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= 019542
(339 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 90.5 bits (223), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 54/175 (30%), Positives = 92/175 (52%), Gaps = 11/175 (6%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
K+F+G L +D + L F K GTV +++ + T RSRGFGF++ ++ V+
Sbjct: 4 CKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK 63
Query: 220 MFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGK 279
H +DG+++ +A PR Q + +I+VG + +V E+ FS+ G
Sbjct: 64 TQHI--LDGKVIDPKRAIPRDEQDKTG--------KIFVGGIGPDVRPKEFEEFFSQWGT 113
Query: 280 VVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQ 334
+++A+++ D++TG+SRGFGFVT S + D + + R I + AE R
Sbjct: 114 IIDAQLMLDKDTGQSRGFGFVTYDSADAV-DRVCQNKFIDFKDRKIEIKRAEPRH 167
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 90.5 bits (223), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 48/163 (29%), Positives = 84/163 (51%), Gaps = 8/163 (4%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L V LP ++ ++ LF G +E +++ ++ T +S G+GFV S +A+KA+
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 222 HRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVV 281
+ + + + V+ A P A +YV LP + +EQ+FS++G+++
Sbjct: 67 NGLKLQTKTIKVSYARPSSASIRDA--------NLYVSGLPKTMSQKEMEQLFSQYGRII 118
Query: 282 NARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRA 324
+R++ D+ TG SRG GF+ E +AI L+GQ G A
Sbjct: 119 TSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGAA 161
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 40/75 (53%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V LP + + +F G + + ++V D+ TG+S G+GFV S + + AI L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 316 DGQNLDGRAIRVNVA 330
+G L + I+V+ A
Sbjct: 67 NGLKLQTKTIKVSYA 81
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 35/61 (57%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
DA L+V LP + +++ LF + G + + ++ ++ T SRG GF+ EAE+A+
Sbjct: 90 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 149
Query: 219 E 219
+
Sbjct: 150 K 150
>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 = 89.7 bits (221), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 49/161 (30%), Positives = 83/161 (51%), Gaps = 8/161 (4%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L V LP ++ E+ LF G +E +++ ++ T +S G+GFV ++AEKA+
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 222 HRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVV 281
+ + + + V+ A P A +YV LP + LEQ+FS++G+++
Sbjct: 65 NGLRLQTKTIKVSYARPSSASIRDA--------NLYVSGLPKTMTQKELEQLFSQYGRII 116
Query: 282 NARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDG 322
+R++ D+ TG SRG GF+ E +AI L+GQ G
Sbjct: 117 TSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSG 157
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V LP + +F G++ + ++V D+ TG+S G+GFV + AI L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 316 DGQNLDGRAIRVNVA 330
+G L + I+V+ A
Sbjct: 65 NGLRLQTKTIKVSYA 79
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 35/61 (57%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
DA L+V LP + ++L LF + G + + ++ ++ T SRG GF+ EAE+A+
Sbjct: 88 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAI 147
Query: 219 E 219
+
Sbjct: 148 K 148
>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 = 88.6 bits (218), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 90/178 (50%), Gaps = 4/178 (2%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G L ++ E L FE+ GT+ V+ + T RSRGFGFVT +TVEE + A+
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKV 280
+ +DGR++ +A R + + P +I+VG + + + L F ++GK+
Sbjct: 74 -RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 130
Query: 281 VNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQRRSS 338
++ DR +G+ RGF FVT + D I ++G V A +Q +S
Sbjct: 131 EVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVIQKYHTVNGHNCEVRKALSKQEMAS 187
Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 50/93 (53%), Gaps = 4/93 (4%)
Query: 246 APRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 305
+P+ E ++++G L +E + L F + G + + V+ D T RSRGFGFVT ++
Sbjct: 5 SPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATV 64
Query: 306 TELNDAIAALDGQNLDGRAI---RVNVAEDRQR 335
E++ A+ A +DGR + R ED QR
Sbjct: 65 EEVDAAMNARP-HKVDGRVVEPKRAVSREDSQR 96
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 88.6 bits (218), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 90/178 (50%), Gaps = 4/178 (2%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G L ++ E L FE+ GT+ V+ + T RSRGFGFVT +TVEE + A+
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKV 280
+ +DGR++ +A R + + P +I+VG + + + L F ++GK+
Sbjct: 76 -RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 132
Query: 281 VNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQRRSS 338
++ DR +G+ RGF FVT + D I ++G V A +Q +S
Sbjct: 133 EVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVIQKYHTVNGHNCEVRKALSKQEMAS 189
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 32/99 (32%), Positives = 51/99 (51%), Gaps = 4/99 (4%)
Query: 240 GTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGF 299
G +P+ E ++++G L +E + L F + G + + V+ D T RSRGFGF
Sbjct: 1 GGSKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGF 60
Query: 300 VTMSSETELNDAIAALDGQNLDGRAI---RVNVAEDRQR 335
VT ++ E++ A+ A +DGR + R ED QR
Sbjct: 61 VTYATVEEVDAAMNARP-HKVDGRVVEPKRAVSREDSQR 98
>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 = 88.6 bits (218), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 90/178 (50%), Gaps = 4/178 (2%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G L ++ E L FE+ GT+ V+ + T RSRGFGFVT +TVEE + A+
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKV 280
+ +DGR++ +A R + + P +I+VG + + + L F ++GK+
Sbjct: 75 -RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 131
Query: 281 VNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQRRSS 338
++ DR +G+ RGF FVT + D I ++G V A +Q +S
Sbjct: 132 EVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVIQKYHTVNGHNCEVRKALSKQEMAS 188
Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 50/93 (53%), Gaps = 4/93 (4%)
Query: 246 APRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 305
+P+ E ++++G L +E + L F + G + + V+ D T RSRGFGFVT ++
Sbjct: 6 SPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATV 65
Query: 306 TELNDAIAALDGQNLDGRAI---RVNVAEDRQR 335
E++ A+ A +DGR + R ED QR
Sbjct: 66 EEVDAAMNARP-HKVDGRVVEPKRAVSREDSQR 97
>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 = 88.2 bits (217), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 90/178 (50%), Gaps = 4/178 (2%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G L ++ E L FE+ GT+ V+ + T RSRGFGFVT +TVEE + A+
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKV 280
+ +DGR++ +A R + + P +I+VG + + + L F ++GK+
Sbjct: 68 -RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 124
Query: 281 VNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQRRSS 338
++ DR +G+ RGF FVT + D I ++G V A +Q +S
Sbjct: 125 EVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVIQKYHTVNGHNCEVRKALSKQEMAS 181
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 87.4 bits (215), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 55/174 (31%), Positives = 88/174 (50%), Gaps = 4/174 (2%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G L ++ E L FE+ GT+ V+ + T RSRGFGFVT +TVEE + A+
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKV 280
+ +DGR++ +A R + + P +I+VG + + + L F ++GK+
Sbjct: 75 -RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 131
Query: 281 VNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQ 334
++ DR +G+ RGF FVT + D I ++G V A +Q
Sbjct: 132 EVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVIQKYHTVNGHNCEVRKALSKQ 184
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 46/84 (54%), Gaps = 4/84 (4%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
++++G L +E + L F + G + + V+ D T RSRGFGFVT ++ E++ A+ A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 315 LDGQNLDGRAI---RVNVAEDRQR 335
+DGR + R ED QR
Sbjct: 75 RP-HKVDGRVVEPKRAVSREDSQR 97
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 55/174 (31%), Positives = 88/174 (50%), Gaps = 4/174 (2%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G L ++ E L FE+ GT+ V+ + T RSRGFGFVT +TVEE + A+
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKV 280
+ +DGR++ +A R + + P +I+VG + + + L F ++GK+
Sbjct: 73 -RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 129
Query: 281 VNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQ 334
++ DR +G+ RGF FVT + D I ++G V A +Q
Sbjct: 130 EVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVIQKYHTVNGHNCEVRKALSKQ 182
Score = 47.8 bits (112), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 46/84 (54%), Gaps = 4/84 (4%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
++++G L +E + L F + G + + V+ D T RSRGFGFVT ++ E++ A+ A
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 315 LDGQNLDGRAI---RVNVAEDRQR 335
+DGR + R ED QR
Sbjct: 73 RP-HKVDGRVVEPKRAVSREDSQR 95
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 84.0 bits (206), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 46/157 (29%), Positives = 81/157 (51%), Gaps = 8/157 (5%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L V LP ++ ++L LF G VE A++I ++ S G+GFV T ++AE+A+
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 222 HRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVV 281
+ + + + V+ A P + A +Y+ LP + +E +FS G+++
Sbjct: 65 NGLRLQSKTIKVSYARPSSEVIKDA--------NLYISGLPRTMTQKDVEDMFSRFGRII 116
Query: 282 NARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQ 318
N+RV+ D+ TG SRG F+ +E +AI + +G
Sbjct: 117 NSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNGH 153
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V LP + L +FS G+V +A+++ D+ G S G+GFV + + AI L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 316 DGQNLDGRAIRVNVA 330
+G L + I+V+ A
Sbjct: 65 NGLRLQSKTIKVSYA 79
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 34/64 (53%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
DA L++ LP + + + +F + G + + V+ ++ T SRG F+ EAE+A+
Sbjct: 88 DANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
Query: 219 EMFH 222
F+
Sbjct: 148 TSFN 151
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 84.0 bits (206), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 46/157 (29%), Positives = 81/157 (51%), Gaps = 8/157 (5%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L V LP ++ ++L LF G VE A++I ++ S G+GFV T ++AE+A+
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 222 HRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVV 281
+ + + + V+ A P + A +Y+ LP + +E +FS G+++
Sbjct: 65 NGLRLQSKTIKVSYARPSSEVIKDA--------NLYISGLPRTMTQKDVEDMFSRFGRII 116
Query: 282 NARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQ 318
N+RV+ D+ TG SRG F+ +E +AI + +G
Sbjct: 117 NSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNGH 153
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V LP + L +FS G+V +A+++ D+ G S G+GFV + + AI L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 316 DGQNLDGRAIRVNVA 330
+G L + I+V+ A
Sbjct: 65 NGLRLQSKTIKVSYA 79
Score = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 34/64 (53%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
DA L++ LP + + + +F + G + + V+ ++ T SRG F+ EAE+A+
Sbjct: 88 DANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
Query: 219 EMFH 222
F+
Sbjct: 148 TSFN 151
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 80.9 bits (198), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 44/169 (26%), Positives = 93/169 (55%), Gaps = 7/169 (4%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L+VGNL + + L F+ G + +++ ++ +++ + FV +A A++
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQTL 61
Query: 222 HRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVV 281
+ I+ ++ +N A Q +++ + F ++VG+L VD+ L F + +
Sbjct: 62 NGKQIENNIVKINWA----FQSQQSSS--DDTFNLFVGDLNVNVDDETLRNAFKDFPSYL 115
Query: 282 NARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVA 330
+ V++D +TG SRG+GFV+ +S+ + +A+ ++ GQ+L+GR +R+N A
Sbjct: 116 SGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA 164
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 47/76 (61%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
LFVG+L +VD E L F+ + V+++ +T SRG+GFV+ ++ ++A+ A++
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 222 HRYDIDGRLLTVNKAA 237
D++GR L +N AA
Sbjct: 150 QGQDLNGRPLRINWAA 165
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 43/83 (51%), Gaps = 1/83 (1%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+YVGNL + L+Q F G + N +++ D+ ++ + FV + N A+ L
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNN-KNVNYAFVEYHQSHDANIALQTL 61
Query: 316 DGQNLDGRAIRVNVAEDRQRRSS 338
+G+ ++ +++N A Q+ SS
Sbjct: 62 NGKQIENNIVKINWAFQSQQSSS 84
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 78.6 bits (192), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 36/76 (47%), Positives = 55/76 (72%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
+++VG L ++ + LEQVFS++G++ VV DRET RSRGFGFVT + + DA+ A
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 315 LDGQNLDGRAIRVNVA 330
++G+++DGR IRV+ A
Sbjct: 74 MNGKSVDGRQIRVDQA 89
Score = 68.6 bits (166), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 31/80 (38%), Positives = 49/80 (61%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
+ KLFVG L +D + + L +F K G + V+ +RET RSRGFGFVT +++A+ A+
Sbjct: 12 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAM 71
Query: 219 EMFHRYDIDGRLLTVNKAAP 238
+ +DGR + V++A
Sbjct: 72 MAMNGKSVDGRQIRVDQAGK 91
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 77.4 bits (189), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 42/158 (26%), Positives = 81/158 (51%), Gaps = 8/158 (5%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
+ L V LP D+ +L LF G + ++ + +T S G+ FV ++ ++++A+
Sbjct: 3 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAI 62
Query: 219 EMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHG 278
++ + + + L V+ A P G + +YV NLP + + +L+ +F ++G
Sbjct: 63 KVLNGITVRNKRLKVSYARPGGESIKDT--------NLYVTNLPRTITDDQLDTIFGKYG 114
Query: 279 KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALD 316
+V ++ D+ TGR RG FV + E +AI+AL+
Sbjct: 115 SIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALN 152
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V LP ++ + L +F G + R++ D +TG S G+ FV +SE + AI L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 316 DGQNLDGRAIRVNVA 330
+G + + ++V+ A
Sbjct: 66 NGITVRNKRLKVSYA 80
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 35/79 (44%), Positives = 55/79 (69%), Gaps = 1/79 (1%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
IYVGNL + + +++++FS+ GKV N +++YDRET + +GFGFV M E+ +++AIA L
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKL 62
Query: 316 DGQNLDGRAIRVNVAEDRQ 334
D + GR IRV A ++
Sbjct: 63 DNTDFMGRTIRVTEANPKK 81
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
++VGNL Y SE++ LF + G V ++IY+RET + +GFGFV M E +A+
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAKL 62
Query: 222 HRYDIDGRLLTVNKAAPR 239
D GR + V +A P+
Sbjct: 63 DNTDFMGRTIRVTEANPK 80
>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 = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 42/158 (26%), Positives = 79/158 (50%), Gaps = 8/158 (5%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
+ L V LP D +L LF G + + + +T S G+ FV ++ ++++A+
Sbjct: 14 NTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAI 73
Query: 219 EMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHG 278
++ + + + L V+ A P G + +YV NLP + + +L+ +F ++G
Sbjct: 74 KVLNGITVRNKRLKVSYARPGGESIKDT--------NLYVTNLPRTITDDQLDTIFGKYG 125
Query: 279 KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALD 316
+V ++ D+ TGR RG FV + E +AI+AL+
Sbjct: 126 SIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALN 163
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 72.0 bits (175), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 33/81 (40%), Positives = 53/81 (65%), Gaps = 1/81 (1%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
++VGN+P+E +L+ +FSE G VV+ R+VYDRETG+ +G+GF + A+ L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 316 DGQNLDGRAIRV-NVAEDRQR 335
+G+ GRA+RV N A ++ +
Sbjct: 71 NGREFSGRALRVDNAASEKNK 91
Score = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 45/83 (54%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+FVGN+PY+ E+L +F + G V ++Y+RET + +G+GF E A A+
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 222 HRYDIDGRLLTVNKAAPRGTQPE 244
+ + GR L V+ AA + E
Sbjct: 71 NGREFSGRALRVDNAASEKNKEE 93
>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 = 71.2 bits (173), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 44/177 (24%), Positives = 90/177 (50%), Gaps = 9/177 (5%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
++++VG++ Y++ + + F G ++ ++ ++ T + +GF FV E A+ A+E
Sbjct: 29 SRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 88
Query: 220 MFHRYDIDGRLLTVNK------AAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQV 273
+ + GR + V + A P Q R F RIYV ++ ++ + ++ V
Sbjct: 89 QMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFN---RIYVASVHQDLSDDDIKSV 145
Query: 274 FSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVA 330
F GK+ +A + D TG+ +G+GF+ DA+++++ +L G+ +RV A
Sbjct: 146 FEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKA 202
>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 = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 43/177 (24%), Positives = 88/177 (49%), Gaps = 9/177 (5%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
+++VG++ Y++ + + F G ++ ++ ++ T + +GF FV E A+ A+E
Sbjct: 14 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 73
Query: 220 MFHRYDIDGRLLTVNK------AAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQV 273
+ + GR + V + A P Q R F RIYV ++ ++ + ++ V
Sbjct: 74 QMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFN---RIYVASVHQDLSDDDIKSV 130
Query: 274 FSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVA 330
F GK+ + + D TG+ +G+GF+ DA+++++ +L G+ +RV A
Sbjct: 131 FEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKA 187
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 69.3 bits (168), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 56/153 (36%), Positives = 78/153 (50%), Gaps = 21/153 (13%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
+LFVGNLP D+ E LFE+ G E +EV NR+ RGFGF+ + + AE A
Sbjct: 23 CRLFVGNLPTDITEEDFKRLFERYG--EPSEVFINRD----RGFGFIRLESRTLAEIA-- 74
Query: 220 MFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGK 279
+ ++DG +L ++P R R G + V NL V N LEQ FS+ G
Sbjct: 75 ---KAELDGTILK--------SRPLRI-RFATHGAALTVKNLSPVVSNELLEQAFSQFGP 122
Query: 280 VVNARVVYDRETGRSRGFGFVTMSSETELNDAI 312
V A VV D + GR+ G GFV +++ A+
Sbjct: 123 VEKAVVVVD-DRGRATGKGFVEFAAKPPARKAL 154
Score = 47.8 bits (112), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 6/76 (7%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
R++VGNLP ++ +++F +G+ + R RGFGF+ + S T A A
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEIAKAE 77
Query: 315 LDGQNLDGRAIRVNVA 330
LDG L R +R+ A
Sbjct: 78 LDGTILKSRPLRIRFA 93
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 69.3 bits (168), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 52/180 (28%), Positives = 87/180 (48%), Gaps = 10/180 (5%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
A L+VG+L DV L F AG + V + T RS G+ +V +AE+A++
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 75
Query: 220 MFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF-RIYVGNLPWEVDNARLEQVFSEHG 278
+ I G+ + + +R P + + G I++ NL +DN L FS G
Sbjct: 76 TMNFDVIKGKPVRI-------MWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFG 128
Query: 279 KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQRRSS 338
+++ +VV D E G S+G+GFV ++ AI ++G L+ R + V + R+ R +
Sbjct: 129 NILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRKEREA 186
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/94 (34%), Positives = 45/94 (47%), Gaps = 8/94 (8%)
Query: 237 APRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRG 296
P G+ AP P +YVG+L +V A L + FS G +++ RV D T RS G
Sbjct: 1 GPLGSMNPSAPSY--PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLG 58
Query: 297 FGFVTMSSETELNDAIAALDGQNLD---GRAIRV 327
+ +V DA ALD N D G+ +R+
Sbjct: 59 YAYVNFQQPA---DAERALDTMNFDVIKGKPVRI 89
>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 = 68.9 bits (167), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 43/177 (24%), Positives = 86/177 (48%), Gaps = 9/177 (5%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
+++VG++ Y++ + + F G ++ + ++ T + +GF FV E A+ A+E
Sbjct: 13 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALE 72
Query: 220 MFHRYDIDGRLLTVNK------AAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQV 273
+ + GR + V + A P Q R F RIYV ++ ++ + ++ V
Sbjct: 73 QXNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFN---RIYVASVHQDLSDDDIKSV 129
Query: 274 FSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVA 330
F GK+ + + D TG+ +G+GF+ DA+++ + +L G+ +RV A
Sbjct: 130 FEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRVGKA 186
>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 = 68.9 bits (167), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 52/180 (28%), Positives = 87/180 (48%), Gaps = 10/180 (5%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
A L+VG+L DV L F AG + V + T RS G+ +V +AE+A++
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 70
Query: 220 MFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF-RIYVGNLPWEVDNARLEQVFSEHG 278
+ I G+ + + +R P + + G I++ NL +DN L FS G
Sbjct: 71 TMNFDVIKGKPVRI-------MWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFG 123
Query: 279 KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQRRSS 338
+++ +VV D E G S+G+GFV ++ AI ++G L+ R + V + R+ R +
Sbjct: 124 NILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRKEREA 181
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 40/79 (50%), Gaps = 6/79 (7%)
Query: 252 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDA 311
P +YVG+L +V A L + FS G +++ RV D T RS G+ +V DA
Sbjct: 9 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPA---DA 65
Query: 312 IAALDGQNLD---GRAIRV 327
ALD N D G+ +R+
Sbjct: 66 ERALDTMNFDVIKGKPVRI 84
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 49/77 (63%)
Query: 254 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 313
F ++VG+L E+ ++ F+ GK+ +ARVV D TG+S+G+GFV+ ++ + +AI
Sbjct: 16 FHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIV 75
Query: 314 ALDGQNLDGRAIRVNVA 330
+ GQ L GR IR N A
Sbjct: 76 HMGGQWLGGRQIRTNWA 92
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 39/75 (52%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+FVG+L ++ +E + F G + A V+ + T +S+G+GFV+ +AE A+
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 222 HRYDIDGRLLTVNKA 236
+ GR + N A
Sbjct: 78 GGQWLGGRQIRTNWA 92
>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 = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 51/77 (66%)
Query: 254 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 313
F ++VG+L VD+ L F + ++ V++D +TG SRG+GFV+ +S+ + +A+
Sbjct: 2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 61
Query: 314 ALDGQNLDGRAIRVNVA 330
++ GQ+L+GR +R+N A
Sbjct: 62 SMQGQDLNGRPLRINWA 78
Score = 54.7 bits (130), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 47/77 (61%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
LFVG+L +VD E L F+ + V+++ +T SRG+GFV+ ++ ++A+ A++
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 221 FHRYDIDGRLLTVNKAA 237
D++GR L +N AA
Sbjct: 63 MQGQDLNGRPLRINWAA 79
>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 = 65.5 bits (158), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 49/77 (63%)
Query: 254 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 313
F ++VG+L E+ ++ F+ G++ +ARVV D TG+S+G+GFV+ ++ + +AI
Sbjct: 16 FHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 75
Query: 314 ALDGQNLDGRAIRVNVA 330
+ GQ L GR IR N A
Sbjct: 76 QMGGQWLGGRQIRTNWA 92
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 44/85 (51%), Gaps = 5/85 (5%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+FVG+L ++ +E + F G + A V+ + T +S+G+GFV+ +AE A++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 222 HRYDIDGRLLTVNKA-----APRGT 241
+ GR + N A AP+ T
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPKST 102
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 62.8 bits (151), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 50/153 (32%), Positives = 71/153 (46%), Gaps = 21/153 (13%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
++LFVGNLP D+ E++ LFEK G EV +++ +GFGF+ + T AE A
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKA--GEVFIHKD----KGFGFIRLETRTLAEIAKV 76
Query: 220 MFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGK 279
+ G+ L V A + + V NLP V N LE+ FS G+
Sbjct: 77 ELDNMPLRGKQLRVRFACHSAS--------------LTVRNLPQYVSNELLEEAFSVFGQ 122
Query: 280 VVNARVVYDRETGRSRGFGFVTMSSETELNDAI 312
V A V+ D + GR G G V S + A+
Sbjct: 123 VERAVVIVD-DRGRPSGKGIVEFSGKPAARKAL 154
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 6/76 (7%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
R++VGNLP ++ + ++F ++GK + D +GFGF+ + + T A
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 77
Query: 315 LDGQNLDGRAIRVNVA 330
LD L G+ +RV A
Sbjct: 78 LDNMPLRGKQLRVRFA 93
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 62.4 bits (150), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 49/82 (59%), Gaps = 1/82 (1%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
K+FVG +P++ +L F+K G V +IY+ E R RGFGF+T + ++AV M
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 221 FHRYDIDGRLLTVNKAAPRGTQ 242
H +DI G+ + V +A PR ++
Sbjct: 72 -HFHDIMGKKVEVKRAEPRDSK 92
Score = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
+I+VG +P L + F + G V ++YD E R RGFGF+T E ++ A+
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV-N 70
Query: 315 LDGQNLDGRAIRVNVAEDRQRRSS 338
+ ++ G+ + V AE R +SS
Sbjct: 71 MHFHDIMGKKVEVKRAEPRDSKSS 94
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 62.0 bits (149), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 41/98 (41%), Positives = 52/98 (53%), Gaps = 6/98 (6%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
K+FVG LPY L FE G +E A VI +R+T +SRG+GFVTM+ AE+A +
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYV 258
+ IDGR VN A PR + GF I V
Sbjct: 79 PNPI-IDGRKANVNLA-----YLGAKPRSLQTGFAIGV 110
Score = 58.5 bits (140), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
+I+VG LP+ +A L + F G + A V+ DR+TG+SRG+GFVTM+ A
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 315 LDGQNLDGRAIRVNVA 330
+ +DGR VN+A
Sbjct: 79 PN-PIIDGRKANVNLA 93
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 61.6 bits (148), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 48/81 (59%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V +P VD +L Q+F +G + + ++V DRET +SRG+GFV S + AIA L
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 316 DGQNLDGRAIRVNVAEDRQRR 336
+G N+ + ++V +A +R
Sbjct: 105 NGFNILNKRLKVALAASGHQR 125
Score = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 45/76 (59%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L V +P VD +L LFE+ G +E +++ +RET +SRG+GFV + A++A+
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 222 HRYDIDGRLLTVNKAA 237
+ ++I + L V AA
Sbjct: 105 NGFNILNKRLKVALAA 120
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 61.6 bits (148), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 44/74 (59%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+YV LP + +EQ+FS++G+++ +R++ D+ TG SRG GF+ E +AI L
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 316 DGQNLDGRAIRVNV 329
+GQ G A + V
Sbjct: 64 NGQKPLGAAEPITV 77
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 35/61 (57%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
DA L+V LP + +++ LF + G + + ++ ++ T SRG GF+ EAE+A+
Sbjct: 1 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 60
Query: 219 E 219
+
Sbjct: 61 K 61
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 58.5 bits (140), Expect = 5e-09, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 50/79 (63%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
+L+VG+L +++ + L +FE G +E +++ + ET RS+G+GF+T S E A+KA+E
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 221 FHRYDIDGRLLTVNKAAPR 239
+ +++ GR + V R
Sbjct: 88 LNGFELAGRPMKVGHVTER 106
Score = 56.6 bits (135), Expect = 2e-08, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 46/79 (58%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
R+YVG+L + + L +F G++ + +++ D ETGRS+G+GF+T S A+
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 315 LDGQNLDGRAIRVNVAEDR 333
L+G L GR ++V +R
Sbjct: 88 LNGFELAGRPMKVGHVTER 106
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 46/83 (55%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+YVG L +V L ++F + G VVN + DR TG+ +G+GFV SE + + AI +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 316 DGQNLDGRAIRVNVAEDRQRRSS 338
D L G+ IRVN A + S
Sbjct: 78 DMIKLYGKPIRVNKASAHNKNLS 100
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 44/79 (55%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
DA ++VG L V L LF +AG V + +R T + +G+GFV + E+A+ A+
Sbjct: 15 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74
Query: 219 EMFHRYDIDGRLLTVNKAA 237
++ + G+ + VNKA+
Sbjct: 75 KIMDMIKLYGKPIRVNKAS 93
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 57.4 bits (137), Expect = 1e-08, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 46/75 (61%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+YV NLP+ + N L ++FS++GKVV ++ D++T +S+G F+ + + A+
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 316 DGQNLDGRAIRVNVA 330
+ + L GR I+ ++A
Sbjct: 79 NNKQLFGRVIKASIA 93
Score = 38.1 bits (87), Expect = 0.007, Method: Composition-based stats.
Identities = 17/77 (22%), Positives = 39/77 (50%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
+ ++V NLP+ + + L +F K G V ++ +++T +S+G F+ + A+
Sbjct: 17 STVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTR 76
Query: 220 MFHRYDIDGRLLTVNKA 236
+ + GR++ + A
Sbjct: 77 AINNKQLFGRVIKASIA 93
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 50/83 (60%), Gaps = 2/83 (2%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+YV NL +D+ RL + FS G + +A+V+ E GRS+GFGFV SS E A+ +
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMM--EGGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 316 DGQNLDGRAIRVNVAEDRQRRSS 338
+G+ + + + V +A+ ++ R S
Sbjct: 76 NGRIVATKPLYVALAQRKEERQS 98
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 42/70 (60%), Gaps = 7/70 (10%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L+V NL +D E+L F GT+ A+V+ E RS+GFGFV S+ EEA KAV
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMM--EGGRSKGFGFVCFSSPEEATKAVT-- 73
Query: 222 HRYDIDGRLL 231
+++GR++
Sbjct: 74 ---EMNGRIV 80
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 49/81 (60%), Gaps = 2/81 (2%)
Query: 251 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 310
PG ++++G L E + L+ VF +HG + ++ DR T +SRGF F+T + + +
Sbjct: 6 HPG-KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKN 63
Query: 311 AIAALDGQNLDGRAIRVNVAE 331
A ++G++L G+AI+V A+
Sbjct: 64 AAKDMNGKSLHGKAIKVEQAK 84
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
KLF+G L + + + L +F K G + +I +R T +SRGF F+T +A+ A +
Sbjct: 8 GKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAK 66
Query: 220 MFHRYDIDGRLLTVNKA 236
+ + G+ + V +A
Sbjct: 67 DMNGKSLHGKAIKVEQA 83
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 49/77 (63%)
Query: 254 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 313
F ++VG+L E+ A + F+ G++ +ARVV D TG+S+G+GFV+ ++ + +AI
Sbjct: 7 FHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 66
Query: 314 ALDGQNLDGRAIRVNVA 330
+ GQ L GR IR N A
Sbjct: 67 QMGGQWLGGRQIRTNWA 83
Score = 35.4 bits (80), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+FVG+L ++ + +A F G + A V+ + T +S+G+GFV+ +AE A++
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 222 HRYDIDGRLLTVNKA 236
+ GR + N A
Sbjct: 69 GGQWLGGRQIRTNWA 83
>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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 43/75 (57%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V NL + L +VF ++G+V + + DR T SRGF FV + + DA+ A+
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 316 DGQNLDGRAIRVNVA 330
DG LDGR +RV +A
Sbjct: 110 DGAVLDGRELRVQMA 124
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 36/75 (48%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L V NL Y + L +FEK G V + +R T SRGF FV +AE A++
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 222 HRYDIDGRLLTVNKA 236
+DGR L V A
Sbjct: 110 DGAVLDGRELRVQMA 124
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 43/75 (57%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V NL + L +VF ++G+V + + DR T SRGF FV + + DA+ A+
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 316 DGQNLDGRAIRVNVA 330
DG LDGR +RV +A
Sbjct: 133 DGAVLDGRELRVQMA 147
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 36/75 (48%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L V NL Y + L +FEK G V + +R T SRGF FV +AE A++
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 222 HRYDIDGRLLTVNKA 236
+DGR L V A
Sbjct: 133 DGAVLDGRELRVQMA 147
>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 = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 42/186 (22%), Positives = 85/186 (45%), Gaps = 22/186 (11%)
Query: 161 KLFVGNLPYDVDSEKLAMLFE---KAGTVEIA--EVIYNRETDRSRGFGFVTMSTVEEAE 215
+L+VGN+P+ + E + F + G + A + + ++ + F F+ +V+E
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65
Query: 216 KAVEMFHRYDIDGRLLTVNKAAPRGTQP----ERAPRVFEPGF----------RIYVGNL 261
+A+ F G+ L + + P QP P V+ PG ++++G L
Sbjct: 66 QAMA-FDGIIFQGQSLKIRR--PHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGL 122
Query: 262 PWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLD 321
P +++ +++++ + G + +V D TG S+G+ F + AIA L+G L
Sbjct: 123 PNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLG 182
Query: 322 GRAIRV 327
+ + V
Sbjct: 183 DKKLLV 188
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/77 (20%), Positives = 38/77 (49%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G LP ++ +++ L G ++ ++ + T S+G+ F + ++A+
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 175
Query: 221 FHRYDIDGRLLTVNKAA 237
+ + + L V +A+
Sbjct: 176 LNGMQLGDKKLLVQRAS 192
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 44/78 (56%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+YVG+L + + L +F GK+ N ++ D +TGRS+G+GF+T S A+ L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 316 DGQNLDGRAIRVNVAEDR 333
+G L GR +RV +R
Sbjct: 68 NGFELAGRPMRVGHVTER 85
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 48/80 (60%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
+ L+VG+L +++ + L +FE G ++ ++ + +T RS+G+GF+T S E A +A+E
Sbjct: 6 SGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65
Query: 220 MFHRYDIDGRLLTVNKAAPR 239
+ +++ GR + V R
Sbjct: 66 QLNGFELAGRPMRVGHVTER 85
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 45/168 (26%), Positives = 75/168 (44%), Gaps = 21/168 (12%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
K+ + LP DV ++++ L E+ Y D+ +G FVT+ E+AE A+
Sbjct: 24 KILIRGLPGDVTNQEVHDLLSDY------ELKYCF-VDKYKGTAFVTLLNGEQAEAAINA 76
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKV 280
FH+ + R L+V QP A + V NLP + + E++ G +
Sbjct: 77 FHQSRLRERELSVQ------LQPTDA--------LLCVANLPPSLTQQQFEELVRPFGSL 122
Query: 281 VNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVN 328
+VY TG+S+G+GF + A + L G+ L R + V+
Sbjct: 123 ERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVH 170
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 31/59 (52%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKA 217
DA L V NLP + ++ L G++E ++Y+ T +S+G+GF + A +A
Sbjct: 95 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 45/168 (26%), Positives = 75/168 (44%), Gaps = 21/168 (12%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
K+ + LP DV ++++ L E+ Y D+ +G FVT+ E+AE A+
Sbjct: 24 KILIRGLPGDVTNQEVHDLLSDY------ELKYCF-VDKYKGTAFVTLLNGEQAEAAINA 76
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKV 280
FH+ + R L+V QP A + V NLP + + E++ G +
Sbjct: 77 FHQSRLRERELSVQ------LQPTDA--------LLCVANLPPSLTQQQFEELVRPFGSL 122
Query: 281 VNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVN 328
+VY TG+S+G+GF + A + L G+ L R + V+
Sbjct: 123 ERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVH 170
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 31/59 (52%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKA 217
DA L V NLP + ++ L G++E ++Y+ T +S+G+GF + A +A
Sbjct: 95 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 45/168 (26%), Positives = 75/168 (44%), Gaps = 21/168 (12%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
K+ + LP DV ++++ L E+ Y D+ +G FVT+ E+AE A+
Sbjct: 22 KILIRGLPGDVTNQEVHDLLSDY------ELKYCF-VDKYKGTAFVTLLNGEQAEAAINA 74
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKV 280
FH+ + R L+V QP A + V NLP + + E++ G +
Sbjct: 75 FHQSRLRERELSVQ------LQPTDA--------LLCVANLPPSLTQQQFEELVRPFGSL 120
Query: 281 VNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVN 328
+VY TG+S+G+GF + A + L G+ L R + V+
Sbjct: 121 ERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVH 168
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 31/59 (52%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKA 217
DA L V NLP + ++ L G++E ++Y+ T +S+G+GF + A +A
Sbjct: 93 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 54.3 bits (129), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 51/95 (53%), Gaps = 1/95 (1%)
Query: 244 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 303
ER R E ++++G L +E L + + GK+ + V+ D + RSRGFGFVT S
Sbjct: 18 ERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFS 77
Query: 304 SETELNDAIAALDGQNLDGRAIRVNVAEDRQRRSS 338
S E++ A+AA ++DGR + A R+ S
Sbjct: 78 SMAEVDAAMAARP-HSIDGRVVEPKRAVAREESGS 111
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G L ++ E L +E+ G + V+ + + RSRGFGFVT S++ E + A+
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Query: 221 FHRYDIDGRLLTVNKAAPR 239
+ IDGR++ +A R
Sbjct: 89 -RPHSIDGRVVEPKRAVAR 106
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 48/87 (55%), Gaps = 8/87 (9%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL-NDAIAA 314
+YVG L EVD+ L F G + + ++ D ET + RGF FV E EL DA AA
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV----EFELAEDAAAA 70
Query: 315 LDGQN---LDGRAIRVNVAEDRQRRSS 338
+D N L GR IRVN+A+ + + S
Sbjct: 71 IDNMNESELFGRTIRVNLAKPMRIKES 97
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L+VG L +VD + L F G + ++ + ET++ RGF FV E+A A++
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 222 HRYDIDGRLLTVNKAAP 238
+ ++ GR + VN A P
Sbjct: 75 NESELFGRTIRVNLAKP 91
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
R++V N+P+ + L Q+F + GK+++ ++++ E G S+GFGFVT + + + A
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN-ERG-SKGFGFVTFENSADADRAREK 74
Query: 315 LDGQNLDGRAIRVNVAEDR 333
L G ++GR I VN A R
Sbjct: 75 LHGTVVEGRKIEVNNATAR 93
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 2/79 (2%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
+L V N+P+ L +F + G + E+I+N S+GFGFVT +A++A E
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 74
Query: 221 FHRYDIDGRLLTVNKAAPR 239
H ++GR + VN A R
Sbjct: 75 LHGTVVEGRKIEVNNATAR 93
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 41/176 (23%), Positives = 83/176 (47%), Gaps = 16/176 (9%)
Query: 161 KLFVGNLPYDVDSEKLAMLFE---KAGTVEIA--EVIYNRETDRSRGFGFVTMSTVEEAE 215
+L+VGN+P+ + E + F + G + A + + ++ + F F+ +V+E
Sbjct: 8 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 67
Query: 216 KAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPG-FRIYVGNLPWEVDNARLEQVF 274
+A+ F G+ L + + P QP PG ++++G LP +++ +++++
Sbjct: 68 QAMA-FDGIIFQGQSLKIRR--PHDYQPL-------PGAHKLFIGGLPNYLNDDQVKELL 117
Query: 275 SEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVA 330
+ G + +V D TG S+G+ F + AIA L+G L + + V A
Sbjct: 118 TSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 173
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/77 (20%), Positives = 38/77 (49%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G LP ++ +++ L G ++ ++ + T S+G+ F + ++A+
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 157
Query: 221 FHRYDIDGRLLTVNKAA 237
+ + + L V +A+
Sbjct: 158 LNGMQLGDKKLLVQRAS 174
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 45/80 (56%), Gaps = 8/80 (10%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL-NDAIAA 314
+YVG L EVD+ L F G + + ++ D ET + RGF FV E EL DA AA
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV----EFELAEDAAAA 65
Query: 315 LDGQN---LDGRAIRVNVAE 331
+D N L GR IRVN+A+
Sbjct: 66 IDNMNESELFGRTIRVNLAK 85
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L+VG L +VD + L F G + ++ + ET++ RGF FV E+A A++
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 222 HRYDIDGRLLTVNKA 236
+ ++ GR + VN A
Sbjct: 70 NESELFGRTIRVNLA 84
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/79 (44%), Positives = 44/79 (55%), Gaps = 8/79 (10%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL-NDAIAA 314
+YVG L EVD+ L F G + + ++ D ET + RGF FV E EL DA AA
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV----EFELAEDAAAA 121
Query: 315 LDGQN---LDGRAIRVNVA 330
+D N L GR IRVN+A
Sbjct: 122 IDNMNESELFGRTIRVNLA 140
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L+VG L +VD + L F G + ++ + ET++ RGF FV E+A A++
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 222 HRYDIDGRLLTVNKA 236
+ ++ GR + VN A
Sbjct: 126 NESELFGRTIRVNLA 140
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
R++V N+P+ + L Q+F + GK+++ ++++ E G S+GFGFVT + + + A
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN-ERG-SKGFGFVTFENSADADRAREK 88
Query: 315 LDGQNLDGRAIRVNVAEDR 333
L G ++GR I VN A R
Sbjct: 89 LHGTVVEGRKIEVNNATAR 107
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 2/79 (2%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
+L V N+P+ L +F + G + E+I+N S+GFGFVT +A++A E
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 88
Query: 221 FHRYDIDGRLLTVNKAAPR 239
H ++GR + VN A R
Sbjct: 89 LHGTVVEGRKIEVNNATAR 107
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 53.5 bits (127), Expect = 2e-07, Method: Composition-based stats.
Identities = 26/75 (34%), Positives = 46/75 (61%), Gaps = 1/75 (1%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+FVG L + E + FE+ G V+ A +++++ T+R RGFGFVT + + EK E+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEI- 60
Query: 222 HRYDIDGRLLTVNKA 236
H ++I+ +++ KA
Sbjct: 61 HFHEINNKMVECKKA 75
Score = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 21/50 (42%), Positives = 30/50 (60%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 305
I+VG L ++ F + GKV +A +++D+ T R RGFGFVT SE
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESE 51
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 41/176 (23%), Positives = 83/176 (47%), Gaps = 16/176 (9%)
Query: 161 KLFVGNLPYDVDSEKLAMLFE---KAGTVEIA--EVIYNRETDRSRGFGFVTMSTVEEAE 215
+L+VGN+P+ + E + F + G + A + + ++ + F F+ +V+E
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65
Query: 216 KAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPG-FRIYVGNLPWEVDNARLEQVF 274
+A+ F G+ L + + P QP PG ++++G LP +++ +++++
Sbjct: 66 QAMA-FDGIIFQGQSLKIRR--PHDYQPL-------PGAHKLFIGGLPNYLNDDQVKELL 115
Query: 275 SEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVA 330
+ G + +V D TG S+G+ F + AIA L+G L + + V A
Sbjct: 116 TSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 171
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 16/77 (20%), Positives = 38/77 (49%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G LP ++ +++ L G ++ ++ + T S+G+ F + ++A+
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 155
Query: 221 FHRYDIDGRLLTVNKAA 237
+ + + L V +A+
Sbjct: 156 LNGMQLGDKKLLVQRAS 172
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 45/80 (56%), Gaps = 8/80 (10%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL-NDAIAA 314
+YVG L EVD+ L F G + + ++ D ET + RGF FV E EL DA AA
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV----EFELAEDAAAA 63
Query: 315 LDGQN---LDGRAIRVNVAE 331
+D N L GR IRVN+A+
Sbjct: 64 IDNMNESELFGRTIRVNLAK 83
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L+VG L +VD + L F G + ++ + ET++ RGF FV E+A A++
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 222 HRYDIDGRLLTVNKA 236
+ ++ GR + VN A
Sbjct: 68 NESELFGRTIRVNLA 82
>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 = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 35/79 (44%), Positives = 44/79 (55%), Gaps = 8/79 (10%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL-NDAIAA 314
+YVG L EVD+ L F G + + ++ D ET + RGF FV E EL DA AA
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV----EFELAEDAAAA 60
Query: 315 LDGQN---LDGRAIRVNVA 330
+D N L GR IRVN+A
Sbjct: 61 IDNMNESELFGRTIRVNLA 79
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L+VG L +VD + L F G + ++ + ET++ RGF FV E+A A++
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 222 HRYDIDGRLLTVNKA 236
+ ++ GR + VN A
Sbjct: 65 NESELFGRTIRVNLA 79
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 50/88 (56%), Gaps = 2/88 (2%)
Query: 251 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 310
EP + YVGNLP+ ++ +F + + + R+V D++T + +GF +V L +
Sbjct: 13 EPPYTAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKE 71
Query: 311 AIAALDGQNLDGRAIRVNVAEDRQRRSS 338
A+ DG L R++RV++AE R++ S
Sbjct: 72 AL-TYDGALLGDRSLRVDIAEGRKQDKS 98
Score = 31.6 bits (70), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 7/69 (10%)
Query: 163 FVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFH 222
+VGNLP++ + +F+ ++ ++ +++TD+ +GF +V V+ ++A+
Sbjct: 19 YVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTY-- 75
Query: 223 RYDIDGRLL 231
DG LL
Sbjct: 76 ----DGALL 80
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 39/61 (63%)
Query: 270 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNV 329
L +VFS++G + + +VYD+++ RSRGF FV + + +A +G LDGR IRV+
Sbjct: 29 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF 88
Query: 330 A 330
+
Sbjct: 89 S 89
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 37/59 (62%)
Query: 176 LAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVN 234
L +F K G + ++Y++++ RSRGF FV V++A++A E + ++DGR + V+
Sbjct: 29 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 87
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 40/75 (53%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V NL + L +VF ++G+V + + + T RGF FV + DA AA+
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 316 DGQNLDGRAIRVNVA 330
DG LDGR +RV VA
Sbjct: 76 DGAELDGRELRVQVA 90
Score = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 32/75 (42%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L V NL Y + L +FEK G V + T RGF FV +A+ A
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 222 HRYDIDGRLLTVNKA 236
++DGR L V A
Sbjct: 76 DGAELDGRELRVQVA 90
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 52.0 bits (123), Expect = 5e-07, Method: Composition-based stats.
Identities = 25/71 (35%), Positives = 41/71 (57%), Gaps = 4/71 (5%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
+++VG L W L FS++G+VV+ ++ D+ T +SRGFGFV + +A+
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 315 ----LDGQNLD 321
LDG+N+D
Sbjct: 78 RPHTLDGRNID 88
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 28/84 (33%), Positives = 39/84 (46%), Gaps = 1/84 (1%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
KLFVG L + E L F + G V ++ ++ T++SRGFGFV V
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKD-PNCVGTVL 75
Query: 220 MFHRYDIDGRLLTVNKAAPRGTQP 243
+ +DGR + PRG QP
Sbjct: 76 ASRPHTLDGRNIDPKPCTPRGMQP 99
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 39/61 (63%)
Query: 270 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNV 329
L +VFS++G + + +VYD+++ RSRGF FV + + +A +G LDGR IRV+
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF 91
Query: 330 A 330
+
Sbjct: 92 S 92
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 37/59 (62%)
Query: 176 LAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVN 234
L +F K G + ++Y++++ RSRGF FV V++A++A E + ++DGR + V+
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 90
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 41/170 (24%), Positives = 80/170 (47%), Gaps = 21/170 (12%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAE----VIYNRETDRSRGFGFVTMSTVEEAEKA 217
LFVGNL ++ + +L K G ++ + + +R FG+V + E+ EKA
Sbjct: 10 LFVGNLNFNKSAPEL-----KTGISDVFAKNDLAVVDVRIGMTRKFGYVDFESAEDLEKA 64
Query: 218 VEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEH 277
+E+ + G + + K + ++ ER R + NLP++V L++VF +
Sbjct: 65 LEL-TGLKVFGNEIKLEKPKGKDSKKERDART------LLAKNLPYKVTQDELKEVFEDA 117
Query: 278 GKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRV 327
++ R+V + G+S+G ++ +E + G +DGR+I +
Sbjct: 118 AEI---RLV--SKDGKSKGIAYIEFKTEADAEKTFEEKQGTEIDGRSISL 162
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 43/78 (55%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
++V + ++ ++L + F +G + +VY + +G+ RG+ F+ E +++ A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 316 DGQNLDGRAIRVNVAEDR 333
DG+ +DGR + V+V R
Sbjct: 165 DGKKIDGRRVLVDVERGR 182
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 35/73 (47%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
LFV + YD KL FE G ++ ++Y++ + + RG+ F+ + A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 222 HRYDIDGRLLTVN 234
IDGR + V+
Sbjct: 165 DGKKIDGRRVLVD 177
>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 = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 38/61 (62%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+YV NLP + + +L+ +F ++G +V ++ D+ TGR RG FV + E +AI+AL
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 316 D 316
+
Sbjct: 76 N 76
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 36/64 (56%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
D L+V NLP + ++L +F K G++ ++ ++ T R RG FV + EEA++A+
Sbjct: 13 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 72
Query: 219 EMFH 222
+
Sbjct: 73 SALN 76
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 46/79 (58%), Gaps = 1/79 (1%)
Query: 253 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 312
G ++V NL ++V +L++VFS G VV A ++ D++ G+SRG G VT E AI
Sbjct: 15 GSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVTFEQSIEAVQAI 73
Query: 313 AALDGQNLDGRAIRVNVAE 331
+ +GQ L R + V + E
Sbjct: 74 SMFNGQLLFDRPMHVKMDE 92
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 32/89 (35%), Positives = 49/89 (55%), Gaps = 6/89 (6%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+FV NL Y V +KL +F AG V A+++ +++ +SRG G VT EA +A+ MF
Sbjct: 18 VFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVTFEQSIEAVQAISMF 76
Query: 222 HRYDIDGRLLTVN---KAAPRGT--QPER 245
+ + R + V +A P+G PER
Sbjct: 77 NGQLLFDRPMHVKMDERALPKGDFFPPER 105
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 39/61 (63%)
Query: 270 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNV 329
L +VFS++G + + +VYD+++ RSRGF FV + + +A +G LDGR IRV+
Sbjct: 63 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF 122
Query: 330 A 330
+
Sbjct: 123 S 123
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 37/59 (62%)
Query: 176 LAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVN 234
L +F K G + ++Y++++ RSRGF FV V++A++A E + ++DGR + V+
Sbjct: 63 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 121
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 51.2 bits (121), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 38/59 (64%)
Query: 270 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVN 328
L +VFS++G + + +VYD+++ RSRGF FV + + +A +G LDGR IRV+
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVS 90
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 37/59 (62%)
Query: 176 LAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVN 234
L +F K G + ++Y++++ RSRGF FV V++A++A E + ++DGR + V+
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVS 90
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 43/78 (55%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
++V + ++ ++L + F +G + +VY + +G+ RG+ F+ E +++ A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 316 DGQNLDGRAIRVNVAEDR 333
DG+ +DGR + V+V R
Sbjct: 165 DGKKIDGRRVLVDVERGR 182
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 35/73 (47%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
LFV + YD KL FE G ++ ++Y++ + + RG+ F+ + A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 222 HRYDIDGRLLTVN 234
IDGR + V+
Sbjct: 165 DGKKIDGRRVLVD 177
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 41/165 (24%), Positives = 75/165 (45%), Gaps = 8/165 (4%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETD--RSRGFGFVTMSTVEEAEKAV 218
K+FVG +P + L LFE+ G V V+ +R + +S+G FVT T + A +A
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 76
Query: 219 EMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHG 278
H + + + P ++ A ++++G + + + +FS G
Sbjct: 77 NALHNMKVLPGMHHPIQMKPADSEKNNAVE----DRKLFIGMISKKCTENDIRVMFSSFG 132
Query: 279 KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL-DGQNLDG 322
++ R++ + G SRG FVT ++ AI A+ Q ++G
Sbjct: 133 QIEECRILRGPD-GLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEG 176
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 41/165 (24%), Positives = 75/165 (45%), Gaps = 8/165 (4%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETD--RSRGFGFVTMSTVEEAEKAV 218
K+FVG +P + L LFE+ G V V+ +R + +S+G FVT T + A +A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 219 EMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHG 278
H + + + P ++ A ++++G + + + +FS G
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADSEKNNAVE----DRKLFIGMISKKCTENDIRVMFSSFG 120
Query: 279 KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL-DGQNLDG 322
++ R++ + G SRG FVT ++ AI A+ Q ++G
Sbjct: 121 QIEECRILRGPD-GLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEG 164
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 45/78 (57%), Gaps = 3/78 (3%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
LFV L D E L F+ G+V A ++ +RET S+GFGFV ++ E+A+ A E
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSVR-ARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 222 HRYDIDGRLLTVNKAAPR 239
+IDG +T++ A P+
Sbjct: 75 EDGEIDGNKVTLDWAKPK 92
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 44/81 (54%), Gaps = 3/81 (3%)
Query: 251 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 310
+P ++V L + L++ F V AR+V DRETG S+GFGFV +SE +
Sbjct: 13 QPSKTLFVKGLSEDTTEETLKESFDGS---VRARIVTDRETGSSKGFGFVDFNSEEDAKA 69
Query: 311 AIAALDGQNLDGRAIRVNVAE 331
A A++ +DG + ++ A+
Sbjct: 70 AKEAMEDGEIDGNKVTLDWAK 90
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 29/90 (32%), Positives = 44/90 (48%), Gaps = 1/90 (1%)
Query: 245 RAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSS 304
R + G ++++G L W+ L + F + G+V V+ D T RSRGFGFVT
Sbjct: 17 RGSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMD 76
Query: 305 ETELNDAIAALDGQNLDGRAIRVNVAEDRQ 334
+ + D + A LD + I VA R+
Sbjct: 77 QAGV-DKVLAQSRHELDSKTIDPKVAFPRR 105
Score = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 28/84 (33%), Positives = 43/84 (51%), Gaps = 1/84 (1%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
K+F+G L + E L F + G V+ V+ + T RSRGFGFVT +K +
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPE 244
R+++D + + A PR QP+
Sbjct: 87 -SRHELDSKTIDPKVAFPRRAQPK 109
>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 = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 52/103 (50%), Gaps = 5/103 (4%)
Query: 231 LTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRE 290
LT G+Q E P G +++ +LP E + L Q+F G VV+A+V D++
Sbjct: 8 LTQQSIGAAGSQKE-GPE----GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQ 62
Query: 291 TGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDR 333
T S+ FGFV+ + AI +++G + + ++V + +
Sbjct: 63 TNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSK 105
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 40/74 (54%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
A LF+ +LP + + L +F G V A+V +++T+ S+ FGFV+ A+ A++
Sbjct: 26 ANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQ 85
Query: 220 MFHRYDIDGRLLTV 233
+ + I + L V
Sbjct: 86 SMNGFQIGMKRLKV 99
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 49.3 bits (116), Expect = 3e-06, Method: Composition-based stats.
Identities = 28/84 (33%), Positives = 47/84 (55%), Gaps = 1/84 (1%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNA-RVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
I++GNL E+D L FS G ++ +++ D +TG S+G+ F+ +S + AI A
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 315 LDGQNLDGRAIRVNVAEDRQRRSS 338
++GQ L R I V+ A + + S
Sbjct: 68 MNGQYLCNRPITVSYAFKKDSKGS 91
Score = 35.4 bits (80), Expect = 0.050, Method: Composition-based stats.
Identities = 18/82 (21%), Positives = 46/82 (56%), Gaps = 1/82 (1%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTV-EIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
+F+GNL ++D + L F G + + +++ + +T S+G+ F+ ++ + ++ A+E
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 221 FHRYDIDGRLLTVNKAAPRGTQ 242
+ + R +TV+ A + ++
Sbjct: 68 MNGQYLCNRPITVSYAFKKDSK 89
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 43/79 (54%)
Query: 253 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 312
G +++ +LP E + L F G V++A+V D++T S+ FGFV+ + AI
Sbjct: 40 GCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAI 99
Query: 313 AALDGQNLDGRAIRVNVAE 331
A++G + + ++V + +
Sbjct: 100 KAMNGFQVGTKRLKVQLKK 118
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 38/74 (51%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
LF+ +LP + LA F G V A+V +++T S+ FGFV+ + A+ A++
Sbjct: 41 CNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIK 100
Query: 220 MFHRYDIDGRLLTV 233
+ + + + L V
Sbjct: 101 AMNGFQVGTKRLKV 114
>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 = 49.3 bits (116), Expect = 3e-06, Method: Composition-based stats.
Identities = 26/70 (37%), Positives = 40/70 (57%), Gaps = 1/70 (1%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+++G L W+ L+ FS+ G+VV+ + D TGRSRGFGFV + E+E D +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFV-LFKESESVDKVMDQ 60
Query: 316 DGQNLDGRAI 325
L+G+ I
Sbjct: 61 KEHKLNGKVI 70
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+F+G L +D + L F K G V + + T RSRGFGFV E +K ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQ- 60
Query: 222 HRYDIDGRLLTVNKA 236
+ ++G+++ +A
Sbjct: 61 KEHKLNGKVIDPKRA 75
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 48.1 bits (113), Expect = 8e-06, Method: Composition-based stats.
Identities = 26/76 (34%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
++++G L W+ L + F + G+V V+ D T RSRGFGFVT + + D + A
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGV-DKVLA 60
Query: 315 LDGQNLDGRAIRVNVA 330
LD + I VA
Sbjct: 61 QSRHELDSKTIDPKVA 76
Score = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
K+F+G L + E L F + G V+ V+ + T RSRGFGFVT +K +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 221 FHRYDIDGRLL 231
R+++D + +
Sbjct: 62 -SRHELDSKTI 71
>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 = 47.8 bits (112), Expect = 1e-05, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 251 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 310
E + +VG L W+ L+ F++ G+VV+ + D TGRSRGFGF+ +
Sbjct: 9 EDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEK 68
Query: 311 AIAALDGQNLDGRAI 325
+ + LDGR I
Sbjct: 69 VLDQKE-HRLDGRVI 82
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/77 (33%), Positives = 37/77 (48%), Gaps = 1/77 (1%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
K FVG L +D + L F K G V + + T RSRGFGF+ EK ++
Sbjct: 12 GKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLD 71
Query: 220 MFHRYDIDGRLLTVNKA 236
+ +DGR++ KA
Sbjct: 72 Q-KEHRLDGRVIDPKKA 87
>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 = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 44/81 (54%), Gaps = 2/81 (2%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
I++ NL +DN L FS G +++ +VV D E G S+G+GFV ++ AI +
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 65
Query: 316 DGQNLDGRAIRVNVAEDRQRR 336
+G L+ R + V + R+ R
Sbjct: 66 NGMLLNDRKVFVGRFKSRKER 86
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+F+ NL +D++ L F G + +V+ + + S+G+GFV T E AE+A+E
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVC--DENGSKGYGFVHFETQEAAERAIEKM 65
Query: 222 HRYDIDGRLLTVNKAAPR 239
+ ++ R + V + R
Sbjct: 66 NGMLLNDRKVFVGRFKSR 83
>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 = 21/63 (33%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+Y+ NLP +D LE + G+V++ R++ D +G SRG GF M S + I
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAVIGHF 86
Query: 316 DGQ 318
+G+
Sbjct: 87 NGK 89
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L++ NLP +D ++L + + G V I+ I + SRG GF M + E+ E + F
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQV-ISTRILRDSSGTSRGVGFARMESTEKCEAVIGHF 86
Query: 222 H 222
+
Sbjct: 87 N 87
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 42/77 (54%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L V LP ++ ++L LF G VE A++I ++ S G+GFV T ++AE+A+
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 222 HRYDIDGRLLTVNKAAP 238
+ + + + V+ A P
Sbjct: 67 NGLRLQSKTIKVSYARP 83
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V LP + L +FS G+V +A+++ D+ G S G+GFV + + AI L
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 316 DGQNLDGRAIRVNVA 330
+G L + I+V+ A
Sbjct: 67 NGLRLQSKTIKVSYA 81
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 35/73 (47%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
R++V NL + LE++FS +G + D T + +GF FVT A A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 315 LDGQNLDGRAIRV 327
+DGQ GR + V
Sbjct: 70 VDGQVFQGRMLHV 82
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 31/73 (42%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
+LFV NL Y E L LF G + + T + +GF FVT E A KA
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 221 FHRYDIDGRLLTV 233
GR+L V
Sbjct: 70 VDGQVFQGRMLHV 82
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 41/167 (24%), Positives = 78/167 (46%), Gaps = 15/167 (8%)
Query: 162 LFVGNL-PYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
LF+GNL P +E + E ++A + + T +R FG+V + E+ EKA+E+
Sbjct: 16 LFIGNLNPNKSVAELKVAISELFAKNDLA--VVDVRTGTNRKFGYVDFESAEDLEKALEL 73
Query: 221 FHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKV 280
+ G + + K R ++ RA R + NL + + L++VF +
Sbjct: 74 -TGLKVFGNEIKLEKPKGRDSKKVRAART------LLAKNLSFNITEDELKEVFED---A 123
Query: 281 VNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRV 327
+ R+V + G+S+G ++ SE + + G +DGR++ +
Sbjct: 124 LEIRLV--SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSL 168
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 18/79 (22%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L NL +++ ++L +FE A + + + +S+G ++ + +AEK +E
Sbjct: 102 LLAKNLSFNITEDELKEVFEDALEIRLV-----SQDGKSKGIAYIEFKSEADAEKNLEEK 156
Query: 222 HRYDIDGRLLTVNKAAPRG 240
+IDGR +++ +G
Sbjct: 157 QGAEIDGRSVSLYYTGEKG 175
>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 = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 42/75 (56%)
Query: 252 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDA 311
P +Y+G++P++ ++ + S G V+N ++++D +TGRS+G+ F+ A
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 61
Query: 312 IAALDGQNLDGRAIR 326
+ L+G L R ++
Sbjct: 62 VRNLNGYQLGSRFLK 76
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 39/70 (55%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+++G++PYD E++ L G V +++++ +T RS+G+ F+ +E + AV
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 222 HRYDIDGRLL 231
+ Y + R L
Sbjct: 66 NGYQLGSRFL 75
>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 = 45.8 bits (107), Expect = 3e-05, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 42/75 (56%)
Query: 252 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDA 311
P +Y+G++P++ ++ + S G V+N ++++D +TGRS+G+ F+ A
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 62
Query: 312 IAALDGQNLDGRAIR 326
+ L+G L R ++
Sbjct: 63 VRNLNGYQLGSRFLK 77
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 39/70 (55%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+++G++PYD E++ L G V +++++ +T RS+G+ F+ +E + AV
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 222 HRYDIDGRLL 231
+ Y + R L
Sbjct: 67 NGYQLGSRFL 76
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 45.8 bits (107), Expect = 3e-05, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 42/75 (56%)
Query: 252 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDA 311
P +Y+G++P++ ++ + S G V+N ++++D +TGRS+G+ F+ A
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 312 IAALDGQNLDGRAIR 326
+ L+G L R ++
Sbjct: 61 VRNLNGYQLGSRFLK 75
Score = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 39/70 (55%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+++G++PYD E++ L G V +++++ +T RS+G+ F+ +E + AV
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 222 HRYDIDGRLL 231
+ Y + R L
Sbjct: 65 NGYQLGSRFL 74
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 45.4 bits (106), Expect = 4e-05, Method: Composition-based stats.
Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 4/89 (4%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETD---RSRGFGFVTMSTVEEAEKAV 218
LF+ NL + E L +F K G ++ + + S GFGFV E+A+KA+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 219 EMFHRYDIDGRLLTVNKAAPRGTQPERAP 247
+ + +DG L V + + R T+P P
Sbjct: 68 KQLQGHTVDGHKLEV-RISERATKPASGP 95
Score = 35.8 bits (81), Expect = 0.032, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 39/86 (45%), Gaps = 3/86 (3%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETG---RSRGFGFVTMSSETELNDAI 312
+++ NL + L+ VFS+ G + + + + S GFGFV + A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 313 AALDGQNLDGRAIRVNVAEDRQRRSS 338
L G +DG + V ++E + +S
Sbjct: 68 KQLQGHTVDGHKLEVRISERATKPAS 93
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 45.4 bits (106), Expect = 5e-05, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 40/78 (51%)
Query: 253 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 312
G + V LP L +FS G+V +A+++ D+ G S G+GFV + + AI
Sbjct: 19 GTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 78
Query: 313 AALDGQNLDGRAIRVNVA 330
L+G L + I+V+ A
Sbjct: 79 NTLNGLRLQSKTIKVSYA 96
Score = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 41/77 (53%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L V LP + ++L LF G VE A++I ++ S G+GFV T ++AE+A+
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 222 HRYDIDGRLLTVNKAAP 238
+ + + + V+ A P
Sbjct: 82 NGLRLQSKTIKVSYARP 98
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
I++ NL +DN L FS G +++ +VV D E G S+G+GFV ++ AI +
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 71
Query: 316 DGQNLDGRAIRVNVAEDRQRRSS 338
+G L+ R + V + R+ R +
Sbjct: 72 NGMLLNDRKVFVGRFKSRKEREA 94
Score = 36.2 bits (82), Expect = 0.031, Method: Composition-based stats.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+F+ NL +D++ L F G + +V+ + + S+G+GFV T E AE+A+E
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 71
Query: 222 HRYDIDGRLLTVNKAAPR 239
+ ++ R + V + R
Sbjct: 72 NGMLLNDRKVFVGRFKSR 89
>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 = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 39/156 (25%), Positives = 67/156 (42%), Gaps = 7/156 (4%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETD--RSRGFGFVTMSTVEEAEKAV 218
K FVG +P + L LFE+ G V V+ +R + +S+G FVT T + A +A
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 219 EMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHG 278
H + + P ++ A ++++G + + + FS G
Sbjct: 65 NALHNXKVLPGXHHPIQXKPADSEKNNAVE----DRKLFIGXISKKCTENDIRVXFSSFG 120
Query: 279 KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
++ R++ + G SRG FVT ++ AI A
Sbjct: 121 QIEECRILRGPD-GLSRGCAFVTFTTRAXAQTAIKA 155
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETD-RSRGFGFVTMSTVEEAEKA 217
D KLF+G + + + F G +E ++ R D SRG FVT +T A+ A
Sbjct: 95 DRKLFIGXISKKCTENDIRVXFSSFGQIEECRIL--RGPDGLSRGCAFVTFTTRAXAQTA 152
Query: 218 VEMFHR 223
++ H+
Sbjct: 153 IKAXHQ 158
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 45.1 bits (105), Expect = 6e-05, Method: Composition-based stats.
Identities = 24/86 (27%), Positives = 48/86 (55%), Gaps = 5/86 (5%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L + NL Y E L +FEKA +++ + + +S+G+ F+ ++ E+A++A+
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIKVPQ----NQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 222 HRYDIDGRLLTVNKAAPRGTQPERAP 247
++ +I+GR + + PRG+ P P
Sbjct: 74 NKREIEGRAIRLELQGPRGS-PNSGP 98
Score = 32.3 bits (72), Expect = 0.35, Method: Composition-based stats.
Identities = 18/78 (23%), Positives = 41/78 (52%), Gaps = 4/78 (5%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ + NL + L++VF + + V + G+S+G+ F+ +S + +A+ +
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 316 DGQNLDGRAIRVNVAEDR 333
+ + ++GRAIR+ + R
Sbjct: 74 NKREIEGRAIRLELQGPR 91
>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 = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 6/76 (7%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
R++VGNLP ++ + ++F ++GK + D +GFGF+ + + T A
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 70
Query: 315 LDGQNLDGRAIRVNVA 330
LD L G+ +RV A
Sbjct: 71 LDNMPLRGKQLRVRFA 86
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 42/78 (53%), Gaps = 6/78 (7%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
++LFVGNLP D+ E++ LFEK G + EV +++ +GFGF+ + T AE A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYG--KAGEVFIHKD----KGFGFIRLETRTLAEIAKV 69
Query: 220 MFHRYDIDGRLLTVNKAA 237
+ G+ L V A
Sbjct: 70 ELDNMPLRGKQLRVRFAC 87
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 44.7 bits (104), Expect = 8e-05, Method: Composition-based stats.
Identities = 23/84 (27%), Positives = 43/84 (51%), Gaps = 8/84 (9%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
++++GNLP E + +F ++GKV+ ++ + +GFV + +T DAI
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRN 61
Query: 315 LDGQNLDGRAIRVNVAEDRQRRSS 338
L L G I V ++++ + SS
Sbjct: 62 LHHYKLHGVNINVEASKNKSKASS 85
Score = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 8/68 (11%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+GNLP + +++ LFE+ G V ++I N +GFV + AE A+
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--------YGFVHIEDKTAAEDAIRN 61
Query: 221 FHRYDIDG 228
H Y + G
Sbjct: 62 LHHYKLHG 69
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 44.7 bits (104), Expect = 8e-05, Method: Composition-based stats.
Identities = 25/84 (29%), Positives = 43/84 (51%), Gaps = 8/84 (9%)
Query: 254 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 313
++I+VGN+ + L +F G+V+ VV D + FV M E + AIA
Sbjct: 10 WKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIA 61
Query: 314 ALDGQNLDGRAIRVNVAEDRQRRS 337
L+G+ + G+ I V ++ Q++S
Sbjct: 62 QLNGKEVKGKRINVELSTKGQKKS 85
Score = 33.1 bits (74), Expect = 0.23, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
K+FVGN+ S++L LFE+ G V E D + + FV M +A+ A+
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRV--------IECDVVKDYAFVHMEKEADAKAAIAQ 62
Query: 221 FHRYDIDGRLLTV 233
+ ++ G+ + V
Sbjct: 63 LNGKEVKGKRINV 75
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 44.7 bits (104), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 5/85 (5%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
++YVGNL LE+ FS +G + + + GF FV + DA+
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRG 56
Query: 315 LDGQNLDGRAIRVNVAEDRQRRSSF 339
LDG+ + G +RV ++ RRS F
Sbjct: 57 LDGKVICGSRVRVELSTGMPRRSRF 81
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 44.3 bits (103), Expect = 9e-05, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 40/75 (53%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V LP + + +F G + + ++V D+ TG+S G+GFV S + + AI L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 316 DGQNLDGRAIRVNVA 330
+G L + I+V+ A
Sbjct: 67 NGLKLQTKTIKVSYA 81
Score = 41.6 bits (96), Expect = 7e-04, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 41/77 (53%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L V LP ++ ++ LF G +E +++ ++ T +S G+GFV S +A+KA+
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 222 HRYDIDGRLLTVNKAAP 238
+ + + + V+ A P
Sbjct: 67 NGLKLQTKTIKVSYARP 83
>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 = 44.3 bits (103), Expect = 9e-05, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 42/76 (55%), Gaps = 1/76 (1%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
++++ LP+ LE++ HG V + R+V +R G+ +G +V +E++ + A+
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMK 77
Query: 315 LDGQNLDGRAIRVNVA 330
+DG + I+V ++
Sbjct: 78 MDGMTIKENIIKVAIS 93
Score = 32.3 bits (72), Expect = 0.42, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
KLF+ LP+ E+L + + GTV+ ++ NR + +G +V +A +AV
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAV 75
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 48/94 (51%), Gaps = 11/94 (11%)
Query: 240 GTQPERAPRVFEPGFRIYVGNL-PWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFG 298
G+ + PR R+++GNL V + +E +FS++GK+V V +GF
Sbjct: 4 GSSGKTDPRSMNS--RVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV--------HKGFA 53
Query: 299 FVTMSSETELNDAIAALDGQNLDGRAIRVNVAED 332
FV +E A+A DG+ + G+ + +N+A +
Sbjct: 54 FVQYVNERNARAAVAGEDGRMIAGQVLDINLAAE 87
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
++VGNL V L ++F + G + + DRE G+ + FGFV ++ AIA L
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESVSYAIALL 77
Query: 316 DGQNLDGRAIRVN 328
+G L GR I V+
Sbjct: 78 NGIRLYGRPINVS 90
Score = 36.2 bits (82), Expect = 0.024, Method: Composition-based stats.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
D +FVGNL V E L LF +AG + + +RE + + FGFV E A+
Sbjct: 16 DRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESVSYAI 74
Query: 219 EMFHRYDIDGRLLTVN 234
+ + + GR + V+
Sbjct: 75 ALLNGIRLYGRPINVS 90
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 43/85 (50%)
Query: 244 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 303
E P+ G+ ++V + E + F+E+G++ N + DR TG +G+ V
Sbjct: 14 EPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 73
Query: 304 SETELNDAIAALDGQNLDGRAIRVN 328
+ E A+ L+GQ+L G+ I V+
Sbjct: 74 TYKEAQAAMEGLNGQDLMGQPISVD 98
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 39/79 (49%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
LFV + + E + F + G ++ + +R T +G+ V T +EA+ A+E
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 222 HRYDIDGRLLTVNKAAPRG 240
+ D+ G+ ++V+ RG
Sbjct: 86 NGQDLMGQPISVDWCFVRG 104
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 4/79 (5%)
Query: 261 LPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNL 320
LPW+ L++ FS G+V+ +V D +TG S+GFGFV TE + + +++
Sbjct: 23 LPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRF---TEYETQVKVMSQRHM 79
Query: 321 -DGRAIRVNVAEDRQRRSS 338
DGR + +Q + S
Sbjct: 80 IDGRWCDCKLPNSKQSQDS 98
Score = 38.1 bits (87), Expect = 0.007, Method: Composition-based stats.
Identities = 24/70 (34%), Positives = 34/70 (48%), Gaps = 2/70 (2%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
+ L V LP+ + L F G V + +V + +T S+GFGFV + E K
Sbjct: 16 SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKV-- 73
Query: 220 MFHRYDIDGR 229
M R+ IDGR
Sbjct: 74 MSQRHMIDGR 83
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 44/86 (51%), Gaps = 3/86 (3%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHG--KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 313
+YVG+ W + +L QV G VV + +R G+S+G+ V ++SE ++ +
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 314 ALDGQNLDGRAIRVNVAEDRQRRSSF 339
L G+ L+G + V A RQ S F
Sbjct: 118 LLPGKVLNGEKVDVRPA-TRQNLSQF 142
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 43/85 (50%)
Query: 244 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 303
E P+ G+ ++V + E + F+E+G++ N + DR TG +G+ V
Sbjct: 13 EPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 72
Query: 304 SETELNDAIAALDGQNLDGRAIRVN 328
+ E A+ L+GQ+L G+ I V+
Sbjct: 73 TYKEAQAAMEGLNGQDLMGQPISVD 97
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
LFV + + E + F + G ++ + +R T +G+ V T +EA+ A+E
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 222 HRYDIDGRLLTVN 234
+ D+ G+ ++V+
Sbjct: 85 NGQDLMGQPISVD 97
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 47/91 (51%), Gaps = 11/91 (12%)
Query: 249 VFEPGF----------RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFG 298
+F+ GF ++ V NL + V +A ++++F+E G + A V YDR +GRS G
Sbjct: 14 LFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTA 72
Query: 299 FVTMSSETELNDAIAALDGQNLDGRAIRVNV 329
V + + A+ +G LDGR + + +
Sbjct: 73 DVHFERKADALKAMKQYNGVPLDGRPMNIQL 103
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KL V NL + V + LF + GT++ A V Y+R + RS G V +A KA++
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQ 88
Query: 221 FHRYDIDGRLLTVN 234
++ +DGR + +
Sbjct: 89 YNGVPLDGRPMNIQ 102
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
RIYVGNLP ++ +E VF ++G + + + +R G F FV + DA+
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLK-NRRGGPP--FAFVEFEDPRDAEDAVYG 80
Query: 315 LDGQNLDGRAIRV 327
DG + DG +RV
Sbjct: 81 RDGYDYDGYRLRV 93
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 7/77 (9%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRG--FGFVTMSTVEEAEK 216
D +++VGNLP D+ ++ + +F K G + ++ +R G F FV +AE
Sbjct: 22 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL-----KNRRGGPPFAFVEFEDPRDAED 76
Query: 217 AVEMFHRYDIDGRLLTV 233
AV YD DG L V
Sbjct: 77 AVYGRDGYDYDGYRLRV 93
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 251 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 310
E G ++ V NL + V +A ++++F+E G + A V YDR +GRS G V +
Sbjct: 33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALK 91
Query: 311 AIAALDGQNLDGRAIRVNV 329
A+ G LDGR + + +
Sbjct: 92 AMKQYKGVPLDGRPMDIQL 110
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 1/80 (1%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
AKL V NL + V + LF + GT++ A V Y+R + RS G V +A KA++
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMK 94
Query: 220 MFHRYDIDGRLLTVNKAAPR 239
+ +DGR + + A +
Sbjct: 95 QYKGVPLDGRPMDIQLVASQ 114
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 251 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 310
E G ++ V NL + V +A ++++F+E G + A V YDR +GRS G V +
Sbjct: 33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALK 91
Query: 311 AIAALDGQNLDGRAIRVNV 329
A+ G LDGR + + +
Sbjct: 92 AMKQYKGVPLDGRPMDIQL 110
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 1/80 (1%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
AKL V NL + V + LF + GT++ A V Y+R + RS G V +A KA++
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMK 94
Query: 220 MFHRYDIDGRLLTVNKAAPR 239
+ +DGR + + A +
Sbjct: 95 QYKGVPLDGRPMDIQLVASQ 114
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 251 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 310
E G ++ V NL + V +A ++++F+E G + A V YDR +GRS G V +
Sbjct: 86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALK 144
Query: 311 AIAALDGQNLDGRAIRVNV 329
A+ G LDGR + + +
Sbjct: 145 AMKQYKGVPLDGRPMDIQL 163
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
AKL V NL + V + LF + GT++ A V Y+R + RS G V +A KA++
Sbjct: 89 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMK 147
Query: 220 MFHRYDIDGRLLTVNKAA 237
+ +DGR + + A
Sbjct: 148 QYKGVPLDGRPMDIQLVA 165
>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 = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 35/145 (24%), Positives = 64/145 (44%), Gaps = 19/145 (13%)
Query: 184 GTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQP 243
G V + E +R +G GF + S EA + E D D +
Sbjct: 22 GIVRLKEKAKHR-----KGRGFGSDSNTREAIHSYERVRNEDDD--------------EL 62
Query: 244 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 303
E P+ G+ ++V ++ E +++ F ++G++ N + DR TG S+G+ V
Sbjct: 63 EPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYE 122
Query: 304 SETELNDAIAALDGQNLDGRAIRVN 328
+ + A AL+G + G+ I+V+
Sbjct: 123 THKQALAAKEALNGAEIMGQTIQVD 147
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 42/87 (48%), Gaps = 2/87 (2%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
LFV ++ + +++ F G ++ + +R T S+G+ V T ++A A E
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 222 HRYDIDGRLLTVNKAAPRGTQPERAPR 248
+ +I G+ + V+ +G P+R +
Sbjct: 135 NGAEIMGQTIQVDWCFVKG--PKRVKK 159
>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 = 42.0 bits (97), Expect = 5e-04, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 40/76 (52%)
Query: 253 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 312
G+ ++V + E + F+E+G++ N + DR TG +G+ V + E A+
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 313 AALDGQNLDGRAIRVN 328
L+GQ+L G+ I V+
Sbjct: 67 EGLNGQDLMGQPISVD 82
Score = 29.6 bits (65), Expect = 2.2, Method: Composition-based stats.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
LFV + + E + F + G ++ + +R T +G+ V T +EA+ A+E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 222 HRYDIDGRLLTVN 234
+ D+ G+ ++V+
Sbjct: 70 NGQDLMGQPISVD 82
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 41.6 bits (96), Expect = 6e-04, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 40/76 (52%)
Query: 253 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 312
G+ ++V + E + F+E+G++ N + DR TG +G+ V + E A+
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 313 AALDGQNLDGRAIRVN 328
L+GQ+L G+ I V+
Sbjct: 67 EGLNGQDLMGQPISVD 82
Score = 30.8 bits (68), Expect = 1.0, Method: Composition-based stats.
Identities = 20/79 (25%), Positives = 39/79 (49%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
LFV + + E + F + G ++ + +R T +G+ V T +EA+ A+E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 222 HRYDIDGRLLTVNKAAPRG 240
+ D+ G+ ++V+ RG
Sbjct: 70 NGQDLMGQPISVDWCFVRG 88
>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 = 41.6 bits (96), Expect = 6e-04, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 42/83 (50%)
Query: 246 APRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 305
P+ G+ ++V + E + F+E+G++ N + DR TG +G+ V +
Sbjct: 2 GPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 61
Query: 306 TELNDAIAALDGQNLDGRAIRVN 328
E A+ L+GQ+L G+ I V+
Sbjct: 62 KEAQAAMEGLNGQDLMGQPISVD 84
Score = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 20/79 (25%), Positives = 39/79 (49%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
LFV + + E + F + G ++ + +R T +G+ V T +EA+ A+E
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 222 HRYDIDGRLLTVNKAAPRG 240
+ D+ G+ ++V+ RG
Sbjct: 72 NGQDLMGQPISVDWCFVRG 90
>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 = 41.6 bits (96), Expect = 7e-04, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 40/76 (52%)
Query: 253 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 312
G+ ++V + E + F+E+G++ N + DR TG +G+ V + E A+
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 313 AALDGQNLDGRAIRVN 328
L+GQ+L G+ I V+
Sbjct: 67 EGLNGQDLMGQPISVD 82
Score = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 20/79 (25%), Positives = 39/79 (49%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
LFV + + E + F + G ++ + +R T +G+ V T +EA+ A+E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 222 HRYDIDGRLLTVNKAAPRG 240
+ D+ G+ ++V+ RG
Sbjct: 70 NGQDLMGQPISVDWCFVRG 88
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 41.6 bits (96), Expect = 7e-04, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 33/62 (53%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G +P ++D + L LFE+ G + V+ +R T +G F+T E A KA
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 221 FH 222
H
Sbjct: 75 LH 76
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 3/80 (3%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
++++G +P +D L+ +F E GK+ V+ DR TG +G F+T A +A
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 315 LDGQ-NLDG--RAIRVNVAE 331
L Q L G R I+V A+
Sbjct: 75 LHEQKTLPGMNRPIQVKPAD 94
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 41.2 bits (95), Expect = 8e-04, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 40/75 (53%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+ V LP ++ + L +F G + R++ D +TG S G+ FV +SE + AI L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 316 DGQNLDGRAIRVNVA 330
+G + + ++V+ A
Sbjct: 66 NGITVRNKRLKVSYA 80
>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 = 41.2 bits (95), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%)
Query: 244 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 303
E ++ + +YVGNL + ++ ++FS+ G + + D+ + GF FV
Sbjct: 30 EEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYY 89
Query: 304 SETELNDAIAALDGQNLDGRAIRVN 328
S + +A+ ++G LD R IR +
Sbjct: 90 SRADAENAMRYINGTRLDDRIIRTD 114
Score = 34.3 bits (77), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 37/70 (52%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L+VGNL + E++ LF K+G ++ + ++ + GF FV + +AE A+
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 222 HRYDIDGRLL 231
+ +D R++
Sbjct: 102 NGTRLDDRII 111
>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 = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 20/84 (23%), Positives = 46/84 (54%), Gaps = 3/84 (3%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
++VG + +D + F+ +G V +++ DR TG S+G+GFV+ ++ ++ + +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES- 69
Query: 316 DGQNLDGRAIRVNVAEDRQRRSSF 339
N G+ +++ A +Q S++
Sbjct: 70 -QINFHGKKLKLGPAIRKQNLSTY 92
Score = 34.3 bits (77), Expect = 0.11, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 34/58 (58%), Gaps = 1/58 (1%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
+FVG + +D ++ F + G+V+ ++I +R T S+G+GFV+ + +K VE
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 68
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 22/59 (37%), Positives = 32/59 (54%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
K+FVG L D EK+ F G VE E+ + +T++ RGF F+T E +K +E
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
Score = 33.5 bits (75), Expect = 0.20, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 27/51 (52%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 305
+I+VG L + ++ + F G+V + + D +T + RGF F+T E
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEE 53
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 22/85 (25%), Positives = 45/85 (52%)
Query: 244 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 303
E P+ G+ ++V ++ E +++ F ++G++ N + DR TG S+G+ V
Sbjct: 17 EPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYE 76
Query: 304 SETELNDAIAALDGQNLDGRAIRVN 328
+ + A AL+G + G+ I+V+
Sbjct: 77 THKQALAAKEALNGAEIMGQTIQVD 101
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 38/84 (45%), Gaps = 8/84 (9%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
+++VGN+ N L F E+G V+ +V D + FV M + +AI
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRG 63
Query: 315 LDGQNLDGRAIRVNVAEDRQRRSS 338
LD G+ + V ++ R R +S
Sbjct: 64 LDNTEFQGKRMHVQLSTSRLRTAS 87
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 8/79 (10%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KL VGN+ +++L FE+ G V E D + + FV M E+A +A+
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPV--------IECDIVKDYAFVHMERAEDAVEAIRG 63
Query: 221 FHRYDIDGRLLTVNKAAPR 239
+ G+ + V + R
Sbjct: 64 LDNTEFQGKRMHVQLSTSR 82
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 20/52 (38%), Positives = 28/52 (53%)
Query: 270 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLD 321
L +FS+ GKVVN D TG+++GF FV S + I + G+ LD
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLD 80
Score = 38.5 bits (88), Expect = 0.006, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 174 EKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFH--RYDIDGRLL 231
+ L LF KAG V E + T +++GF FV ++ +A+K ++ FH R D+ RL
Sbjct: 27 KALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRLF 86
>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 = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 30/105 (28%), Positives = 52/105 (49%), Gaps = 16/105 (15%)
Query: 240 GTQPERAPR-----VFEPGF----------RIYVGNLPWEVDNARLEQVFSEHGKVVNAR 284
G++P++ P +F+ GF ++ V NL + V +A ++++F+E G + A
Sbjct: 1 GSRPKQLPDKWQHDLFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAA 60
Query: 285 VVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNV 329
V YDR +GRS G V + + A +G LDGR + +
Sbjct: 61 VHYDR-SGRSLGTADVHFERKADALKAXKQYNGVPLDGRPXNIQL 104
Score = 35.0 bits (79), Expect = 0.063, Method: Composition-based stats.
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 1/69 (1%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KL V NL + V + LF + GT++ A V Y+R + RS G V +A KA +
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAXKQ 89
Query: 221 FHRYDIDGR 229
++ +DGR
Sbjct: 90 YNGVPLDGR 98
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 41/84 (48%), Gaps = 6/84 (7%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+F+ NL +D + E L + ++ G ++ V+ + +T+ S+G F T E A+K +
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77
Query: 222 HR------YDIDGRLLTVNKAAPR 239
+DGR L V+ A R
Sbjct: 78 SLEAEGGGLKLDGRQLKVDLAVTR 101
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 43/92 (46%), Gaps = 6/92 (6%)
Query: 253 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 312
G +++ NL ++ + L +V + G + RVV +T S+G F ++ +
Sbjct: 15 GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCL 74
Query: 313 AALD------GQNLDGRAIRVNVAEDRQRRSS 338
AA G LDGR ++V++A R +S
Sbjct: 75 AAASLEAEGGGLKLDGRQLKVDLAVTRDEAAS 106
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+YVGN+ + LE FS G + ++ D+ +G +G+ ++ + + DA A+
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSV-DAAVAM 97
Query: 316 DGQNLDGRAIRV 327
D GR I+V
Sbjct: 98 DETVFRGRTIKV 109
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/59 (18%), Positives = 29/59 (49%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
++VGN+ Y ++ L F G++ ++ ++ + +G+ ++ + + AV M
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAM 97
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 27/87 (31%), Positives = 47/87 (54%), Gaps = 3/87 (3%)
Query: 252 PGFRIYVGNLPWEVDNARLEQVFSE-HGKVVNARVVYDRETGRSRGFGFVTMSSETELND 310
P + ++VG+L +VD+ L + F + + +VV D +TG S+G+GFV + E E
Sbjct: 8 PEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLD-QTGVSKGYGFVKFTDELEQKR 66
Query: 311 AIAALDGQ-NLDGRAIRVNVAEDRQRR 336
A+ G L + +R++VA + R
Sbjct: 67 ALTECQGAVGLGSKPVRLSVAIPKASR 93
Score = 28.1 bits (61), Expect = 8.2, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 28/57 (49%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
LFVG+L DVD L F K + +T S+G+GFV + E ++A+
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRAL 68
>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 = 27/84 (32%), Positives = 41/84 (48%), Gaps = 2/84 (2%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
+I+V NLP++ L+ F+E G V+ A + E G+S+G G V S A
Sbjct: 10 QIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVAERACRM 67
Query: 315 LDGQNLDGRAIRVNVAEDRQRRSS 338
++G L GR I V + + SS
Sbjct: 68 MNGMKLSGREIDVRIDRNASGPSS 91
Score = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
++FV NLP+D + L F + G V A++ E +S+G G V + E AE+A M
Sbjct: 10 QIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVAERACRM 67
Query: 221 FHRYDIDGRLLTV 233
+ + GR + V
Sbjct: 68 MNGMKLSGREIDV 80
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 20/52 (38%), Positives = 28/52 (53%)
Query: 270 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLD 321
L +FS+ GKVVN D TG+++GF FV S + I + G+ LD
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLD 80
Score = 37.7 bits (86), Expect = 0.009, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 174 EKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFH--RYDIDGRLL 231
+ L LF KAG V E + T +++GF FV ++ +A+K ++ FH R D+ RL
Sbjct: 27 KALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRLF 86
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 41/202 (20%), Positives = 84/202 (41%), Gaps = 38/202 (18%)
Query: 159 DAKLFVGNL-PYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKA 217
++ L V NL P V + L +LF G V+ ++++N++ + V M+ +A+ A
Sbjct: 3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKEN-----ALVQMADGNQAQLA 57
Query: 218 VEMFHRYDIDGRLLTV------NKAAPRGTQPERA---------------------PRVF 250
+ + + + G+ + + N PR Q ++ +F
Sbjct: 58 MSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIF 117
Query: 251 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 310
P +++ N+P V L+ +FS +G VV + ++ R + M S E
Sbjct: 118 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD----RKMALIQMGSVEEAVQ 173
Query: 311 AIAALDGQNL-DGRAIRVNVAE 331
A+ L +L + +RV+ ++
Sbjct: 174 ALIDLHNHDLGENHHLRVSFSK 195
>pdb|2ADC|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd34 Complexed With Cucucu Rna
pdb|2EVZ|A Chain A, Structure Of Rna Binding Domains 3 And 4 Of Polypyrimidine
Tract Binding Protein
Length = 229
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 43/209 (20%), Positives = 82/209 (39%), Gaps = 46/209 (22%)
Query: 159 DAKLFVGNL-PYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKA 217
++ L V NL P V + L +LF G V+ ++++N++ + V M+ +A+ A
Sbjct: 34 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKEN-----ALVQMADGNQAQLA 88
Query: 218 VEMFHRYDIDGRLLTV------NKAAPRGTQPERA---------------------PRVF 250
+ + + + G+ + + N PR Q ++ +F
Sbjct: 89 MSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIF 148
Query: 251 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 310
P +++ N+P V L+ +FS +G VV + ++ R + M S E
Sbjct: 149 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD----RKMALIQMGSVEEAVQ 204
Query: 311 AIAALDGQNLDGRAIRVNVAEDRQRRSSF 339
A+ L +L E+ R SF
Sbjct: 205 ALIDLHNHDL---------GENHHLRVSF 224
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
IYVGN+ + LE F G V ++ D+ +G +GF ++ S + + ++ AL
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 66
Query: 316 DGQNLDGRAIRV 327
D GR I+V
Sbjct: 67 DESLFRGRQIKV 78
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 13/59 (22%), Positives = 30/59 (50%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
++VGN+ Y +E+L F G+V ++ ++ + +GF ++ S E ++ +
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLAL 66
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 1/83 (1%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
++ L + LE FS GKV + R++ DR + RS+G +V + AI L
Sbjct: 28 VFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GL 86
Query: 316 DGQNLDGRAIRVNVAEDRQRRSS 338
GQ L G I V ++ + R S
Sbjct: 87 TGQRLLGVPIIVQASQAEKNRLS 109
>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 = 27/83 (32%), Positives = 40/83 (48%), Gaps = 2/83 (2%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
I+V NLP++ L+ F+E G V+ A + E G+S+G G V S A +
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVAERACRMM 65
Query: 316 DGQNLDGRAIRVNVAEDRQRRSS 338
+G L GR I V + + SS
Sbjct: 66 NGMKLSGREIDVRIDRNASGPSS 88
Score = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
+FV NLP+D + L F + G V A++ E +S+G G V + E AE+A M
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVAERACRMM 65
Query: 222 HRYDIDGRLLTV 233
+ + GR + V
Sbjct: 66 NGMKLSGREIDV 77
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 32/62 (51%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLFVG +P +D + L LFE+ G + V+ +R T +G F+T + A KA
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 221 FH 222
H
Sbjct: 77 LH 78
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 28/87 (32%), Positives = 43/87 (49%), Gaps = 3/87 (3%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
+++VG +P +D L+ +F E G++ V+ DR TG +G F+T + A +A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 315 LDGQ-NLDG--RAIRVNVAEDRQRRSS 338
L Q L G R I+V A R S
Sbjct: 77 LHEQKTLPGMNRPIQVKPAASEGRGES 103
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 31/58 (53%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
+FVG L D EK+ F G VE E+ + +T++ RGF F+T E +K +E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 59
Score = 32.3 bits (72), Expect = 0.37, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 26/50 (52%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 305
I+VG L + ++ + F G+V + + D +T + RGF F+T E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEE 51
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 19/79 (24%), Positives = 43/79 (54%), Gaps = 3/79 (3%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
++VG + +D + F+ +G V +++ DR TG S+G+GFV+ ++ ++ + +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES- 70
Query: 316 DGQNLDGRAIRVNVAEDRQ 334
N G+ +++ A +Q
Sbjct: 71 -QINFHGKKLKLGPAIRKQ 88
Score = 34.3 bits (77), Expect = 0.11, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 34/58 (58%), Gaps = 1/58 (1%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
+FVG + +D ++ F + G+V+ ++I +R T S+G+GFV+ + +K VE
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 69
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 19/79 (24%), Positives = 43/79 (54%), Gaps = 3/79 (3%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
++VG + +D + F+ +G V +++ DR TG S+G+GFV+ ++ ++ + +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES- 69
Query: 316 DGQNLDGRAIRVNVAEDRQ 334
N G+ +++ A +Q
Sbjct: 70 -QINFHGKKLKLGPAIRKQ 87
Score = 33.9 bits (76), Expect = 0.12, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 34/58 (58%), Gaps = 1/58 (1%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVE 219
+FVG + +D ++ F + G+V+ ++I +R T S+G+GFV+ + +K VE
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 68
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 5/81 (6%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
++YVGNL + LE+ F +G + + V + GF FV + DA+
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRE 129
Query: 315 LDGQNLDGRAIRVNVAEDRQR 335
LDG+ L G +RV ++ +R
Sbjct: 130 LDGRTLCGCRVRVELSNGEKR 150
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 38.5 bits (88), Expect = 0.006, Method: Composition-based stats.
Identities = 29/85 (34%), Positives = 44/85 (51%), Gaps = 11/85 (12%)
Query: 256 IYVGNLPWEVDNARLEQ-------VFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL 308
I V N+P +V RLE+ +FS+ GK+ N Y E G+++G+ F+ +S
Sbjct: 18 IVVDNVP-QVGPDRLEKLKNVIHKIFSKFGKITND--FYPEEDGKTKGYIFLEYASPAHA 74
Query: 309 NDAIAALDGQNLDGR-AIRVNVAED 332
DA+ DG LD + RVN+ D
Sbjct: 75 VDAVKNADGYKLDKQHTFRVNLFTD 99
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 38.5 bits (88), Expect = 0.006, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 40/76 (52%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
++++G LP +++ +++++ + G + +V D TG S+G+ F + AIA
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 315 LDGQNLDGRAIRVNVA 330
L+G L + + V A
Sbjct: 63 LNGMQLGDKKLLVQRA 78
Score = 32.7 bits (73), Expect = 0.32, Method: Composition-based stats.
Identities = 16/77 (20%), Positives = 38/77 (49%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLF+G LP ++ +++ L G ++ ++ + T S+G+ F + ++A+
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 221 FHRYDIDGRLLTVNKAA 237
+ + + L V +A+
Sbjct: 63 LNGMQLGDKKLLVQRAS 79
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 38/80 (47%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
+A + V NL D L LF G++ + ++ T +S+GF F++ E+A +A+
Sbjct: 15 NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
Query: 219 EMFHRYDIDGRLLTVNKAAP 238
+ D +L V A P
Sbjct: 75 AGVSGFGYDHLILNVEWAKP 94
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 36/76 (47%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
I V NL + L+++F G + + D+ TG+S+GF F++ + AIA +
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV 77
Query: 316 DGQNLDGRAIRVNVAE 331
G D + V A+
Sbjct: 78 SGFGYDHLILNVEWAK 93
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 5/81 (6%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 314
++YVGNL + LE+ F +G + + V + GF FV + DA+
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRD 129
Query: 315 LDGQNLDGRAIRVNVAEDRQR 335
LDG+ L G +RV ++ +R
Sbjct: 130 LDGRTLCGCRVRVELSNGEKR 150
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 43/88 (48%)
Query: 251 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 310
EP +Y+ NL V L +F+ + + + TGR RG F+T ++
Sbjct: 23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQ 82
Query: 311 AIAALDGQNLDGRAIRVNVAEDRQRRSS 338
A+ ++G L G+ + + +++++RSS
Sbjct: 83 ALHLVNGYKLYGKILVIEFGKNKKQRSS 110
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 37.4 bits (85), Expect = 0.011, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 42/81 (51%), Gaps = 11/81 (13%)
Query: 256 IYVGNLPWEVDNARLEQ-------VFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL 308
I V N+P +V RLE+ +FS+ GK+ N Y E G+++G+ F+ +S
Sbjct: 4 IVVDNVP-QVGPDRLEKLKNVIHKIFSKFGKITND--FYPEEDGKTKGYIFLEYASPAHA 60
Query: 309 NDAIAALDGQNLDGR-AIRVN 328
DA+ DG LD + RVN
Sbjct: 61 VDAVKNADGYKLDKQHTFRVN 81
>pdb|1WG1|A Chain A, Solution Structure Of Rna Binding Domain In
Bab13405(Homolog Exc-7)
Length = 88
Score = 37.4 bits (85), Expect = 0.011, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 39/75 (52%), Gaps = 13/75 (17%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRE---TDRSRGFGFVTMSTVEEAEKAV 218
+ V NLP D + +++ L + Y+ + DR++ FVT+ E+A+ A+
Sbjct: 8 ILVKNLPQDSNCQEVHDLLKD----------YDLKYCYVDRNKRTAFVTLLNGEQAQNAI 57
Query: 219 EMFHRYDIDGRLLTV 233
+MFH+Y G+ L V
Sbjct: 58 QMFHQYSFRGKDLIV 72
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical
Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens
At 1.95 A Resolution
Length = 89
Score = 37.0 bits (84), Expect = 0.014, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
IYVGN+ + LE F G V ++ D+ +G +GF ++ S + + ++ AL
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 67
Query: 316 DGQNLDGRAIRV 327
D GR I+V
Sbjct: 68 DESLFRGRQIKV 79
Score = 31.2 bits (69), Expect = 0.91, Method: Composition-based stats.
Identities = 15/63 (23%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 159 DAK-LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKA 217
DA+ ++VGN+ Y +E+L F G+V ++ ++ + +GF ++ S E +
Sbjct: 5 DARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTS 64
Query: 218 VEM 220
+ +
Sbjct: 65 LAL 67
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 37.0 bits (84), Expect = 0.015, Method: Composition-based stats.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 1/85 (1%)
Query: 244 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 303
E ++ + +YVGNL + ++ ++FS+ G + + D+ + GF FV
Sbjct: 9 EEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDK-MKTACGFCFVEYY 67
Query: 304 SETELNDAIAALDGQNLDGRAIRVN 328
S + +A+ ++G LD R IR +
Sbjct: 68 SRADAENAMRYINGTRLDDRIIRTD 92
Score = 33.5 bits (75), Expect = 0.19, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSR-GFGFVTMSTVEEAEKAVEM 220
L+VGNL + E++ LF K+G +I ++I + ++ GF FV + +AE A+
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSG--DIKKIIMGLDKMKTACGFCFVEYYSRADAENAMRY 78
Query: 221 FHRYDIDGRLLTVN 234
+ +D R++ +
Sbjct: 79 INGTRLDDRIIRTD 92
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 36.6 bits (83), Expect = 0.019, Method: Composition-based stats.
Identities = 25/85 (29%), Positives = 45/85 (52%), Gaps = 10/85 (11%)
Query: 255 RIYVGNLPWE-VDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 313
R+++GNL V + +E +FS++G+V V +G+ FV S+E A+
Sbjct: 29 RVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--------HKGYAFVQYSNERHARAAVL 80
Query: 314 ALDGQNLDGRAIRVNVA-EDRQRRS 337
+G+ L G+ + +N+A E + RS
Sbjct: 81 GENGRVLAGQTLDINMAGEPKPDRS 105
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 31/64 (48%), Gaps = 1/64 (1%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
D KLFVG L E + +FE GT++ V+ + S+G FV T EA+ A+
Sbjct: 12 DRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAEAQAAI 70
Query: 219 EMFH 222
H
Sbjct: 71 NTLH 74
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 36.2 bits (82), Expect = 0.026, Method: Composition-based stats.
Identities = 16/68 (23%), Positives = 34/68 (50%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+Y+ L + L ++ +GK+V+ + + D+ T + +G+GFV S + A+ AL
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 316 DGQNLDGR 323
+ +
Sbjct: 68 KASGVQAQ 75
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
L++ L + L L + G + + I ++ T++ +G+GFV + A+KAV
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 35.4 bits (80), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 36/59 (61%), Gaps = 5/59 (8%)
Query: 191 VIYNRETDRSRGFGFVTMSTVEEAE--KAVEMFH-RYDIDGRLLTVNKAAPRGTQPERA 246
VI +++T +RGF F+ +ST+E A+ + ++ H IDG+ T+N +G++ + A
Sbjct: 57 VIKDKQTQLNRGFAFIQLSTIEAAQLLQILQALHPPLTIDGK--TINVEFAKGSKRDMA 113
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 32/57 (56%), Gaps = 3/57 (5%)
Query: 282 NARVVYDRETGRSRGFGFVTMSS--ETELNDAIAALD-GQNLDGRAIRVNVAEDRQR 335
N RV+ D++T +RGF F+ +S+ +L + AL +DG+ I V A+ +R
Sbjct: 54 NVRVIKDKQTQLNRGFAFIQLSTIEAAQLLQILQALHPPLTIDGKTINVEFAKGSKR 110
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 34.7 bits (78), Expect = 0.073, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 33/56 (58%), Gaps = 4/56 (7%)
Query: 280 VVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQN----LDGRAIRVNVAE 331
V N R++ D++T ++RGF FV +SS + + + L + +DG+ I V+ A+
Sbjct: 38 VNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAK 93
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 171 VDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHR----YDI 226
VDS A+ + V +I +++T ++RGF FV +S+ +A + +++ I
Sbjct: 23 VDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKI 82
Query: 227 DGRLLTVNKA 236
DG+ + V+ A
Sbjct: 83 DGKTIGVDFA 92
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 34.7 bits (78), Expect = 0.077, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRE-TGRSRGFGFVTMSSETELNDAIA 313
+I V N+P++ + + ++FS G++ R+ TG RGFGFV ++ + A
Sbjct: 17 KILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFN 76
Query: 314 AL 315
AL
Sbjct: 77 AL 78
Score = 33.9 bits (76), Expect = 0.15, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 2/79 (2%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRE-TDRSRGFGFVTMSTVEEAEKAV 218
+K+ V N+P+ + ++ LF G ++ + T RGFGFV T ++A+KA
Sbjct: 16 SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
Query: 219 E-MFHRYDIDGRLLTVNKA 236
+ H + GR L + A
Sbjct: 76 NALCHSTHLYGRRLVLEWA 94
>pdb|2LXU|A Chain A, Solution Nmr Structure Of The Eukaryotic Rna Recognition
Motif, Rrm1, From The Heterogeneous Nuclear
Ribonucleoprotein H From Homo Sapiens, Northeast
Structural Genomics Consortium (Nesg) Target Hr8614a
Length = 108
Score = 34.7 bits (78), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 39/79 (49%), Gaps = 7/79 (8%)
Query: 253 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNA----RVVYDRETGRSRGFGFVTMSSETEL 308
GF + V LPW +++ FS+ K+ N R +Y RE GR G FV + SE E+
Sbjct: 7 GFVVKVRGLPWSCSADEVQRFFSD-CKIQNGAQGIRFIYTRE-GRPSGEAFVELESEDEV 64
Query: 309 NDAIAALDGQNLDGRAIRV 327
A+ D + + R + V
Sbjct: 65 KLALKK-DRETMGHRYVEV 82
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 34.7 bits (78), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+Y+ NLP+++ + +F ++G + RV T +RG +V + +A+ L
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNAVDHL 67
Query: 316 DGQNLDGRAIRV 327
G N+ R + V
Sbjct: 68 SGFNVSNRYLVV 79
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 34.7 bits (78), Expect = 0.081, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDR-ETGRSRGFGFVTMSSETELNDAIA 313
++++G L V + ++FS +GK+ + +R S+G+ +V + E A+
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
Query: 314 ALDGQNLDGRAI 325
+DG +DG+ I
Sbjct: 66 HMDGGQIDGQEI 77
Score = 33.1 bits (74), Expect = 0.21, Method: Composition-based stats.
Identities = 19/73 (26%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNR-ETDRSRGFGFVTMSTVEEAEKAVE 219
K+ +G L +V + + +F G +++ ++ R S+G+ +V +EAEKA++
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
Query: 220 MFHRYDIDGRLLT 232
IDG+ +T
Sbjct: 66 HMDGGQIDGQEIT 78
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 34.7 bits (78), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 41/84 (48%), Gaps = 3/84 (3%)
Query: 245 RAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSS 304
R+P E GF +Y+ LP+E +N + F + V ++ + G++ G GFV +
Sbjct: 19 RSPH--EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRN 76
Query: 305 ETELNDAIAALDGQNLDGRAIRVN 328
E + A+ Q + R I+V+
Sbjct: 77 EADYKAALCR-HKQYMGNRFIQVH 99
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
Length = 88
Score = 34.3 bits (77), Expect = 0.11, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 2/68 (2%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETD--RSRGFGFVTMSTVEEAEKAV 218
K+FVG +P + L LFE+ G V V+ +R + +S+G FVT T + A +A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 219 EMFHRYDI 226
H +
Sbjct: 65 NALHNMKV 72
Score = 31.2 bits (69), Expect = 0.90, Method: Composition-based stats.
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 8/67 (11%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETG--RSRGFGFVTMSSETELNDAI 312
+++VG +P L ++F ++G V V+ DR +S+G FVT +
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK------ 58
Query: 313 AALDGQN 319
AAL+ QN
Sbjct: 59 AALEAQN 65
>pdb|2ZJ7|A Chain A, Crystal Structure Of D157a Mutant Of Pseudomonas Sp. Mis38
Lipase
Length = 617
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 51/96 (53%), Gaps = 7/96 (7%)
Query: 159 DAKLFVGNLPYDVDSEKLAM-LFEKAGTVEI--AEVIYNRETDRSRGFGFVTMSTVEEAE 215
D++ + +P++ DSEKLA+ +KAG I +++ Y+ +TD +RG F + A+
Sbjct: 62 DSQGVIPGIPWNPDSEKLALDAVKKAGWTPITASQLGYDGKTD-ARGTFFGEKAGYTTAQ 120
Query: 216 KAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFE 251
VE+ +YD G L + A RGT R + +
Sbjct: 121 --VEILGKYDAQGHLTEIG-IAFRGTSGPRENLILD 153
>pdb|2ZJ6|A Chain A, Crystal Structure Of D337a Mutant Of Pseudomonas Sp. Mis38
Lipase
Length = 617
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 51/96 (53%), Gaps = 7/96 (7%)
Query: 159 DAKLFVGNLPYDVDSEKLAM-LFEKAGTVEI--AEVIYNRETDRSRGFGFVTMSTVEEAE 215
D++ + +P++ DSEKLA+ +KAG I +++ Y+ +TD +RG F + A+
Sbjct: 62 DSQGVIPGIPWNPDSEKLALDAVKKAGWTPITASQLGYDGKTD-ARGTFFGEKAGYTTAQ 120
Query: 216 KAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFE 251
VE+ +YD G L + A RGT R + +
Sbjct: 121 --VEILGKYDAQGHLTEIG-IAFRGTSGPRENLILD 153
>pdb|2Z8X|A Chain A, Crystal Structure Of Extracellular Lipase From Pseudomonas
Sp. Mis38
pdb|2ZVD|A Chain A, Crystal Structure Of Pseudomonas Sp. Mis38 Lipase In An
Open Conformation
pdb|2ZVD|C Chain C, Crystal Structure Of Pseudomonas Sp. Mis38 Lipase In An
Open Conformation
pdb|3A6Z|A Chain A, Crystal Structure Of Pseudomonas Sp. Mis38 Lipase (Pml) In
The Open Conformation Following Dialysis Against Ca-Free
Buffer
pdb|3A6Z|C Chain C, Crystal Structure Of Pseudomonas Sp. Mis38 Lipase (Pml) In
The Open Conformation Following Dialysis Against Ca-Free
Buffer
pdb|3A70|A Chain A, Crystal Structure Of Pseudomonas Sp. Mis38 Lipase In
Complex Diethyl Phosphate
pdb|3A70|C Chain C, Crystal Structure Of Pseudomonas Sp. Mis38 Lipase In
Complex Diethyl Phosphate
Length = 617
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 51/96 (53%), Gaps = 7/96 (7%)
Query: 159 DAKLFVGNLPYDVDSEKLAM-LFEKAGTVEI--AEVIYNRETDRSRGFGFVTMSTVEEAE 215
D++ + +P++ DSEKLA+ +KAG I +++ Y+ +TD +RG F + A+
Sbjct: 62 DSQGVIPGIPWNPDSEKLALDAVKKAGWTPITASQLGYDGKTD-ARGTFFGEKAGYTTAQ 120
Query: 216 KAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFE 251
VE+ +YD G L + A RGT R + +
Sbjct: 121 --VEILGKYDAQGHLTEIG-IAFRGTSGPRENLILD 153
>pdb|2Z8Z|A Chain A, Crystal Structure Of A Platinum-Bound S445c Mutant Of
Pseudomonas Sp. Mis38 Lipase
Length = 617
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 51/96 (53%), Gaps = 7/96 (7%)
Query: 159 DAKLFVGNLPYDVDSEKLAM-LFEKAGTVEI--AEVIYNRETDRSRGFGFVTMSTVEEAE 215
D++ + +P++ DSEKLA+ +KAG I +++ Y+ +TD +RG F + A+
Sbjct: 62 DSQGVIPGIPWNPDSEKLALDAVKKAGWTPITASQLGYDGKTD-ARGTFFGEKAGYTTAQ 120
Query: 216 KAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFE 251
VE+ +YD G L + A RGT R + +
Sbjct: 121 --VEILGKYDAQGHLTEIG-IAFRGTSGPRENLILD 153
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+Y+ NLP+++ + +F ++G + RV T +RG +V + +A L
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 77
Query: 316 DGQNLDGRAIRV 327
G N+ R + V
Sbjct: 78 SGFNVCNRYLVV 89
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 33.1 bits (74), Expect = 0.25, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 1/64 (1%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
D KLFVG L E + LF+ G ++ V+ + S+G FV S+ EA+ A+
Sbjct: 15 DRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGS-SKGCAFVKFSSHTEAQAAI 73
Query: 219 EMFH 222
H
Sbjct: 74 HALH 77
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHG--KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 313
+Y+GNL W + L + G ++ + +R G+S+GF V + SE +
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
Query: 314 ALDGQNLDGR 323
L + L G+
Sbjct: 64 LLPKRELHGQ 73
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHG--KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 313
+Y+GNL W + L + G ++ + +R G+S+GF V + SE +
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 130
Query: 314 ALDGQNLDGR 323
L + L G+
Sbjct: 131 LLPKRELHGQ 140
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 32.7 bits (73), Expect = 0.33, Method: Composition-based stats.
Identities = 16/71 (22%), Positives = 35/71 (49%), Gaps = 6/71 (8%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+Y G + + + + Q FS G+++ RV + +G+ FV S+ AI ++
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVSV 81
Query: 316 DGQNLDGRAIR 326
+G ++G ++
Sbjct: 82 NGTTIEGHVVK 92
>pdb|3EGN|A Chain A, C-Terminal Rna Recognition Motif Of The U11U12 65K PROTEIN
Length = 143
Score = 32.0 bits (71), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 42/88 (47%), Gaps = 11/88 (12%)
Query: 251 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVN-----ARVVYD---RETGRSRGFGFVTM 302
EP RIYV NL V L+ +F G+ V+ R+++D + GR +G F+ +
Sbjct: 43 EPNCRIYVKNLAKHVQEKDLKYIF---GRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGL 99
Query: 303 SSETELNDAIAALDGQNLDGRAIRVNVA 330
+E A+ +G L G+ + V A
Sbjct: 100 PNEKAAAKALKEANGYVLFGKPMVVQFA 127
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 32.0 bits (71), Expect = 0.49, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEM 220
KLFVG L + + LFE G +E ++ + + S+G FV S+ EA+ A+
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGN-SKGCAFVKYSSHAEAQAAINA 75
Query: 221 FH 222
H
Sbjct: 76 LH 77
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 31.2 bits (69), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 35/74 (47%), Gaps = 2/74 (2%)
Query: 254 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 313
F +++GNL A L+ SE N V D TG +R FG+V S +L A+
Sbjct: 18 FNLFIGNLNPNKSVAELKVAISEL-FAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL- 75
Query: 314 ALDGQNLDGRAIRV 327
L G + G I++
Sbjct: 76 ELTGLKVFGNEIKL 89
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 31.2 bits (69), Expect = 0.77, Method: Composition-based stats.
Identities = 18/79 (22%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF 221
L NL +++ ++L +FE A + + + +S+G ++ + +AEK +E
Sbjct: 19 LLAKNLSFNITEDELKEVFEDALEIRLVS-----QDGKSKGIAYIEFKSEADAEKNLEEK 73
Query: 222 HRYDIDGRLLTVNKAAPRG 240
+IDGR +++ +G
Sbjct: 74 QGAEIDGRSVSLYYTGEKG 92
Score = 28.1 bits (61), Expect = 6.5, Method: Composition-based stats.
Identities = 16/68 (23%), Positives = 34/68 (50%), Gaps = 5/68 (7%)
Query: 260 NLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQN 319
NL + + L++VF + + R+V + G+S+G ++ SE + + G
Sbjct: 23 NLSFNITEDELKEVFED---ALEIRLV--SQDGKSKGIAYIEFKSEADAEKNLEEKQGAE 77
Query: 320 LDGRAIRV 327
+DGR++ +
Sbjct: 78 IDGRSVSL 85
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 31.2 bits (69), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 8/86 (9%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKV-VNAR-------VVYDRETGRSRGFGFVTMSSETE 307
IYV L V L F + G V +N R + D+ETG+ +G V+
Sbjct: 18 IYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPT 77
Query: 308 LNDAIAALDGQNLDGRAIRVNVAEDR 333
A+ DG++ G ++V++A +
Sbjct: 78 AKAAVEWFDGKDFQGSKLKVSLARKK 103
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 8/86 (9%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAE--------VIYNRETDRSRGFGFVTMST 210
++ ++V L V + LA F++ G V++ + + ++ET + +G V+
Sbjct: 15 NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 74
Query: 211 VEEAEKAVEMFHRYDIDGRLLTVNKA 236
A+ AVE F D G L V+ A
Sbjct: 75 PPTAKAAVEWFDGKDFQGSKLKVSLA 100
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 31.2 bits (69), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 6/47 (12%)
Query: 163 FVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRE---TDRSRGFGFV 206
F+GNLPYDV E + F + I+ V RE +R +GFG+
Sbjct: 19 FLGNLPYDVTEESIKEFFR---GLNISAVRLPREPSNPERLKGFGYA 62
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 46/90 (51%), Gaps = 7/90 (7%)
Query: 252 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETG---RSRGFGFVTMSSETEL 308
P + ++GNLP++V +++ F G ++A V RE R +GFG+
Sbjct: 14 PPYTAFLGNLPYDVTEESIKEFF--RGLNISA-VRLPREPSNPERLKGFGYAEFEDLDS- 69
Query: 309 NDAIAALDGQNLDGRAIRVNVAEDRQRRSS 338
+ +L+ ++L + IRV+VA+ Q + S
Sbjct: 70 LLSALSLNEESLGNKRIRVDVADQAQDKDS 99
>pdb|3H2V|E Chain E, Human Raver1 Rrm1 Domain In Complex With Human Vinculin
Tail Domain Vt
pdb|3H2V|F Chain F, Human Raver1 Rrm1 Domain In Complex With Human Vinculin
Tail Domain Vt
pdb|3H2V|G Chain G, Human Raver1 Rrm1 Domain In Complex With Human Vinculin
Tail Domain Vt
pdb|3H2V|H Chain H, Human Raver1 Rrm1 Domain In Complex With Human Vinculin
Tail Domain Vt
Length = 74
Score = 31.2 bits (69), Expect = 0.86, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 17/78 (21%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRE-----TDRSRGFGFVTMSTVEEAE 215
K+ + LP DV ++ E+ +++ + E D+ +G FVT+ E+AE
Sbjct: 4 KILIRGLPGDVTNQ------------EVHDLLSDYELKYCFVDKYKGTAFVTLLNGEQAE 51
Query: 216 KAVEMFHRYDIDGRLLTV 233
A+ FH+ + R L+V
Sbjct: 52 AAINAFHQSRLRERELSV 69
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 31.2 bits (69), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 6/83 (7%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+YV NL +E+ F+ N + + R + FV S+ + +A+ AL
Sbjct: 18 LYVRNLMLSTSEEMIEKEFN------NIKPGAVERVKKIRDYAFVHFSNREDAVEAMKAL 71
Query: 316 DGQNLDGRAIRVNVAEDRQRRSS 338
+G+ LDG I V +A+ + SS
Sbjct: 72 NGKVLDGSPIEVTLAKPVDKDSS 94
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation Initiation
Factor 4b
Length = 100
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 6/47 (12%)
Query: 163 FVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRE---TDRSRGFGFV 206
F+GNLPYDV E + F + I+ V RE +R +GFG+
Sbjct: 23 FLGNLPYDVTEESIKEFFR---GLNISAVRLPREPSNPERLKGFGYA 66
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 44/86 (51%), Gaps = 7/86 (8%)
Query: 252 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETG---RSRGFGFVTMSSETEL 308
P + ++GNLP++V +++ F G ++A V RE R +GFG+
Sbjct: 18 PPYTAFLGNLPYDVTEESIKEFF--RGLNISA-VRLPREPSNPERLKGFGYAEFEDLDS- 73
Query: 309 NDAIAALDGQNLDGRAIRVNVAEDRQ 334
+ +L+ ++L R IRV+VA+ Q
Sbjct: 74 LLSALSLNEESLGNRRIRVDVADQAQ 99
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 8/64 (12%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
+ +LFV P DV +L +F G ++ +++ GF FV E A KA+
Sbjct: 31 NTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKAI 82
Query: 219 EMFH 222
E H
Sbjct: 83 EEVH 86
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+Y+ NLP+++ + +F ++G + RV T +RG +V + +A L
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 71
Query: 316 DGQNLDGRAIRV 327
G N+ R + V
Sbjct: 72 SGFNVCNRYLVV 83
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 27/64 (42%), Gaps = 8/64 (12%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVIYNRETDRSRGFGFVTMSTVEEAEKAV 218
+ +LFV P DV +L +F G + +E GF FV E A KA+
Sbjct: 4 NTRLFVRPFPLDVQESELNEIFGPFGPM--------KEVKILNGFAFVEFEEAESAAKAI 55
Query: 219 EMFH 222
E H
Sbjct: 56 EEVH 59
>pdb|1WI6|A Chain A, Solution Structure Of The Rna Binding Domain From Mouse
Hypothetical Protein Bab23670
Length = 88
Score = 30.4 bits (67), Expect = 1.4, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 198 DRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTV 233
D+ +G FVT+ E+AE A+ FH+ + R L+V
Sbjct: 37 DKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSV 72
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 32/50 (64%), Gaps = 1/50 (2%)
Query: 191 VIYNRETDRSRGFGFVTMSTVEEAEKAVEMF-HRYDIDGRLLTVNKAAPR 239
++ N+ + +SRGF FV S +++A + +E H +I G+ ++++ + P+
Sbjct: 34 LMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSDPK 83
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 255 RIYVGNLPWEVDNARLEQVFSEH---GKVVNA--RVVYDRETGRSRGFGFVTMSSETELN 309
R+YVGN+P+ + + F+ G + A V + + + F F+ S E
Sbjct: 3 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 62
Query: 310 DAIAALDGQNLDGRAIRVNVAEDRQ 334
A+ A DG G+++++ D Q
Sbjct: 63 QAM-AFDGIIFQGQSLKIRRPHDYQ 86
>pdb|2Q01|A Chain A, Crystal Structure Of Glucuronate Isomerase From
Caulobacter Crescentus
pdb|2Q01|B Chain B, Crystal Structure Of Glucuronate Isomerase From
Caulobacter Crescentus
pdb|2Q01|C Chain C, Crystal Structure Of Glucuronate Isomerase From
Caulobacter Crescentus
Length = 497
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 27/61 (44%), Gaps = 2/61 (3%)
Query: 234 NKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQV--FSEHGKVVNARVVYDRET 291
+KA T P A RVF F ++ G W N QV F+E + NA +DR T
Sbjct: 87 SKAGVPDTDPREAWRVFASHFYLFRGTPSWVWLNHVFSQVFGFTEFLEASNADDYFDRIT 146
Query: 292 G 292
Sbjct: 147 A 147
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 29.6 bits (65), Expect = 2.9, Method: Composition-based stats.
Identities = 21/79 (26%), Positives = 42/79 (53%), Gaps = 11/79 (13%)
Query: 253 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 312
G +++VG ++ L+Q F ++G+VV+ + R F FVT + +D +
Sbjct: 11 GSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFI-----PKPFRAFAFVTFA-----DDKV 60
Query: 313 A-ALDGQNLDGRAIRVNVA 330
A +L G++L + I V+++
Sbjct: 61 AQSLCGEDLIIKGISVHIS 79
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 29.3 bits (64), Expect = 2.9, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
+YVGNL +V + Q+FS+ G + +++ + + + FV + A+AA+
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVEFYEHRDAAAALAAM 75
Query: 316 DGQNLDGRAIRVNVA 330
+G+ + G+ ++VN A
Sbjct: 76 NGRKILGKEVKVNWA 90
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 288 DRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQRRSSF 339
DRETG+ +G V+ AI DG+ G I+V+ A RR+ F
Sbjct: 50 DRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA---TRRADF 98
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 40/83 (48%), Gaps = 10/83 (12%)
Query: 256 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 315
++V NL V LE+ FS+ GK+ + + D + F+ A+ +
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEEM 65
Query: 316 DGQNLDGRAIRVNVAE--DRQRR 336
+G++L+G I + A+ D++R+
Sbjct: 66 NGKDLEGENIEIVFAKPPDQKRK 88
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 28.9 bits (63), Expect = 3.9, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 21/43 (48%)
Query: 288 DRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVA 330
DRETG+ +G V+ AI DG+ G I+V+ A
Sbjct: 56 DRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA 98
>pdb|1AN7|A Chain A, Ribosomal Protein S8 From Thermus Thermophilus
pdb|1AN7|B Chain B, Ribosomal Protein S8 From Thermus Thermophilus
pdb|1QD7|G Chain G, Partial Model For 30s Ribosomal Subunit
pdb|1EMI|A Chain A, Structure Of 16s Rrna In The Region Around Ribosomal
Protein S8
Length = 136
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 10/55 (18%)
Query: 215 EKAVEMFHRYDIDGR--LLTVNKAAPRGTQPERAP--------RVFEPGFRIYVG 259
E ++ + R D+DG+ L K PR P+ P R+ +PG R+YVG
Sbjct: 40 EGFIKGYERVDVDGKPYLRVYLKYGPRRQGPDPRPEQVIHHIRRISKPGRRVYVG 94
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.314 0.131 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,685,359
Number of Sequences: 62578
Number of extensions: 259966
Number of successful extensions: 902
Number of sequences better than 100.0: 198
Number of HSP's better than 100.0 without gapping: 146
Number of HSP's successfully gapped in prelim test: 52
Number of HSP's that attempted gapping in prelim test: 494
Number of HSP's gapped (non-prelim): 354
length of query: 339
length of database: 14,973,337
effective HSP length: 99
effective length of query: 240
effective length of database: 8,778,115
effective search space: 2106747600
effective search space used: 2106747600
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.6 bits)