVKYSHRDMALAAINAL 203
LF+ L ++ T+ ++ F P+G V + D+ C GFV + + D A AI A+
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 204 NGI 206
NG
Sbjct: 103 NGF 105
Score = 36.2 bits (82), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 34/69 (49%)
Query: 46 VDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEE 105
++G LF+ +P+ + D+ F GNVI + DK+T + F+ + +
Sbjct: 35 IEGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDS 94
Query: 106 ADRAIRALH 114
A AI+A++
Sbjct: 95 AQVAIKAMN 103
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 37.7 bits (86), Expect = 0.023, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 12/88 (13%)
Query: 34 GFSGRGGPSPDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQ 93
G SG G + + L+VG + T E D+R F + G + + ++ Q+Q
Sbjct: 1 GSSGSSG------EDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVV------QRQ 48
Query: 94 GCCFIKYATSEEADRAIRALHNQHTLPG 121
C FI++AT + A+ A N+ + G
Sbjct: 49 QCAFIQFATRQAAEVAAEKSFNKLIVNG 76
>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 = 37.7 bits (86), Expect = 0.024, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 28/46 (60%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKY 190
+FVG ++ + E E+ F+ YG V++V ++ D S+G GFV +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 57
Score = 37.0 bits (84), Expect = 0.036, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
+FVG + E +IR F +G+V EV +I D +TG +G F+ + + + + +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 114 HNQHTLPGGVGP 125
N H +GP
Sbjct: 71 INFHGKKLKLGP 82
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 37.4 bits (85), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 40/63 (63%), Gaps = 1/63 (1%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDEL-KQSRGCGFVKYSHRDMALAAINA 202
+LFV +L+ ++E+++E++FS YG + +++ D L K+ +G FV + + A+ A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 203 LNG 205
++G
Sbjct: 70 VDG 72
Score = 37.0 bits (84), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 7/78 (8%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRA 112
+LFV ++ T+ EED+ LF +G + E+ D T + +G F+ + E A +A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 113 LHNQ-------HTLPGGV 123
+ Q H LP +
Sbjct: 70 VDGQVFQGRMLHVLPSTI 87
>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 = 37.0 bits (84), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 33/63 (52%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIR 111
A LF+ +P+ ++D+ +F GNV+ + DK+T + F+ Y A AI+
Sbjct: 26 ANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQ 85
Query: 112 ALH 114
+++
Sbjct: 86 SMN 88
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGC-GFVKYSHRDMALAAINAL 203
LF+ L ++ ++++ ++F P+G V + D+ C GFV Y + A AAI ++
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 204 NGI 206
NG
Sbjct: 88 NGF 90
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 37.0 bits (84), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 43/82 (52%), Gaps = 7/82 (8%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQ----SRGCGFVKYSHRDMALAAI 200
LF+ +LN TE+ ++ +FS G ++ + + + K S G GFV+Y + A A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 201 NALNGIYTMRGCDQPLTVRFAD 222
L G +T+ G L VR ++
Sbjct: 68 KQLQG-HTVDG--HKLEVRISE 86
>pdb|1O6W|A Chain A, Solution Structure Of The Prp40 Ww Domain Pair Of The
Yeast Splicing Factor Prp40
Length = 75
Score = 37.0 bits (84), Expect = 0.040, Method: Composition-based stats.
Identities = 16/31 (51%), Positives = 18/31 (58%)
Query: 559 SSWTEHTSPDGYKYYYNCVTGVSKWEKPEEL 589
S W E G YYYN +T S WEKP+EL
Sbjct: 2 SIWKEAKDASGRIYYYNTLTKKSTWEKPKEL 32
>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 = 37.0 bits (84), Expect = 0.042, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALN 204
+F+ +L+K K + + FS +G + ++ DE S+G GFV + ++ A AI +N
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE-NGSKGYGFVHFETQEAAERAIEKMN 66
Query: 205 GI 206
G+
Sbjct: 67 GM 68
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 37.0 bits (84), Expect = 0.042, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALN 204
+F+ +L+K K + + FS +G + ++ DE S+G GFV + ++ A AI +N
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE-NGSKGYGFVHFETQEAAERAIEKMN 72
Query: 205 GI 206
G+
Sbjct: 73 GM 74
Score = 31.6 bits (70), Expect = 1.5, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 36/75 (48%), Gaps = 3/75 (4%)
Query: 40 GPSPDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIK 99
G P L S +F+ ++ K+ + + F GN++ ++ D+ + G F+
Sbjct: 1 GADPSL-RKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYG--FVH 57
Query: 100 YATSEEADRAIRALH 114
+ T E A+RAI ++
Sbjct: 58 FETQEAAERAIEKMN 72
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 36.6 bits (83), Expect = 0.049, Method: Composition-based stats.
Identities = 17/66 (25%), Positives = 34/66 (51%)
Query: 49 SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADR 108
+S L V +P+ + ++ LF G + +++D KTG G F+ + + ++ R
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 109 AIRALH 114
AI+ L+
Sbjct: 61 AIKVLN 66
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 36.2 bits (82), Expect = 0.061, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 34/61 (55%), Gaps = 7/61 (11%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALN 204
LFV +L TE+ +E+ FS +G++E V ++D F+ + RD A+ A+ +N
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKDY-------AFIHFDERDGAVKAMEEMN 66
Query: 205 G 205
G
Sbjct: 67 G 67
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 36.2 bits (82), Expect = 0.066, Method: Composition-based stats.
Identities = 27/98 (27%), Positives = 48/98 (48%), Gaps = 8/98 (8%)
Query: 131 ADGERERLGAVEYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKY 190
+ G+ E + V+ LFV +L TE+ +E+ FS +G++E V ++D FV +
Sbjct: 5 SSGDPEVMAKVKV-LFVRNLATTVTEEILEKSFSEFGKLERVKKLKDY-------AFVHF 56
Query: 191 SHRDMALAAINALNGIYTMRGCDQPLTVRFADPKRPRP 228
R A+ A++ +NG + + + D KR P
Sbjct: 57 EDRGAAVKAMDEMNGKEIEGEEIEIVLAKPPDKKRSGP 94
>pdb|2F21|A Chain A, Human Pin1 Fip Mutant
Length = 162
Score = 35.8 bits (81), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 561 WTEHTSPDGYKYYYNCVTGVSKWEKP 586
W + S DG YY+N +T S+WE+P
Sbjct: 11 WEKRMSADGRVYYFNHITNASQWERP 36
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 35.8 bits (81), Expect = 0.089, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 37/64 (57%), Gaps = 2/64 (3%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVE--DVYLMRDELKQSRGCGFVKYSHRDMALAAIN 201
K+ +G L + T+ + EIFS YG+++ D+ + R S+G +V++ + D A A+
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
Query: 202 ALNG 205
++G
Sbjct: 66 HMDG 69
>pdb|2ADC|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd34 Complexed With Cucucu Rna
pdb|2EVZ|A Chain A, Structure Of Rna Binding Domains 3 And 4 Of Polypyrimidine
Tract Binding Protein
Length = 229
Score = 35.4 bits (80), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 35/67 (52%), Gaps = 8/67 (11%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIE--VALIKDKKTGQQQGCCFIKYATSEEADRA 109
A L + ++P + EED++ LF +G V++ KD+K I+ + EEA +A
Sbjct: 152 ATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRK------MALIQMGSVEEAVQA 205
Query: 110 IRALHNQ 116
+ LHN
Sbjct: 206 LIDLHNH 212
>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 = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSH-RDMALAAINA 202
LFV +N TE ++ F YG ++ ++++ + + RG F++Y H RDM A +A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In
Rna-Binding Protein 14
Length = 90
Score = 35.0 bits (79), Expect = 0.13, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 22/34 (64%)
Query: 53 KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKD 86
K+FVG+V +++R LFE G VIE ++KD
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVKD 44
Score = 31.6 bits (70), Expect = 1.6, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 143 YKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINA 202
+K+FVG+++ T +E+ +F GRV + +++D FV A AAI
Sbjct: 10 WKIFVGNVSAACTSQELRSLFERRGRVIECDVVKDY-------AFVHMEKEADAKAAIAQ 62
Query: 203 LNG 205
LNG
Sbjct: 63 LNG 65
>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 = 35.0 bits (79), Expect = 0.13, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIR 111
K FVG + ++D++ F + G V++ + D TG+ +G FI + + ++ +
Sbjct: 12 GKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLD 71
Query: 112 ALHNQHTLPGGV 123
+H L G V
Sbjct: 72 --QKEHRLDGRV 81
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 35/67 (52%), Gaps = 8/67 (11%)
Query: 52 AKLFVGSVPKTAREEDIRPLFEEHGNVIE--VALIKDKKTGQQQGCCFIKYATSEEADRA 109
A L + ++P + EED++ LF +G V++ KD+K I+ + EEA +A
Sbjct: 121 ATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRK------MALIQMGSVEEAVQA 174
Query: 110 IRALHNQ 116
+ LHN
Sbjct: 175 LIDLHNH 181
>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 = 35.0 bits (79), Expect = 0.14, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 143 YKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAIN 201
+ LFVG LN ++ + F + ++M D + SRG GFV ++ +D A A++
Sbjct: 2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 61
Query: 202 ALNG 205
++ G
Sbjct: 62 SMQG 65
Score = 33.5 bits (75), Expect = 0.40, Method: Composition-based stats.
Identities = 15/63 (23%), Positives = 34/63 (53%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
LFVG + +E +R F++ + + ++ D +TG +G F+ + + ++A A+ ++
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 114 HNQ 116
Q
Sbjct: 64 QGQ 66
>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 = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 142 EYKLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRD-ELKQSRGCGFVKYSHRDMALAAI 200
+ +FVG L+ + T + F+P+GR+ D +++D +S+G GFV + ++ A AI
Sbjct: 6 HFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAI 65
Query: 201 NALNGIY 207
+ G +
Sbjct: 66 QQMGGQW 72
Score = 29.6 bits (65), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 1/69 (1%)
Query: 48 GSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEAD 107
GS F +FVG + I F G + + ++KD TG+ +G F+ + +A+
Sbjct: 4 GSHF-HVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAE 62
Query: 108 RAIRALHNQ 116
AI+ + Q
Sbjct: 63 NAIQQMGGQ 71
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 34.7 bits (78), Expect = 0.18, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 33/62 (53%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALN 204
+FVG+L + E+ + E+F G + V + +D + + GFV + H + AI LN
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLN 78
Query: 205 GI 206
GI
Sbjct: 79 GI 80
Score = 28.9 bits (63), Expect = 9.3, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRAL 113
+FVG++ REE + LF + G + +V + KD++ G+ + F+ + E AI L
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESVSYAIALL 77
Query: 114 H 114
+
Sbjct: 78 N 78
>pdb|2YSI|A Chain A, Solution Structure Of The First Ww Domain From The Mouse
Transcription Elongation Regulator 1, Transcription
Factor Ca150
Length = 40
Score = 34.7 bits (78), Expect = 0.20, Method: Composition-based stats.
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 561 WTEHTSPDGYKYYYNCVTGVSKWEKPE 587
W E+ +PDG YYYN T S W KP+
Sbjct: 12 WVENKTPDGKVYYYNARTRESAWTKPD 38
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 81 VALIKDKKTGQQQGCCFIKYATSEEAD--RAIRALHNQHTLPGGVGPIQVRYADGERERL 138
V +IKDK+T +G FI+ +T E A + ++ALH T+ G I V +A G + +
Sbjct: 55 VRVIKDKQTQLNRGFAFIQLSTIEAAQLLQILQALHPPLTIDGKT--INVEFAKGSKRDM 112
Query: 139 GAVE 142
+ E
Sbjct: 113 ASNE 116
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 33.5 bits (75), Expect = 0.44, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 5/69 (7%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINAL 203
K++VG+L + E+E F YG + V++ R+ G FV++ A A+ L
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVREL 130
Query: 204 NGIYTMRGC 212
+G T+ GC
Sbjct: 131 DG-RTLCGC 138
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 33.1 bits (74), Expect = 0.53, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 5/69 (7%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINAL 203
K++VG+L + E+E F YG + V++ R+ G FV++ A A+ L
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVRDL 130
Query: 204 NGIYTMRGC 212
+G T+ GC
Sbjct: 131 DG-RTLCGC 138
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 33.1 bits (74), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 35/61 (57%), Gaps = 5/61 (8%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALN 204
++ G + T++ + + FSP+G++ ++ + + +G FV++S + A AI ++N
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE-----KGYSFVRFSTHESAAHAIVSVN 82
Query: 205 G 205
G
Sbjct: 83 G 83
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 32.7 bits (73), Expect = 0.77, Method: Composition-based stats.
Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 10/78 (12%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINAL 203
+LFV E E+ EIF P+G +++V ++ G FV++ + A AI +
Sbjct: 6 RLFVRPFPLDVQESELNEIFGPFGPMKEVKIL-------NGFAFVEFEEAESAAKAIEEV 58
Query: 204 NGIYTMRGCDQPLTVRFA 221
+G +QPL V ++
Sbjct: 59 HG---KSFANQPLEVVYS 73
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 32.3 bits (72), Expect = 1.0, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMA 196
K+FVG + T +E+++ F YG V DV++ K R FV ++ +A
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFIP----KPFRAFAFVTFADDKVA 61
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 31.6 bits (70), Expect = 1.6, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMA 196
+FVG TE E+ E FS YG V DV++ K R FV ++ +A
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFIP----KPFRAFAFVTFADDQIA 55
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 31.6 bits (70), Expect = 1.6, Method: Composition-based stats.
Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 10/78 (12%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINAL 203
+LFV E E+ EIF P+G +++V ++ G FV++ + A AI +
Sbjct: 33 RLFVRPFPLDVQESELNEIFGPFGPMKEVKIL-------NGFAFVEFEEAESAAKAIEEV 85
Query: 204 NGIYTMRGCDQPLTVRFA 221
+G +QPL V ++
Sbjct: 86 HG---KSFANQPLEVVYS 100
>pdb|1I5H|W Chain W, Solution Structure Of The Rnedd4 Wwiii Domain-Renac Bp2
Peptide Complex
Length = 50
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 19/41 (46%)
Query: 546 AAPVSSQTVAPAKSSWTEHTSPDGYKYYYNCVTGVSKWEKP 586
+PV S + P W E T DG ++ N ++WE P
Sbjct: 1 GSPVDSNDLGPLPPGWEERTHTDGRVFFINHNIKKTQWEDP 41
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 37/87 (42%), Gaps = 3/87 (3%)
Query: 142 EYKLFVGSLNKQATEKEVEEIF-SPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAI 200
EY LFVG L + + E F Y ++ D+ S+G GFVK++ A+
Sbjct: 9 EYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRAL 68
Query: 201 NALNGIYTMRGCDQPLTVRFADPKRPR 227
G + +P+ + A PK R
Sbjct: 69 TECQGAVGLG--SKPVRLSVAIPKASR 93
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 31.2 bits (69), Expect = 2.2, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 29/51 (56%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSE 104
++VG+V A E++ F G+V V ++ DK +G +G +I+++ E
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 58
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 30.8 bits (68), Expect = 2.4, Method: Composition-based stats.
Identities = 23/68 (33%), Positives = 41/68 (60%), Gaps = 3/68 (4%)
Query: 48 GSSFA-KLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEA 106
GSS A ++FV ++P + ++ F E G+V+ A IK + G+ +GC +K+ + E A
Sbjct: 4 GSSGACQIFVRNLPFDFTWKMLKDKFNECGHVL-YADIK-MENGKSKGCGVVKFESPEVA 61
Query: 107 DRAIRALH 114
+RA R ++
Sbjct: 62 ERACRMMN 69
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDE-LKQSRGCGFVKYSHRDMALAAINAL 203
L++ L T++++ ++ PYG++ + D+ + +G GFV + A A+ AL
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 204 N 204
Sbjct: 68 K 68
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 30.8 bits (68), Expect = 2.5, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 8/63 (12%)
Query: 144 KLFVGSLNKQATEK-EVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINA 202
++F+G+LN +K +VE IFS YG++ + +G FV+Y + A AA+
Sbjct: 17 RVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV-------HKGFAFVQYVNERNARAAVAG 69
Query: 203 LNG 205
+G
Sbjct: 70 EDG 72
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 30.8 bits (68), Expect = 2.5, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 4/62 (6%)
Query: 144 KLFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINAL 203
K++VG+L A + E+E FS YG + V++ R+ G FV++ A A+ L
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN----PPGFAFVEFEDPRDAEDAVRGL 57
Query: 204 NG 205
+G
Sbjct: 58 DG 59
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 30.8 bits (68), Expect = 2.5, Method: Composition-based stats.
Identities = 22/82 (26%), Positives = 45/82 (54%), Gaps = 5/82 (6%)
Query: 55 FVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRALH 114
+VG++P + DI +F++ ++ V L++DK T + +G C++++ +E D AL
Sbjct: 19 YVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEF---DEVDSLKEALT 74
Query: 115 NQHTLPGGVGPIQVRYADGERE 136
L G ++V A+G ++
Sbjct: 75 YDGALLGDRS-LRVDIAEGRKQ 95
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical
Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens
At 1.95 A Resolution
Length = 89
Score = 30.8 bits (68), Expect = 2.6, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 29/51 (56%)
Query: 54 LFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSE 104
++VG+V A E++ F G+V V ++ DK +G +G +I+++ E
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 59
>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 = 30.8 bits (68), Expect = 2.8, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELK-QSRGCGFVKYSH-RDM 195
LFV +N TE ++ F YG ++ ++++ + + RG F++Y H RDM
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDM 157
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 25/50 (50%)
Query: 145 LFVGSLNKQATEKEVEEIFSPYGRVEDVYLMRDELKQSRGCGFVKYSHRD 194
L+VG+L++ TE + ++FS G + ++ + C Y HRD
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRD 67
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 30.4 bits (67), Expect = 3.2, Method: Composition-based stats.
Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 6/82 (7%)
Query: 34 GFSGRGGPSPDLVDGSSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQ 93
G SG GP+ LFV + + EE ++ F+ + ++ D++TG +
Sbjct: 1 GSSGSSGPN---ARSQPSKTLFVKGLSEDTTEETLKESFD---GSVRARIVTDRETGSSK 54
Query: 94 GCCFIKYATSEEADRAIRALHN 115
G F+ + + E+A A A+ +
Sbjct: 55 GFGFVDFNSEEDAKAAKEAMED 76
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 30.4 bits (67), Expect = 3.8, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 26/40 (65%)
Query: 78 VIEVALIKDKKTGQQQGCCFIKYATSEEADRAIRALHNQH 117
V + LIKDK+T Q +G F++ +++ +A + ++ L + H
Sbjct: 38 VNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLH 77
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 30.0 bits (66), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 5/43 (11%)
Query: 163 FSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALNG 205
FSP+G + D+ + R C FV Y + A A+ LNG
Sbjct: 34 FSPFGNIIDL-----SMDPPRNCAFVTYEKMESADQAVAELNG 71
>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 = 30.0 bits (66), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 5/43 (11%)
Query: 163 FSPYGRVEDVYLMRDELKQSRGCGFVKYSHRDMALAAINALNG 205
FSP+G + D+ + R C FV Y + A A+ LNG
Sbjct: 58 FSPFGNIIDL-----SMDPPRNCAFVTYEKMESADQAVAELNG 95
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 29.6 bits (65), Expect = 6.2, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 38/66 (57%), Gaps = 2/66 (3%)
Query: 49 SSFAKLFVGSVPKTAREEDIRPLFEEHGNVIEVALIKDKKTGQQQGCCFIKYATSEEADR 108
S + +FV ++P + ++ F E G+V+ A IK + G+ +GC +K+ + E A+R
Sbjct: 3 SGSSGIFVRNLPFDFTWKMLKDKFNECGHVL-YADIK-MENGKSKGCGVVKFESPEVAER 60
Query: 109 AIRALH 114
A R ++
Sbjct: 61 ACRMMN 66
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
0.314 0.132 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,897,980
Number of Sequences: 62578
Number of extensions: 624815
Number of successful extensions: 1582
Number of sequences better than 100.0: 164
Number of HSP's better than 100.0 without gapping: 119
Number of HSP's successfully gapped in prelim test: 45
Number of HSP's that attempted gapping in prelim test: 1253
Number of HSP's gapped (non-prelim): 277
length of query: 700
length of database: 14,973,337
effective HSP length: 106
effective length of query: 594
effective length of database: 8,340,069
effective search space: 4954000986
effective search space used: 4954000986
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)