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= 020372
(327 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 107 bits (267), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 50/71 (70%), Positives = 57/71 (80%)
Query: 235 QIEGPPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPA 294
Q EGP GANLFIYH+PQEFGDQ+L F FG V+SAKVF+DK T +SKCFGFVSY++P
Sbjct: 19 QKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPV 78
Query: 295 SAQNAIAMMNG 305
SAQ AI MNG
Sbjct: 79 SAQAAIQSMNG 89
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 104 bits (259), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 47/71 (66%), Positives = 56/71 (78%)
Query: 235 QIEGPPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPA 294
QIEGP G NLFIYH+PQEF D +L + F FG V+SAKVF+DK T +SKCFGFVS+++P
Sbjct: 34 QIEGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPD 93
Query: 295 SAQNAIAMMNG 305
SAQ AI MNG
Sbjct: 94 SAQVAIKAMNG 104
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 39/78 (50%), Positives = 52/78 (66%)
Query: 1 MLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHK 60
ML K SE +V LF +G I++ ILRG SKGCAF+KY + +A AA+ A++G
Sbjct: 22 MLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFVKYSSHAEAQAAINALHGSQT 81
Query: 61 MEGSSVPLVVKWADTEKE 78
M G+S LVVK+ADT+KE
Sbjct: 82 MPGASSSLVVKFADTDKE 99
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 72.4 bits (176), Expect = 3e-13, Method: Composition-based stats.
Identities = 37/78 (47%), Positives = 52/78 (66%)
Query: 1 MLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHK 60
ML K SE +V LF +G I + +LRG +SKGCAF+K+ + +A AA+ A++G
Sbjct: 22 MLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQT 81
Query: 61 MEGSSVPLVVKWADTEKE 78
M G+S LVVK+ADT+KE
Sbjct: 82 MPGASSSLVVKFADTDKE 99
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 72.4 bits (176), Expect = 3e-13, Method: Composition-based stats.
Identities = 35/78 (44%), Positives = 52/78 (66%)
Query: 1 MLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHK 60
ML K ++ +V +F +GTI + +LRG TSKGCAF+K++T +A AA+ ++
Sbjct: 19 MLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAAINTLHSSRT 78
Query: 61 MEGSSVPLVVKWADTEKE 78
+ G+S LVVK+ADTEKE
Sbjct: 79 LPGASSSLVVKFADTEKE 96
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 49/74 (66%)
Query: 1 MLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHK 60
M+ K +E ++ +FS +G I++ +ILRG S+GCAF+ + T+ A A++A++
Sbjct: 114 MISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQT 173
Query: 61 MEGSSVPLVVKWAD 74
MEG S P+VVK+AD
Sbjct: 174 MEGCSSPMVVKFAD 187
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 47/82 (57%), Gaps = 9/82 (10%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQT---SKGCAFLKYETKEQALAALEAINGK 58
+P+ SE ++ LF YG + ++ +LR Q SKGC F+ + T++ AALEA N
Sbjct: 23 VPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK---AALEAQNAL 79
Query: 59 HKME---GSSVPLVVKWADTEK 77
H M+ G P+ +K AD+EK
Sbjct: 80 HNMKVLPGMHHPIQMKPADSEK 101
Score = 32.0 bits (71), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
LFI I ++ + ++ F +FG++ ++ + G+S+ FV++ + A AQ AI M
Sbjct: 110 LFIGMISKKCTENDIRVMFSSFGQIEECRI-LRGPDGLSRGCAFVTFTTRAMAQTAIKAM 168
Query: 304 N 304
+
Sbjct: 169 H 169
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 5/65 (7%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATG--VSK--CF-GFVSYESPASAQN 298
+F+ +P+ + +++L F+ +G V V D++ SK CF F + ++ AQN
Sbjct: 18 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 77
Query: 299 AIAMM 303
A+ M
Sbjct: 78 ALHNM 82
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 49/74 (66%)
Query: 1 MLPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHK 60
M+ K +E ++ +FS +G I++ +ILRG S+GCAF+ + T+ A A++A++
Sbjct: 102 MISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQT 161
Query: 61 MEGSSVPLVVKWAD 74
MEG S P+VVK+AD
Sbjct: 162 MEGCSSPMVVKFAD 175
Score = 51.6 bits (122), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 47/82 (57%), Gaps = 9/82 (10%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQT---SKGCAFLKYETKEQALAALEAINGK 58
+P+ SE ++ LF YG + ++ +LR Q SKGC F+ + T++ AALEA N
Sbjct: 11 VPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK---AALEAQNAL 67
Query: 59 HKME---GSSVPLVVKWADTEK 77
H M+ G P+ +K AD+EK
Sbjct: 68 HNMKVLPGMHHPIQMKPADSEK 89
Score = 31.6 bits (70), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
LFI I ++ + ++ F +FG++ ++ + G+S+ FV++ + A AQ AI
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRI-LRGPDGLSRGCAFVTFTTRAMAQTAIKA 155
Query: 303 MN 304
M+
Sbjct: 156 MH 157
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 5/67 (7%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATG--VSK--CF-GFVSYESPASAQ 297
+F+ +P+ + +++L F+ +G V V D++ SK CF F + ++ AQ
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 298 NAIAMMN 304
NA+ M
Sbjct: 65 NALHNMK 71
>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 = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 44/73 (60%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHKM 61
+ K +E ++ FS +G I++ +ILRG S+GCAF+ + T+ A A++A +
Sbjct: 103 ISKKCTENDIRVXFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAXAQTAIKAXHQAQTX 162
Query: 62 EGSSVPLVVKWAD 74
EG S P VVK+AD
Sbjct: 163 EGCSSPXVVKFAD 175
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 3/79 (3%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQT---SKGCAFLKYETKEQALAALEAINGK 58
+P+ SE ++ LF YG + ++ +LR Q SKGC F+ + T++ AL A A++
Sbjct: 11 VPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNX 70
Query: 59 HKMEGSSVPLVVKWADTEK 77
+ G P+ K AD+EK
Sbjct: 71 KVLPGXHHPIQXKPADSEK 89
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 58.2 bits (139), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 41/64 (64%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
ANL++ +P+ +EL F +GR++++++ VD+ TGVS+ GF+ ++ A+ AI
Sbjct: 89 ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK 148
Query: 302 MMNG 305
+NG
Sbjct: 149 GLNG 152
Score = 50.8 bits (120), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 36/65 (55%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
NL + ++PQ +E + F + G + S K+ DK TG S +GFV+Y P A+ AI
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62
Query: 302 MMNGC 306
+NG
Sbjct: 63 TLNGL 67
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 44/73 (60%), Gaps = 2/73 (2%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAINGKHK 60
LPK +++ E+ LFS YG I +IL S+G F++++ + +A A++ +NG K
Sbjct: 96 LPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNG-QK 154
Query: 61 MEGSSVPLVVKWA 73
G++ P+ VK+A
Sbjct: 155 PSGATEPITVKFA 167
Score = 27.7 bits (60), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAING 57
LP+N+++ E +LF G I+ +++R S G F+ Y + A A+ +NG
Sbjct: 10 LPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNG 66
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 57.8 bits (138), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 42/64 (65%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
ANL++ +P+ +E+ F +GR++++++ +D+ATGVS+ GF+ ++ A+ AI
Sbjct: 91 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 150
Query: 302 MMNG 305
+NG
Sbjct: 151 GLNG 154
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 34/65 (52%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
NL + ++PQ E + F + G + S K+ DK TG S +GFV+Y P A AI
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 302 MMNGC 306
+NG
Sbjct: 65 TLNGL 69
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 46/74 (62%), Gaps = 2/74 (2%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAINGKHK 60
LPK +S+ E+ LFS YG I +IL S+G F++++ + +A A++ +NG+
Sbjct: 98 LPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKP 157
Query: 61 MEGSSVPLVVKWAD 74
+ G++ P+ VK+A+
Sbjct: 158 L-GAAEPITVKFAN 170
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 35/68 (51%), Gaps = 2/68 (2%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAINGKHK 60
LP+N+++ E +LF G I+ +++R S G F+ Y A A+ +NG K
Sbjct: 12 LPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNG-LK 70
Query: 61 MEGSSVPL 68
++ ++ +
Sbjct: 71 LQTKTIKV 78
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 57.8 bits (138), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 42/64 (65%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
ANL++ +P+ +E+ F +GR++++++ +D+ATGVS+ GF+ ++ A+ AI
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 302 MMNG 305
+NG
Sbjct: 62 GLNG 65
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 46/74 (62%), Gaps = 2/74 (2%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAINGKHK 60
LPK +S+ E+ LFS YG I +IL S+G F++++ + +A A++ +NG+
Sbjct: 9 LPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKP 68
Query: 61 MEGSSVPLVVKWAD 74
+ G++ P+ VK+A+
Sbjct: 69 L-GAAEPITVKFAN 81
>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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 42/69 (60%)
Query: 237 EGPPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASA 296
E ANL+I +P+ +++ + F FGR+++++V VD+ TG+S+ F+ ++ + A
Sbjct: 84 EVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEA 143
Query: 297 QNAIAMMNG 305
+ AI NG
Sbjct: 144 EEAITSFNG 152
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 36/65 (55%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
NL + ++PQ EL + F + G V SAK+ DK G S +GFV+Y + A+ AI
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 302 MMNGC 306
+NG
Sbjct: 63 TLNGL 67
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 48/74 (64%), Gaps = 4/74 (5%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQT--SKGCAFLKYETKEQALAALEAINGKH 59
LP+ +++ +V +FS +G I + ++L Q T S+G AF++++ + +A A+ + NG H
Sbjct: 96 LPRTMTQKDVEDMFSRFGRIINSRVL-VDQTTGLSRGVAFIRFDKRSEAEEAITSFNG-H 153
Query: 60 KMEGSSVPLVVKWA 73
K GSS P+ VK+A
Sbjct: 154 KPPGSSEPITVKFA 167
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAING 57
LP+N+++ E+ +LFS G ++ +++R S G F+ Y T + A A+ +NG
Sbjct: 10 LPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG 66
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 42/69 (60%)
Query: 237 EGPPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASA 296
E ANL+I +P+ +++ + F FGR+++++V VD+ TG+S+ F+ ++ + A
Sbjct: 84 EVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEA 143
Query: 297 QNAIAMMNG 305
+ AI NG
Sbjct: 144 EEAITSFNG 152
Score = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 36/65 (55%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
NL + ++PQ EL + F + G V SAK+ DK G S +GFV+Y + A+ AI
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 302 MMNGC 306
+NG
Sbjct: 63 TLNGL 67
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 47/74 (63%), Gaps = 4/74 (5%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQT--SKGCAFLKYETKEQALAALEAINGKH 59
LP+ +++ +V +FS +G I + ++L Q T S+G AF++++ + +A A+ + NG H
Sbjct: 96 LPRTMTQKDVEDMFSRFGRIINSRVL-VDQTTGLSRGVAFIRFDKRSEAEEAITSFNG-H 153
Query: 60 KMEGSSVPLVVKWA 73
K GSS P+ V +A
Sbjct: 154 KPPGSSEPITVXFA 167
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAING 57
LP+N+++ E+ +LFS G ++ +++R S G F+ Y T + A A+ +NG
Sbjct: 10 LPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG 66
>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 = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 38/69 (55%)
Query: 238 GPPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQ 297
GP NL + ++PQ EL + F + G V SAK+ DK G S +GFV+Y + A+
Sbjct: 1 GPGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAE 60
Query: 298 NAIAMMNGC 306
AI +NG
Sbjct: 61 RAINTLNGL 69
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAING 57
LP+N+++ E+ +LFS G ++ +++R S G F+ Y T + A A+ +NG
Sbjct: 12 LPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG 68
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 39/62 (62%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
+++ + Q+ D ++ + F+AFG++ SA + D TG K +GF+ YE S+Q+A++
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 186
Query: 303 MN 304
MN
Sbjct: 187 MN 188
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 32/65 (49%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
+ +++ I E G+ + AF FG + S + D T K F FV YE P +AQ A+
Sbjct: 29 SRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 88
Query: 302 MMNGC 306
MN
Sbjct: 89 QMNSV 93
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 5 NVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAIN 56
+ E + F+ +G IK + + S KG AF++YE E A ALE +N
Sbjct: 39 ELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMN 91
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 39/63 (61%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
NL + +IP + +L F+ +G + S K+ D+ T S+ +GFV ++S +SAQ AIA
Sbjct: 44 NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAG 103
Query: 303 MNG 305
+NG
Sbjct: 104 LNG 106
Score = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 35/58 (60%), Gaps = 3/58 (5%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQIL--RGSQQTSKGCAFLKYETKEQALAALEAING 57
+P V E ++ LF YG I+ ++I+ R ++Q S+G F+K+++ A A+ +NG
Sbjct: 50 IPTTVDEVQLRQLFERYGPIESVKIVCDRETRQ-SRGYGFVKFQSGSSAQQAIAGLNG 106
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 38/62 (61%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
+++ + Q+ D ++ + F+AFG++ S + D TG K +GF+ YE S+Q+A++
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 171
Query: 303 MN 304
MN
Sbjct: 172 MN 173
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 31/63 (49%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
+++ I E G+ + AF FG + S + D T K F FV YE P +AQ A+
Sbjct: 14 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 73
Query: 302 MMN 304
MN
Sbjct: 74 QMN 76
Score = 27.7 bits (60), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 5 NVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAIN 56
+ E + F+ +G IK + + S KG AF++YE E A ALE +N
Sbjct: 24 ELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMN 76
>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 = 51.6 bits (122), Expect = 7e-07, Method: Composition-based stats.
Identities = 26/65 (40%), Positives = 37/65 (56%)
Query: 241 GANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 300
G NL + ++PQ EL + F + G V SAK+ DK G S +GFV+Y + A+ AI
Sbjct: 19 GTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 78
Query: 301 AMMNG 305
+NG
Sbjct: 79 NTLNG 83
Score = 33.5 bits (75), Expect = 0.15, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAING 57
LP+N ++ E+ +LFS G ++ +++R S G F+ Y T + A A+ +NG
Sbjct: 27 LPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG 83
>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 = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 43/69 (62%), Gaps = 3/69 (4%)
Query: 238 GPPGA-NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASA 296
GP G+ N+FI ++ + ++ L + F AFG +LS KV D+ SK +GFV +E+ +A
Sbjct: 1 GPLGSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAA 58
Query: 297 QNAIAMMNG 305
+ AI MNG
Sbjct: 59 ERAIEKMNG 67
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
L K++ + FS +G I +++ + SKG F+ +ET+E A A+E +NG
Sbjct: 13 LDKSIDNKALYDTFSAFGNILSCKVV-CDENGSKGYGFVHFETQEAAERAIEKMNG 67
>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 = 50.8 bits (120), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 38/63 (60%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
++F+ + E +++ AF FGR+ A+V D ATG SK +GFVS+ + A+NAI
Sbjct: 17 HVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ 76
Query: 303 MNG 305
M G
Sbjct: 77 MGG 79
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 39/63 (61%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
++F+ + E +++ +AF FG++ A+V D ATG SK +GFVS+ + A+NAI
Sbjct: 17 HVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVH 76
Query: 303 MNG 305
M G
Sbjct: 77 MGG 79
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 37/65 (56%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
NL + ++PQ+ D+EL F+A G + + ++ D TG S + FV + S +Q AI
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 302 MMNGC 306
++NG
Sbjct: 64 VLNGI 68
Score = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 41/73 (56%), Gaps = 2/73 (2%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTS-KGCAFLKYETKEQALAALEAINGKHK 60
LP+ +++ ++ +F YG+I ILR +G AF++Y +E+A A+ A+N
Sbjct: 97 LPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIP 156
Query: 61 MEGSSVPLVVKWA 73
EG S PL V+ A
Sbjct: 157 -EGGSQPLSVRLA 168
Score = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAING 57
LP+++++ E+ ALF G I +I+R + S G AF+ + ++ + A++ +NG
Sbjct: 11 LPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNG 67
>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 = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 46/81 (56%), Gaps = 9/81 (11%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQT---SKGCAFLKYETKEQALAALEAINGK 58
+P+ SE ++ LF YG + ++ +LR Q SKGC F+ + T++ AALEA N
Sbjct: 11 VPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK---AALEAQNAL 67
Query: 59 HKME---GSSVPLVVKWADTE 76
H M+ G P+ +K AD+E
Sbjct: 68 HNMKVLPGMHHPIQMKPADSE 88
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 5/67 (7%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATG--VSK--CF-GFVSYESPASAQ 297
+F+ +P+ + +++L F+ +G V V D++ SK CF F + ++ AQ
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 298 NAIAMMN 304
NA+ M
Sbjct: 65 NALHNMK 71
>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 = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 39/63 (61%), Gaps = 2/63 (3%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
N+FI ++ + ++ L + F AFG +LS KV D+ SK +GFV +E+ +A+ AI
Sbjct: 105 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEK 162
Query: 303 MNG 305
MNG
Sbjct: 163 MNG 165
Score = 34.7 bits (78), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
L K++ + FS +G I +++ + SKG F+ +ET+E A A+E +NG
Sbjct: 111 LDKSIDNKALYDTFSAFGNILSCKVV-CDENGSKGYGFVHFETQEAAERAIEKMNG 165
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%)
Query: 240 PGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
P A+L++ + + + L F G +LS +V D T S + +V+++ PA A+ A
Sbjct: 14 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 73
Query: 300 IAMMN 304
+ MN
Sbjct: 74 LDTMN 78
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/63 (42%), Positives = 35/63 (55%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
NLF+ + D+ L NAF+ F LS V D TG S+ +GFVS+ S AQNA+
Sbjct: 89 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 148
Query: 303 MNG 305
M G
Sbjct: 149 MQG 151
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 3/72 (4%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHKM 61
L K ++E + F + G I +++I+ + AF++Y A AL+ +NGK ++
Sbjct: 8 LDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGK-QI 66
Query: 62 EGSSVPLVVKWA 73
E + V + WA
Sbjct: 67 ENNIVK--INWA 76
>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|B Chain B, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|C Chain C, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|D Chain D, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|E Chain E, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|F Chain F, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|G Chain G, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|H Chain H, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
Length = 190
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 39/63 (61%), Gaps = 2/63 (3%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
N+FI ++ + ++ L + F AFG +LS KV D+ SK +GFV +E+ +A+ AI
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEK 157
Query: 303 MNG 305
MNG
Sbjct: 158 MNG 160
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
L K++ + FS +G I +++ + SKG F+ +ET+E A A+E +NG
Sbjct: 106 LDKSIDNKALYDTFSAFGNILSCKVV-CDENGSKGYGFVHFETQEAAERAIEKMNG 160
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%)
Query: 240 PGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
P A+L++ + + + L F G +LS +V D T S + +V+++ PA A+ A
Sbjct: 9 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 68
Query: 300 IAMMN 304
+ MN
Sbjct: 69 LDTMN 73
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 50.1 bits (118), Expect = 2e-06, Method: Composition-based stats.
Identities = 25/64 (39%), Positives = 39/64 (60%), Gaps = 2/64 (3%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
N+FI ++ + ++ L + F AFG +LS KV D+ SK +GFV +E+ +A+ AI
Sbjct: 12 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIE 69
Query: 302 MMNG 305
MNG
Sbjct: 70 KMNG 73
Score = 33.9 bits (76), Expect = 0.13, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
L K++ + FS +G I +++ + SKG F+ +ET+E A A+E +NG
Sbjct: 19 LDKSIDNKALYDTFSAFGNILSCKVV-CDENGSKGYGFVHFETQEAAERAIEKMNG 73
>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 = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 27/63 (42%), Positives = 35/63 (55%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
NLF+ + D+ L NAF+ F LS V D TG S+ +GFVS+ S AQNA+
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 303 MNG 305
M G
Sbjct: 63 MQG 65
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 43/74 (58%), Gaps = 1/74 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAINGKHK 60
+P+N+ E ++ LF +G I +L +L+ KGCAFL Y +E AL A A++ +
Sbjct: 21 IPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKT 80
Query: 61 MEGSSVPLVVKWAD 74
+ G + P+ VK AD
Sbjct: 81 LPGMNRPIQVKPAD 94
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 3/60 (5%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSY---ESPASAQNAI 300
LFI IP+ +++L F+ FG++ V D+ TG+ K F++Y ES AQ+A+
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSAL 75
>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 = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 37/62 (59%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
+++ + Q+ D ++ + F+AFG++ S + D TG K +GF+ YE S+Q+A++
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 170
Query: 303 MN 304
N
Sbjct: 171 XN 172
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 29/63 (46%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
+++ I E G+ + AF FG + S D T K F FV YE P +AQ A+
Sbjct: 13 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALE 72
Query: 302 MMN 304
N
Sbjct: 73 QXN 75
>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 = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 37/65 (56%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
NL + ++PQ+ D+EL F+A G + + ++ D TG S + FV + S +Q AI
Sbjct: 15 TNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIK 74
Query: 302 MMNGC 306
++NG
Sbjct: 75 VLNGI 79
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 42/74 (56%), Gaps = 2/74 (2%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTS-KGCAFLKYETKEQALAALEAINGKHK 60
LP+ +++ ++ +F YG+I ILR +G AF++Y +E+A A+ A+N
Sbjct: 108 LPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIP 167
Query: 61 MEGSSVPLVVKWAD 74
EG S PL V+ A+
Sbjct: 168 -EGGSQPLSVRLAE 180
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAING 57
LP++ ++ E+ ALF G I +I R + S G AF+ + ++ + A++ +NG
Sbjct: 22 LPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVLNG 78
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 48.9 bits (115), Expect = 4e-06, Method: Composition-based stats.
Identities = 24/63 (38%), Positives = 34/63 (53%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
NL + ++PQ E + F + G + S K+ DK TG S +GFV+Y P A AI
Sbjct: 6 NLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINT 65
Query: 303 MNG 305
+NG
Sbjct: 66 LNG 68
Score = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAING 57
LP+N+++ E +LF G I+ +++R S G F+ Y A A+ +NG
Sbjct: 12 LPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNG 68
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 48.5 bits (114), Expect = 5e-06, Method: Composition-based stats.
Identities = 22/63 (34%), Positives = 37/63 (58%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
NL + ++PQ+ D+EL F+A G + + ++ D TG S + FV + S +Q AI +
Sbjct: 5 NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKV 64
Query: 303 MNG 305
+NG
Sbjct: 65 LNG 67
Score = 32.0 bits (71), Expect = 0.43, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQT-SKGCAFLKYETKEQALAALEAING 57
LP+++++ E+ ALF G I +I+R + S G AF+ + ++ + A++ +NG
Sbjct: 11 LPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNG 67
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 48.1 bits (113), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 37/63 (58%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
+ L+I + DQ+L Q +G+++S K +DK T K +GFV ++SP++AQ A+
Sbjct: 6 SGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVT 65
Query: 302 MMN 304
+
Sbjct: 66 ALK 68
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 47.8 bits (112), Expect = 8e-06, Method: Composition-based stats.
Identities = 26/63 (41%), Positives = 36/63 (57%), Gaps = 2/63 (3%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
NL++ ++ D+ L AF FG + SAKV ++ G SK FGFV + SP A A+
Sbjct: 17 NLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG--GRSKGFGFVCFSSPEEATKAVTE 74
Query: 303 MNG 305
MNG
Sbjct: 75 MNG 77
Score = 27.7 bits (60), Expect = 8.1, Method: Composition-based stats.
Identities = 20/77 (25%), Positives = 39/77 (50%), Gaps = 4/77 (5%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHKM 61
L + + + FS +GTI +++ + SKG F+ + + E+A A+ +NG+
Sbjct: 23 LDDGIDDERLRKAFSPFGTITSAKVMMEGGR-SKGFGFVCFSSPEEATKAVTEMNGRIV- 80
Query: 62 EGSSVPLVVKWADTEKE 78
++ PL V A ++E
Sbjct: 81 --ATKPLYVALAQRKEE 95
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
NL+I ++P +QEL N + FG+V+S ++ D ++G S+ GF ES + I
Sbjct: 26 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAVIG 84
Query: 302 MMNG 305
NG
Sbjct: 85 HFNG 88
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 31/57 (54%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGK 58
LP ++ E E+ + +G + +ILR S TS+G F + E+ E+ A + NGK
Sbjct: 33 LPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGK 89
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 43/76 (56%), Gaps = 1/76 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAINGKHK 60
+P+ + E ++ LF +G I +L +L+ KGCAFL Y ++ AL A A++ +
Sbjct: 23 IPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSALHEQKT 82
Query: 61 MEGSSVPLVVKWADTE 76
+ G + P+ VK A +E
Sbjct: 83 LPGMNRPIQVKPAASE 98
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 34/61 (55%), Gaps = 3/61 (4%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSY---ESPASAQNA 299
LF+ IP+ +Q+L F+ FGR+ V D+ TG+ K F++Y +S AQ+A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 300 I 300
+
Sbjct: 77 L 77
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 40/73 (54%), Gaps = 4/73 (5%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAINGKHK 60
+ + E E+ F YG IK++ + L SKG A ++YET +QALAA EA+NG
Sbjct: 34 IHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEI 93
Query: 61 MEGSSVPLVVKWA 73
M G ++ V W
Sbjct: 94 M-GQTIQ--VDWC 103
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 33/66 (50%)
Query: 240 PGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
G LF+ I +E + E+ F +G + + + +D+ TG SK + V YE+ A A
Sbjct: 25 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 84
Query: 300 IAMMNG 305
+NG
Sbjct: 85 KEALNG 90
>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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 40/73 (54%), Gaps = 4/73 (5%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAINGKHK 60
+ + E E+ F YG IK++ + L SKG A ++YET +QALAA EA+NG
Sbjct: 80 IHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEI 139
Query: 61 MEGSSVPLVVKWA 73
M G ++ V W
Sbjct: 140 M-GQTIQ--VDWC 149
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 33/66 (50%)
Query: 240 PGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
G LF+ I +E + E+ F +G + + + +D+ TG SK + V YE+ A A
Sbjct: 71 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 130
Query: 300 IAMMNG 305
+NG
Sbjct: 131 KEALNG 136
>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 = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/41 (51%), Positives = 27/41 (65%)
Query: 265 FGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNG 305
FGR+ A+V D ATG SK +GFVS+ + A+NAI M G
Sbjct: 30 FGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGG 70
>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 = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 25/74 (33%), Positives = 42/74 (56%), Gaps = 2/74 (2%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAINGKHK 60
LP+ +++ ++ +F YG+I ILR +G AF++Y +E+A A+ A+N
Sbjct: 21 LPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIP 80
Query: 61 MEGSSVPLVVKWAD 74
EG S PL V+ A+
Sbjct: 81 -EGGSQPLSVRLAE 93
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 42.4 bits (98), Expect = 4e-04, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 38/63 (60%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
++F+ +IP E +++L + F G V+S ++ D+ TG K +GF Y+ +A +A+
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 303 MNG 305
+NG
Sbjct: 70 LNG 72
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
L + +IP F D +L F FG++L ++ ++ SK FGFV++E+ A A A +
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKL 89
Query: 304 NGC 306
+G
Sbjct: 90 HGT 92
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 35/62 (56%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
LF+ + + +Q L F +G++ V D+ T S+ FGFV++E+ A++A+ M
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 304 NG 305
NG
Sbjct: 75 NG 76
Score = 34.3 bits (77), Expect = 0.087, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 5 NVSEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAALEAINGK 58
+ +E + +FS YG I ++ +++ + Q S+G F+ +E + A A+ A+NGK
Sbjct: 23 DTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGK 77
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 36/66 (54%)
Query: 240 PGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
G LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A
Sbjct: 21 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 80
Query: 300 IAMMNG 305
+ +NG
Sbjct: 81 MEGLNG 86
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 39/73 (53%), Gaps = 4/73 (5%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAINGKHK 60
+ + +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +NG+
Sbjct: 30 VHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDL 89
Query: 61 MEGSSVPLVVKWA 73
M P+ V W
Sbjct: 90 M---GQPISVDWC 99
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 26/69 (37%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 238 GPPGA-NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASA 296
G GA +F+ ++P +F + L + F G VL A + ++ G SK G V +ESP A
Sbjct: 4 GSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVA 61
Query: 297 QNAIAMMNG 305
+ A MMNG
Sbjct: 62 ERACRMMNG 70
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 28/44 (63%)
Query: 262 FQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNG 305
F+ FGR+ S ++ +D TG SK +GF+++ A+ A+ +NG
Sbjct: 47 FEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNG 90
Score = 34.7 bits (78), Expect = 0.073, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 5 NVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAING 57
N++E + +F +G I+ +Q++ S+ SKG F+ + E A ALE +NG
Sbjct: 37 NITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNG 90
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 30/58 (51%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
+F+ +P D L F+ FG + A V D+ TG S+ +GFV+ A+A+ A
Sbjct: 18 TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA 75
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 36/66 (54%)
Query: 240 PGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
G LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A
Sbjct: 6 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 65
Query: 300 IAMMNG 305
+ +NG
Sbjct: 66 MEGLNG 71
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 39/73 (53%), Gaps = 4/73 (5%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAINGKHK 60
+ + +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +NG+
Sbjct: 15 VHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDL 74
Query: 61 MEGSSVPLVVKWA 73
M P+ V W
Sbjct: 75 M---GQPISVDWC 84
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
+ +F+ ++P +F + L + F G VL A + ++ G SK G V +ESP A+ A
Sbjct: 6 SGIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACR 63
Query: 302 MMNG 305
MMNG
Sbjct: 64 MMNG 67
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 23/67 (34%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFV---SYESPASAQN 298
++L + +P + +Q+L F FG VL +V D TG SK FGFV YE+ +
Sbjct: 16 SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS 75
Query: 299 AIAMMNG 305
M++G
Sbjct: 76 QRHMIDG 82
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSA-KVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
+FI ++ E ++ L + F AFG +L K+ D TG SK + F+++ S ++ AI
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 303 MNG 305
MNG
Sbjct: 68 MNG 70
Score = 31.6 bits (70), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 39/74 (52%), Gaps = 5/74 (6%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDL-QILRG-SQQTSKGCAFLKYETKEQALAALEAINGKH 59
L + E + FS +G I +I+R SKG AF+ + + + + AA+EA+NG++
Sbjct: 13 LDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQY 72
Query: 60 KMEGSSVPLVVKWA 73
+ P+ V +A
Sbjct: 73 LC---NRPITVSYA 83
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
L + +IP F D +L F FG++L ++ ++ SK FGFV++E+ A A A +
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKL 75
Query: 304 NG 305
+G
Sbjct: 76 HG 77
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 35/57 (61%), Gaps = 7/57 (12%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGK 58
P +V E+E++ +F +G +K+++IL G AF+++E E A A+E ++GK
Sbjct: 39 FPLDVQESELNEIFGPFGPMKEVKIL-------NGFAFVEFEEAESAAKAIEEVHGK 88
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 8/64 (12%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
LF+ P + + EL F FG + K+ F FV +E SA AI
Sbjct: 32 TRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKAIE 83
Query: 302 MMNG 305
++G
Sbjct: 84 EVHG 87
>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 = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 30/59 (50%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 300
+FI + + + L F +G V K+ D ATG S+ FGF+S+E P+S +
Sbjct: 4 CKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVV 62
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 26/44 (59%)
Query: 256 QELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
+E F +G ++ A++ +DK TG S+ FGFV+Y+S +
Sbjct: 102 KEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRV 145
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 34/66 (51%), Gaps = 4/66 (6%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEAINGKHK 60
L + +E + F YGT+ DL+I++ + S+G FL + E+ + E + +H
Sbjct: 11 LNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSF---EKPSSVDEVVKTQHI 67
Query: 61 MEGSSV 66
++G +
Sbjct: 68 LDGKVI 73
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 36/70 (51%), Gaps = 1/70 (1%)
Query: 236 IEGPPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPAS 295
+E LFI + +E ++ L F G + S + + T S+ F F+++E+PA
Sbjct: 2 VEADHPGKLFIGGLNRETNEKMLKAVFGKHGPI-SEVLLIKDRTSKSRGFAFITFENPAD 60
Query: 296 AQNAIAMMNG 305
A+NA MNG
Sbjct: 61 AKNAAKDMNG 70
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 31/57 (54%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGK 58
L + +E + A+F +G I ++ +++ S+G AF+ +E A A + +NGK
Sbjct: 15 LNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGK 71
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 38.5 bits (88), Expect = 0.006, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 36/58 (62%), Gaps = 2/58 (3%)
Query: 2 LPKNVSEAEVSALFSIYGTIK--DLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
L +NV++ + +FS YG IK D+ + R SKG A++++E ++A AL+ ++G
Sbjct: 12 LTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDG 69
>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 = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 1/67 (1%)
Query: 240 PGAN-LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQN 298
PGA+ LFI +P D ++ +FG + + + D ATG+SK + F Y
Sbjct: 94 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 153
Query: 299 AIAMMNG 305
AIA +NG
Sbjct: 154 AIAGLNG 160
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 1/67 (1%)
Query: 240 PGAN-LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQN 298
PGA+ LFI +P D ++ +FG + + + D ATG+SK + F Y
Sbjct: 92 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 151
Query: 299 AIAMMNG 305
AIA +NG
Sbjct: 152 AIAGLNG 158
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 37.7 bits (86), Expect = 0.010, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 4/70 (5%)
Query: 4 KNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAINGKHKME 62
+ +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +NG+ M
Sbjct: 17 EEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLM- 75
Query: 63 GSSVPLVVKW 72
P+ V W
Sbjct: 76 --GQPISVDW 83
Score = 37.4 bits (85), Expect = 0.011, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 35/62 (56%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A+ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 304 NG 305
NG
Sbjct: 70 NG 71
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 35/57 (61%), Gaps = 7/57 (12%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGK 58
P +V E+E++ +F +G +K+++IL G AF+++E E A A+E ++GK
Sbjct: 12 FPLDVQESELNEIFGPFGPMKEVKILNG-------FAFVEFEEAESAAKAIEEVHGK 61
>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 = 37.0 bits (84), Expect = 0.015, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 35/62 (56%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A+ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 304 NG 305
NG
Sbjct: 70 NG 71
Score = 37.0 bits (84), Expect = 0.016, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 4/70 (5%)
Query: 4 KNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAINGKHKME 62
+ +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +NG+ M
Sbjct: 17 EEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLM- 75
Query: 63 GSSVPLVVKW 72
P+ V W
Sbjct: 76 --GQPISVDW 83
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 4/73 (5%)
Query: 6 VSEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAALEAINGKHKMEGS 64
+E ++ +FS YG I D+ I+ Q + S+G AF+ +E + A A E NG ME
Sbjct: 58 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG---MELD 114
Query: 65 SVPLVVKWADTEK 77
+ V ++ T++
Sbjct: 115 GRRIRVDFSITKR 127
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 30/66 (45%)
Query: 240 PGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
P L ++ + +++L F +G + + D+ + S+ F FV +E+ A+ A
Sbjct: 45 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 104
Query: 300 IAMMNG 305
NG
Sbjct: 105 KERANG 110
>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 = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
LFI +P D ++ +FG + + + D ATG+SK + F Y AIA +
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 176
Query: 304 NG 305
NG
Sbjct: 177 NG 178
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 36.6 bits (83), Expect = 0.018, Method: Composition-based stats.
Identities = 17/67 (25%), Positives = 32/67 (47%)
Query: 238 GPPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQ 297
P + +++ ++P + +L F +G+V+ + DK T SK F+ + SAQ
Sbjct: 13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQ 72
Query: 298 NAIAMMN 304
N +N
Sbjct: 73 NCTRAIN 79
Score = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAALEAINGKH 59
LP +++ ++ +FS YG + + I++ + SKG AF+ + K+ A AIN K
Sbjct: 24 LPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQ 82
>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 = 36.6 bits (83), Expect = 0.018, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 35/62 (56%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A+ +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 304 NG 305
NG
Sbjct: 72 NG 73
Score = 36.6 bits (83), Expect = 0.019, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 4/70 (5%)
Query: 4 KNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAINGKHKME 62
+ +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +NG+ M
Sbjct: 19 EEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLM- 77
Query: 63 GSSVPLVVKW 72
P+ V W
Sbjct: 78 --GQPISVDW 85
>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 = 36.6 bits (83), Expect = 0.018, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 35/62 (56%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
LF+ + +E ++++ + F +G + + + +D+ TG K + V YE+ AQ A+ +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 304 NG 305
NG
Sbjct: 86 NG 87
Score = 36.6 bits (83), Expect = 0.020, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 4/70 (5%)
Query: 4 KNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAINGKHKME 62
+ +E ++ F+ YG IK++ + L KG ++YET ++A AA+E +NG+ M
Sbjct: 33 EEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLM- 91
Query: 63 GSSVPLVVKW 72
P+ V W
Sbjct: 92 --GQPISVDW 99
>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 = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 34/56 (60%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
LP + ++ E+ + +GT+KDL+++ KG A+++YE + QA A+ ++G
Sbjct: 25 LPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDG 80
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
LFI +P +EL +A G V ++ ++A G K +V YE+ + A A+
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRA-GKPKGLAYVEYENESQASQAVMK 77
Query: 303 MNG 305
M+G
Sbjct: 78 MDG 80
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 36.6 bits (83), Expect = 0.022, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 28/59 (47%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
+F+ IP G+ EL F+ FG V + D + FGF+++E S A+ M
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 36.2 bits (82), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
LFI +P D ++ +FG + + + D ATG+SK + F Y AIA +
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 304 NG 305
NG
Sbjct: 64 NG 65
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 35.8 bits (81), Expect = 0.030, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 33/57 (57%), Gaps = 8/57 (14%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 300
LFI ++P+E +QE+ + F+ +G+VL + K +GFV E +A++AI
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAI 59
>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 = 35.4 bits (80), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 258 LGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNGC 306
L F+ +GRV + D+ T S+ F FV + A++A+ M+G
Sbjct: 64 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGA 112
Score = 34.3 bits (77), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAING 57
L S + +F YG + D+ I R + S+G AF+++ K A A++A++G
Sbjct: 55 LTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 111
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 35.0 bits (79), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 240 PGANL-----FIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPA 294
PGA+L F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++
Sbjct: 99 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 158
Query: 295 SAQNAI 300
S +
Sbjct: 159 SVDKIV 164
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 72
Query: 303 MN 304
MN
Sbjct: 73 MN 74
Score = 30.8 bits (68), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEAINGKHK 60
L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A HK
Sbjct: 22 LSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA--RPHK 79
Query: 61 MEGSSVP 67
++G V
Sbjct: 80 VDGRVVE 86
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 35.0 bits (79), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 240 PGANL-----FIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPA 294
PGA+L F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++
Sbjct: 98 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 157
Query: 295 SAQNAI 300
S +
Sbjct: 158 SVDKIV 163
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 3/63 (4%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 71
Query: 303 MNG 305
MN
Sbjct: 72 MNA 74
Score = 31.2 bits (69), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEAINGKHK 60
L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A HK
Sbjct: 21 LSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA--RPHK 78
Query: 61 MEGSSVP 67
++G V
Sbjct: 79 VDGRVVE 85
>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 = 35.0 bits (79), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 240 PGANL-----FIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPA 294
PGA+L F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++
Sbjct: 98 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 157
Query: 295 SAQNAI 300
S +
Sbjct: 158 SVDKIV 163
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 3/63 (4%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 71
Query: 303 MNG 305
MN
Sbjct: 72 MNA 74
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEAINGKHK 60
L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A HK
Sbjct: 21 LSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA--RPHK 78
Query: 61 MEGSSVP 67
++G V
Sbjct: 79 VDGRVVE 85
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 35.0 bits (79), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 240 PGANL-----FIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPA 294
PGA+L F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++
Sbjct: 96 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 155
Query: 295 SAQNAI 300
S +
Sbjct: 156 SVDKIV 161
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 3/63 (4%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 69
Query: 303 MNG 305
MN
Sbjct: 70 MNA 72
Score = 31.2 bits (69), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEAINGKHK 60
L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A HK
Sbjct: 19 LSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA--RPHK 76
Query: 61 MEGSSVP 67
++G V
Sbjct: 77 VDGRVVE 83
>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 = 34.7 bits (78), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 240 PGANL-----FIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPA 294
PGA+L F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++
Sbjct: 97 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 156
Query: 295 SAQNAI 300
S +
Sbjct: 157 SVDKIV 162
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 3/63 (4%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 70
Query: 303 MNG 305
MN
Sbjct: 71 MNA 73
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEAINGKHK 60
L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A HK
Sbjct: 20 LSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA--RPHK 77
Query: 61 MEGSSVP 67
++G V
Sbjct: 78 VDGRVVE 84
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 34.7 bits (78), Expect = 0.076, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 34/64 (53%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
A + + ++ ++ + +L F+ FG + + DK TG SK F F+S+ A AIA
Sbjct: 16 ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIA 75
Query: 302 MMNG 305
++G
Sbjct: 76 GVSG 79
Score = 29.3 bits (64), Expect = 3.6, Method: Composition-based stats.
Identities = 15/57 (26%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEAING 57
L ++ E ++ LF +G+I + + + + SKG AF+ + +E A A+ ++G
Sbjct: 23 LSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG 79
>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 = 34.7 bits (78), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 240 PGANL-----FIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPA 294
PGA+L F+ I ++ + L + F+ +G++ ++ D+ +G + F FV+++
Sbjct: 91 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 150
Query: 295 SAQNAI 300
S +
Sbjct: 151 SVDKIV 156
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 3/63 (4%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
LFI + E D+ L + F+ +G + V D T S+ FGFV+Y A+ + A
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 64
Query: 303 MNG 305
MN
Sbjct: 65 MNA 67
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRG-SQQTSKGCAFLKYETKEQALAALEAINGKHK 60
L ++ + + F +GT+ D ++R + + S+G F+ Y T E+ AA+ A HK
Sbjct: 14 LSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA--RPHK 71
Query: 61 MEGSSVP 67
++G V
Sbjct: 72 VDGRVVE 78
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 34.3 bits (77), Expect = 0.091, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 29/52 (55%)
Query: 6 VSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
VS+A++ LF+ +GT+K + S G A + +E K AL A++ NG
Sbjct: 40 VSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNG 91
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 34.3 bits (77), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 258 LGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNGC 306
L F+ +GRV + D+ T S+ F FV + A++A+ M+G
Sbjct: 87 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGA 135
Score = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 11 VSALFSIYGTIKDLQILRGS-QQTSKGCAFLKYETKEQALAALEAING 57
+ +F YG + D+ I R + S+G AF+++ K A A++A++G
Sbjct: 87 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 134
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 34.3 bits (77), Expect = 0.096, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAI 55
+P +EA++ LF +G I D + KGC F+KY+T EQA + A+
Sbjct: 35 IPHFATEADLIPLFQNFGFILDFK-----HYPEKGCCFIKYDTHEQAAVCIVAL 83
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 33.9 bits (76), Expect = 0.12, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 24/37 (64%)
Query: 256 QELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYES 292
+++ + F+ FG+V A + DK T + FGFV++ES
Sbjct: 14 EDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFES 50
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 33.9 bits (76), Expect = 0.13, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
L++ + +E D+ L AF FG + ++ +D T + F FV +E A AI M
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 304 N 304
N
Sbjct: 68 N 68
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 33.9 bits (76), Expect = 0.13, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
L++ + +E D+ L AF FG + ++ +D T + F FV +E A AI M
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 304 N 304
N
Sbjct: 65 N 65
>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 = 33.9 bits (76), Expect = 0.13, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
L++ + +E D+ L AF FG + ++ +D T + F FV +E A AI M
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 304 N 304
N
Sbjct: 70 N 70
>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 = 33.9 bits (76), Expect = 0.14, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 300
+F+ I + E+ + F +G V K+ D+ TGVSK +GFVS+ + Q +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 67
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 11/37 (29%), Positives = 23/37 (62%)
Query: 6 VSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKY 42
+ E E+ + F+ YG++K+++I+ SKG F+ +
Sbjct: 21 MDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 57
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 33.5 bits (75), Expect = 0.16, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 7/69 (10%)
Query: 238 GPPGA------NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYE 291
GP G+ +F+ I + E+ + F +G V K+ D+ TGVSK +GFVS+
Sbjct: 1 GPLGSGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFY 59
Query: 292 SPASAQNAI 300
+ Q +
Sbjct: 60 NDVDVQKIV 68
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 11/37 (29%), Positives = 23/37 (62%)
Query: 6 VSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKY 42
+ E E+ + F+ YG++K+++I+ SKG F+ +
Sbjct: 22 MDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 58
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 28/52 (53%)
Query: 6 VSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
VS+A++ LF+ +GT+K + S G A + +E + AL A++ G
Sbjct: 100 VSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKG 151
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 239 PPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQN 298
P ++ I DQ + F FG+++ +VF +K + FV + + SA +
Sbjct: 23 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKG------YSFVRFSTHESAAH 76
Query: 299 AIAMMNG 305
AI +NG
Sbjct: 77 AIVSVNG 83
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 33.5 bits (75), Expect = 0.19, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 262 FQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMMNG 305
F+ FG++ + + D TG SK +GF+++ A+ A+ +NG
Sbjct: 26 FEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNG 69
Score = 31.6 bits (70), Expect = 0.56, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 5 NVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAING 57
N++E + +F +G I ++ +++ S SKG F+ + E A ALE +NG
Sbjct: 16 NITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNG 69
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 33.1 bits (74), Expect = 0.19, Method: Composition-based stats.
Identities = 15/56 (26%), Positives = 29/56 (51%)
Query: 245 FIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 300
F+ + + ++L + F FG V+ + D TG S+ FGF+ ++ AS + +
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVL 70
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 33.1 bits (74), Expect = 0.21, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 7 SEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAALEAING 57
+E ++ +FS YG I D+ I+ Q + S+G AF+ +E + A A E NG
Sbjct: 25 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 76
Score = 28.1 bits (61), Expect = 7.6, Method: Composition-based stats.
Identities = 15/66 (22%), Positives = 30/66 (45%)
Query: 240 PGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
P L ++ + +++L F +G + + D+ + S+ F FV +E+ A+ A
Sbjct: 11 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 70
Query: 300 IAMMNG 305
NG
Sbjct: 71 KERANG 76
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 33.1 bits (74), Expect = 0.21, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
N+++ ++ +++ F FG+V + K+ D+ T K FGFV + S AIA
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAK 61
Query: 303 MN 304
++
Sbjct: 62 LD 63
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 7 SEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAALEAING 57
+E ++ +FS YG I D+ I+ Q + S+G AF+ +E + A A E NG
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Score = 28.1 bits (61), Expect = 7.7, Method: Composition-based stats.
Identities = 15/66 (22%), Positives = 30/66 (45%)
Query: 240 PGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
P L ++ + +++L F +G + + D+ + S+ F FV +E+ A+ A
Sbjct: 14 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Query: 300 IAMMNG 305
NG
Sbjct: 74 KERANG 79
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 300
+F+ I + E+ + F +G V K+ D+ TGVSK +GFVS+ + Q +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 67
Score = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 11/37 (29%), Positives = 23/37 (62%)
Query: 6 VSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKY 42
+ E E+ + F+ YG++K+++I+ SKG F+ +
Sbjct: 21 MDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 57
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 27/64 (42%)
Query: 238 GPPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQ 297
G G +FI + + + L F FG V V D T S+ FGFV++ A
Sbjct: 22 GSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVD 81
Query: 298 NAIA 301
+A
Sbjct: 82 KVLA 85
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 32.7 bits (73), Expect = 0.27, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 8/62 (12%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
+F+ ++ QEL + F+ GRV+ V D + FV E A A+ AIA +
Sbjct: 12 IFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIAQL 63
Query: 304 NG 305
NG
Sbjct: 64 NG 65
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 32.7 bits (73), Expect = 0.27, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 28/52 (53%)
Query: 6 VSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
VS+A++ LF+ +GT+K + S G A + +E K AL A + NG
Sbjct: 41 VSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAXKQYNG 92
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 32.7 bits (73), Expect = 0.30, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
L++ + +E D+ L AF FG + ++ +D T + F FV +E A AI M
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 304 N 304
N
Sbjct: 75 N 75
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAMM 303
L++ + +E D+ L AF FG + ++ +D T + F FV +E A AI M
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 304 N 304
N
Sbjct: 126 N 126
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 32.3 bits (72), Expect = 0.42, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 29/57 (50%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 300
+FI + + ++L + F FG V+ + +D TG S+ FGFV ++ S +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVM 58
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 32.0 bits (71), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%), Gaps = 6/63 (9%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
+ LF+ ++P + ++E+ F+ +G+ + +VF+ K G FGF+ E+ A+ A
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGK--AGEVFIHKDKG----FGFIRLETRTLAEIAKV 76
Query: 302 MMN 304
++
Sbjct: 77 ELD 79
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 300
A+L + ++PQ ++ L AF FG+V A V VD G G V + +A+ A+
Sbjct: 97 ASLTVRNLPQYVSNELLEEAFSVFGQVERAVVIVDD-RGRPSGKGIVEFSGKPAARKAL 154
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 32.0 bits (71), Expect = 0.48, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 7 SEAEVSALFSIYGTIKDLQILRGSQ-QTSKGCAFLKYETKEQALAALEAING 57
+E ++ +FS YG I D+ I+ Q + S+G AF+ +E + A A E NG
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 31.6 bits (70), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
L VS+A++ LF+ +GT+K + S G A + +E + AL A++ G
Sbjct: 43 LDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKG 98
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 31.6 bits (70), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
L VS+A++ LF+ +GT+K + S G A + +E + AL A++ G
Sbjct: 43 LDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKG 98
>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 = 30.8 bits (68), Expect = 1.0, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 33/58 (56%), Gaps = 6/58 (10%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
+ LF+ ++P + ++E+ F+ +G+ + +VF+ K G FGF+ E+ A+ A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGK--AGEVFIHKDKG----FGFIRLETRTLAEIA 67
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 43/85 (50%), Gaps = 12/85 (14%)
Query: 4 KNVS-EAEVSALFSIYGTIKDLQ----ILRGSQQTSKGCAFLKYETKEQ-----ALAALE 53
+N+S ++E AL + DL+ +L + SKGCAF ++ T+E A A+LE
Sbjct: 21 RNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLE 80
Query: 54 AINGKHKMEGSSVPLVVKWADTEKE 78
A G K++G L V A T E
Sbjct: 81 AEGGGLKLDGRQ--LKVDLAVTRDE 103
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 29/63 (46%)
Query: 239 PPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQN 298
G +FI ++ + ++ LG Q FG + +V + T SK F + + +AQ
Sbjct: 13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQK 72
Query: 299 AIA 301
+A
Sbjct: 73 CLA 75
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 241 GANLFIYHIPQEFGDQELGNAFQAFGR-VLSAKVFVDKATGVSKCFGFVSYESPASAQNA 299
A+L++ + + + AF G V+S K+ ++ TG+ + FV + A+A+
Sbjct: 9 AASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKC 68
Query: 300 IAMMNG 305
+ +NG
Sbjct: 69 LHKING 74
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 30.4 bits (67), Expect = 1.4, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 27/58 (46%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
LF+ + + L + F +G V+ + DK T S+ FGFV ++ P +A
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLA 76
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 19/68 (27%), Positives = 38/68 (55%), Gaps = 8/68 (11%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHKM 61
L V+E + FS +G ++ ++ L K AF+ ++ ++ A+ A+E +NGK +
Sbjct: 19 LANTVTEEILEKAFSQFGKLERVKKL-------KDYAFIHFDERDGAVKAMEEMNGK-DL 70
Query: 62 EGSSVPLV 69
EG ++ +V
Sbjct: 71 EGENIEIV 78
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 28/59 (47%), Gaps = 8/59 (13%)
Query: 15 FSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWA 73
FS +G I DL S + CAF+ YE E A A+ +NG + SV L V A
Sbjct: 58 FSPFGNIIDL-----SMDPPRNCAFVTYEKMESADQAVAELNGT---QVESVQLKVNIA 108
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 8/66 (12%)
Query: 241 GANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 300
G L++Y ++ L AF FG + +D + + FV+YE SA A+
Sbjct: 39 GNTLYVYG--EDMTPTLLRGAFSPFGNI------IDLSMDPPRNCAFVTYEKMESADQAV 90
Query: 301 AMMNGC 306
A +NG
Sbjct: 91 AELNGT 96
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 27/59 (45%), Gaps = 8/59 (13%)
Query: 15 FSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHKMEGSSVPLVVKWA 73
FS +G I DL S + CAF+ YE E A A+ +NG SV L V A
Sbjct: 34 FSPFGNIIDL-----SMDPPRNCAFVTYEKMESADQAVAELNGTQV---ESVQLKVNIA 84
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 8/66 (12%)
Query: 241 GANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAI 300
G L++Y ++ L AF FG + +D + + FV+YE SA A+
Sbjct: 15 GNTLYVYG--EDMTPTLLRGAFSPFGNI------IDLSMDPPRNCAFVTYEKMESADQAV 66
Query: 301 AMMNGC 306
A +NG
Sbjct: 67 AELNGT 72
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 30.0 bits (66), Expect = 2.0, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 280 GVSKCFGFVSYESPASAQNAIAMMNG 305
G K FGFV ++ P S AIA++NG
Sbjct: 54 GKPKSFGFVCFKHPESVSYAIALLNG 79
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 30/63 (47%)
Query: 243 NLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIAM 302
LF+ ++ +++L F A+G + +D T K F FV++ P A A A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 303 MNG 305
++G
Sbjct: 70 VDG 72
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 7 SEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAINGK 58
SE ++ LFS YG + +L + + KG AF+ + E A+ A ++G+
Sbjct: 21 SEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQ 73
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 7/53 (13%)
Query: 6 VSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGK 58
V +++V +FS YG + + KG AF++Y + A AA+ NG+
Sbjct: 40 VKKSDVETIFSKYGRVAGCSV-------HKGYAFVQYSNERHARAAVLGENGR 85
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 35/73 (47%), Gaps = 6/73 (8%)
Query: 236 IEGPPGAN---LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYES 292
I GP G N +++ ++P + +++ + F +G + + K F FV +E
Sbjct: 14 IRGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL---KNRRGGPPFAFVEFED 70
Query: 293 PASAQNAIAMMNG 305
P A++A+ +G
Sbjct: 71 PRDAEDAVYGRDG 83
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 33/56 (58%), Gaps = 4/56 (7%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
LP+ +E +S LF+ + K+++++ G AF++++ + QA AA +A+ G
Sbjct: 215 LPEETNELMLSMLFNQFPGFKEVRLVPGRH----DIAFVEFDNEVQAGAARDALQG 266
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 273 VFVDKATGVSKCFGFVSYESPASAQNAIAMMNG 305
+++DK TG K VSYE P +A+ A+ +G
Sbjct: 55 IYLDKETGKPKGDATVSYEDPPTAKAAVEWFDG 87
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 32/63 (50%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
A +++ + ++ + L F G V++ + D+ TG + +GFV + S A AI
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75
Query: 302 MMN 304
+M+
Sbjct: 76 IMD 78
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 7/53 (13%)
Query: 6 VSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGK 58
V +++V A+FS YG I + KG AF++Y + A AA+ +G+
Sbjct: 28 VKKSDVEAIFSKYGKIVGCSV-------HKGFAFVQYVNERNARAAVAGEDGR 73
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 29.3 bits (64), Expect = 3.0, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 3/67 (4%)
Query: 242 ANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATG---VSKCFGFVSYESPASAQN 298
+ LFI ++ ++ L F G + S + K +S FGFV Y+ P AQ
Sbjct: 6 SGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQK 65
Query: 299 AIAMMNG 305
A+ + G
Sbjct: 66 ALKQLQG 72
>pdb|2U1A|A Chain A, Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20
Structures
Length = 88
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 33/56 (58%), Gaps = 4/56 (7%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAING 57
LP+ +E +S LF+ + K+++++ G AF++++ + QA AA +A+ G
Sbjct: 21 LPEETNELMLSMLFNQFPGFKEVRLVPGRH----DIAFVEFDNEVQAGAARDALQG 72
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 4/78 (5%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQI-LRGSQQTSKGCAFLKYETKEQALAALEAINGKHK 60
L V+E ++ +LF+ + K I R +G AF+ + KE A AL +NG +K
Sbjct: 33 LSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNG-YK 91
Query: 61 MEGSSVPLVVKWADTEKE 78
+ G LV+++ +K+
Sbjct: 92 LYGKI--LVIEFGKNKKQ 107
>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 = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 29/67 (43%)
Query: 239 PPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQN 298
P A L + ++P Q+ + FG + + + TG SK +GF Y SA
Sbjct: 91 PTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAAR 150
Query: 299 AIAMMNG 305
A + + G
Sbjct: 151 AKSDLLG 157
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 29/67 (43%)
Query: 239 PPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQN 298
P A L + ++P Q+ + FG + + + TG SK +GF Y SA
Sbjct: 93 PTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAAR 152
Query: 299 AIAMMNG 305
A + + G
Sbjct: 153 AKSDLLG 159
>pdb|1OWX|A Chain A, Solution Structure Of The C-Terminal Rrm Of Human La
(La225- 334)
Length = 121
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGKHKM 61
L ++ LFS +G IK + +RG+++ G K + KE A +A NG ++
Sbjct: 27 LDDQTCREDLHILFSNHGEIKWIDFVRGAKE---GIILFKEKAKEALGKAKDANNGNLQL 83
Query: 62 EGSSVPLVVKWADTEKE 78
V V + EKE
Sbjct: 84 RNKEVTWEVLEGEVEKE 100
>pdb|3U1L|A Chain A, Structure Of The Mrna Splicing Complex Component Cwc2
pdb|3U1M|A Chain A, Structure Of The Mrna Splicing Complex Component Cwc2
Length = 240
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 39/80 (48%), Gaps = 18/80 (22%)
Query: 8 EAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALEAINGK--------- 58
E+ + +FS G I ++ + SK C F+K++ + A A EA++ +
Sbjct: 157 ESRIRFVFSRLGDIDRIRYVE-----SKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDKE 211
Query: 59 --HKMEGSSVPLVVKWADTE 76
+ EG+ L+VKWA+ +
Sbjct: 212 WDDRREGTG--LLVKWANED 229
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 29/67 (43%)
Query: 239 PPGANLFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQN 298
P A L + ++P Q+ + FG + + + TG SK +GF Y SA
Sbjct: 93 PTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAAR 152
Query: 299 AIAMMNG 305
A + + G
Sbjct: 153 AKSDLLG 159
>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 = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAING 57
+P + +E ++ L S G + +L+++ Q SKG AF+++ E + +A+ +NG
Sbjct: 12 IPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNG 68
>pdb|4AH6|A Chain A, Human Mitochondrial Aspartyl-Trna Synthetase
pdb|4AH6|B Chain B, Human Mitochondrial Aspartyl-Trna Synthetase
pdb|4AH6|C Chain C, Human Mitochondrial Aspartyl-Trna Synthetase
pdb|4AH6|D Chain D, Human Mitochondrial Aspartyl-Trna Synthetase
Length = 617
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 7/60 (11%)
Query: 163 LSSNMGPRNYAMPPSGFVGSGYPAV-------PGLQYPMPYPGGMLGHRPLNNSPGSVSP 215
LS + +Y PP G + G + P ++ + +P GH ++N+P SV P
Sbjct: 525 LSHLLQALDYGAPPHGGIALGLDRLICLVTGSPSIRDVIAFPKSFRGHDLMSNTPDSVPP 584
>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 = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 275 VDKATGVSKCFGFVSYESPASAQNAIAMMNG 305
+DK + F FV Y S A A+NA+ +NG
Sbjct: 73 LDKMKKTACGFCFVEYYSRADAENAMRYING 103
>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 = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 2 LPKNVSEAEVSALFSIYGTIKDLQILRGSQQ-TSKGCAFLKYETKEQALAALEAING 57
+P + +E ++ L S G + +L+++ Q SKG AF+++ E + +A+ +NG
Sbjct: 11 IPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNG 67
>pdb|1X4F|A Chain A, Solution Structure Of The Second Rrm Domain In Matrin 3
Length = 112
Score = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 5/47 (10%)
Query: 7 SEAEVSALFSIYGTIKDLQILRGSQQTSKGCAFLKYETKEQALAALE 53
S++ V L YG IK+ ++R Q AF++ ET+E A+A ++
Sbjct: 39 SDSAVLKLAEPYGKIKNYILMRMKSQ-----AFIEMETREDAMAMVD 80
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 27.7 bits (60), Expect = 8.4, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 25/58 (43%)
Query: 244 LFIYHIPQEFGDQELGNAFQAFGRVLSAKVFVDKATGVSKCFGFVSYESPASAQNAIA 301
+FI + + + L F FG V V D T S+ FGFV++ A +A
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA 60
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 0.134 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,666,680
Number of Sequences: 62578
Number of extensions: 393051
Number of successful extensions: 720
Number of sequences better than 100.0: 141
Number of HSP's better than 100.0 without gapping: 110
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 481
Number of HSP's gapped (non-prelim): 249
length of query: 327
length of database: 14,973,337
effective HSP length: 99
effective length of query: 228
effective length of database: 8,778,115
effective search space: 2001410220
effective search space used: 2001410220
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)