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= 009356
(537 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 124 bits (310), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 67/172 (38%), Positives = 103/172 (59%), Gaps = 3/172 (1%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTG--QQQGYCFVKFTIFEEAGNAI 148
K++V VPRT +E+D+R LFE++G V E+ + +D+ Q +G CFV F + A A
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 76
Query: 149 RALNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIE 208
AL+ + PG I+++ AD E+ + V KL++G +SK+ ++ +I +FS +G IE
Sbjct: 77 NALHNMKVLPGMHHPIQMKPADSEKNNAV-EDRKLFIGMISKKCTENDIRVMFSSFGQIE 135
Query: 209 DIFIVRDELKQSRGCAFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIAD 260
+ I+R SRGCAFV F+ R MA AI ++ TM G P+VV+ AD
Sbjct: 136 ECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD 187
Score = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 35/107 (32%), Positives = 59/107 (55%), Gaps = 6/107 (5%)
Query: 170 DGEREHPVAP---PDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK---QSRGC 223
+G +HP P K++VG + + S+K++ E+F YG + +I ++RD + QS+GC
Sbjct: 2 NGTLDHPDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGC 61
Query: 224 AFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIADPKKPRTGELR 270
FV F R+ AL A + L+ + G P+ ++ AD +K E R
Sbjct: 62 CFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDR 108
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 45/93 (48%), Gaps = 1/93 (1%)
Query: 78 PAPDHINDSGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVK 137
PA N++ KL++ + + TE DIR +F G + E + + G +G FV
Sbjct: 96 PADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGP-DGLSRGCAFVT 154
Query: 138 FTIFEEAGNAIRALNGHYIFPGEQASIKVRFAD 170
FT A AI+A++ G + + V+FAD
Sbjct: 155 FTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD 187
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 123 bits (309), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 67/172 (38%), Positives = 103/172 (59%), Gaps = 3/172 (1%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTG--QQQGYCFVKFTIFEEAGNAI 148
K++V VPRT +E+D+R LFE++G V E+ + +D+ Q +G CFV F + A A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 149 RALNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIE 208
AL+ + PG I+++ AD E+ + V KL++G +SK+ ++ +I +FS +G IE
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADSEKNNAV-EDRKLFIGMISKKCTENDIRVMFSSFGQIE 123
Query: 209 DIFIVRDELKQSRGCAFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIAD 260
+ I+R SRGCAFV F+ R MA AI ++ TM G P+VV+ AD
Sbjct: 124 ECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD 175
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 53/92 (57%), Gaps = 3/92 (3%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK---QSRGCAFVQFSHREMALAAI 238
K++VG + + S+K++ E+F YG + +I ++RD + QS+GC FV F R+ AL A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 239 SGLNGTFTMRGSDQPLVVRIADPKKPRTGELR 270
+ L+ + G P+ ++ AD +K E R
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADSEKNNAVEDR 96
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 45/93 (48%), Gaps = 1/93 (1%)
Query: 78 PAPDHINDSGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVK 137
PA N++ KL++ + + TE DIR +F G + E + + G +G FV
Sbjct: 84 PADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGP-DGLSRGCAFVT 142
Query: 138 FTIFEEAGNAIRALNGHYIFPGEQASIKVRFAD 170
FT A AI+A++ G + + V+FAD
Sbjct: 143 FTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD 175
>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 = 111 bits (277), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 65/172 (37%), Positives = 96/172 (55%), Gaps = 3/172 (1%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTG--QQQGYCFVKFTIFEEAGNAI 148
K +V VPRT +E+D+R LFE++G V E+ + +D+ Q +G CFV F + A A
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 149 RALNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIE 208
AL+ + PG I+ + AD E+ + V KL++G +SK+ ++ +I FS +G IE
Sbjct: 65 NALHNXKVLPGXHHPIQXKPADSEKNNAV-EDRKLFIGXISKKCTENDIRVXFSSFGQIE 123
Query: 209 DIFIVRDELKQSRGCAFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIAD 260
+ I+R SRGCAFV F+ R A AI + T G P VV+ AD
Sbjct: 124 ECRILRGPDGLSRGCAFVTFTTRAXAQTAIKAXHQAQTXEGCSSPXVVKFAD 175
Score = 52.4 bits (124), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 51/92 (55%), Gaps = 3/92 (3%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK---QSRGCAFVQFSHREMALAAI 238
K +VG + + S+K++ E+F YG + +I ++RD + QS+GC FV F R+ AL A
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 239 SGLNGTFTMRGSDQPLVVRIADPKKPRTGELR 270
+ L+ + G P+ + AD +K E R
Sbjct: 65 NALHNXKVLPGXHHPIQXKPADSEKNNAVEDR 96
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 42/93 (45%), Gaps = 1/93 (1%)
Query: 78 PAPDHINDSGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVK 137
PA N++ KL++ + + TE DIR F G + E + + G +G FV
Sbjct: 84 PADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQIEECRILRGP-DGLSRGCAFVT 142
Query: 138 FTIFEEAGNAIRALNGHYIFPGEQASIKVRFAD 170
FT A AI+A + G + V+FAD
Sbjct: 143 FTTRAXAQTAIKAXHQAQTXEGCSSPXVVKFAD 175
>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 = 86.3 bits (212), Expect = 4e-17, Method: Composition-based stats.
Identities = 63/170 (37%), Positives = 91/170 (53%), Gaps = 9/170 (5%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L V +P+ T+E+ R LF G + L +DK TGQ GY FV + ++A AI L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 152 NGHYIFPGEQASIKVRFADGEREHPVAPPD-KLYVGCLSKQTSKKEIEEVFSPYGHIEDI 210
NG + + +IKV +A R + D LYV L K ++KE+E++FS YG I
Sbjct: 65 NGLRL---QTKTIKVSYA---RPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITS 118
Query: 211 FIVRDELKQ-SRGCAFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIA 259
I+ D++ SRG F++F R A AI GLNG G+ +P+ V+ A
Sbjct: 119 RILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQ-KPSGATEPITVKFA 167
Score = 52.8 bits (125), Expect = 5e-07, Method: Composition-based stats.
Identities = 33/98 (33%), Positives = 52/98 (53%), Gaps = 5/98 (5%)
Query: 72 KRGFNHPAPDHINDSGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQ 131
K + P+ I D A LYV+ +P+T T++++ LF ++G +I + D+ TG +
Sbjct: 75 KVSYARPSSASIRD----ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSR 130
Query: 132 GYCFVKFTIFEEAGNAIRALNGHYIFPGEQASIKVRFA 169
G F++F EA AI+ LNG G I V+FA
Sbjct: 131 GVGFIRFDKRIEAEEAIKGLNGQKP-SGATEPITVKFA 167
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 84.7 bits (208), Expect = 1e-16, Method: Composition-based stats.
Identities = 62/171 (36%), Positives = 93/171 (54%), Gaps = 9/171 (5%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L V +P+ T+++ + LF G++ L +DK TGQ GY FV ++ +A AI L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 152 NGHYIFPGEQASIKVRFADGEREHPVAPPD-KLYVGCLSKQTSKKEIEEVFSPYGHIEDI 210
NG + + +IKV +A R + D LYV L K S+KE+E++FS YG I
Sbjct: 67 NGLKL---QTKTIKVSYA---RPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITS 120
Query: 211 FIVRDELKQ-SRGCAFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIAD 260
I+ D+ SRG F++F R A AI GLNG + G+ +P+ V+ A+
Sbjct: 121 RILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPL-GAAEPITVKFAN 170
Score = 52.0 bits (123), Expect = 8e-07, Method: Composition-based stats.
Identities = 32/99 (32%), Positives = 53/99 (53%), Gaps = 5/99 (5%)
Query: 72 KRGFNHPAPDHINDSGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQ 131
K + P+ I D A LYV+ +P+T +++++ LF ++G +I + D+ TG +
Sbjct: 77 KVSYARPSSASIRD----ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSR 132
Query: 132 GYCFVKFTIFEEAGNAIRALNGHYIFPGEQASIKVRFAD 170
G F++F EA AI+ LNG G I V+FA+
Sbjct: 133 GVGFIRFDKRIEAEEAIKGLNGQKPL-GAAEPITVKFAN 170
>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 = 83.2 bits (204), Expect = 3e-16, Method: Composition-based stats.
Identities = 56/169 (33%), Positives = 89/169 (52%), Gaps = 7/169 (4%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L V +P+ T++++R LF G V L +DK G GY FV + ++A AI L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 152 NGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIF 211
NG + + +IKV +A E V LY+ L + ++K++E++FS +G I +
Sbjct: 65 NGLRL---QSKTIKVSYARPSSE--VIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSR 119
Query: 212 IVRDELKQ-SRGCAFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIA 259
++ D+ SRG AF++F R A AI+ NG GS +P+ V+ A
Sbjct: 120 VLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG-HKPPGSSEPITVKFA 167
Score = 60.5 bits (145), Expect = 2e-09, Method: Composition-based stats.
Identities = 34/98 (34%), Positives = 52/98 (53%), Gaps = 5/98 (5%)
Query: 72 KRGFNHPAPDHINDSGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQ 131
K + P+ + I D A LY++ +PRT T++D+ +F G +I + D+ TG +
Sbjct: 75 KVSYARPSSEVIKD----ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSR 130
Query: 132 GYCFVKFTIFEEAGNAIRALNGHYIFPGEQASIKVRFA 169
G F++F EA AI + NGH PG I V+FA
Sbjct: 131 GVAFIRFDKRSEAEEAITSFNGHKP-PGSSEPITVKFA 167
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 82.0 bits (201), Expect = 8e-16, Method: Composition-based stats.
Identities = 56/169 (33%), Positives = 88/169 (52%), Gaps = 7/169 (4%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L V +P+ T++++R LF G V L +DK G GY FV + ++A AI L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 152 NGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIF 211
NG + + +IKV +A E V LY+ L + ++K++E++FS +G I +
Sbjct: 65 NGLRL---QSKTIKVSYARPSSE--VIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSR 119
Query: 212 IVRDELKQ-SRGCAFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIA 259
++ D+ SRG AF++F R A AI+ NG GS +P+ V A
Sbjct: 120 VLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG-HKPPGSSEPITVXFA 167
Score = 59.3 bits (142), Expect = 5e-09, Method: Composition-based stats.
Identities = 34/98 (34%), Positives = 51/98 (52%), Gaps = 5/98 (5%)
Query: 72 KRGFNHPAPDHINDSGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQ 131
K + P+ + I D A LY++ +PRT T++D+ +F G +I + D+ TG +
Sbjct: 75 KVSYARPSSEVIKD----ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSR 130
Query: 132 GYCFVKFTIFEEAGNAIRALNGHYIFPGEQASIKVRFA 169
G F++F EA AI + NGH PG I V FA
Sbjct: 131 GVAFIRFDKRSEAEEAITSFNGHKP-PGSSEPITVXFA 167
>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 = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 58/170 (34%), Positives = 87/170 (51%), Gaps = 7/170 (4%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L V +P+ T+ ++ LF G + + +D +TG GY FV FT ++ AI+ L
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 152 NGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIF 211
NG + +KV +A E LYV L + + +++ +F YG I
Sbjct: 77 NGITV---RNKRLKVSYARPGGES--IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKN 131
Query: 212 IVRDELK-QSRGCAFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIAD 260
I+RD+L + RG AFV+++ RE A AIS LN GS QPL VR+A+
Sbjct: 132 ILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGS-QPLSVRLAE 180
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 39/137 (28%), Positives = 68/137 (49%), Gaps = 10/137 (7%)
Query: 39 NYHSHHRRHYQYDQMSSE-----PTDFFNGQPMPFIGRKRGFNHPAPDHINDSGIPAKLY 93
+Y + + Y + +SE NG + K + P + I D+ LY
Sbjct: 49 DYKTGYSFGYAFVDFTSEXDSQRAIKVLNGITVRNKRLKVSYARPGGESIKDT----NLY 104
Query: 94 VAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRALNG 153
V +PRT T++ + +F ++G++++ + +DK TG+ +G FV++ EEA AI ALN
Sbjct: 105 VTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALN- 163
Query: 154 HYIFPGEQASIKVRFAD 170
+ I G + VR A+
Sbjct: 164 NVIPEGGSQPLSVRLAE 180
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 79.7 bits (195), Expect = 4e-15, Method: Composition-based stats.
Identities = 58/169 (34%), Positives = 86/169 (50%), Gaps = 7/169 (4%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L V +P+ T+ ++ LF G + + +D +TG GY FV FT ++ AI+ L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 152 NGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIF 211
NG + +KV +A E LYV L + + +++ +F YG I
Sbjct: 66 NGITV---RNKRLKVSYARPGGES--IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKN 120
Query: 212 IVRDELK-QSRGCAFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIA 259
I+RD+L + RG AFV+++ RE A AIS LN GS QPL VR+A
Sbjct: 121 ILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGS-QPLSVRLA 168
Score = 56.6 bits (135), Expect = 4e-08, Method: Composition-based stats.
Identities = 33/98 (33%), Positives = 55/98 (56%), Gaps = 5/98 (5%)
Query: 72 KRGFNHPAPDHINDSGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQ 131
K + P + I D+ LYV +PRT T++ + +F ++G++++ + +DK TG+ +
Sbjct: 76 KVSYARPGGESIKDT----NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPR 131
Query: 132 GYCFVKFTIFEEAGNAIRALNGHYIFPGEQASIKVRFA 169
G FV++ EEA AI ALN + I G + VR A
Sbjct: 132 GVAFVRYNKREEAQEAISALN-NVIPEGGSQPLSVRLA 168
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 36/82 (43%), Positives = 54/82 (65%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
KL+VG L+KQ S+ ++ +F +G+IE+ I+R S+GCAFV++S A AAI+ L
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFVKYSSHAEAQAAINAL 76
Query: 242 NGTFTMRGSDQPLVVRIADPKK 263
+G+ TM G+ LVV+ AD K
Sbjct: 77 HGSQTMPGASSSLVVKFADTDK 98
Score = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 32/84 (38%), Positives = 50/84 (59%), Gaps = 1/84 (1%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL+V + + +E+D+R LFE GN+ E + + G +G FVK++ EA AI A
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGP-DGNSKGCAFVKYSSHAEAQAAINA 75
Query: 151 LNGHYIFPGEQASIKVRFADGERE 174
L+G PG +S+ V+FAD ++E
Sbjct: 76 LHGSQTMPGASSSLVVKFADTDKE 99
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 72.0 bits (175), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 36/82 (43%), Positives = 54/82 (65%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
KL+VG L+KQ S++++ +F P+G I++ ++R S+GCAFV+FS A AAI L
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHAL 76
Query: 242 NGTFTMRGSDQPLVVRIADPKK 263
+G+ TM G+ LVV+ AD K
Sbjct: 77 HGSQTMPGASSSLVVKFADTDK 98
Score = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 31/84 (36%), Positives = 48/84 (57%), Gaps = 1/84 (1%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL+V + + +EED+ LF+ G + E + + G +G FVKF+ EA AI A
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGP-DGSSKGCAFVKFSSHTEAQAAIHA 75
Query: 151 LNGHYIFPGEQASIKVRFADGERE 174
L+G PG +S+ V+FAD ++E
Sbjct: 76 LHGSQTMPGASSSLVVKFADTDKE 99
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 64.3 bits (155), Expect = 1e-10, Method: Composition-based stats.
Identities = 32/82 (39%), Positives = 53/82 (64%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
KL+VG L KQ + +++ ++F P+G I++ ++R S+GCAFV+F A AAI+ L
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAAINTL 73
Query: 242 NGTFTMRGSDQPLVVRIADPKK 263
+ + T+ G+ LVV+ AD +K
Sbjct: 74 HSSRTLPGASSSLVVKFADTEK 95
Score = 55.5 bits (132), Expect = 9e-08, Method: Composition-based stats.
Identities = 31/84 (36%), Positives = 46/84 (54%), Gaps = 1/84 (1%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL+V + + T+ED+R +FE G + E + + G +G FVKF EA AI
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGP-DGTSKGCAFVKFQTHAEAQAAINT 72
Query: 151 LNGHYIFPGEQASIKVRFADGERE 174
L+ PG +S+ V+FAD E+E
Sbjct: 73 LHSSRTLPGASSSLVVKFADTEKE 96
>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 = 62.4 bits (150), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 70/143 (48%), Gaps = 9/143 (6%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL++ + T+E +R FE+ G + + V+ +D T + +G+ FV + EE A+ A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 151 ----LNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGH 206
++G + P S + D +R K++VG + + T + + + F YG
Sbjct: 75 RPHKVDGRVVEPKRAVSRE----DSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGK 130
Query: 207 IEDIFIVRDELK-QSRGCAFVQF 228
IE I I+ D + RG AFV F
Sbjct: 131 IEVIEIMTDRGSGKKRGFAFVTF 153
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 62.4 bits (150), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 70/143 (48%), Gaps = 9/143 (6%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL++ + T+E +R FE+ G + + V+ +D T + +G+ FV + EE A+ A
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 151 ----LNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGH 206
++G + P S + D +R K++VG + + T + + + F YG
Sbjct: 76 RPHKVDGRVVEPKRAVSRE----DSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGK 131
Query: 207 IEDIFIVRDELK-QSRGCAFVQF 228
IE I I+ D + RG AFV F
Sbjct: 132 IEVIEIMTDRGSGKKRGFAFVTF 154
>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 = 62.4 bits (150), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 70/143 (48%), Gaps = 9/143 (6%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL++ + T+E +R FE+ G + + V+ +D T + +G+ FV + EE A+ A
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 151 ----LNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGH 206
++G + P S + D +R K++VG + + T + + + F YG
Sbjct: 74 RPHKVDGRVVEPKRAVSRE----DSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGK 129
Query: 207 IEDIFIVRDELK-QSRGCAFVQF 228
IE I I+ D + RG AFV F
Sbjct: 130 IEVIEIMTDRGSGKKRGFAFVTF 152
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 70/143 (48%), Gaps = 9/143 (6%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL++ + T+E +R FE+ G + + V+ +D T + +G+ FV + EE A+ A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 151 ----LNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGH 206
++G + P S + D +R K++VG + + T + + + F YG
Sbjct: 75 RPHKVDGRVVEPKRAVSRE----DSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGK 130
Query: 207 IEDIFIVRDELK-QSRGCAFVQF 228
IE I I+ D + RG AFV F
Sbjct: 131 IEVIEIMTDRGSGKKRGFAFVTF 153
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 70/143 (48%), Gaps = 9/143 (6%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL++ + T+E +R FE+ G + + V+ +D T + +G+ FV + EE A+ A
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 151 ----LNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGH 206
++G + P S + D +R K++VG + + T + + + F YG
Sbjct: 73 RPHKVDGRVVEPKRAVSRE----DSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGK 128
Query: 207 IEDIFIVRDELK-QSRGCAFVQF 228
IE I I+ D + RG AFV F
Sbjct: 129 IEVIEIMTDRGSGKKRGFAFVTF 151
>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 = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 70/143 (48%), Gaps = 9/143 (6%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL++ + T+E +R FE+ G + + V+ +D T + +G+ FV + EE A+ A
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 151 ----LNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGH 206
++G + P S + D +R K++VG + + T + + + F YG
Sbjct: 68 RPHKVDGRVVEPKRAVSRE----DSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGK 123
Query: 207 IEDIFIVRDELK-QSRGCAFVQF 228
IE I I+ D + RG AFV F
Sbjct: 124 IEVIEIMTDRGSGKKRGFAFVTF 146
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 47/167 (28%), Positives = 83/167 (49%), Gaps = 18/167 (10%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
+L+V +P TEED + LFE +G EV + +D+ G+ F++ A A
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR------GFGFIRLESRTLAEIAKAE 77
Query: 151 LNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDI 210
L+G + + +++RFA H A L V LS S + +E+ FS +G +E
Sbjct: 78 LDGTIL---KSRPLRIRFAT----HGAA----LTVKNLSPVVSNELLEQAFSQFGPVEKA 126
Query: 211 FIVRDELKQSRGCAFVQFSHREMALAAISGL-NGTFTMRGSDQPLVV 256
+V D+ ++ G FV+F+ + A A+ +G F + + +P++V
Sbjct: 127 VVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIV 173
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/84 (38%), Positives = 50/84 (59%), Gaps = 2/84 (2%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTG--QQQGYCFVKFTIFEEAGNAI 148
K++V VPRT +E+D+R LFE++G V E+ + +D+ Q +G CFV F + A A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 149 RALNGHYIFPGEQASIKVRFADGE 172
AL+ + PG I+++ AD E
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADSE 88
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 49/82 (59%), Gaps = 3/82 (3%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK---QSRGCAFVQFSHREMALAAI 238
K++VG + + S+K++ E+F YG + +I ++RD + QS+GC FV F R+ AL A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 239 SGLNGTFTMRGSDQPLVVRIAD 260
+ L+ + G P+ ++ AD
Sbjct: 65 NALHNMKVLPGMHHPIQMKPAD 86
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 59.7 bits (143), Expect = 4e-09, Method: Composition-based stats.
Identities = 30/80 (37%), Positives = 46/80 (57%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL++ +PR E+D++PLFEE G + E+ + KD+ TG +G F+ + E A A A
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 151 LNGHYIFPGEQASIKVRFAD 170
L+ PG I+V+ AD
Sbjct: 75 LHEQKTLPGMNRPIQVKPAD 94
Score = 51.6 bits (122), Expect = 1e-06, Method: Composition-based stats.
Identities = 25/80 (31%), Positives = 49/80 (61%), Gaps = 1/80 (1%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK-QSRGCAFVQFSHREMALAAISG 240
KL++G + + +K+++ +F +G I ++ +++D +GCAF+ + RE AL A S
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 241 LNGTFTMRGSDQPLVVRIAD 260
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 = 57.8 bits (138), Expect = 1e-08, Method: Composition-based stats.
Identities = 34/100 (34%), Positives = 51/100 (51%), Gaps = 6/100 (6%)
Query: 86 SGIPAK------LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFT 139
SG+P K L+V +PR E+D++PLFEE G + E+ + KD+ TG +G F+ +
Sbjct: 6 SGVPMKDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYC 65
Query: 140 IFEEAGNAIRALNGHYIFPGEQASIKVRFADGEREHPVAP 179
+ A A AL+ PG I+V+ A E P
Sbjct: 66 ARDSALKAQSALHEQKTLPGMNRPIQVKPAASEGRGESGP 105
Score = 47.4 bits (111), Expect = 2e-05, Method: Composition-based stats.
Identities = 28/91 (30%), Positives = 52/91 (57%), Gaps = 7/91 (7%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQ-SRGCAFVQFSHREMALAAISG 240
KL+VG + + +++++ +F +G I ++ +++D L +GCAF+ + R+ AL A S
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 241 LNGTFTMRGSDQPLVVRIADPKKPRTGELRG 271
L+ T+ G ++P+ V KP E RG
Sbjct: 77 LHEQKTLPGMNRPIQV------KPAASEGRG 101
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 48/172 (27%), Positives = 80/172 (46%), Gaps = 18/172 (10%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
++L+V +P TEE++R LFE++G EV + KDK G+ F++ A A
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIAKV 76
Query: 150 ALNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIED 209
L+ P ++VRFA L V L + S + +EE FS +G +E
Sbjct: 77 ELDN---MPLRGKQLRVRFA--------CHSASLTVRNLPQYVSNELLEEAFSVFGQVER 125
Query: 210 IFIVRDELKQSRGCAFVQFSHREMALAAISGLN-GTFTMRGSDQPLVVRIAD 260
++ D+ + G V+FS + A A+ + G+F + +P+ V D
Sbjct: 126 AVVIVDDRGRPSGKGIVEFSGKPAARKALDRCSEGSFLLTTFPRPVTVEPMD 177
>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 = 55.8 bits (133), Expect = 5e-08, Method: Composition-based stats.
Identities = 40/142 (28%), Positives = 70/142 (49%), Gaps = 14/142 (9%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
K+++ + TE+++R F ++G V ++ + KD TG+ +G+ F+ FE+ +
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLS---FEKPSSVDEV 61
Query: 151 LNGHYIFPGEQASIKVRFADGEREHPVAPPD---KLYVGCLSKQTSKKEIEEVFSPYGHI 207
+ +I G + D +R P D K++VG + KE EE FS +G I
Sbjct: 62 VKTQHILDG-------KVIDPKRAIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTI 114
Query: 208 EDIFIVRD-ELKQSRGCAFVQF 228
D ++ D + QSRG FV +
Sbjct: 115 IDAQLMLDKDTGQSRGFGFVTY 136
>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 = 53.9 bits (128), Expect = 2e-07, Method: Composition-based stats.
Identities = 32/96 (33%), Positives = 55/96 (57%), Gaps = 5/96 (5%)
Query: 75 FNHPAPDHINDSGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYC 134
+ P + I D+ LYV +PRT T++ + +F ++G++++ + +DK TG+ +G
Sbjct: 3 YARPGGESIKDT----NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVA 58
Query: 135 FVKFTIFEEAGNAIRALNGHYIFPGEQASIKVRFAD 170
FV++ EEA AI ALN + I G + VR A+
Sbjct: 59 FVRYNKREEAQEAISALN-NVIPEGGSQPLSVRLAE 93
Score = 52.8 bits (125), Expect = 5e-07, Method: Composition-based stats.
Identities = 33/79 (41%), Positives = 47/79 (59%), Gaps = 2/79 (2%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK-QSRGCAFVQFSHREMALAAISGL 241
LYV L + + +++ +F YG I I+RD+L + RG AFV+++ RE A AIS L
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 242 NGTFTMRGSDQPLVVRIAD 260
N GS QPL VR+A+
Sbjct: 76 NNVIPEGGS-QPLSVRLAE 93
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 46/180 (25%), Positives = 81/180 (45%), Gaps = 7/180 (3%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
A LYV + TE + F G ++ + + +D T + GY +V F +A A+
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 75
Query: 150 ALNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIED 209
+N I + +++ ++ + + +++ L K K + + FS +G+I
Sbjct: 76 TMNFDVI---KGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILS 132
Query: 210 IFIVRDELKQSRGCAFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIADPKKPRTGEL 269
+V DE S+G FV F +E A AI +NG M +D+ + V +K R EL
Sbjct: 133 CKVVCDE-NGSKGYGFVHFETQEAAERAIEKMNG---MLLNDRKVFVGRFKSRKEREAEL 188
Score = 35.4 bits (80), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 176 PVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQFSHREMA 234
P P LYVG L ++ + E FSP G I I + RD + ++S G A+V F A
Sbjct: 11 PSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADA 70
Query: 235 LAAISGLN 242
A+ +N
Sbjct: 71 ERALDTMN 78
>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 = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 46/180 (25%), Positives = 81/180 (45%), Gaps = 7/180 (3%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
A LYV + TE + F G ++ + + +D T + GY +V F +A A+
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 70
Query: 150 ALNGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIED 209
+N I + +++ ++ + + +++ L K K + + FS +G+I
Sbjct: 71 TMNFDVI---KGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILS 127
Query: 210 IFIVRDELKQSRGCAFVQFSHREMALAAISGLNGTFTMRGSDQPLVVRIADPKKPRTGEL 269
+V DE S+G FV F +E A AI +NG M +D+ + V +K R EL
Sbjct: 128 CKVVCDE-NGSKGYGFVHFETQEAAERAIEKMNG---MLLNDRKVFVGRFKSRKEREAEL 183
Score = 35.0 bits (79), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 176 PVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQFSHREMA 234
P P LYVG L ++ + E FSP G I I + RD + ++S G A+V F A
Sbjct: 6 PSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADA 65
Query: 235 LAAISGLN 242
A+ +N
Sbjct: 66 ERALDTMN 73
>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 = 52.8 bits (125), Expect = 5e-07, Method: Composition-based stats.
Identities = 26/63 (41%), Positives = 37/63 (58%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L+V V ATEEDI F E+G + + L D+RTG +GY V++ ++EA A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 152 NGH 154
NG
Sbjct: 70 NGQ 72
Score = 33.5 bits (75), Expect = 0.28, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 4/75 (5%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQS-RGCAFVQFSHREMALAAISGL 241
L+V + ++ ++++I + F+ YG I++I + D +G V++ + A AA+ GL
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 242 NGTFTMRGSDQPLVV 256
NG M QP+ V
Sbjct: 70 NGQDLM---GQPISV 81
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 52.8 bits (125), Expect = 5e-07, Method: Composition-based stats.
Identities = 30/80 (37%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L+V V ATEEDI F E+G + + L D+RTG +GY V++ ++EA A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 152 NGHYIFPGEQASIKVRFADG 171
NG + G+ S+ F G
Sbjct: 70 NGQDLM-GQPISVDWCFVRG 88
Score = 33.1 bits (74), Expect = 0.37, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 4/75 (5%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQS-RGCAFVQFSHREMALAAISGL 241
L+V + ++ ++++I + F+ YG I++I + D +G V++ + A AA+ GL
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 242 NGTFTMRGSDQPLVV 256
NG M QP+ V
Sbjct: 70 NGQDLM---GQPISV 81
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 52.8 bits (125), Expect = 6e-07, Method: Composition-based stats.
Identities = 27/63 (42%), Positives = 43/63 (68%), Gaps = 1/63 (1%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISG 240
KL+VG LS T+++ +E+VFS YG I ++ +V+D E ++SRG FV F + + A A+
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 241 LNG 243
+NG
Sbjct: 74 MNG 76
Score = 46.2 bits (108), Expect = 5e-05, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 40/67 (59%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
KL+V + E+ + +F ++G + EVV+ KD+ T + +G+ FV F ++A +A+
Sbjct: 13 GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMM 72
Query: 150 ALNGHYI 156
A+NG +
Sbjct: 73 AMNGKSV 79
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 52.4 bits (124), Expect = 6e-07, Method: Composition-based stats.
Identities = 33/79 (41%), Positives = 47/79 (59%), Gaps = 2/79 (2%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQ-SRGCAFVQFSHREMALAAISGL 241
LYV L K S+KE+E++FS YG I I+ D+ SRG F++F R A AI GL
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 242 NGTFTMRGSDQPLVVRIAD 260
NG + G+ +P+ V+ A+
Sbjct: 64 NGQKPL-GAAEPITVKFAN 81
Score = 50.1 bits (118), Expect = 3e-06, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 47/81 (58%), Gaps = 1/81 (1%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
A LYV+ +P+T +++++ LF ++G +I + D+ TG +G F++F EA AI+
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 150 ALNGHYIFPGEQASIKVRFAD 170
LNG G I V+FA+
Sbjct: 62 GLNGQKPL-GAAEPITVKFAN 81
>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 = 52.0 bits (123), Expect = 7e-07, Method: Composition-based stats.
Identities = 30/80 (37%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L+V V ATEEDI F E+G + + L D+RTG +GY V++ ++EA A+ L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 152 NGHYIFPGEQASIKVRFADG 171
NG + G+ S+ F G
Sbjct: 72 NGQDLM-GQPISVDWCFVRG 90
Score = 32.7 bits (73), Expect = 0.49, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 4/75 (5%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQS-RGCAFVQFSHREMALAAISGL 241
L+V + ++ ++++I + F+ YG I++I + D +G V++ + A AA+ GL
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 242 NGTFTMRGSDQPLVV 256
NG M QP+ V
Sbjct: 72 NGQDLM---GQPISV 83
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 52.0 bits (123), Expect = 8e-07, Method: Composition-based stats.
Identities = 51/187 (27%), Positives = 89/187 (47%), Gaps = 31/187 (16%)
Query: 87 GIPAKLYVAPVPRTATEEDIRPLFEEH----------GNVIEVVLPKDKRTGQQQGYCFV 136
G +LYV +P TEE + F GN + V + Q + + F+
Sbjct: 2 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAV-----QINQDKNFAFL 56
Query: 137 KFTIFEEAGNAIRALNGHYIFPGEQASIKVRFADGEREH---PVAPPDKLYVGCLSKQTS 193
+F +E A+ A +G IF G+ S+K+R R H P+ KL++G L +
Sbjct: 57 EFRSVDETTQAM-AFDG-IIFQGQ--SLKIR-----RPHDYQPLPGAHKLFIGGLPNYLN 107
Query: 194 KKEIEEVFSPYGHIEDIFIVRDELKQ-SRGCAFVQFSHREMALAAISGLNGTFTMRGSDQ 252
+++E+ + +G ++ +V+D S+G AF ++ + AI+GLNG M+ D+
Sbjct: 108 DDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNG---MQLGDK 164
Query: 253 PLVVRIA 259
L+V+ A
Sbjct: 165 KLLVQRA 171
>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 = 52.0 bits (123), Expect = 9e-07, Method: Composition-based stats.
Identities = 30/80 (37%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L+V V ATEEDI F E+G + + L D+RTG +GY V++ ++EA A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 152 NGHYIFPGEQASIKVRFADG 171
NG + G+ S+ F G
Sbjct: 70 NGQDLM-GQPISVDWCFVRG 88
Score = 32.7 bits (73), Expect = 0.53, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 4/75 (5%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQS-RGCAFVQFSHREMALAAISGL 241
L+V + ++ ++++I + F+ YG I++I + D +G V++ + A AA+ GL
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 242 NGTFTMRGSDQPLVV 256
NG M QP+ V
Sbjct: 70 NGQDLM---GQPISV 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 = 51.6 bits (122), Expect = 1e-06, Method: Composition-based stats.
Identities = 51/187 (27%), Positives = 89/187 (47%), Gaps = 31/187 (16%)
Query: 87 GIPAKLYVAPVPRTATEEDIRPLFEEH----------GNVIEVVLPKDKRTGQQQGYCFV 136
G +LYV +P TEE + F GN + V + Q + + F+
Sbjct: 4 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAV-----QINQDKNFAFL 58
Query: 137 KFTIFEEAGNAIRALNGHYIFPGEQASIKVRFADGEREH---PVAPPDKLYVGCLSKQTS 193
+F +E A+ A +G IF G+ S+K+R R H P+ KL++G L +
Sbjct: 59 EFRSVDETTQAM-AFDG-IIFQGQ--SLKIR-----RPHDYQPLPGAHKLFIGGLPNYLN 109
Query: 194 KKEIEEVFSPYGHIEDIFIVRDELKQ-SRGCAFVQFSHREMALAAISGLNGTFTMRGSDQ 252
+++E+ + +G ++ +V+D S+G AF ++ + AI+GLNG M+ D+
Sbjct: 110 DDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNG---MQLGDK 166
Query: 253 PLVVRIA 259
L+V+ A
Sbjct: 167 KLLVQRA 173
>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 = 51.6 bits (122), Expect = 1e-06, Method: Composition-based stats.
Identities = 26/63 (41%), Positives = 37/63 (58%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L+V V ATEEDI F E+G + + L D+RTG +GY V++ ++EA A+ L
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 152 NGH 154
NG
Sbjct: 85 NGQ 87
Score = 32.7 bits (73), Expect = 0.51, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 4/75 (5%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQS-RGCAFVQFSHREMALAAISGL 241
L+V + ++ ++++I + F+ YG I++I + D +G V++ + A AA+ GL
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 242 NGTFTMRGSDQPLVV 256
NG M QP+ V
Sbjct: 85 NGQDLM---GQPISV 96
>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 = 51.2 bits (121), Expect = 2e-06, Method: Composition-based stats.
Identities = 30/80 (37%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L+V V ATEEDI F E+G + + L D+RTG +GY V++ ++EA A+ L
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 152 NGHYIFPGEQASIKVRFADG 171
NG + G+ S+ F G
Sbjct: 86 NGQDLM-GQPISVDWCFVRG 104
Score = 32.0 bits (71), Expect = 0.84, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 4/75 (5%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQS-RGCAFVQFSHREMALAAISGL 241
L+V + ++ ++++I + F+ YG I++I + D +G V++ + A AA+ GL
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 242 NGTFTMRGSDQPLVV 256
NG M QP+ V
Sbjct: 86 NGQDLM---GQPISV 97
>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 = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 37/63 (58%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
+Y+ +P TEE I L G VI + + D +TG+ +GY F++F E + +A+R L
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 152 NGH 154
NG+
Sbjct: 67 NGY 69
Score = 32.3 bits (72), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 41/67 (61%), Gaps = 2/67 (2%)
Query: 179 PPDKL-YVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALA 236
PP ++ Y+G + ++++I ++ S G + ++ ++ D + +S+G AF++F E + +
Sbjct: 2 PPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSAS 61
Query: 237 AISGLNG 243
A+ LNG
Sbjct: 62 AVRNLNG 68
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 49.3 bits (116), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 34/100 (34%), Positives = 46/100 (46%), Gaps = 9/100 (9%)
Query: 77 HPAPDHINDSGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFV 136
+P PD + + L V +P T E +R LFE +G + V + D+ T Q +GY FV
Sbjct: 36 NPEPDVLRN------LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFV 89
Query: 137 KFTIFEEAGNAIRALNGHYIFPGEQASIKVRFADGEREHP 176
KF A AI LNG I +KV A + P
Sbjct: 90 KFQSGSSAQQAIAGLNGFNIL---NKRLKVALAASGHQRP 126
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
L V + + ++ ++F YG IE + IV D E +QSRG FV+F A AI+GL
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 242 NG 243
NG
Sbjct: 105 NG 106
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 48.9 bits (115), Expect = 7e-06, Method: Composition-based stats.
Identities = 26/85 (30%), Positives = 50/85 (58%), Gaps = 5/85 (5%)
Query: 180 PDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAIS 239
P KL++G L+++T++K ++ VF +G I ++ +++D +SRG AF+ F + A A
Sbjct: 7 PGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAK 66
Query: 240 GLNGTFTMRGSDQPLVVRIADPKKP 264
+NG ++ G +++ KKP
Sbjct: 67 DMNGK-SLHGK----AIKVEQAKKP 86
Score = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 32/94 (34%), Positives = 50/94 (53%), Gaps = 6/94 (6%)
Query: 89 PAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAI 148
P KL++ + R E+ ++ +F +HG + EV+L KD RT + +G+ F+ F +A NA
Sbjct: 7 PGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKD-RTSKSRGFAFITFENPADAKNAA 65
Query: 149 RALNGHYI----FPGEQASIKVRFADGEREHPVA 178
+ +NG + EQA K F G R P A
Sbjct: 66 KDMNGKSLHGKAIKVEQAK-KPSFQSGGRRRPPA 98
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 48.9 bits (115), Expect = 7e-06, Method: Composition-based stats.
Identities = 24/71 (33%), Positives = 42/71 (59%), Gaps = 2/71 (2%)
Query: 89 PAK--LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGN 146
P+K +YV+ +P + T D+ +F ++G V++V + KDK T + +G F+ F + A N
Sbjct: 14 PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQN 73
Query: 147 AIRALNGHYIF 157
RA+N +F
Sbjct: 74 CTRAINNKQLF 84
Score = 33.5 bits (75), Expect = 0.35, Method: Composition-based stats.
Identities = 16/61 (26%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
+YV L + ++ +FS YG + + I++D + ++S+G AF+ F ++ A +
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 242 N 242
N
Sbjct: 79 N 79
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 48.5 bits (114), Expect = 1e-05, Method: Composition-based stats.
Identities = 25/62 (40%), Positives = 36/62 (58%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
LYV + TE+ +R +FE G + +VL KD TG+ +GY F+ F+ E A A+ L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 152 NG 153
NG
Sbjct: 68 NG 69
Score = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 24/68 (35%), Positives = 40/68 (58%), Gaps = 2/68 (2%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
LYVG L ++ + +F P+G I++I +++D + +S+G F+ FS E A A+ L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 242 NGTFTMRG 249
NG F + G
Sbjct: 68 NG-FELAG 74
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 32/49 (65%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKF 138
KL+V + + T+E +R F ++G V++ V+ KDK T Q +G+ FVKF
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF 65
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 42/88 (47%), Gaps = 2/88 (2%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDE-LKQSRGCAFVQFSHREMALAAISG 240
KL+VG L T+++ + FS YG + D I++D+ QSRG FV+F ++
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 241 LNGTFTMRGSD-QPLVVRIADPKKPRTG 267
T R D +P R P P +G
Sbjct: 78 RPHTLDGRNIDPKPCTPRGMQPSGPSSG 105
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 54/199 (27%), Positives = 92/199 (46%), Gaps = 43/199 (21%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEH----------GN-VIEVVLPKDKRTGQQQGYCFVKFT 139
+LYV +P TEE + F GN V+ V + +DK + F++F
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FAFLEFR 59
Query: 140 IFEEAGNAIRALNGHYIFPGEQASIKVRF------ADGEREHP---------VAPPD--- 181
+E A+ A +G IF G+ S+K+R G E+P PD
Sbjct: 60 SVDETTQAM-AFDG-IIFQGQ--SLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAH 115
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK-QSRGCAFVQFSHREMALAAISG 240
KL++G L + +++E+ + +G ++ +V+D S+G AF ++ + AI+G
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 175
Query: 241 LNGTFTMRGSDQPLVVRIA 259
LNG M+ D+ L+V+ A
Sbjct: 176 LNG---MQLGDKKLLVQRA 191
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 48.1 bits (113), Expect = 1e-05, Method: Composition-based stats.
Identities = 23/57 (40%), Positives = 39/57 (68%), Gaps = 1/57 (1%)
Query: 188 LSKQTSKKEIEEVFSPYGHIEDIFIVRDELK-QSRGCAFVQFSHREMALAAISGLNG 243
LS+ T + +++E+F P+G I I++ +D+ QS+G AF+ F RE A AI+G++G
Sbjct: 23 LSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG 79
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 35/64 (54%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
A + V + E D++ LF G++ + L KDK TGQ +G+ F+ F E+A AI
Sbjct: 16 ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIA 75
Query: 150 ALNG 153
++G
Sbjct: 76 GVSG 79
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 48.1 bits (113), Expect = 1e-05, Method: Composition-based stats.
Identities = 28/73 (38%), Positives = 41/73 (56%), Gaps = 2/73 (2%)
Query: 178 APPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALA 236
A P +LYVG L ++ + +F P+G IE I ++ D E +S+G F+ FS E A
Sbjct: 24 AGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKK 83
Query: 237 AISGLNGTFTMRG 249
A+ LNG F + G
Sbjct: 84 ALEQLNG-FELAG 95
Score = 47.8 bits (112), Expect = 1e-05, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 37/68 (54%)
Query: 86 SGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAG 145
S P +LYV + TE+ +R +FE G + + L D TG+ +GY F+ F+ E A
Sbjct: 23 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAK 82
Query: 146 NAIRALNG 153
A+ LNG
Sbjct: 83 KALEQLNG 90
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 37/63 (58%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
A +YV + +E + LF + G V+ +PKD+ TGQ QGY FV+F E+A AI+
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75
Query: 150 ALN 152
++
Sbjct: 76 IMD 78
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 79/165 (47%), Gaps = 13/165 (7%)
Query: 88 IPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNA 147
I +++YV + E+ IR F G + + + D T + +G+ FV++ + E A A
Sbjct: 27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLA 86
Query: 148 IRALNGHYIFPGEQASIKV-RFADGEREHPVAPP--------DKLYVGCLSKQTSKKEIE 198
+ +N + G +IKV R ++ + P+ +++YV + + S +I+
Sbjct: 87 LEQMN-SVMLGGR--NIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIK 143
Query: 199 EVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGLN 242
VF +G I+ + RD + +G F+++ + + A+S +N
Sbjct: 144 SVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMN 188
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 45/78 (57%), Gaps = 5/78 (6%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
++YVA V + +++DI+ +FE G + L +D TG+ +GY F+++ + + +A+ +
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 186
Query: 151 LN-----GHYIFPGEQAS 163
+N G Y+ G+ +
Sbjct: 187 MNLFDLGGQYLRVGKAVT 204
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 167 RFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQS-RGCAF 225
R + +R+ +A ++YVG + + + I + F+P+G I+ I + D + +G AF
Sbjct: 15 RGSAAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAF 74
Query: 226 VQFSHREMALAAISGLN 242
V++ E A A+ +N
Sbjct: 75 VEYEVPEAAQLALEQMN 91
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 47.8 bits (112), Expect = 1e-05, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 38/65 (58%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
+Y+ +P TEE I L G VI + + D +TG+ +GY F++F E + +A+R L
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 152 NGHYI 156
NG+ +
Sbjct: 65 NGYQL 69
Score = 31.2 bits (69), Expect = 1.6, Method: Composition-based stats.
Identities = 17/66 (25%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 179 PPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAA 237
P +Y+G + ++++I ++ S G + ++ ++ D + +S+G AF++F E + +A
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 238 ISGLNG 243
+ LNG
Sbjct: 61 VRNLNG 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 = 47.8 bits (112), Expect = 1e-05, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 38/65 (58%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
+Y+ +P TEE I L G VI + + D +TG+ +GY F++F E + +A+R L
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 152 NGHYI 156
NG+ +
Sbjct: 66 NGYQL 70
Score = 31.2 bits (69), Expect = 1.5, Method: Composition-based stats.
Identities = 17/67 (25%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 178 APPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALA 236
P +Y+G + ++++I ++ S G + ++ ++ D + +S+G AF++F E + +
Sbjct: 1 GPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSAS 60
Query: 237 AISGLNG 243
A+ LNG
Sbjct: 61 AVRNLNG 67
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 27/61 (44%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
LYVG L+++ K + F P+G I DI I D E ++ RG AFV+F E A AAI +
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 242 N 242
N
Sbjct: 68 N 68
Score = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 35/66 (53%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
LYV + ++ + F G++ ++ +P D T + +G+ FV+F + E+A AI +
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 152 NGHYIF 157
N +F
Sbjct: 68 NESELF 73
>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 = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 27/61 (44%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
LYVG L+++ K + F P+G I DI I D E ++ RG AFV+F E A AAI +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 242 N 242
N
Sbjct: 65 N 65
Score = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 35/66 (53%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
LYV + ++ + F G++ ++ +P D T + +G+ FV+F + E+A AI +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 152 NGHYIF 157
N +F
Sbjct: 65 NESELF 70
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 27/61 (44%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
LYVG L+++ K + F P+G I DI I D E ++ RG AFV+F E A AAI +
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 242 N 242
N
Sbjct: 126 N 126
Score = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 35/66 (53%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
LYV + ++ + F G++ ++ +P D T + +G+ FV+F + E+A AI +
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 152 NGHYIF 157
N +F
Sbjct: 126 NESELF 131
>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 = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 27/61 (44%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
LYVG L+++ K + F P+G I DI I D E ++ RG AFV+F E A AAI +
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 242 N 242
N
Sbjct: 70 N 70
Score = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 35/66 (53%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
LYV + ++ + F G++ ++ +P D T + +G+ FV+F + E+A AI +
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 152 NGHYIF 157
N +F
Sbjct: 70 NESELF 75
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 47.4 bits (111), Expect = 2e-05, Method: Composition-based stats.
Identities = 24/62 (38%), Positives = 38/62 (61%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
++V +P ATEE ++ +F E G V+ L D+ TG+ +GY F ++ E A +A+R L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 152 NG 153
NG
Sbjct: 71 NG 72
Score = 35.4 bits (80), Expect = 0.087, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
++VG + + ++++++++FS G + +V D E + +G F ++ +E AL+A+ L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 242 NG 243
NG
Sbjct: 71 NG 72
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 27/61 (44%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
LYVG L+++ K + F P+G I DI I D E ++ RG AFV+F E A AAI +
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 242 N 242
N
Sbjct: 75 N 75
Score = 38.1 bits (87), Expect = 0.011, Method: Composition-based stats.
Identities = 23/88 (26%), Positives = 42/88 (47%), Gaps = 3/88 (3%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
LYV + ++ + F G++ ++ +P D T + +G+ FV+F + E+A AI +
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 152 NGHYIFPGEQASIKVRFADGEREHPVAP 179
N +F +I+V A R P
Sbjct: 75 NESELF---GRTIRVNLAKPMRIKESGP 99
>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 = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 38/166 (22%), Positives = 79/166 (47%), Gaps = 13/166 (7%)
Query: 87 GIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGN 146
I ++YV + E+ IR F G + + + D T + +G+ FV++ + E A
Sbjct: 11 AIMCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQL 70
Query: 147 AIRALNGHYIFPGEQASIKV-RFADGEREHPVAPP--------DKLYVGCLSKQTSKKEI 197
A+ +N + G + +IKV R ++ + P+ +++YV + + S +I
Sbjct: 71 ALEQMNS--VMLGGR-NIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDI 127
Query: 198 EEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGLN 242
+ VF +G I+ + RD + +G F+++ + + A+S +N
Sbjct: 128 KSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMN 173
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 45/78 (57%), Gaps = 5/78 (6%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
++YVA V + +++DI+ +FE G + L +D TG+ +GY F+++ + + +A+ +
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 171
Query: 151 LN-----GHYIFPGEQAS 163
+N G Y+ G+ +
Sbjct: 172 MNLFDLGGQYLRVGKAVT 189
Score = 37.0 bits (84), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 169 ADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQS-RGCAFVQ 227
A +R+ +A ++YVG + + + I + F+P+G I+ I + D + +G AFV+
Sbjct: 2 AMAQRQRALAIMCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVE 61
Query: 228 FSHREMALAAISGLNGTF 245
+ E A A+ +N
Sbjct: 62 YEVPEAAQLALEQMNSVM 79
>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 = 46.2 bits (108), Expect = 5e-05, Method: Composition-based stats.
Identities = 27/73 (36%), Positives = 43/73 (58%)
Query: 172 EREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHR 231
E+E + LYVG LS T++++I E+FS G I+ I + D++K + G FV++ R
Sbjct: 10 EQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSR 69
Query: 232 EMALAAISGLNGT 244
A A+ +NGT
Sbjct: 70 ADAENAMRYINGT 82
Score = 42.0 bits (97), Expect = 8e-04, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
LYV + TEE I LF + G++ ++++ DK G+CFV++ +A NA+R +
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK-TACGFCFVEYYSRADAENAMRYI 79
Query: 152 NG 153
NG
Sbjct: 80 NG 81
>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 = 46.2 bits (108), Expect = 5e-05, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 36/62 (58%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
LYV + TEE I LF + G++ ++++ DK G+CFV++ +A NA+R +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 152 NG 153
NG
Sbjct: 102 NG 103
Score = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 32/103 (31%), Positives = 55/103 (53%), Gaps = 2/103 (1%)
Query: 144 AGNAIRALNG-HYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFS 202
+G ++AL Y+ + R + E+E + LYVG LS T++++I E+FS
Sbjct: 2 SGGLLKALRSDSYVELSQYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFS 61
Query: 203 PYGHIEDIFIVRDELKQSR-GCAFVQFSHREMALAAISGLNGT 244
G I+ I + D++K++ G FV++ R A A+ +NGT
Sbjct: 62 KSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGT 104
>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 = 45.8 bits (107), Expect = 6e-05, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L V +P+ T++++R LF G V L +DK G GY FV + ++A AI L
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 152 NGHYIFPGEQASIKVRFA 169
NG + + +IKV +A
Sbjct: 82 NGLRL---QSKTIKVSYA 96
Score = 33.9 bits (76), Expect = 0.23, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK-QSRGCAFVQFSHREMALAAISGL 241
L V L + ++ E+ +FS G +E ++RD++ S G FV + + A AI+ L
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 242 NGTFTMRGSDQPLVVRIADP 261
NG +R + + V A P
Sbjct: 82 NG---LRLQSKTIKVSYARP 98
>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 = 45.4 bits (106), Expect = 8e-05, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L V +P+ T++++R LF G V L +DK G GY FV + ++A AI L
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 152 NGHYIFPGEQASIKVRFA 169
NG + + +IKV +A
Sbjct: 67 NGLRL---QSKTIKVSYA 81
Score = 33.5 bits (75), Expect = 0.29, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK-QSRGCAFVQFSHREMALAAISGL 241
L V L + ++ E+ +FS G +E ++RD++ S G FV + + A AI+ L
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 242 NGTFTMRGSDQPLVVRIADP 261
NG +R + + V A P
Sbjct: 67 NG---LRLQSKTIKVSYARP 83
>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 = 45.4 bits (106), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 35/65 (53%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
++V + T EDI+ F G + + + KD TG+ +GY FV F +A NAI+ +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 152 NGHYI 156
G ++
Sbjct: 78 GGQWL 82
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
++VG LS + + ++I+ F+P+G I D +V+D +S+G FV F ++ A AI +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 242 NGTF 245
G +
Sbjct: 78 GGQW 81
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 3/78 (3%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L V +P+ T+++ + LF G++ L +DK TGQ GY FV ++ +A AI L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 152 NGHYIFPGEQASIKVRFA 169
NG + + +IKV +A
Sbjct: 67 NGLKL---QTKTIKVSYA 81
>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 = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 45/75 (60%), Gaps = 3/75 (4%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHG-NVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
+ + +P+ ATE+DIR + HG EV L ++K +GQ +G+ FV+F+ ++A + A
Sbjct: 4 VMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEA 63
Query: 151 LNGHYI-FPGEQASI 164
N H + G++ S+
Sbjct: 64 -NQHSLNILGQKVSM 77
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 38/87 (43%), Gaps = 5/87 (5%)
Query: 180 PDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAIS 239
P LY+ L ++E+E + P+G + I+RD SRG F + E A I
Sbjct: 25 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIG 84
Query: 240 GLNGTFT-----MRGSDQPLVVRIADP 261
NG F + +PL+ + + P
Sbjct: 85 HFNGKFIKTPPGVSAPTEPLLCKFSGP 111
>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 = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 44/78 (56%), Gaps = 5/78 (6%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
++YVA V + +++DI+ +FE G + L +D TG+ +GY F+++ + + +A+ +
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 170
Query: 151 -----LNGHYIFPGEQAS 163
L G Y+ G+ +
Sbjct: 171 XNLFDLGGQYLRVGKAVT 188
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 41/170 (24%), Positives = 75/170 (44%), Gaps = 10/170 (5%)
Query: 88 IPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNA 147
I ++YV + E+ IR F G + + D T + +G+ FV++ + E A A
Sbjct: 11 IXCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLA 70
Query: 148 IR-----ALNGHYIFPGEQASIKVR--FADGEREHPVAPPDKLYVGCLSKQTSKKEIEEV 200
+ L G I G ++I D E A +++YV + + S +I+ V
Sbjct: 71 LEQXNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF-NRIYVASVHQDLSDDDIKSV 129
Query: 201 FSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGLNGTFTMRG 249
F +G I+ + RD + +G F+++ + + A+S N F + G
Sbjct: 130 FEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXN-LFDLGG 178
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 172 EREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQFSH 230
+R+ +A ++YVG + + + I + F+P+G I+ I D + + +G AFV++
Sbjct: 4 QRQRALAIXCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEV 63
Query: 231 REMALAAISGLN 242
E A A+ N
Sbjct: 64 PEAAQLALEQXN 75
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 24/62 (38%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQFSHREMALAAISGL 241
L V L+ +TS + VF YG + D++I RD K+SRG AFV+F + A A+ +
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 242 NG 243
+G
Sbjct: 133 DG 134
Score = 42.0 bits (97), Expect = 8e-04, Method: Composition-based stats.
Identities = 23/80 (28%), Positives = 47/80 (58%), Gaps = 8/80 (10%)
Query: 102 TEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRALNGHYIFPGEQ 161
+ + +R +FE++G V +V +P+D+ T + +G+ FV+F +A +A+ A++G + +
Sbjct: 83 SPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVL---DG 139
Query: 162 ASIKVRFADGEREHPVAPPD 181
++V+ A R PPD
Sbjct: 140 RELRVQMARYGR-----PPD 154
>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 = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 28/79 (35%), Positives = 41/79 (51%), Gaps = 6/79 (7%)
Query: 171 GEREHPVAPPD-----KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCA 224
G + PPD L V L+ +TS + VF YG + D++I RD K+SRG A
Sbjct: 33 GSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFA 92
Query: 225 FVQFSHREMALAAISGLNG 243
FV+F + A A+ ++G
Sbjct: 93 FVRFHDKRDAEDAMDAMDG 111
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 36/52 (69%)
Query: 102 TEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRALNG 153
+ + +R +FE++G V +V +P+D+ T + +G+ FV+F +A +A+ A++G
Sbjct: 60 SPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 111
>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 = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 23/34 (67%)
Query: 430 ASPECDWSEHTCPDGNKYYYNCETCESRWDKPEE 463
S + W+EH PDG YYYN ET +S W+KP++
Sbjct: 8 GSAKSMWTEHKSPDGRTYYYNTETKQSTWEKPDD 41
>pdb|2L5F|A Chain A, Solution Structure Of The Tandem Ww Domains From HypaFBP11
Length = 92
Score = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 28/55 (50%)
Query: 409 NPQTSASASTIPTVPQSPQVAASPECDWSEHTCPDGNKYYYNCETCESRWDKPEE 463
N +T S P ++P +C W E+ G YYYN +T ESRW KP+E
Sbjct: 30 NTETKQSTWEKPDDLKTPAEQLLSKCPWKEYKSDSGKTYYYNSQTKESRWAKPKE 84
Score = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 17/35 (48%), Positives = 24/35 (68%)
Query: 429 AASPECDWSEHTCPDGNKYYYNCETCESRWDKPEE 463
A+ + W+EH PDG YYYN ET +S W+KP++
Sbjct: 9 ASGAKSMWTEHKSPDGRTYYYNTETKQSTWEKPDD 43
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 33/48 (68%), Gaps = 1/48 (2%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQF 228
K+++G LS QT+++ + E F +G +++ ++RD L K+SRG FV F
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 49
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 36/99 (36%), Positives = 53/99 (53%), Gaps = 5/99 (5%)
Query: 169 ADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQ 227
+ G R +P P L V LS T+++++ EVFS YG I D+ IV D+ ++SRG AFV
Sbjct: 5 SSGNRANP-DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVY 63
Query: 228 FSHREMALAAISGLNGTFTMRGSDQPLVVRIADPKKPRT 266
F + + A A NG M + + V + K+P T
Sbjct: 64 FENVDDAKEAKERANG---MELDGRRIRVDFSITKRPHT 99
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 34/65 (52%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
++V + T EDI+ F G + + + KD TG+ +GY FV F +A NAI +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 152 NGHYI 156
G ++
Sbjct: 78 GGQWL 82
Score = 42.4 bits (98), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
++VG LS + + ++I+ F+P+G I D +V+D +S+G FV F ++ A AI +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 242 NGTF 245
G +
Sbjct: 78 GGQW 81
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 36/97 (37%), Positives = 52/97 (53%), Gaps = 5/97 (5%)
Query: 171 GEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQFS 229
G R +P P L V LS T+++++ EVFS YG I D+ IV D+ ++SRG AFV F
Sbjct: 4 GSRANP-DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFE 62
Query: 230 HREMALAAISGLNGTFTMRGSDQPLVVRIADPKKPRT 266
+ + A A NG M + + V + K+P T
Sbjct: 63 NVDDAKEAKERANG---MELDGRRIRVDFSITKRPHT 96
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 41/85 (48%), Gaps = 8/85 (9%)
Query: 69 IGRKRGFNHPAPDHINDSGIP--AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKR 126
IG N A DHI S P Y+ +P ATE D+ PLF+ G ++ D +
Sbjct: 5 IGLPPQVNPQAVDHIIRSAPPRVTTAYIGNIPHFATEADLIPLFQNFGFIL------DFK 58
Query: 127 TGQQQGYCFVKFTIFEEAGNAIRAL 151
++G CF+K+ E+A I AL
Sbjct: 59 HYPEKGCCFIKYDTHEQAAVCIVAL 83
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 42.7 bits (99), Expect = 5e-04, Method: Composition-based stats.
Identities = 20/53 (37%), Positives = 32/53 (60%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFE 142
+ L V +P TE+D++ F G V+ V + KD +TG +G+ FV+FT +E
Sbjct: 16 SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYE 68
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 42.4 bits (98), Expect = 6e-04, Method: Composition-based stats.
Identities = 31/74 (41%), Positives = 43/74 (58%), Gaps = 2/74 (2%)
Query: 171 GEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQFS 229
G R +P P L V LS T+++++ EVFS YG I D+ IV D+ ++SRG AFV F
Sbjct: 38 GNRANP-DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFE 96
Query: 230 HREMALAAISGLNG 243
+ + A A NG
Sbjct: 97 NVDDAKEAKERANG 110
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 42.4 bits (98), Expect = 6e-04, Method: Composition-based stats.
Identities = 31/76 (40%), Positives = 44/76 (57%), Gaps = 2/76 (2%)
Query: 169 ADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQ 227
+ G R +P P L V LS T+++++ EVFS YG I D+ IV D+ ++SRG AFV
Sbjct: 5 SSGNRANP-DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVY 63
Query: 228 FSHREMALAAISGLNG 243
F + + A A NG
Sbjct: 64 FENVDDAKEAKERANG 79
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 42.4 bits (98), Expect = 7e-04, Method: Composition-based stats.
Identities = 36/153 (23%), Positives = 69/153 (45%), Gaps = 5/153 (3%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
LYV + + TE+ ++ F+ G + + + DK + Y FV++ +A A++ L
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQTL 61
Query: 152 NGHYIFPGEQASIKVRFADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIF 211
NG I E +K+ +A ++ L+VG L+ + + F +
Sbjct: 62 NGKQI---ENNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGH 118
Query: 212 IVRD-ELKQSRGCAFVQFSHREMALAAISGLNG 243
++ D + SRG FV F+ ++ A A+ + G
Sbjct: 119 VMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQG 151
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
+L+V + T++EED+ LF +G + E+ P D T + +G+ FV F E A A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 151 LNGHYIFPGEQASI 164
++G +F G +
Sbjct: 70 VDGQ-VFQGRMLHV 82
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 40/63 (63%), Gaps = 1/63 (1%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQFSHREMALAAISG 240
+L+V LS +S++++E++FS YG + ++ D L K+ +G AFV F E A+ A +
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 241 LNG 243
++G
Sbjct: 70 VDG 72
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 42/75 (56%), Gaps = 9/75 (12%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL++ +PR ATE++IR LFE++G V+E + K+ Y FV A +AIR
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--------YGFVHIEDKTAAEDAIRN 61
Query: 151 LNGHYIFPGEQASIK 165
L+ HY G +++
Sbjct: 62 LH-HYKLHGVNINVE 75
>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 = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/28 (57%), Positives = 21/28 (75%)
Query: 436 WSEHTCPDGNKYYYNCETCESRWDKPEE 463
W+EH PDG YYYN ET +S W+KP++
Sbjct: 3 WTEHKSPDGRTYYYNTETKQSTWEKPDD 30
>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 = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 28/89 (31%), Positives = 45/89 (50%), Gaps = 1/89 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQ-SRGCAFVQFSHREMALAAISGL 241
L+V + ++ + EI+E F YG I++I + D S+G A V++ + ALAA L
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 242 NGTFTMRGSDQPLVVRIADPKKPRTGELR 270
NG M + Q + PK+ + E R
Sbjct: 135 NGAEIMGQTIQVDWCFVKGPKRVKKSEKR 163
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 25/82 (30%), Positives = 43/82 (52%), Gaps = 1/82 (1%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L+V + A E++I+ F ++G + + L D+RTG +GY V++ ++A A AL
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 152 NGHYIFPGEQASIKVRFADGER 173
NG I G+ + F G +
Sbjct: 135 NGAEIM-GQTIQVDWCFVKGPK 155
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 33/48 (68%), Gaps = 1/48 (2%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQF 228
K+++G LS QT+++ + E F +G +++ ++RD L K+SRG FV F
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 74
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 25/82 (30%), Positives = 43/82 (52%), Gaps = 1/82 (1%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L+V + A E++I+ F ++G + + L D+RTG +GY V++ ++A A AL
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 152 NGHYIFPGEQASIKVRFADGER 173
NG I G+ + F G +
Sbjct: 89 NGAEIM-GQTIQVDWCFVKGPK 109
Score = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 1/82 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQ-SRGCAFVQFSHREMALAAISGL 241
L+V + ++ + EI+E F YG I++I + D S+G A V++ + ALAA L
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 242 NGTFTMRGSDQPLVVRIADPKK 263
NG M + Q + PK+
Sbjct: 89 NGAEIMGQTIQVDWCFVKGPKR 110
>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 = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 22/35 (62%)
Query: 429 AASPECDWSEHTCPDGNKYYYNCETCESRWDKPEE 463
A+ +W+E+ DG YYYN T ES W+KP+E
Sbjct: 1 GATAVSEWTEYKTADGKTYYYNNRTLESTWEKPQE 35
>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 = 0.002, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKR-TGQQQGYCFVKFTIFEEAGNAI 148
+K+ V +P A + +IR LF G + V LPK TG +G+ FV F ++A A
Sbjct: 16 SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
Query: 149 RAL 151
AL
Sbjct: 76 NAL 78
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
K++V +P T+ +R FE G++ E V+ D++TG+ +GY FV A A +
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 151 LNGHYIFPGEQASIKVRF 168
N I G +A++ + +
Sbjct: 79 PNP--IIDGRKANVNLAY 94
Score = 38.1 bits (87), Expect = 0.011, Method: Composition-based stats.
Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 1/87 (1%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISG 240
K++VG L T+ + + F +G IE+ ++ D + +SRG FV + R A A
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 241 LNGTFTMRGSDQPLVVRIADPKKPRTG 267
N R ++ L A P+ +TG
Sbjct: 79 PNPIIDGRKANVNLAYLGAKPRSLQTG 105
>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 = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 15/36 (41%), Positives = 23/36 (63%)
Query: 428 VAASPECDWSEHTCPDGNKYYYNCETCESRWDKPEE 463
+ A+ +W+E+ DG +YYN T ES W+KP+E
Sbjct: 3 MGATAVSEWTEYKTADGKTFYYNNRTLESTWEKPQE 38
>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 = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 28/87 (32%), Positives = 43/87 (49%), Gaps = 4/87 (4%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGLN 242
+++ L K K + + FS +G+I +V DE S+G FV F +E A AI +N
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE-NGSKGYGFVHFETQEAAERAIEKMN 66
Query: 243 GTFTMRGSDQPLVVRIADPKKPRTGEL 269
G M +D+ + V +K R EL
Sbjct: 67 G---MLLNDRKVFVGRFKSRKEREAEL 90
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 22/66 (33%), Positives = 40/66 (60%), Gaps = 2/66 (3%)
Query: 180 PDKLYVGCLSKQTSKKEIEEVFSPYGHIE--DIFIVRDELKQSRGCAFVQFSHREMALAA 237
P K+++G L++ +K I E+FS YG I+ D+ + R S+G A+V+F + + A A
Sbjct: 4 PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKA 63
Query: 238 ISGLNG 243
+ ++G
Sbjct: 64 LKHMDG 69
Score = 33.9 bits (76), Expect = 0.25, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 38/69 (55%), Gaps = 1/69 (1%)
Query: 89 PAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQ-QQGYCFVKFTIFEEAGNA 147
P K+++ + R T++ I +F +G + + +P ++ +GY +V+F +EA A
Sbjct: 4 PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKA 63
Query: 148 IRALNGHYI 156
++ ++G I
Sbjct: 64 LKHMDGGQI 72
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 33/62 (53%), Gaps = 8/62 (12%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL+V + T T +++R FEE+G VIE + KD Y FV E+A AIR
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRG 63
Query: 151 LN 152
L+
Sbjct: 64 LD 65
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
KL+VG +S + +E+ F YG + + IV+D AFV E A+ AI GL
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDY-------AFVHMERAEDAVEAIRGL 64
Query: 242 NGT 244
+ T
Sbjct: 65 DNT 67
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 28/84 (33%), Positives = 42/84 (50%), Gaps = 5/84 (5%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
K+YVG L K E+E FS YG + ++I R+ G AFV+F A A+ GL
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN----PPGFAFVEFEDPRDAEDAVRGL 57
Query: 242 NGTFTMRGSDQPLVVRIADPKKPR 265
+G + GS + + P++ R
Sbjct: 58 DGK-VICGSRVRVELSTGMPRRSR 80
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L V +P+ T+ ++ LF G + + +D +TG GY FV FT ++ AI+ L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 152 NG 153
NG
Sbjct: 66 NG 67
>pdb|2JXW|A Chain A, Solution Structure Of The Tandem Ww Domains Of Fbp21
Length = 75
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 436 WSEHTCPDGNKYYYNCETCESRWDKPEE 463
W E DG YYYN ET ESRW+KP++
Sbjct: 48 WVEGLSEDGFTYYYNTETGESRWEKPDD 75
Score = 29.3 bits (64), Expect = 5.5, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 436 WSEHTCPDGNKYYYNCETCESRWDKPEEY 464
W E +G YYY+ + S+W+KPE +
Sbjct: 7 WVEGITSEGYHYYYDLISGASQWEKPEGF 35
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/116 (30%), Positives = 52/116 (44%), Gaps = 11/116 (9%)
Query: 133 YCFV---KFTIFEEAGNAIRALNGHYIFPGEQASIKVRFADGEREHPVAPPDKLY-VGCL 188
YCFV K T F + LNG A + R + E + P D L V L
Sbjct: 50 YCFVDKYKGTAF------VTLLNGEQAEAAINAFHQSRLRERELSVQLQPTDALLCVANL 103
Query: 189 SKQTSKKEIEEVFSPYGHIEDIFIVRDE-LKQSRGCAFVQFSHREMALAAISGLNG 243
++++ EE+ P+G +E F+V E QS+G F ++ ++ A A S L G
Sbjct: 104 PPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 159
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 33/69 (47%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
A L VA +P + T++ L G++ L +RTGQ +GY F ++ + A A
Sbjct: 96 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKS 155
Query: 150 ALNGHYIFP 158
L G + P
Sbjct: 156 DLLGKPLGP 164
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/116 (30%), Positives = 52/116 (44%), Gaps = 11/116 (9%)
Query: 133 YCFV---KFTIFEEAGNAIRALNGHYIFPGEQASIKVRFADGEREHPVAPPDKLY-VGCL 188
YCFV K T F + LNG A + R + E + P D L V L
Sbjct: 48 YCFVDKYKGTAF------VTLLNGEQAEAAINAFHQSRLRERELSVQLQPTDALLCVANL 101
Query: 189 SKQTSKKEIEEVFSPYGHIEDIFIVRDE-LKQSRGCAFVQFSHREMALAAISGLNG 243
++++ EE+ P+G +E F+V E QS+G F ++ ++ A A S L G
Sbjct: 102 PPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 157
Score = 33.5 bits (75), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 33/69 (47%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
A L VA +P + T++ L G++ L +RTGQ +GY F ++ + A A
Sbjct: 94 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKS 153
Query: 150 ALNGHYIFP 158
L G + P
Sbjct: 154 DLLGKPLGP 162
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/116 (30%), Positives = 52/116 (44%), Gaps = 11/116 (9%)
Query: 133 YCFV---KFTIFEEAGNAIRALNGHYIFPGEQASIKVRFADGEREHPVAPPDKLY-VGCL 188
YCFV K T F + LNG A + R + E + P D L V L
Sbjct: 50 YCFVDKYKGTAF------VTLLNGEQAEAAINAFHQSRLRERELSVQLQPTDALLCVANL 103
Query: 189 SKQTSKKEIEEVFSPYGHIEDIFIVRDE-LKQSRGCAFVQFSHREMALAAISGLNG 243
++++ EE+ P+G +E F+V E QS+G F ++ ++ A A S L G
Sbjct: 104 PPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 159
Score = 33.5 bits (75), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 33/69 (47%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
A L VA +P + T++ L G++ L +RTGQ +GY F ++ + A A
Sbjct: 96 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKS 155
Query: 150 ALNGHYIFP 158
L G + P
Sbjct: 156 DLLGKPLGP 164
>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 = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKF 138
K++V + EE IR F G V + LP D +T +++G+CF+ F
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITF 50
>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 = 0.009, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 42/83 (50%), Gaps = 4/83 (4%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGLN 242
LYV L + + + FSP+G I ++ E +S+G FV FS E A A++ +N
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMM-EGGRSKGFGFVCFSSPEEATKAVTEMN 76
Query: 243 GTFTMRGSDQPLVVRIADPKKPR 265
G + +PL V +A K+ R
Sbjct: 77 GRIV---ATKPLYVALAQRKEER 96
Score = 28.9 bits (63), Expect = 8.3, Method: Composition-based stats.
Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 2/65 (3%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
LYV + +E +R F G + + + G+ +G+ FV F+ EEA A+ +
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG--GRSKGFGFVCFSSPEEATKAVTEM 75
Query: 152 NGHYI 156
NG +
Sbjct: 76 NGRIV 80
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 38.5 bits (88), Expect = 0.009, Method: Composition-based stats.
Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 4/86 (4%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGLN 242
+++ L K K + + FS +G+I +V DE S+G FV F +E A AI +N
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE-NGSKGYGFVHFETQEAAERAIEKMN 72
Query: 243 GTFTMRGSDQPLVVRIADPKKPRTGE 268
G M +D+ + V +K R E
Sbjct: 73 G---MLLNDRKVFVGRFKSRKEREAE 95
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 38.5 bits (88), Expect = 0.011, Method: Composition-based stats.
Identities = 30/101 (29%), Positives = 51/101 (50%), Gaps = 12/101 (11%)
Query: 173 REHPVAPPDKLYVGCLSKQTSKK-EIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHR 231
+ P + ++++G L+ KK ++E +FS YG + + +G AFVQ+S+
Sbjct: 20 KNDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV-------HKGYAFVQYSNE 72
Query: 232 EMALAAISGLNGTFTMRGSDQPLVVRIA-DPKKPRTGELRG 271
A AA+ G NG + Q L + +A +PK R+G G
Sbjct: 73 RHARAAVLGENGRVL---AGQTLDINMAGEPKPDRSGPSSG 110
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 8/65 (12%)
Query: 175 HPVAPPDKLYVGCL-SKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREM 233
H + P +L++G L K SK+++ +FSPYGHI I +K + G F+QF + +
Sbjct: 5 HNIPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQI-----NIKNAFG--FIQFDNPQS 57
Query: 234 ALAAI 238
AI
Sbjct: 58 VRDAI 62
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 38.1 bits (87), Expect = 0.011, Method: Composition-based stats.
Identities = 23/62 (37%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
L V L+ +TS + VF YG + D++I R+ K RG AFV+F R A A + +
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 242 NG 243
+G
Sbjct: 76 DG 77
Score = 35.4 bits (80), Expect = 0.078, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 33/52 (63%)
Query: 102 TEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRALNG 153
+ + +R +FE++G V +V +P++ T +G+ FV+F +A +A A++G
Sbjct: 26 SPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDG 77
>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 = 38.1 bits (87), Expect = 0.014, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 37/62 (59%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
KL++ L +K+E+EE+ +G ++D+ +V + + +G A+V++ + A A+ +
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKM 78
Query: 242 NG 243
+G
Sbjct: 79 DG 80
Score = 34.3 bits (77), Expect = 0.18, Method: Composition-based stats.
Identities = 17/66 (25%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL+++ +P + T+E++ + + HG V ++ L + R G+ +G +V++ +A A+
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTN-RAGKPKGLAYVEYENESQASQAVMK 77
Query: 151 LNGHYI 156
++G I
Sbjct: 78 MDGMTI 83
>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 = 37.7 bits (86), Expect = 0.014, Method: Composition-based stats.
Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 9/80 (11%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
++L+V +P TEE++R LFE++G EV + KDK G+ F++ A A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIAKV 69
Query: 150 ALNGHYIFPGEQASIKVRFA 169
L+ P ++VRFA
Sbjct: 70 ELDN---MPLRGKQLRVRFA 86
Score = 32.3 bits (72), Expect = 0.69, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 41/78 (52%), Gaps = 8/78 (10%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
+L+VG L +++E+ ++F YG ++FI +D +G F++ R +A A L
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-----KGFGFIRLETRTLAEIAKVEL 71
Query: 242 NGTFTMRGSDQPLVVRIA 259
+ +RG + L VR A
Sbjct: 72 D-NMPLRG--KQLRVRFA 86
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 37.7 bits (86), Expect = 0.015, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 45/79 (56%), Gaps = 4/79 (5%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQ-SRGCAFVQFSHREMALAAISG 240
KL++G L + +++E+ + +G ++ +V+D S+G AF ++ + AI+G
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 241 LNGTFTMRGSDQPLVVRIA 259
LNG M+ D+ L+V+ A
Sbjct: 63 LNG---MQLGDKKLLVQRA 78
Score = 36.6 bits (83), Expect = 0.035, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 29/63 (46%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL++ +P ++ ++ L G + L KD TG +GY F ++ AI
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 151 LNG 153
LNG
Sbjct: 63 LNG 65
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 8/66 (12%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEV-VLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
+Y + T++ +R F G ++E+ V P ++GY FV+F+ E A +AI +
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFP-------EKGYSFVRFSTHESAAHAIVS 80
Query: 151 LNGHYI 156
+NG I
Sbjct: 81 VNGTTI 86
Score = 37.4 bits (85), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 5/62 (8%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGLN 242
+Y G ++ + + + + FSP+G I +I + + +G +FV+FS E A AI +N
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE-----KGYSFVRFSTHESAAHAIVSVN 82
Query: 243 GT 244
GT
Sbjct: 83 GT 84
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 37.7 bits (86), Expect = 0.017, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 4/62 (6%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
K+YVG L +K E+E F YG + +++ R+ G AFV+F A A+ L
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVRDL 130
Query: 242 NG 243
+G
Sbjct: 131 DG 132
>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 = 0.018, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%)
Query: 180 PDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQF 228
P+ ++VG + + + EI F+ YG ++++ I+ D S+G FV F
Sbjct: 9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 57
Score = 37.4 bits (85), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 88 IPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKF 138
+P ++V + E +IR F +G+V EV + D RTG +GY FV F
Sbjct: 8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 57
>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 = 37.4 bits (85), Expect = 0.020, Method: Composition-based stats.
Identities = 15/27 (55%), Positives = 17/27 (62%)
Query: 436 WSEHTCPDGNKYYYNCETCESRWDKPE 462
W E+ PDG YYYN T ES W KP+
Sbjct: 12 WVENKTPDGKVYYYNARTRESAWTKPD 38
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 37.4 bits (85), Expect = 0.022, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 4/62 (6%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
K+YVG L +K E+E F YG + +++ R+ G AFV+F A A+ L
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVREL 130
Query: 242 NG 243
+G
Sbjct: 131 DG 132
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 37.0 bits (84), Expect = 0.025, Method: Composition-based stats.
Identities = 26/65 (40%), Positives = 34/65 (52%), Gaps = 8/65 (12%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRG---CAFVQFSHREMALAAI 238
++YVG L K+IE+VF YG I DI +LK RG AFV+F A A+
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDI-----DLKNRRGGPPFAFVEFEDPRDAEDAV 78
Query: 239 SGLNG 243
G +G
Sbjct: 79 YGRDG 83
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 37.0 bits (84), Expect = 0.028, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKF 138
++V + EE IR F G V + LP D +T +++G+CF+ F
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITF 48
>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 = 37.0 bits (84), Expect = 0.029, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK-QSRGCAFVQFSHRE 232
+++G LS T+KK++++ FS +G + D + D + +SRG FV F E
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESE 52
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 37.0 bits (84), Expect = 0.030, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 32/68 (47%), Gaps = 8/68 (11%)
Query: 86 SGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAG 145
SG K++V V T +++R LFE G VIE + KD Y FV +A
Sbjct: 6 SGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAK 57
Query: 146 NAIRALNG 153
AI LNG
Sbjct: 58 AAIAQLNG 65
Score = 30.4 bits (67), Expect = 2.4, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 7/62 (11%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
K++VG +S + +E+ +F G + + +V+D AFV A AAI+ L
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVKDY-------AFVHMEKEADAKAAIAQL 63
Query: 242 NG 243
NG
Sbjct: 64 NG 65
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 37.0 bits (84), Expect = 0.030, Method: Composition-based stats.
Identities = 20/60 (33%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDEL-KQSRGCAFVQFSHREMALAAISG 240
KL++G LS +T+++ + + +G + D ++RD K+SRG FV FS AA++
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Score = 35.0 bits (79), Expect = 0.10, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 33/60 (55%)
Query: 91 KLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
KL++ + TEE +R +E+ G + + V+ +D + + +G+ FV F+ E A+ A
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 37.0 bits (84), Expect = 0.031, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 28/49 (57%)
Query: 180 PDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQF 228
P+ ++VG + + + EI F+ YG ++++ I+ D S+G FV F
Sbjct: 10 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 58
Score = 35.8 bits (81), Expect = 0.062, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 88 IPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKF 138
+P ++V + E +IR F +G+V EV + D RTG +GY FV F
Sbjct: 9 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 58
>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 = 36.6 bits (83), Expect = 0.034, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 28/49 (57%)
Query: 180 PDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQF 228
P+ ++VG + + + EI F+ YG ++++ I+ D S+G FV F
Sbjct: 9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 57
Score = 35.8 bits (81), Expect = 0.070, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 88 IPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKF 138
+P ++V + E +IR F +G+V EV + D RTG +GY FV F
Sbjct: 8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 57
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 36.6 bits (83), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 37/76 (48%), Gaps = 8/76 (10%)
Query: 169 ADGEREHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQF 228
+ GER P + LYV + + + FSP+G+I D+ + R CAFV +
Sbjct: 5 SSGERRAP-RKGNTLYV--YGEDMTPTLLRGAFSPFGNIIDL-----SMDPPRNCAFVTY 56
Query: 229 SHREMALAAISGLNGT 244
E A A++ LNGT
Sbjct: 57 EKMESADQAVAELNGT 72
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 36.6 bits (83), Expect = 0.039, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 34/62 (54%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L++ +P+ T+ D+ F GNVI + DK+T + + FV F + A AI+A+
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 152 NG 153
NG
Sbjct: 103 NG 104
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 36.2 bits (82), Expect = 0.043, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 123 KDKRTGQQQGYCFVKFTIFEEAGNAIRALNGHYI 156
+D TG +GY F+ F F+ + AI A+NG Y+
Sbjct: 40 RDPDTGNSKGYAFINFASFDASDAAIEAMNGQYL 73
Score = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 24/85 (28%), Positives = 46/85 (54%), Gaps = 5/85 (5%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHI-EDIFIVRD-ELKQSRGCAFVQFSHREMALAAISG 240
+++G L + +K + + FS +G I + I+RD + S+G AF+ F+ + + AAI
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 241 LNGTFTMRGSDQPLVVRIADPKKPR 265
+NG + ++P+ V A K +
Sbjct: 68 MNGQYL---CNRPITVSYAFKKDSK 89
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 36.2 bits (82), Expect = 0.043, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISGL 241
+YVG L + ++++E+FS +G + ++ ++ D E K+ +G FV+ ++ AI+ L
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVS-EAIAKL 62
Query: 242 NGTFTMRGSDQPLVVRIADPKK 263
+ T M + + V A+PKK
Sbjct: 63 DNTDFM---GRTIRVTEANPKK 81
>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 = 36.2 bits (82), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 35/65 (53%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L+VA V TE +R FE +G + + + KR+G+ +GY F+++ + +A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 152 NGHYI 156
+G I
Sbjct: 165 DGKKI 169
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK-QSRGCAFVQFSHREMALAAISGL 241
L+V ++ T++ ++ F YG I+ I +V + + RG AF+++ H +A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 242 NG 243
+G
Sbjct: 165 DG 166
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 36.2 bits (82), Expect = 0.046, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 3/83 (3%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGLN 242
++V L + K+++EVFS G + I+ D+ +SRG V F A+ AIS N
Sbjct: 18 VFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFN 77
Query: 243 GTFTMRGSDQPLVVRIADPKKPR 265
G D+P+ V++ + P+
Sbjct: 78 GQLLF---DRPMHVKMDERALPK 97
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 36.2 bits (82), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 39/65 (60%), Gaps = 4/65 (6%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L ++ + +ATEE ++ +FE+ + +P+++ G+ +GY F++F FE+A A+ +
Sbjct: 18 LVLSNLSYSATEETLQEVFEK---ATFIKVPQNQ-NGKSKGYAFIEFASFEDAKEALNSC 73
Query: 152 NGHYI 156
N I
Sbjct: 74 NKREI 78
>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 = 36.2 bits (82), Expect = 0.050, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 10/83 (12%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMALAAISG 240
K +VG LS TSKK++++ F+ +G + D I D +SRG F+ F A++
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDA----ASVEK 68
Query: 241 LNGTFTMRGSDQPLVVRIADPKK 263
+ + + L R+ DPKK
Sbjct: 69 V-----LDQKEHRLDGRVIDPKK 86
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 36.2 bits (82), Expect = 0.050, Method: Composition-based stats.
Identities = 29/101 (28%), Positives = 51/101 (50%), Gaps = 12/101 (11%)
Query: 173 REHPVAPPDKLYVGCLSKQTSKK-EIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHR 231
+ P + ++++G L+ KK ++E +FS YG I + +G AFVQ+ +
Sbjct: 8 KTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV-------HKGFAFVQYVNE 60
Query: 232 EMALAAISGLNGTFTMRGSDQPLVVRI-ADPKKPRTGELRG 271
A AA++G +G + Q L + + A+PK R+G G
Sbjct: 61 RNARAAVAGEDGRMI---AGQVLDINLAAEPKVNRSGPSSG 98
>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 = 36.2 bits (82), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 35/65 (53%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L+VA V TE +R FE +G + + + KR+G+ +GY F+++ + +A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 152 NGHYI 156
+G I
Sbjct: 165 DGKKI 169
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELK-QSRGCAFVQFSH-REM 233
L+V ++ T++ ++ F YG I+ I +V + + RG AF+++ H R+M
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDM 157
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 36.2 bits (82), Expect = 0.054, Method: Composition-based stats.
Identities = 31/81 (38%), Positives = 44/81 (54%), Gaps = 12/81 (14%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPY--GHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISG 240
LYV L TS++ IE+ F+ G +E + +RD AFV FS+RE A+ A+
Sbjct: 18 LYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDY-------AFVHFSNREDAVEAMKA 70
Query: 241 LNGTFTMRGSDQPLVVRIADP 261
LNG + GS P+ V +A P
Sbjct: 71 LNGK-VLDGS--PIEVTLAKP 88
>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 = 35.8 bits (81), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIR 149
A L++ +P+ ++D+ +F GNV+ + DK+T + + FV + A AI+
Sbjct: 26 ANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQ 85
Query: 150 ALNGHYI 156
++NG I
Sbjct: 86 SMNGFQI 92
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 35.8 bits (81), Expect = 0.059, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 5/55 (9%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAA 237
LYVG L ++ ++ F +G I I +V Q + CAF+QF+ R+ A A
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEIRTITVV-----QRQQCAFIQFATRQAAEVA 64
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 35.4 bits (80), Expect = 0.078, Method: Composition-based stats.
Identities = 25/91 (27%), Positives = 47/91 (51%), Gaps = 5/91 (5%)
Query: 89 PAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAI 148
P YV +P + DI +F++ ++ V L +DK T + +G+C+V+ F+E +
Sbjct: 15 PYTAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVE---FDEVDSLK 70
Query: 149 RALNGHYIFPGEQASIKVRFADGEREHPVAP 179
AL G++ S++V A+G ++ P
Sbjct: 71 EALTYDGALLGDR-SLRVDIAEGRKQDKSGP 100
Score = 32.0 bits (71), Expect = 0.80, Method: Composition-based stats.
Identities = 27/95 (28%), Positives = 44/95 (46%), Gaps = 12/95 (12%)
Query: 173 REHPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHR 231
+E P PP YVG L T + +I+ +F I + +VRD + + +G +V+F
Sbjct: 8 KELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDE- 65
Query: 232 EMALAAISGLNGTFTMRGS---DQPLVVRIADPKK 263
+ L T G+ D+ L V IA+ +K
Sbjct: 66 ------VDSLKEALTYDGALLGDRSLRVDIAEGRK 94
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 35.4 bits (80), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 31/53 (58%), Gaps = 8/53 (15%)
Query: 179 PPDKLYVGCL-SKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSH 230
P +L++G L K SK+++ +FSPYGHI I +K + G F+QF +
Sbjct: 1 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQI-----NIKNAFG--FIQFDN 46
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 35.0 bits (79), Expect = 0.095, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKF 138
++V + T ED++ FE+ G V + +L DK T + +G+ FV F
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTF 48
Score = 32.0 bits (71), Expect = 0.94, Method: Composition-based stats.
Identities = 14/52 (26%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDE-LKQSRGCAFVQFSHREM 233
++VG LS T+ ++++ F +G ++D ++ D+ + RG FV F ++
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDI 53
>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 = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 5/48 (10%)
Query: 197 IEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGLNGT 244
+ FSP+G+I D+ + R CAFV + E A A++ LNGT
Sbjct: 54 LRGAFSPFGNIIDL-----SMDPPRNCAFVTYEKMESADQAVAELNGT 96
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 40/87 (45%), Gaps = 5/87 (5%)
Query: 83 INDSGIPAKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFE 142
+ D G P LYV + R TE I LF + G + + + YCFV+F
Sbjct: 9 MEDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVEFYEHR 66
Query: 143 EAGNAIRALNGHYIFPGEQASIKVRFA 169
+A A+ A+NG I E +KV +A
Sbjct: 67 DAAAALAAMNGRKILGKE---VKVNWA 90
>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 = 33.9 bits (76), Expect = 0.23, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 34/63 (53%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
L+V + +E +R F++ + + + D +TG +GY FV FT ++A NA+ ++
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 152 NGH 154
G
Sbjct: 64 QGQ 66
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 4/52 (7%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMA 234
++VG + ++ E+ E FS YG + D+FI K R AFV F+ ++A
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFIP----KPFRAFAFVTFADDQIA 55
Score = 32.3 bits (72), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 90 AKLYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFT 139
+ ++V TE+++R F ++G+V++V +PK R + FV F
Sbjct: 6 SGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRA-----FAFVTFA 50
>pdb|1A9N|B Chain B, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
pdb|1A9N|D Chain D, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
Length = 96
Score = 33.5 bits (75), Expect = 0.27, Method: Composition-based stats.
Identities = 25/99 (25%), Positives = 48/99 (48%), Gaps = 9/99 (9%)
Query: 177 VAPPDKLYVGCLSKQTSKKEIEE----VFSPYGHIEDIFIVRDELKQSRGCAFVQFSHRE 232
+ P +Y+ ++ + K+E++ +FS +GH+ DI ++ + RG AFV F
Sbjct: 3 IRPNHTIYINNMNDKIKKEELKRSLYALFSQFGHVVDIVALKT--MKMRGQAFVIFKELG 60
Query: 233 MALAAISGLNGTFTMRGSDQPLVVRIADPKKPRTGELRG 271
+ A+ L G F G +P+ ++ A ++RG
Sbjct: 61 SSTNALRQLQG-FPFYG--KPMRIQYAKTDSDIISKMRG 96
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 33.5 bits (75), Expect = 0.32, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 34/63 (53%), Gaps = 4/63 (6%)
Query: 95 APVPRTAT----EEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
APV +A ++ + LF + G V+ + P D+ TG+ +G+ FV+ +A I++
Sbjct: 14 APVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKS 73
Query: 151 LNG 153
+G
Sbjct: 74 FHG 76
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 33.1 bits (74), Expect = 0.38, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 34/63 (53%), Gaps = 4/63 (6%)
Query: 95 APVPRTAT----EEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRA 150
APV +A ++ + LF + G V+ + P D+ TG+ +G+ FV+ +A I++
Sbjct: 14 APVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKS 73
Query: 151 LNG 153
+G
Sbjct: 74 FHG 76
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 33.1 bits (74), Expect = 0.42, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 31/53 (58%), Gaps = 4/53 (7%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMA 234
K++VG ++ + +E+++ F YG + D+FI K R AFV F+ ++A
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFIP----KPFRAFAFVTFADDKVA 61
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 33.1 bits (74), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 10/75 (13%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
+L+V + E+ E+F P+G ++++ I+ G AFV+F E A AI +
Sbjct: 33 RLFVRPFPLDVQESELNEIFGPFGPMKEVKILN-------GFAFVEFEEAESAAKAIEEV 85
Query: 242 NGTFTMRGSDQPLVV 256
+G ++QPL V
Sbjct: 86 HGK---SFANQPLEV 97
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 32.7 bits (73), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 10/75 (13%)
Query: 182 KLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGL 241
+L+V + E+ E+F P+G ++++ I+ G AFV+F E A AI +
Sbjct: 6 RLFVRPFPLDVQESELNEIFGPFGPMKEVKILN-------GFAFVEFEEAESAAKAIEEV 58
Query: 242 NGTFTMRGSDQPLVV 256
+G ++QPL V
Sbjct: 59 HGK---SFANQPLEV 70
>pdb|1O6W|A Chain A, Solution Structure Of The Prp40 Ww Domain Pair Of The
Yeast Splicing Factor Prp40
Length = 75
Score = 32.3 bits (72), Expect = 0.69, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 436 WSEHTCPDGNKYYYNCETCESRWDKPEEYLLFEQQIEKQ 474
W E G YYYN T +S W+KP+E + E+ + ++
Sbjct: 4 WKEAKDASGRIYYYNTLTKKSTWEKPKELISQEELLLRE 42
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 32.3 bits (72), Expect = 0.71, Method: Composition-based stats.
Identities = 23/89 (25%), Positives = 43/89 (48%), Gaps = 9/89 (10%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGLN 242
L+V L+ +++ +E+ FS +G +E + K+ + AFV F R A+ A+ +N
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERV-------KKLKDYAFVHFEDRGAAVKAMDEMN 70
Query: 243 GTFTMRGSDQPLVVRIADPKKPRTGELRG 271
G + ++ + P K R+G G
Sbjct: 71 GKEIEGEEIEIVLAK--PPDKKRSGPSSG 97
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 32.0 bits (71), Expect = 0.83, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 33/58 (56%), Gaps = 8/58 (13%)
Query: 182 KLYVGCLS-KQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAI 238
+L++G L K SK+++ +FSPYGHI I +K + G F+QF + + AI
Sbjct: 24 RLFIGNLPLKNVSKEDLFRIFSPYGHIMQI-----NIKNAFG--FIQFDNPQSVRDAI 74
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 32.0 bits (71), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 49/93 (52%), Gaps = 4/93 (4%)
Query: 175 HPVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFI-VRDELKQSRGCAFVQFSHREM 233
+P P LY+ LS + +++++ +F+ + + I R + RG AF+ F ++E+
Sbjct: 20 NPGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEI 79
Query: 234 ALAAISGLNGTFTMRGSDQPLVVRIADPKKPRT 266
A A+ +NG + + G + LV+ KK R+
Sbjct: 80 AWQALHLVNG-YKLYG--KILVIEFGKNKKQRS 109
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 32.0 bits (71), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 26/47 (55%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKF 138
+YV V +T +D+ F G++ + + DK +G +GY +++F
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEF 85
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 32.0 bits (71), Expect = 1.0, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 33/58 (56%), Gaps = 8/58 (13%)
Query: 182 KLYVGCLS-KQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAI 238
+L++G L K SK+++ +FSPYGHI I +K + G F+QF + + AI
Sbjct: 24 RLFIGNLPLKNVSKEDLFRIFSPYGHIMQI-----NIKNAFG--FIQFDNPQSVRDAI 74
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 31.2 bits (69), Expect = 1.4, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 7/61 (11%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGLN 242
L+V L+ +++ +E+ FS +G +E + K+ + AF+ F R+ A+ A+ +N
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERV-------KKLKDYAFIHFDERDGAVKAMEEMN 66
Query: 243 G 243
G
Sbjct: 67 G 67
>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 = 1.6, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
+YV V AT E++ F G+V V + DK +G +G+ +++F+ E ++ AL
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 66
Query: 152 NGHYIFPGEQASI 164
+ +F G Q +
Sbjct: 67 D-ESLFRGRQIKV 78
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 31.2 bits (69), Expect = 1.6, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 30/60 (50%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
LY+ + T++D+ L + +G ++ DK T + +GY FV F A A+ AL
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
>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 = 31.2 bits (69), Expect = 1.7, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRAL 151
+YV V AT E++ F G+V V + DK +G +G+ +++F+ E ++ AL
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 67
Query: 152 NGHYIFPGEQASI 164
+ +F G Q +
Sbjct: 68 D-ESLFRGRQIKV 79
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 30.8 bits (68), Expect = 1.8, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 31/61 (50%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRDELKQSRGCAFVQFSHREMALAAISGLN 242
++VG L + ++ + E+F G + + I +D + + FV F H E AI+ LN
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLN 78
Query: 243 G 243
G
Sbjct: 79 G 79
>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 = 30.8 bits (68), Expect = 2.1, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 114 GNVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGNAIRALNGHYI 156
G + + + KD TG+ +GY FV F +A NAI+ + G ++
Sbjct: 31 GRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWL 73
Score = 29.6 bits (65), Expect = 3.9, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 176 PVAPPDKLYVGCLSKQTSKKEIEEVFSPYGHIEDIFIVRD-ELKQSRGCAFVQFSHREMA 234
P+ ++VG LS + + I F+P+G I D +V+D +S+G FV F ++ A
Sbjct: 2 PLGSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDA 61
Query: 235 LAAISGLNGTF 245
AI + G +
Sbjct: 62 ENAIQQMGGQW 72
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 30.4 bits (67), Expect = 2.4, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 35/61 (57%), Gaps = 4/61 (6%)
Query: 183 LYVGCLSKQTSKKEIEEVFSPYGHIEDIFIV-RDELKQSRGCAFVQFSHREMA---LAAI 238
+++ LS + ++ + EV +G ++ + +V + + S+GCAF QF +E A LAA
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77
Query: 239 S 239
S
Sbjct: 78 S 78
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 30.4 bits (67), Expect = 2.6, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 1/67 (1%)
Query: 88 IPAKLYVAPVPRTATEEDIRPLFEEHG-NVIEVVLPKDKRTGQQQGYCFVKFTIFEEAGN 146
+ A L++ + E I F G V+ V + +++ TG GYCFV+F A
Sbjct: 8 MAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEK 67
Query: 147 AIRALNG 153
+ +NG
Sbjct: 68 CLHKING 74
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 30.0 bits (66), Expect = 3.1, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 92 LYVAPVPRTATEEDIRPLFEEHGNVIEVVLPKDKRTGQ---QQGYCFVKFTIFEEAGNAI 148
L++ + + TEE ++ +F + G + + K K G+ FV++ E+A A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 149 RALNGHYI 156
+ L GH +
Sbjct: 68 KQLQGHTV 75
>pdb|2DK1|A Chain A, Solution Structure Of Ww Domain In Ww Domain Binding
Protein 4 (Wbp-4)
Length = 50
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 436 WSEHTCPDGNKYYYNCETCESRWDKPEEY 464
W E +G YYY+ + S+W+KPE +
Sbjct: 9 WVEGITSEGYHYYYDLISGASQWEKPEGF 37
>pdb|2F21|A Chain A, Human Pin1 Fip Mutant
Length = 162
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 436 WSEHTCPDGNKYYYNCETCESRWDKP 461
W + DG YY+N T S+W++P
Sbjct: 11 WEKRMSADGRVYYFNHITNASQWERP 36
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 0.131 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,003,497
Number of Sequences: 62578
Number of extensions: 750784
Number of successful extensions: 1566
Number of sequences better than 100.0: 171
Number of HSP's better than 100.0 without gapping: 145
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 1218
Number of HSP's gapped (non-prelim): 291
length of query: 537
length of database: 14,973,337
effective HSP length: 103
effective length of query: 434
effective length of database: 8,527,803
effective search space: 3701066502
effective search space used: 3701066502
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (25.4 bits)