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= 017842
(365 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 = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 55/201 (27%), Positives = 94/201 (46%), Gaps = 37/201 (18%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIY 219
K+F+G L +D + L F K GTV + L+++
Sbjct: 4 CKMFIGGLNWDTTEDNLREYFGKYGTV--------------------------TDLKIMK 37
Query: 220 NRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPG 279
+ T RSRGFGF++ ++ V+ H +DG+++ +A PR Q +
Sbjct: 38 DPATGRSRGFGFLSFEKPSSVDEVVKTQHI--LDGKVIDPKRAIPRDEQDKTG------- 88
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
+I+VG + +V E+ FS+ G +++A+++ D++TG+SRGFGFVT S + D +
Sbjct: 89 -KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAV-DRVC 146
Query: 340 ALDGQNLDGRAIRVNVAEDRQ 360
+ R I + AE R
Sbjct: 147 QNKFIDFKDRKIEIKRAEPRH 167
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 78.2 bits (191), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 47/163 (28%), Positives = 81/163 (49%), Gaps = 17/163 (10%)
Query: 193 FHFLFGNQGFHMWVCAVFYVSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDI 252
F LFG+ G + C +++ ++ T +S G+GFV S +A+KA+ + +
Sbjct: 21 FKSLFGSIG-DIESC--------KLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKL 71
Query: 253 DGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVV 312
+ + V+ A P A +YV LP + +EQ+FS++G+++ +R++
Sbjct: 72 QTKTIKVSYARPSSASIRDA--------NLYVSGLPKTMSQKEMEQLFSQYGRIITSRIL 123
Query: 313 YDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNV 355
D+ TG SRG GF+ E +AI L+GQ G A + V
Sbjct: 124 LDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGAAEPITV 166
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 40/75 (53%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V LP + + +F G + + ++V D+ TG+S G+GFV S + + AI L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 342 DGQNLDGRAIRVNVA 356
+G L + I+V+ A
Sbjct: 67 NGLKLQTKTIKVSYA 81
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 78.2 bits (191), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 36/76 (47%), Positives = 55/76 (72%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+++VG L ++ + LEQVFS++G++ VV DRET RSRGFGFVT + + DA+ A
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 341 LDGQNLDGRAIRVNVA 356
++G+++DGR IRV+ A
Sbjct: 74 MNGKSVDGRQIRVDQA 89
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 53/106 (50%), Gaps = 26/106 (24%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVI 218
+ KLFVG L +D + + L +F K G +I+EV V+
Sbjct: 12 EGKLFVGGLSFDTNEQSLEQVFSKYG--QISEVV------------------------VV 45
Query: 219 YNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAP 264
+RET RSRGFGFVT +++A+ A+ + +DGR + V++A
Sbjct: 46 KDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGK 91
>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 = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 46/156 (29%), Positives = 78/156 (50%), Gaps = 17/156 (10%)
Query: 193 FHFLFGNQGFHMWVCAVFYVSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDI 252
F LFG+ G + C +++ ++ T +S G+GFV ++AEKA+ + +
Sbjct: 19 FRSLFGSIG-EIESC--------KLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRL 69
Query: 253 DGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVV 312
+ + V+ A P A +YV LP + LEQ+FS++G+++ +R++
Sbjct: 70 QTKTIKVSYARPSSASIRDA--------NLYVSGLPKTMTQKELEQLFSQYGRIITSRIL 121
Query: 313 YDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDG 348
D+ TG SRG GF+ E +AI L+GQ G
Sbjct: 122 VDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSG 157
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V LP + +F G++ + ++V D+ TG+S G+GFV + AI L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 342 DGQNLDGRAIRVNVA 356
+G L + I+V+ A
Sbjct: 65 NGLRLQTKTIKVSYA 79
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 75.9 bits (185), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 35/79 (44%), Positives = 55/79 (69%), Gaps = 1/79 (1%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
IYVGNL + + +++++FS+ GKV N +++YDRET + +GFGFV M E+ +++AIA L
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKL 62
Query: 342 DGQNLDGRAIRVNVAEDRQ 360
D + GR IRV A ++
Sbjct: 63 DNTDFMGRTIRVTEANPKK 81
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 46/104 (44%), Gaps = 27/104 (25%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
++VGNL Y SE++ LF + G VF V L IY+R
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFG-----------------------KVFNVKL---IYDR 37
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPR 265
ET + +GFGFV M E +A+ D GR + V +A P+
Sbjct: 38 ETKKPKGFGFVEMQE-ESVSEAIAKLDNTDFMGRTIRVTEANPK 80
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 75.1 bits (183), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 57/204 (27%), Positives = 91/204 (44%), Gaps = 30/204 (14%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
KLF+G L ++ E L FE+ GT + C V + +
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGT------------------LTDCVV--------MRD 49
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF 280
T RSRGFGFVT +TVEE + A+ + +DGR++ +A R + + P
Sbjct: 50 PNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVK 106
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+I+VG + + + L F ++GK+ ++ DR +G+ RGF FVT + D I
Sbjct: 107 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVI 165
Query: 341 LDGQNLDGRAIRVNVAEDRQRRSS 364
++G V A +Q +S
Sbjct: 166 QKYHTVNGHNCEVRKALSKQEMAS 189
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 32/99 (32%), Positives = 51/99 (51%), Gaps = 4/99 (4%)
Query: 266 GTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGF 325
G +P+ E ++++G L +E + L F + G + + V+ D T RSRGFGF
Sbjct: 1 GGSKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGF 60
Query: 326 VTMSSETELNDAIAALDGQNLDGRAI---RVNVAEDRQR 361
VT ++ E++ A+ A +DGR + R ED QR
Sbjct: 61 VTYATVEEVDAAMNARP-HKVDGRVVEPKRAVSREDSQR 98
>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 = 75.1 bits (183), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 57/204 (27%), Positives = 91/204 (44%), Gaps = 30/204 (14%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
KLF+G L ++ E L FE+ GT + C V + +
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGT------------------LTDCVV--------MRD 41
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF 280
T RSRGFGFVT +TVEE + A+ + +DGR++ +A R + + P
Sbjct: 42 PNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVK 98
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+I+VG + + + L F ++GK+ ++ DR +G+ RGF FVT + D I
Sbjct: 99 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVI 157
Query: 341 LDGQNLDGRAIRVNVAEDRQRRSS 364
++G V A +Q +S
Sbjct: 158 QKYHTVNGHNCEVRKALSKQEMAS 181
>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 = 75.1 bits (183), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 57/204 (27%), Positives = 91/204 (44%), Gaps = 30/204 (14%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
KLF+G L ++ E L FE+ GT + C V + +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGT------------------LTDCVV--------MRD 48
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF 280
T RSRGFGFVT +TVEE + A+ + +DGR++ +A R + + P
Sbjct: 49 PNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVK 105
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+I+VG + + + L F ++GK+ ++ DR +G+ RGF FVT + D I
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVI 164
Query: 341 LDGQNLDGRAIRVNVAEDRQRRSS 364
++G V A +Q +S
Sbjct: 165 QKYHTVNGHNCEVRKALSKQEMAS 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: 272 APRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 331
+P+ E ++++G L +E + L F + G + + V+ D T RSRGFGFVT ++
Sbjct: 6 SPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATV 65
Query: 332 TELNDAIAALDGQNLDGRAI---RVNVAEDRQR 361
E++ A+ A +DGR + R ED QR
Sbjct: 66 EEVDAAMNARP-HKVDGRVVEPKRAVSREDSQR 97
>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 = 75.1 bits (183), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 57/204 (27%), Positives = 91/204 (44%), Gaps = 30/204 (14%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
KLF+G L ++ E L FE+ GT + C V + +
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGT------------------LTDCVV--------MRD 47
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF 280
T RSRGFGFVT +TVEE + A+ + +DGR++ +A R + + P
Sbjct: 48 PNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVK 104
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+I+VG + + + L F ++GK+ ++ DR +G+ RGF FVT + D I
Sbjct: 105 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVI 163
Query: 341 LDGQNLDGRAIRVNVAEDRQRRSS 364
++G V A +Q +S
Sbjct: 164 QKYHTVNGHNCEVRKALSKQEMAS 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: 272 APRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 331
+P+ E ++++G L +E + L F + G + + V+ D T RSRGFGFVT ++
Sbjct: 5 SPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATV 64
Query: 332 TELNDAIAALDGQNLDGRAI---RVNVAEDRQR 361
E++ A+ A +DGR + R ED QR
Sbjct: 65 EEVDAAMNARP-HKVDGRVVEPKRAVSREDSQR 96
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 74.3 bits (181), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 56/200 (28%), Positives = 89/200 (44%), Gaps = 30/200 (15%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
KLF+G L ++ E L FE+ GT + C V + +
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGT------------------LTDCVV--------MRD 46
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF 280
T RSRGFGFVT +TVEE + A+ + +DGR++ +A R + + P
Sbjct: 47 PNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVK 103
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+I+VG + + + L F ++GK+ ++ DR +G+ RGF FVT + D I
Sbjct: 104 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVI 162
Query: 341 LDGQNLDGRAIRVNVAEDRQ 360
++G V A +Q
Sbjct: 163 QKYHTVNGHNCEVRKALSKQ 182
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: 272 APRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 331
+P+ E ++++G L +E + L F + G + + V+ D T RSRGFGFVT ++
Sbjct: 4 SPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATV 63
Query: 332 TELNDAIAALDGQNLDGRAI---RVNVAEDRQR 361
E++ A+ A +DGR + R ED QR
Sbjct: 64 EEVDAAMNARP-HKVDGRVVEPKRAVSREDSQR 95
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 74.3 bits (181), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 56/200 (28%), Positives = 89/200 (44%), Gaps = 30/200 (15%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
KLF+G L ++ E L FE+ GT + C V + +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGT------------------LTDCVV--------MRD 48
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF 280
T RSRGFGFVT +TVEE + A+ + +DGR++ +A R + + P
Sbjct: 49 PNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAVSR--EDSQRPGAHLTVK 105
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+I+VG + + + L F ++GK+ ++ DR +G+ RGF FVT + D I
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV-DKIVI 164
Query: 341 LDGQNLDGRAIRVNVAEDRQ 360
++G V A +Q
Sbjct: 165 QKYHTVNGHNCEVRKALSKQ 184
Score = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 50/93 (53%), Gaps = 4/93 (4%)
Query: 272 APRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 331
+P+ E ++++G L +E + L F + G + + V+ D T RSRGFGFVT ++
Sbjct: 6 SPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATV 65
Query: 332 TELNDAIAALDGQNLDGRAI---RVNVAEDRQR 361
E++ A+ A +DGR + R ED QR
Sbjct: 66 EEVDAAMNARP-HKVDGRVVEPKRAVSREDSQR 97
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 71.6 bits (174), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 33/81 (40%), Positives = 53/81 (65%), Gaps = 1/81 (1%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
++VGN+P+E +L+ +FSE G VV+ R+VYDRETG+ +G+GF + A+ L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 342 DGQNLDGRAIRV-NVAEDRQR 361
+G+ GRA+RV N A ++ +
Sbjct: 71 NGREFSGRALRVDNAASEKNK 91
Score = 44.7 bits (104), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 48/109 (44%), Gaps = 26/109 (23%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
+FVGN+PY+ E+L +F + G V V F +++Y+R
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPV----VSF----------------------RLVYDR 44
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPE 270
ET + +G+GF E A A+ + + GR L V+ AA + E
Sbjct: 45 ETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAASEKNKEE 93
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 48/195 (24%), Positives = 93/195 (47%), Gaps = 33/195 (16%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L+VGNL + + L F+ G IA +K I
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGP--IANIK-------------------------IMID 35
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFR 281
+ +++ + FV +A A++ + I+ ++ +N A Q +++ + F
Sbjct: 36 KNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWA----FQSQQSSS--DDTFN 89
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
++VG+L VD+ L F + ++ V++D +TG SRG+GFV+ +S+ + +A+ ++
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 342 DGQNLDGRAIRVNVA 356
GQ+L+GR +R+N A
Sbjct: 150 QGQDLNGRPLRINWA 164
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 43/83 (51%), Gaps = 1/83 (1%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+YVGNL + L+Q F G + N +++ D+ ++ + FV + N A+ L
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNN-KNVNYAFVEYHQSHDANIALQTL 61
Query: 342 DGQNLDGRAIRVNVAEDRQRRSS 364
+G+ ++ +++N A Q+ SS
Sbjct: 62 NGKQIENNIVKINWAFQSQQSSS 84
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 50/103 (48%), Gaps = 26/103 (25%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
LFVG+L +VD E L F+ + +L G V+++
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPS---------YLSG-----------------HVMWDM 123
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAP 264
+T SRG+GFV+ ++ ++A+ A++ D++GR L +N AA
Sbjct: 124 QTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK 166
>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 = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 47/187 (25%), Positives = 82/187 (43%), Gaps = 34/187 (18%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L V LP ++ ++L LF G VE A ++I ++
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESA--------------------------KLIRDK 38
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFR 281
S G+GFV T ++AE+A+ + + + + V+ A P + A
Sbjct: 39 VAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYARPSSEVIKDA--------N 90
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+Y+ LP + +E +FS G+++N+RV+ D+ TG SRG F+ +E +AI +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 342 DGQNLDG 348
+G G
Sbjct: 151 NGHKPPG 157
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V LP + L +FS G+V +A+++ D+ G S G+GFV + + AI L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 342 DGQNLDGRAIRVNVA 356
+G L + I+V+ A
Sbjct: 65 NGLRLQSKTIKVSYA 79
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 47/187 (25%), Positives = 82/187 (43%), Gaps = 34/187 (18%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L V LP ++ ++L LF G VE A ++I ++
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESA--------------------------KLIRDK 38
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFR 281
S G+GFV T ++AE+A+ + + + + V+ A P + A
Sbjct: 39 VAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYARPSSEVIKDA--------N 90
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+Y+ LP + +E +FS G+++N+RV+ D+ TG SRG F+ +E +AI +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 342 DGQNLDG 348
+G G
Sbjct: 151 NGHKPPG 157
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V LP + L +FS G+V +A+++ D+ G S G+GFV + + AI L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 342 DGQNLDGRAIRVNVA 356
+G L + I+V+ A
Sbjct: 65 NGLRLQSKTIKVSYA 79
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 49/77 (63%)
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
F ++VG+L E+ ++ F+ GK+ +ARVV D TG+S+G+GFV+ ++ + +AI
Sbjct: 16 FHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIV 75
Query: 340 ALDGQNLDGRAIRVNVA 356
+ GQ L GR IR N A
Sbjct: 76 HMGGQWLGGRQIRTNWA 92
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPE 270
+S +V+ + T +S+G+GFV+ +AE A+ + GR + N A + P
Sbjct: 42 ISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHMGGQWLGGRQIRTNWATRKPPAPS 100
>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 = 65.5 bits (158), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 51/77 (66%)
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
F ++VG+L VD+ L F + ++ V++D +TG SRG+GFV+ +S+ + +A+
Sbjct: 2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 61
Query: 340 ALDGQNLDGRAIRVNVA 356
++ GQ+L+GR +R+N A
Sbjct: 62 SMQGQDLNGRPLRINWA 78
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 50/103 (48%), Gaps = 26/103 (25%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
LFVG+L +VD E L F+ + +L G V+++
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPS---------YLSG-----------------HVMWD 36
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAA 263
+T SRG+GFV+ ++ ++A+ A++ D++GR L +N AA
Sbjct: 37 MQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAA 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 = 64.7 bits (156), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 49/77 (63%)
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
F ++VG+L E+ ++ F+ G++ +ARVV D TG+S+G+GFV+ ++ + +AI
Sbjct: 16 FHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 75
Query: 340 ALDGQNLDGRAIRVNVA 356
+ GQ L GR IR N A
Sbjct: 76 QMGGQWLGGRQIRTNWA 92
Score = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPE 270
+S +V+ + T +S+G+GFV+ +AE A++ + GR + N A + P+
Sbjct: 42 ISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATRKPPAPK 100
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 42/184 (22%), Positives = 80/184 (43%), Gaps = 34/184 (18%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVI 218
+ L V LP D+ +L LF G + + +
Sbjct: 3 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDY----------------------- 39
Query: 219 YNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEP 278
+T S G+ FV ++ ++++A+++ + + + L V+ A P G +
Sbjct: 40 ---KTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARPGGESIKDT------ 90
Query: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
+YV NLP + + +L+ +F ++G +V ++ D+ TGR RG FV + E +AI
Sbjct: 91 --NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 148
Query: 339 AALD 342
+AL+
Sbjct: 149 SALN 152
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V LP ++ + L +F G + R++ D +TG S G+ FV +SE + AI L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 342 DGQNLDGRAIRVNVA 356
+G + + ++V+ A
Sbjct: 66 NGITVRNKRLKVSYA 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 = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/184 (22%), Positives = 79/184 (42%), Gaps = 34/184 (18%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVI 218
+ L V LP D +L LF G + + +
Sbjct: 14 NTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDY----------------------- 50
Query: 219 YNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEP 278
+T S G+ FV ++ ++++A+++ + + + L V+ A P G +
Sbjct: 51 ---KTGYSFGYAFVDFTSEXDSQRAIKVLNGITVRNKRLKVSYARPGGESIKDT------ 101
Query: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
+YV NLP + + +L+ +F ++G +V ++ D+ TGR RG FV + E +AI
Sbjct: 102 --NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 159
Query: 339 AALD 342
+AL+
Sbjct: 160 SALN 163
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V LP + + L +F G + R+ D +TG S G+ FV +SE + AI L
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 342 DGQNLDGRAIRVNVA 356
+G + + ++V+ A
Sbjct: 77 NGITVRNKRLKVSYA 91
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 61.2 bits (147), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 48/81 (59%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V +P VD +L Q+F +G + + ++V DRET +SRG+GFV S + AIA L
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 342 DGQNLDGRAIRVNVAEDRQRR 362
+G N+ + ++V +A +R
Sbjct: 105 NGFNILNKRLKVALAASGHQR 125
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 46/102 (45%), Gaps = 26/102 (25%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L V +P VD +L LFE+ G +E ++ VC +R
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKI--------------VC------------DR 78
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAA 263
ET +SRG+GFV + A++A+ + ++I + L V AA
Sbjct: 79 ETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAA 120
>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 = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 39/140 (27%), Positives = 69/140 (49%), Gaps = 9/140 (6%)
Query: 223 TDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNK------AAPRGTQPERAPRVF 276
T + +GF FV E A+ A+E + + GR + V + A P Q R F
Sbjct: 66 TMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF 125
Query: 277 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 336
RIYV ++ ++ + ++ VF GK+ +A + D TG+ +G+GF+ D
Sbjct: 126 N---RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQD 182
Query: 337 AIAALDGQNLDGRAIRVNVA 356
A+++++ +L G+ +RV A
Sbjct: 183 AVSSMNLFDLGGQYLRVGKA 202
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 37/74 (50%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
R+YVG++ +E+ + Q F+ G + + + +D T + +GF FV A+
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 89
Query: 341 LDGQNLDGRAIRVN 354
++ L GR I+V
Sbjct: 90 MNSVMLGGRNIKVG 103
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 59.3 bits (142), Expect = 3e-09, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 44/74 (59%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+YV LP + +EQ+FS++G+++ +R++ D+ TG SRG GF+ E +AI L
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 342 DGQNLDGRAIRVNV 355
+GQ G A + V
Sbjct: 64 NGQKPLGAAEPITV 77
>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 = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 68/140 (48%), Gaps = 9/140 (6%)
Query: 223 TDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNK------AAPRGTQPERAPRVF 276
T + +GF FV E A+ A+E + + GR + V + A P Q R F
Sbjct: 51 TMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF 110
Query: 277 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 336
RIYV ++ ++ + ++ VF GK+ + + D TG+ +G+GF+ D
Sbjct: 111 N---RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQD 167
Query: 337 AIAALDGQNLDGRAIRVNVA 356
A+++++ +L G+ +RV A
Sbjct: 168 AVSSMNLFDLGGQYLRVGKA 187
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 37/74 (50%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
R+YVG++ +E+ + Q F+ G + + + +D T + +GF FV A+
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 341 LDGQNLDGRAIRVN 354
++ L GR I+V
Sbjct: 75 MNSVMLGGRNIKVG 88
>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 = 58.5 bits (140), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 67/140 (47%), Gaps = 9/140 (6%)
Query: 223 TDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNK------AAPRGTQPERAPRVF 276
T + +GF FV E A+ A+E + + GR + V + A P Q R F
Sbjct: 50 TXKHKGFAFVEYEVPEAAQLALEQXNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF 109
Query: 277 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 336
RIYV ++ ++ + ++ VF GK+ + + D TG+ +G+GF+ D
Sbjct: 110 N---RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQD 166
Query: 337 AIAALDGQNLDGRAIRVNVA 356
A+++ + +L G+ +RV A
Sbjct: 167 AVSSXNLFDLGGQYLRVGKA 186
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 35/74 (47%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
R+YVG++ +E+ + Q F+ G + + +D T + +GF FV A+
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 341 LDGQNLDGRAIRVN 354
+ L GR I+V
Sbjct: 74 XNSVXLGGRNIKVG 87
>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: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+YV NLP+ + N L ++FS++GKVV ++ D++T +S+G F+ + + A+
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 342 DGQNLDGRAIRVNVA 356
+ + L GR I+ ++A
Sbjct: 79 NNKQLFGRVIKASIA 93
>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 = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 55/206 (26%), Positives = 93/206 (45%), Gaps = 36/206 (17%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIY 219
A L+VG+L DV AML+EK F G + ++V
Sbjct: 11 ASLYVGDLHPDVTE---AMLYEK--------------FSPAG---------PILSIRVCR 44
Query: 220 NRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPG 279
+ T RS G+ +V +AE+A++ + I G+ + + +R P + + G
Sbjct: 45 DMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRI-------MWSQRDPSLRKSG 97
Query: 280 F-RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
I++ NL +DN L FS G +++ +VV D E G S+G+GFV ++ AI
Sbjct: 98 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAI 155
Query: 339 AALDGQNLDGRAIRVNVAEDRQRRSS 364
++G L+ R + V + R+ R +
Sbjct: 156 EKMNGMLLNDRKVFVGRFKSRKEREA 181
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 40/79 (50%), Gaps = 6/79 (7%)
Query: 278 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDA 337
P +YVG+L +V A L + FS G +++ RV D T RS G+ +V DA
Sbjct: 9 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPA---DA 65
Query: 338 IAALDGQNLD---GRAIRV 353
ALD N D G+ +R+
Sbjct: 66 ERALDTMNFDVIKGKPVRI 84
>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 = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 53/206 (25%), Positives = 89/206 (43%), Gaps = 36/206 (17%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIY 219
A L+VG+L DV L F AG + + VC
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPI---------------LSIRVCR----------- 49
Query: 220 NRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPG 279
+ T RS G+ +V +AE+A++ + I G+ + + +R P + + G
Sbjct: 50 DMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRI-------MWSQRDPSLRKSG 102
Query: 280 F-RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
I++ NL +DN L FS G +++ +VV D E G S+G+GFV ++ AI
Sbjct: 103 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAI 160
Query: 339 AALDGQNLDGRAIRVNVAEDRQRRSS 364
++G L+ R + V + R+ R +
Sbjct: 161 EKMNGMLLNDRKVFVGRFKSRKEREA 186
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/94 (34%), Positives = 45/94 (47%), Gaps = 8/94 (8%)
Query: 263 APRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRG 322
P G+ AP P +YVG+L +V A L + FS G +++ RV D T RS G
Sbjct: 1 GPLGSMNPSAPSY--PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLG 58
Query: 323 FGFVTMSSETELNDAIAALDGQNLD---GRAIRV 353
+ +V DA ALD N D G+ +R+
Sbjct: 59 YAYVNFQQPA---DAERALDTMNFDVIKGKPVRI 89
>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: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+YV NL +D+ RL + FS G + +A+V+ E GRS+GFGFV SS E A+ +
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMM--EGGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 342 DGQNLDGRAIRVNVAEDRQRRSS 364
+G+ + + + V +A+ ++ R S
Sbjct: 76 NGRIVATKPLYVALAQRKEERQS 98
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 41/96 (42%), Gaps = 33/96 (34%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L+V NL +D E+L F GT+ A+V
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMM---------------------------- 49
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLL 257
E RS+GFGFV S+ EEA KAV +++GR++
Sbjct: 50 EGGRSKGFGFVCFSSPEEATKAVT-----EMNGRIV 80
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 46/83 (55%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+YVG L +V L ++F + G VVN + DR TG+ +G+GFV SE + + AI +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 342 DGQNLDGRAIRVNVAEDRQRRSS 364
D L G+ IRVN A + S
Sbjct: 78 DMIKLYGKPIRVNKASAHNKNLS 100
Score = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 46/105 (43%), Gaps = 26/105 (24%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVI 218
DA ++VG L V L LF +AG V V H +
Sbjct: 15 DATVYVGGLDEKVSEPLLWELFLQAGPV----VNTH----------------------MP 48
Query: 219 YNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAA 263
+R T + +G+GFV + E+A+ A+++ + G+ + VNKA+
Sbjct: 49 KDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKAS 93
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 57.0 bits (136), Expect = 2e-08, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 46/79 (58%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
R+YVG+L + + L +F G++ + +++ D ETGRS+G+GF+T S A+
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 341 LDGQNLDGRAIRVNVAEDR 359
L+G L GR ++V +R
Sbjct: 88 LNGFELAGRPMKVGHVTER 106
Score = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 28/105 (26%), Positives = 51/105 (48%), Gaps = 26/105 (24%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
+L+VG+L +++ + L +FE G +E +Q++ +
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIES--------------------------IQLMMD 61
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPR 265
ET RS+G+GF+T S E A+KA+E + +++ GR + V R
Sbjct: 62 SETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVTER 106
>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 = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 49/77 (63%)
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
F ++VG+L E+ A + F+ G++ +ARVV D TG+S+G+GFV+ ++ + +AI
Sbjct: 7 FHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 66
Query: 340 ALDGQNLDGRAIRVNVA 356
+ GQ L GR IR N A
Sbjct: 67 QMGGQWLGGRQIRTNWA 83
Score = 31.6 bits (70), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKA 262
+S +V+ + T +S+G+GFV+ +AE A++ + GR + N A
Sbjct: 33 ISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA 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 = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 43/75 (57%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V NL + L +VF ++G+V + + DR T SRGF FV + + DA+ A+
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 342 DGQNLDGRAIRVNVA 356
DG LDGR +RV +A
Sbjct: 110 DGAVLDGRELRVQMA 124
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 37/101 (36%), Gaps = 26/101 (25%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L V NL Y + L +FEK G V + + +R
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRV--------------------------GDVYIPRDR 83
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKA 262
T SRGF FV +AE A++ +DGR L V A
Sbjct: 84 YTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMA 124
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 56.6 bits (135), Expect = 2e-08, Method: Composition-based stats.
Identities = 30/76 (39%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+I+VG LP+ +A L + F G + A V+ DR+TG+SRG+GFVTM+ A
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 341 LDGQNLDGRAIRVNVA 356
+ +DGR VN+A
Sbjct: 79 PN-PIIDGRKANVNLA 93
Score = 45.8 bits (107), Expect = 3e-05, Method: Composition-based stats.
Identities = 41/124 (33%), Positives = 52/124 (41%), Gaps = 32/124 (25%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
K+FVG LPY L FE G +E A VI +
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEA--------------------------VVITD 52
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF 280
R+T +SRG+GFVTM+ AE+A + + IDGR VN A PR + GF
Sbjct: 53 RQTGKSRGYGFVTMADRAAAERACKDPNPI-IDGRKANVNLAYLGAK-----PRSLQTGF 106
Query: 281 RIYV 284
I V
Sbjct: 107 AIGV 110
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 43/75 (57%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V NL + L +VF ++G+V + + DR T SRGF FV + + DA+ A+
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 342 DGQNLDGRAIRVNVA 356
DG LDGR +RV +A
Sbjct: 133 DGAVLDGRELRVQMA 147
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 37/101 (36%), Gaps = 26/101 (25%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L V NL Y + L +FEK G V + + +R
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRV--------------------------GDVYIPRDR 106
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKA 262
T SRGF FV +AE A++ +DGR L V A
Sbjct: 107 YTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMA 147
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 56/179 (31%), Positives = 79/179 (44%), Gaps = 47/179 (26%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIY 219
+LFVGNLP D+ E LFE+ G E +EV F+
Sbjct: 23 CRLFVGNLPTDITEEDFKRLFERYG--EPSEV---FI----------------------- 54
Query: 220 NRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPG 279
+R RGFGF+ + + AE A + ++DG +L ++P R R G
Sbjct: 55 ----NRDRGFGFIRLESRTLAEIA-----KAELDGTILK--------SRPLRI-RFATHG 96
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
+ V NL V N LEQ FS+ G V A VV D + GR+ G GFV +++ A+
Sbjct: 97 AALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRATGKGFVEFAAKPPARKAL 154
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 6/76 (7%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
R++VGNLP ++ +++F +G+ + R RGFGF+ + S T A A
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEIAKAE 77
Query: 341 LDGQNLDGRAIRVNVA 356
LDG L R +R+ A
Sbjct: 78 LDGTILKSRPLRIRFA 93
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 44/78 (56%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+YVG+L + + L +F GK+ N ++ D +TGRS+G+GF+T S A+ L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 342 DGQNLDGRAIRVNVAEDR 359
+G L GR +RV +R
Sbjct: 68 NGFELAGRPMRVGHVTER 85
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/106 (22%), Positives = 49/106 (46%), Gaps = 26/106 (24%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIY 219
+ L+VG+L +++ + L +FE G ++ + ++
Sbjct: 6 SGLYVGSLHFNITEDMLRGIFEPFGKIDN--------------------------IVLMK 39
Query: 220 NRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPR 265
+ +T RS+G+GF+T S E A +A+E + +++ GR + V R
Sbjct: 40 DSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVTER 85
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 54.7 bits (130), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+I+VG +P L + F + G V ++YD E R RGFGF+T E ++ A+
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV-N 70
Query: 341 LDGQNLDGRAIRVNVAEDRQRRSS 364
+ ++ G+ + V AE R +SS
Sbjct: 71 MHFHDIMGKKVEVKRAEPRDSKSS 94
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/108 (28%), Positives = 51/108 (47%), Gaps = 27/108 (25%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
K+FVG +P++ +L F+K G V + + +IY+
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVV--------------------------TEVVMIYD 45
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQ 268
E R RGFGF+T + ++AV M H +DI G+ + V +A PR ++
Sbjct: 46 AEKQRPRGFGFITFEDEQSVDQAVNM-HFHDIMGKKVEVKRAEPRDSK 92
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 51/95 (53%), Gaps = 1/95 (1%)
Query: 270 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 329
ER R E ++++G L +E L + + GK+ + V+ D + RSRGFGFVT S
Sbjct: 18 ERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFS 77
Query: 330 SETELNDAIAALDGQNLDGRAIRVNVAEDRQRRSS 364
S E++ A+AA ++DGR + A R+ S
Sbjct: 78 SMAEVDAAMAARP-HSIDGRVVEPKRAVAREESGS 111
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 46/105 (43%), Gaps = 27/105 (25%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
KLF+G L ++ E L +E+ G + C V + +
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWG------------------KLTDCVV--------MRD 62
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPR 265
+ RSRGFGFVT S++ E + A+ + IDGR++ +A R
Sbjct: 63 PASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRAVAR 106
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 51/179 (28%), Positives = 70/179 (39%), Gaps = 47/179 (26%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIY 219
++LFVGNLP D+ E++ LFEK G EV H
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKA--GEVFIH------------------------- 55
Query: 220 NRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPG 279
+ +GFGF+ + T AE A + G+ L V A +
Sbjct: 56 -----KDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHSAS------------ 98
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
+ V NLP V N LE+ FS G+V A V+ D + GR G G V S + A+
Sbjct: 99 --LTVRNLPQYVSNELLEEAFSVFGQVERAVVIVD-DRGRPSGKGIVEFSGKPAARKAL 154
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: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
R++VGNLP ++ + ++F ++GK + D +GFGF+ + + T A
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 77
Query: 341 LDGQNLDGRAIRVNVA 356
LD L G+ +RV A
Sbjct: 78 LDNMPLRGKQLRVRFA 93
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 60/132 (45%), Gaps = 14/132 (10%)
Query: 223 TDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRI 282
D+ +G FVT+ E+AE A+ FH+ + R L+V QP A +
Sbjct: 53 VDKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQ------LQPTDA--------LL 98
Query: 283 YVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALD 342
V NLP + + E++ G + +VY TG+S+G+GF + A + L
Sbjct: 99 CVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLL 158
Query: 343 GQNLDGRAIRVN 354
G+ L R + V+
Sbjct: 159 GKPLGPRTLYVH 170
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 60/132 (45%), Gaps = 14/132 (10%)
Query: 223 TDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRI 282
D+ +G FVT+ E+AE A+ FH+ + R L+V QP A +
Sbjct: 51 VDKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQ------LQPTDA--------LL 96
Query: 283 YVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALD 342
V NLP + + E++ G + +VY TG+S+G+GF + A + L
Sbjct: 97 CVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLL 156
Query: 343 GQNLDGRAIRVN 354
G+ L R + V+
Sbjct: 157 GKPLGPRTLYVH 168
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 60/132 (45%), Gaps = 14/132 (10%)
Query: 223 TDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRI 282
D+ +G FVT+ E+AE A+ FH+ + R L+V QP A +
Sbjct: 53 VDKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQ------LQPTDA--------LL 98
Query: 283 YVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALD 342
V NLP + + E++ G + +VY TG+S+G+GF + A + L
Sbjct: 99 CVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLL 158
Query: 343 GQNLDGRAIRVN 354
G+ L R + V+
Sbjct: 159 GKPLGPRTLYVH 170
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
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: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
R++V N+P+ + L Q+F + GK+++ ++++ E G S+GFGFVT + + + A
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN-ERG-SKGFGFVTFENSADADRAREK 74
Query: 341 LDGQNLDGRAIRVNVAEDR 359
L G ++GR I VN A R
Sbjct: 75 LHGTVVEGRKIEVNNATAR 93
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 215 LQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPR 265
+++I+N S+GFGFVT +A++A E H ++GR + VN A R
Sbjct: 45 VEIIFNERG--SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATAR 93
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 48/87 (55%), Gaps = 8/87 (9%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL-NDAIAA 340
+YVG L EVD+ L F G + + ++ D ET + RGF FV E EL DA AA
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV----EFELAEDAAAA 70
Query: 341 LDGQN---LDGRAIRVNVAEDRQRRSS 364
+D N L GR IRVN+A+ + + S
Sbjct: 71 IDNMNESELFGRTIRVNLAKPMRIKES 97
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 31/53 (58%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAP 264
++ +Q+ + ET++ RGF FV E+A A++ + ++ GR + VN A P
Sbjct: 39 ITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKP 91
>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: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
R++V N+P+ + L Q+F + GK+++ ++++ E G S+GFGFVT + + + A
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN-ERG-SKGFGFVTFENSADADRAREK 88
Query: 341 LDGQNLDGRAIRVNVAEDR 359
L G ++GR I VN A R
Sbjct: 89 LHGTVVEGRKIEVNNATAR 107
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 215 LQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPR 265
+++I+N S+GFGFVT +A++A E H ++GR + VN A R
Sbjct: 59 VEIIFNERG--SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATAR 107
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/79 (44%), Positives = 44/79 (55%), Gaps = 8/79 (10%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL-NDAIAA 340
+YVG L EVD+ L F G + + ++ D ET + RGF FV E EL DA AA
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV----EFELAEDAAAA 121
Query: 341 LDGQN---LDGRAIRVNVA 356
+D N L GR IRVN+A
Sbjct: 122 IDNMNESELFGRTIRVNLA 140
Score = 34.7 bits (78), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 30/51 (58%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKA 262
++ +Q+ + ET++ RGF FV E+A A++ + ++ GR + VN A
Sbjct: 90 ITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 140
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 45/80 (56%), Gaps = 8/80 (10%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL-NDAIAA 340
+YVG L EVD+ L F G + + ++ D ET + RGF FV E EL DA AA
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV----EFELAEDAAAA 65
Query: 341 LDGQN---LDGRAIRVNVAE 357
+D N L GR IRVN+A+
Sbjct: 66 IDNMNESELFGRTIRVNLAK 85
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 30/51 (58%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKA 262
++ +Q+ + ET++ RGF FV E+A A++ + ++ GR + VN A
Sbjct: 34 ITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 84
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 52.8 bits (125), Expect = 3e-07, Method: Composition-based stats.
Identities = 27/80 (33%), Positives = 49/80 (61%), Gaps = 2/80 (2%)
Query: 278 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDA 337
PG ++++G L E + L+ VF +HG + ++ DR T +SRGF F+T + + +A
Sbjct: 7 PG-KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNA 64
Query: 338 IAALDGQNLDGRAIRVNVAE 357
++G++L G+AI+V A+
Sbjct: 65 AKDMNGKSLHGKAIKVEQAK 84
Score = 28.5 bits (62), Expect = 5.5, Method: Composition-based stats.
Identities = 24/103 (23%), Positives = 42/103 (40%), Gaps = 27/103 (26%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIY 219
KLF+G L + + + L +F K G I+EV ++
Sbjct: 8 GKLFIGGLNRETNEKMLKAVFGKHGP--ISEV-------------------------LLI 40
Query: 220 NRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKA 262
T +SRGF F+T +A+ A + + + G+ + V +A
Sbjct: 41 KDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQA 83
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 45/80 (56%), Gaps = 8/80 (10%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL-NDAIAA 340
+YVG L EVD+ L F G + + ++ D ET + RGF FV E EL DA AA
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV----EFELAEDAAAA 63
Query: 341 LDGQN---LDGRAIRVNVAE 357
+D N L GR IRVN+A+
Sbjct: 64 IDNMNESELFGRTIRVNLAK 83
Score = 34.7 bits (78), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 30/51 (58%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKA 262
++ +Q+ + ET++ RGF FV E+A A++ + ++ GR + VN A
Sbjct: 32 ITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 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: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL-NDAIAA 340
+YVG L EVD+ L F G + + ++ D ET + RGF FV E EL DA AA
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV----EFELAEDAAAA 60
Query: 341 LDGQN---LDGRAIRVNVA 356
+D N L GR IRVN+A
Sbjct: 61 IDNMNESELFGRTIRVNLA 79
Score = 34.7 bits (78), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 30/51 (58%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKA 262
++ +Q+ + ET++ RGF FV E+A A++ + ++ GR + VN A
Sbjct: 29 ITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 79
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 52.4 bits (124), Expect = 4e-07, Method: Composition-based stats.
Identities = 25/71 (35%), Positives = 41/71 (57%), Gaps = 4/71 (5%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+++VG L W L FS++G+VV+ ++ D+ T +SRGFGFV + +A+
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 341 ----LDGQNLD 347
LDG+N+D
Sbjct: 78 RPHTLDGRNID 88
Score = 32.7 bits (73), Expect = 0.33, Method: Composition-based stats.
Identities = 29/110 (26%), Positives = 42/110 (38%), Gaps = 27/110 (24%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIY 219
KLFVG L + E L F + G E+ + C + +
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYG--EVVD----------------CVI--------MK 50
Query: 220 NRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQP 269
++ T++SRGFGFV V + +DGR + PRG QP
Sbjct: 51 DKTTNQSRGFGFVKFKD-PNCVGTVLASRPHTLDGRNIDPKPCTPRGMQP 99
>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: 296 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNV 355
L +VFS++G + + +VYD+++ RSRGF FV + + +A +G LDGR IRV+
Sbjct: 29 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF 88
Query: 356 A 356
+
Sbjct: 89 S 89
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 34/49 (69%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVN 260
++ + ++Y++++ RSRGF FV V++A++A E + ++DGR + V+
Sbjct: 39 IADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 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: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V NL + L +VF ++G+V + + + T RGF FV + DA AA+
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 342 DGQNLDGRAIRVNVA 356
DG LDGR +RV VA
Sbjct: 76 DGAELDGRELRVQVA 90
>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: 277 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 336
EP + YVGNLP+ ++ +F + + + R+V D++T + +GF +V L +
Sbjct: 13 EPPYTAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKE 71
Query: 337 AIAALDGQNLDGRAIRVNVAEDRQRRSS 364
A+ DG L R++RV++AE R++ S
Sbjct: 72 AL-TYDGALLGDRSLRVDIAEGRKQDKS 98
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 41/168 (24%), Positives = 77/168 (45%), Gaps = 20/168 (11%)
Query: 193 FHFLFGNQGFH-------MWVCAVFYVSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVE 245
F+ GN F+ + VF + L V+ R +R FG+V + E+ EKA+E
Sbjct: 8 FNLFVGNLNFNKSAPELKTGISDVFAKNDLAVVDVR-IGMTRKFGYVDFESAEDLEKALE 66
Query: 246 MFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGK 305
+ + G + + K + ++ ER R + NLP++V L++VF + +
Sbjct: 67 L-TGLKVFGNEIKLEKPKGKDSKKERDART------LLAKNLPYKVTQDELKEVFEDAAE 119
Query: 306 VVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRV 353
+ R+V + G+S+G ++ +E + G +DGR+I +
Sbjct: 120 I---RLV--SKDGKSKGIAYIEFKTEADAEKTFEEKQGTEIDGRSISL 162
>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: 296 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNV 355
L +VFS++G + + +VYD+++ RSRGF FV + + +A +G LDGR IRV+
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF 91
Query: 356 A 356
+
Sbjct: 92 S 92
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 34/49 (69%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVN 260
++ + ++Y++++ RSRGF FV V++A++A E + ++DGR + V+
Sbjct: 42 IADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 90
>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 = 7e-07, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 43/78 (55%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
++V + ++ ++L + F +G + +VY + +G+ RG+ F+ E +++ A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 342 DGQNLDGRAIRVNVAEDR 359
DG+ +DGR + V+V R
Sbjct: 165 DGKKIDGRRVLVDVERGR 182
>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: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+YV NLP + + +L+ +F ++G +V ++ D+ TGR RG FV + E +AI+AL
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 342 D 342
+
Sbjct: 76 N 76
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 39/61 (63%)
Query: 296 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNV 355
L +VFS++G + + +VYD+++ RSRGF FV + + +A +G LDGR IRV+
Sbjct: 63 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF 122
Query: 356 A 356
+
Sbjct: 123 S 123
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 34/49 (69%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVN 260
++ + ++Y++++ RSRGF FV V++A++A E + ++DGR + V+
Sbjct: 73 IADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 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 = 1e-06, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 38/59 (64%)
Query: 296 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVN 354
L +VFS++G + + +VYD+++ RSRGF FV + + +A +G LDGR IRV+
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVS 90
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 34/49 (69%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVN 260
++ + ++Y++++ RSRGF FV V++A++A E + ++DGR + V+
Sbjct: 42 IADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVS 90
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 46/79 (58%), Gaps = 1/79 (1%)
Query: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
G ++V NL ++V +L++VFS G VV A ++ D++ G+SRG G VT E AI
Sbjct: 15 GSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVTFEQSIEAVQAI 73
Query: 339 AALDGQNLDGRAIRVNVAE 357
+ +GQ L R + V + E
Sbjct: 74 SMFNGQLLFDRPMHVKMDE 92
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 33/115 (28%), Positives = 46/115 (40%), Gaps = 32/115 (27%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
+FV NL Y V +KL +F AG V A+ I
Sbjct: 18 VFVANLDYKVGWKKLKEVFSMAGVVVRAD---------------------------ILED 50
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVN---KAAPRGT--QPER 271
+ +SRG G VT EA +A+ MF+ + R + V +A P+G PER
Sbjct: 51 KDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDERALPKGDFFPPER 105
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 47/210 (22%), Positives = 90/210 (42%), Gaps = 38/210 (18%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
+L+VGN+P+ + E + F A+++ L Q V AV
Sbjct: 6 RLYVGNIPFGITEEAMMDFFN-------AQMRLGGL--TQAPGNPVLAV----------- 45
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQP----ERAPRVF 276
+ ++ + F F+ +V+E +A+ F G+ L + + P QP P V+
Sbjct: 46 -QINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKIRR--PHDYQPLPGMSENPSVY 101
Query: 277 EPGF----------RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFV 326
PG ++++G LP +++ +++++ + G + +V D TG S+G+ F
Sbjct: 102 VPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFC 161
Query: 327 TMSSETELNDAIAALDGQNLDGRAIRVNVA 356
+ AIA L+G L + + V A
Sbjct: 162 EYVDINVTDQAIAGLNGMQLGDKKLLVQRA 191
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 50.1 bits (118), Expect = 2e-06, Method: Composition-based stats.
Identities = 28/84 (33%), Positives = 47/84 (55%), Gaps = 1/84 (1%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNA-RVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
I++GNL E+D L FS G ++ +++ D +TG S+G+ F+ +S + AI A
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 341 LDGQNLDGRAIRVNVAEDRQRRSS 364
++GQ L R I V+ A + + S
Sbjct: 68 MNGQYLCNRPITVSYAFKKDSKGS 91
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 50.1 bits (118), Expect = 2e-06, Method: Composition-based stats.
Identities = 29/90 (32%), Positives = 44/90 (48%), Gaps = 1/90 (1%)
Query: 271 RAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSS 330
R + G ++++G L W+ L + F + G+V V+ D T RSRGFGFVT
Sbjct: 17 RGSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMD 76
Query: 331 ETELNDAIAALDGQNLDGRAIRVNVAEDRQ 360
+ + D + A LD + I VA R+
Sbjct: 77 QAGV-DKVLAQSRHELDSKTIDPKVAFPRR 105
Score = 34.3 bits (77), Expect = 0.099, Method: Composition-based stats.
Identities = 30/110 (27%), Positives = 43/110 (39%), Gaps = 27/110 (24%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
K+F+G L + E L F + G V+ C V L
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVK------------------ECLVMRDPL------ 62
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPE 270
T RSRGFGFVT +K + R+++D + + A PR QP+
Sbjct: 63 --TKRSRGFGFVTFMDQAGVDKVLAQ-SRHELDSKTIDPKVAFPRRAQPK 109
>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 = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 43/78 (55%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
++V + ++ ++L + F +G + +VY + +G+ RG+ F+ E +++ A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 342 DGQNLDGRAIRVNVAEDR 359
DG+ +DGR + V+V R
Sbjct: 165 DGKKIDGRRVLVDVERGR 182
>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 = 49.7 bits (117), Expect = 3e-06, Method: Composition-based stats.
Identities = 26/70 (37%), Positives = 40/70 (57%), Gaps = 1/70 (1%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+++G L W+ L+ FS+ G+VV+ + D TGRSRGFGFV + E+E D +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFV-LFKESESVDKVMDQ 60
Query: 342 DGQNLDGRAI 351
L+G+ I
Sbjct: 61 KEHKLNGKVI 70
Score = 28.9 bits (63), Expect = 4.3, Method: Composition-based stats.
Identities = 23/101 (22%), Positives = 39/101 (38%), Gaps = 27/101 (26%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
+F+G L +D + L F K G V +K + G
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITG----------------------- 38
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKA 262
RSRGFGFV E +K ++ + ++G+++ +A
Sbjct: 39 ---RSRGFGFVLFKESESVDKVMDQ-KEHKLNGKVIDPKRA 75
>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 = 48.5 bits (114), Expect = 6e-06, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 277 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 336
E + +VG L W+ L+ F++ G+VV+ + D TGRSRGFGF+ +
Sbjct: 9 EDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEK 68
Query: 337 AIAALDGQNLDGRAI 351
+ + LDGR I
Sbjct: 69 VLDQKE-HRLDGRVI 82
Score = 32.3 bits (72), Expect = 0.37, Method: Composition-based stats.
Identities = 27/103 (26%), Positives = 38/103 (36%), Gaps = 27/103 (26%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIY 219
K FVG L +D + L F K G V +K
Sbjct: 12 GKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIK--------------------------X 45
Query: 220 NRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKA 262
+ T RSRGFGF+ EK ++ + +DGR++ KA
Sbjct: 46 DPNTGRSRGFGFILFKDAASVEKVLDQ-KEHRLDGRVIDPKKA 87
>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 = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 45/197 (22%), Positives = 87/197 (44%), Gaps = 32/197 (16%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
+L+VGN+P+ + E + F A+++ L Q V AV
Sbjct: 8 RLYVGNIPFGITEEAMMDFFN-------AQMRLGGL--TQAPGNPVLAV----------- 47
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPG- 279
+ ++ + F F+ +V+E +A+ F G+ L + + P QP PG
Sbjct: 48 -QINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKIRR--PHDYQP-------LPGA 96
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
++++G LP +++ +++++ + G + +V D TG S+G+ F + AIA
Sbjct: 97 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 156
Query: 340 ALDGQNLDGRAIRVNVA 356
L+G L + + V A
Sbjct: 157 GLNGMQLGDKKLLVQRA 173
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 45/197 (22%), Positives = 87/197 (44%), Gaps = 32/197 (16%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
+L+VGN+P+ + E + F A+++ L Q V AV
Sbjct: 6 RLYVGNIPFGITEEAMMDFFN-------AQMRLGGL--TQAPGNPVLAV----------- 45
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPG- 279
+ ++ + F F+ +V+E +A+ F G+ L + + P QP PG
Sbjct: 46 -QINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKIRR--PHDYQP-------LPGA 94
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
++++G LP +++ +++++ + G + +V D TG S+G+ F + AIA
Sbjct: 95 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 154
Query: 340 ALDGQNLDGRAIRVNVA 356
L+G L + + V A
Sbjct: 155 GLNGMQLGDKKLLVQRA 171
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 47.8 bits (112), Expect = 9e-06, Method: Composition-based stats.
Identities = 26/76 (34%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
++++G L W+ L + F + G+V V+ D T RSRGFGFVT + + D + A
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGV-DKVLA 60
Query: 341 LDGQNLDGRAIRVNVA 356
LD + I VA
Sbjct: 61 QSRHELDSKTIDPKVA 76
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 47.8 bits (112), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 44/81 (54%), Gaps = 3/81 (3%)
Query: 277 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 336
+P ++V L + L++ F V AR+V DRETG S+GFGFV +SE +
Sbjct: 13 QPSKTLFVKGLSEDTTEETLKESFDGS---VRARIVTDRETGSSKGFGFVDFNSEEDAKA 69
Query: 337 AIAALDGQNLDGRAIRVNVAE 357
A A++ +DG + ++ A+
Sbjct: 70 AKEAMEDGEIDGNKVTLDWAK 90
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 33/50 (66%)
Query: 216 QVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPR 265
+++ +RET S+GFGFV ++ E+A+ A E +IDG +T++ A P+
Sbjct: 43 RIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAKPK 92
>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 = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 30/108 (27%), Positives = 53/108 (49%), Gaps = 5/108 (4%)
Query: 257 LTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRE 316
LT G+Q E P G +++ +LP E + L Q+F G VV+A+V D++
Sbjct: 8 LTQQSIGAAGSQKE-GPE----GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQ 62
Query: 317 TGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQRRSS 364
T S+ FGFV+ + AI +++G + + ++V + + S
Sbjct: 63 TNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSKNDSKS 110
>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 = 46.6 bits (109), Expect = 2e-05, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 42/75 (56%)
Query: 278 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDA 337
P +Y+G++P++ ++ + S G V+N ++++D +TGRS+G+ F+ A
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 61
Query: 338 IAALDGQNLDGRAIR 352
+ L+G L R ++
Sbjct: 62 VRNLNGYQLGSRFLK 76
>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 = 39/168 (23%), Positives = 75/168 (44%), Gaps = 20/168 (11%)
Query: 193 FHFLFGNQG-------FHMWVCAVFYVSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVE 245
F+ GN + + +F + L V+ R T +R FG+V + E+ EKA+E
Sbjct: 14 FNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVR-TGTNRKFGYVDFESAEDLEKALE 72
Query: 246 MFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGK 305
+ + G + + K R ++ RA R + NL + + L++VF +
Sbjct: 73 LTG-LKVFGNEIKLEKPKGRDSKKVRAART------LLAKNLSFNITEDELKEVFED--- 122
Query: 306 VVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRV 353
+ R+V + G+S+G ++ SE + + G +DGR++ +
Sbjct: 123 ALEIRLV--SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSL 168
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 38/83 (45%), Gaps = 2/83 (2%)
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
F +++GNL A L+ SE N V D TG +R FG+V S +L A+
Sbjct: 14 FNLFIGNLNPNKSVAELKVAISELF-AKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL- 71
Query: 340 ALDGQNLDGRAIRVNVAEDRQRR 362
L G + G I++ + R +
Sbjct: 72 ELTGLKVFGNEIKLEKPKGRDSK 94
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 35/73 (47%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
R++V NL + LE++FS +G + D T + +GF FVT A A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 341 LDGQNLDGRAIRV 353
+DGQ GR + V
Sbjct: 70 VDGQVFQGRMLHV 82
>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 = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 42/75 (56%)
Query: 278 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDA 337
P +Y+G++P++ ++ + S G V+N ++++D +TGRS+G+ F+ A
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 62
Query: 338 IAALDGQNLDGRAIR 352
+ L+G L R ++
Sbjct: 63 VRNLNGYQLGSRFLK 77
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 42/75 (56%)
Query: 278 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDA 337
P +Y+G++P++ ++ + S G V+N ++++D +TGRS+G+ F+ A
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 338 IAALDGQNLDGRAIR 352
+ L+G L R ++
Sbjct: 61 VRNLNGYQLGSRFLK 75
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 266 GTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGF 325
G Q + A + + +Y+ NLP +D LE + G+V++ R++ D +G SRG GF
Sbjct: 12 GVQAQMAKQQEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGF 70
Query: 326 VTMSSETELNDAIAALDGQ 344
M S + I +G+
Sbjct: 71 ARMESTEKCEAVIGHFNGK 89
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 45.8 bits (107), Expect = 3e-05, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 40/78 (51%)
Query: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
G + V LP L +FS G+V +A+++ D+ G S G+GFV + + AI
Sbjct: 19 GTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 78
Query: 339 AALDGQNLDGRAIRVNVA 356
L+G L + I+V+ A
Sbjct: 79 NTLNGLRLQSKTIKVSYA 96
Score = 31.6 bits (70), Expect = 0.67, Method: Composition-based stats.
Identities = 24/103 (23%), Positives = 41/103 (39%), Gaps = 26/103 (25%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L V LP + ++L LF G VE A ++I ++
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESA--------------------------KLIRDK 55
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAP 264
S G+GFV T ++AE+A+ + + + + V+ A P
Sbjct: 56 VAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYARP 98
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
I++ NL +DN L FS G +++ +VV D E G S+G+GFV ++ AI +
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 71
Query: 342 DGQNLDGRAIRVNVAEDRQRRSS 364
+G L+ R + V + R+ R +
Sbjct: 72 NGMLLNDRKVFVGRFKSRKEREA 94
Score = 28.9 bits (63), Expect = 5.3, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 226 SRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPR 265
S+G+GFV T E AE+A+E + ++ R + V + R
Sbjct: 50 SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR 89
>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 = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
I++ NL +DN L FS G +++ +VV D E G S+G+GFV ++ AI +
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 65
Query: 342 DGQNLDGRAIRVNVAEDRQRRSS 364
+G L+ R + V + R+ R +
Sbjct: 66 NGMLLNDRKVFVGRFKSRKEREA 88
Score = 28.9 bits (63), Expect = 5.3, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 226 SRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPR 265
S+G+GFV T E AE+A+E + ++ R + V + R
Sbjct: 44 SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR 83
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 45.4 bits (106), Expect = 5e-05, Method: Composition-based stats.
Identities = 25/84 (29%), Positives = 43/84 (51%), Gaps = 8/84 (9%)
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
++I+VGN+ + L +F G+V+ VV D + FV M E + AIA
Sbjct: 10 WKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIA 61
Query: 340 ALDGQNLDGRAIRVNVAEDRQRRS 363
L+G+ + G+ I V ++ Q++S
Sbjct: 62 QLNGKEVKGKRINVELSTKGQKKS 85
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 45.1 bits (105), Expect = 6e-05, Method: Composition-based stats.
Identities = 22/79 (27%), Positives = 43/79 (54%)
Query: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
G +++ +LP E + L F G V++A+V D++T S+ FGFV+ + AI
Sbjct: 40 GCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAI 99
Query: 339 AALDGQNLDGRAIRVNVAE 357
A++G + + ++V + +
Sbjct: 100 KAMNGFQVGTKRLKVQLKK 118
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 45.1 bits (105), Expect = 6e-05, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V LP + L +FS G+V +A+++ D+ G S G+GFV + + AI L
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 342 DGQNLDGRAIRVNVA 356
+G L + I+V+ A
Sbjct: 67 NGLRLQSKTIKVSYA 81
Score = 32.3 bits (72), Expect = 0.47, Method: Composition-based stats.
Identities = 24/103 (23%), Positives = 42/103 (40%), Gaps = 26/103 (25%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L V LP ++ ++L LF G VE A ++I ++
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESA--------------------------KLIRDK 40
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAP 264
S G+GFV T ++AE+A+ + + + + V+ A P
Sbjct: 41 VAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYARP 83
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 45.1 bits (105), Expect = 6e-05, Method: Composition-based stats.
Identities = 23/84 (27%), Positives = 43/84 (51%), Gaps = 8/84 (9%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
++++GNLP E + +F ++GKV+ ++ + +GFV + +T DAI
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRN 61
Query: 341 LDGQNLDGRAIRVNVAEDRQRRSS 364
L L G I V ++++ + SS
Sbjct: 62 LHHYKLHGVNINVEASKNKSKASS 85
Score = 32.7 bits (73), Expect = 0.37, Method: Composition-based stats.
Identities = 23/94 (24%), Positives = 34/94 (36%), Gaps = 34/94 (36%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
KLF+GNLP + +++ LFE+ G V
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKV---------------------------------- 35
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDG 254
E D + +GFV + AE A+ H Y + G
Sbjct: 36 LECDIIKNYGFVHIEDKTAAEDAIRNLHHYKLHG 69
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 45.1 bits (105), Expect = 6e-05, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 40/75 (53%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V LP + + +F G + + ++V D+ TG+S G+GFV S + + AI L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 342 DGQNLDGRAIRVNVA 356
+G L + I+V+ A
Sbjct: 67 NGLKLQTKTIKVSYA 81
Score = 29.3 bits (64), Expect = 3.4, Method: Composition-based stats.
Identities = 13/49 (26%), Positives = 28/49 (57%)
Query: 216 QVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAP 264
+++ ++ T +S G+GFV S +A+KA+ + + + + V+ A P
Sbjct: 35 KLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKVSYARP 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 = 45.1 bits (105), Expect = 6e-05, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 42/76 (55%), Gaps = 1/76 (1%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
++++ LP+ LE++ HG V + R+V +R G+ +G +V +E++ + A+
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMK 77
Query: 341 LDGQNLDGRAIRVNVA 356
+DG + I+V ++
Sbjct: 78 MDGMTIKENIIKVAIS 93
>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: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
R++VGNLP ++ + ++F ++GK + D +GFGF+ + + T A
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 70
Query: 341 LDGQNLDGRAIRVNVA 356
LD L G+ +RV A
Sbjct: 71 LDNMPLRGKQLRVRFA 86
Score = 34.7 bits (78), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 41/104 (39%), Gaps = 32/104 (30%)
Query: 160 AKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIY 219
++LFVGNLP D+ E++ LFEK G + EV H
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYG--KAGEVFIH------------------------- 48
Query: 220 NRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAA 263
+ +GFGF+ + T AE A + G+ L V A
Sbjct: 49 -----KDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC 87
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 40/86 (46%), Gaps = 5/86 (5%)
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
++YVGNL LE+ FS +G + + + GF FV + DA+
Sbjct: 1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVR 55
Query: 340 ALDGQNLDGRAIRVNVAEDRQRRSSF 365
LDG+ + G +RV ++ RRS F
Sbjct: 56 GLDGKVICGSRVRVELSTGMPRRSRF 81
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 44.7 bits (104), Expect = 8e-05, Method: Composition-based stats.
Identities = 21/50 (42%), Positives = 30/50 (60%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 331
I+VG L ++ F + GKV +A +++D+ T R RGFGFVT SE
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESE 51
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 26/101 (25%), Positives = 46/101 (45%), Gaps = 27/101 (26%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
+FVG L + E + FE+ G V+ A +++++
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDA--------------------------MLMFDK 35
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKA 262
T+R RGFGFVT + + EK E+ H ++I+ +++ KA
Sbjct: 36 TTNRHRGFGFVTFESEDIVEKVCEI-HFHEINNKMVECKKA 75
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
++VGNL V L ++F + G + + DRE G+ + FGFV ++ AIA L
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESVSYAIALL 77
Query: 342 DGQNLDGRAIRVN 354
+G L GR I V+
Sbjct: 78 NGIRLYGRPINVS 90
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 4/79 (5%)
Query: 287 LPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNL 346
LPW+ L++ FS G+V+ +V D +TG S+GFGFV TE + + +++
Sbjct: 23 LPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRF---TEYETQVKVMSQRHM 79
Query: 347 -DGRAIRVNVAEDRQRRSS 364
DGR + +Q + S
Sbjct: 80 IDGRWCDCKLPNSKQSQDS 98
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 18/44 (40%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGR 255
V ++QV + +T S+GFGFV + E K M R+ IDGR
Sbjct: 42 VLMVQVKKDLKTGHSKGFGFVRFTEYETQVKV--MSQRHMIDGR 83
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 43/85 (50%)
Query: 270 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 329
E P+ G+ ++V + E + F+E+G++ N + DR TG +G+ V
Sbjct: 14 EPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 73
Query: 330 SETELNDAIAALDGQNLDGRAIRVN 354
+ E A+ L+GQ+L G+ I V+
Sbjct: 74 TYKEAQAAMEGLNGQDLMGQPISVD 98
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 43/85 (50%)
Query: 270 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 329
E P+ G+ ++V + E + F+E+G++ N + DR TG +G+ V
Sbjct: 13 EPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 72
Query: 330 SETELNDAIAALDGQNLDGRAIRVN 354
+ E A+ L+GQ+L G+ I V+
Sbjct: 73 TYKEAQAAMEGLNGQDLMGQPISVD 97
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 48/94 (51%), Gaps = 11/94 (11%)
Query: 266 GTQPERAPRVFEPGFRIYVGNL-PWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFG 324
G+ + PR R+++GNL V + +E +FS++GK+V V +GF
Sbjct: 4 GSSGKTDPRSMNS--RVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV--------HKGFA 53
Query: 325 FVTMSSETELNDAIAALDGQNLDGRAIRVNVAED 358
FV +E A+A DG+ + G+ + +N+A +
Sbjct: 54 FVQYVNERNARAAVAGEDGRMIAGQVLDINLAAE 87
>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 = 24/75 (32%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
++ V NL + V +A ++++F+E G + A V YDR +GRS G V + + A+
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQ 88
Query: 341 LDGQNLDGRAIRVNV 355
+G LDGR + + +
Sbjct: 89 YNGVPLDGRPMNIQL 103
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 277 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 336
E G ++ V NL + V +A ++++F+E G + A V YDR +GRS G V +
Sbjct: 33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALK 91
Query: 337 AIAALDGQNLDGRAIRVNV 355
A+ G LDGR + + +
Sbjct: 92 AMKQYKGVPLDGRPMDIQL 110
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 277 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 336
E G ++ V NL + V +A ++++F+E G + A V YDR +GRS G V +
Sbjct: 33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALK 91
Query: 337 AIAALDGQNLDGRAIRVNV 355
A+ G LDGR + + +
Sbjct: 92 AMKQYKGVPLDGRPMDIQL 110
>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 = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 44/86 (51%), Gaps = 3/86 (3%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHG--KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
+YVG+ W + +L QV G VV + +R G+S+G+ V ++SE ++ +
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 340 ALDGQNLDGRAIRVNVAEDRQRRSSF 365
L G+ L+G + V A RQ S F
Sbjct: 118 LLPGKVLNGEKVDVRPA-TRQNLSQF 142
>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: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
RIYVGNLP ++ +E VF ++G + + + +R G F FV + DA+
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLK-NRRGGPP--FAFVEFEDPRDAEDAVYG 80
Query: 341 LDGQNLDGRAIRV 353
DG + DG +RV
Sbjct: 81 RDGYDYDGYRLRV 93
Score = 31.2 bits (69), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 38/101 (37%), Gaps = 29/101 (28%)
Query: 159 DAKLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVI 218
D +++VGNLP D+ ++ + +F K G + ++K
Sbjct: 22 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLK-------------------------- 55
Query: 219 YNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTV 259
NR F FV +AE AV YD DG L V
Sbjct: 56 -NRRGGPP--FAFVEFEDPRDAEDAVYGRDGYDYDGYRLRV 93
>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: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
G+ ++V + E + F+E+G++ N + DR TG +G+ V + E A+
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 339 AALDGQNLDGRAIRVN 354
L+GQ+L G+ I V+
Sbjct: 67 EGLNGQDLMGQPISVD 82
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 42.0 bits (97), Expect = 6e-04, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 42/83 (50%)
Query: 272 APRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 331
P+ G+ ++V + E + F+E+G++ N + DR TG +G+ V +
Sbjct: 2 GPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 61
Query: 332 TELNDAIAALDGQNLDGRAIRVN 354
E A+ L+GQ+L G+ I V+
Sbjct: 62 KEAQAAMEGLNGQDLMGQPISVD 84
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 42.0 bits (97), Expect = 6e-04, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 40/76 (52%)
Query: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
G+ ++V + E + F+E+G++ N + DR TG +G+ V + E A+
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 339 AALDGQNLDGRAIRVN 354
L+GQ+L G+ I V+
Sbjct: 67 EGLNGQDLMGQPISVD 82
>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 = 6e-04, Method: Compositional matrix adjust.
Identities = 31/128 (24%), Positives = 58/128 (45%), Gaps = 14/128 (10%)
Query: 227 RGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGFRIYVGN 286
+G GF + S EA + E D D + E P+ G+ ++V +
Sbjct: 34 KGRGFGSDSNTREAIHSYERVRNEDDD--------------ELEPGPQRSVEGWILFVTS 79
Query: 287 LPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNL 346
+ E +++ F ++G++ N + DR TG S+G+ V + + A AL+G +
Sbjct: 80 IHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEI 139
Query: 347 DGRAIRVN 354
G+ I+V+
Sbjct: 140 MGQTIQVD 147
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 277 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 336
E G ++ V NL + V +A ++++F+E G + A V YDR +GRS G V +
Sbjct: 86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALK 144
Query: 337 AIAALDGQNLDGRAIRVNV 355
A+ G LDGR + + +
Sbjct: 145 AMKQYKGVPLDGRPMDIQL 163
>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 = 6e-04, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 40/76 (52%)
Query: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
G+ ++V + E + F+E+G++ N + DR TG +G+ V + E A+
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 339 AALDGQNLDGRAIRVN 354
L+GQ+L G+ I V+
Sbjct: 67 EGLNGQDLMGQPISVD 82
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 41.6 bits (96), Expect = 6e-04, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 40/75 (53%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ V LP ++ + L +F G + R++ D +TG S G+ FV +SE + AI L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 342 DGQNLDGRAIRVNVA 356
+G + + ++V+ A
Sbjct: 66 NGITVRNKRLKVSYA 80
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 41.6 bits (96), Expect = 8e-04, Method: Composition-based stats.
Identities = 22/85 (25%), Positives = 45/85 (52%)
Query: 270 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 329
E P+ G+ ++V ++ E +++ F ++G++ N + DR TG S+G+ V
Sbjct: 17 EPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYE 76
Query: 330 SETELNDAIAALDGQNLDGRAIRVN 354
+ + A AL+G + G+ I+V+
Sbjct: 77 THKQALAAKEALNGAEIMGQTIQVD 101
>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 = 8e-04, Method: Composition-based stats.
Identities = 20/84 (23%), Positives = 46/84 (54%), Gaps = 3/84 (3%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
++VG + +D + F+ +G V +++ DR TG S+G+GFV+ ++ ++ + +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES- 69
Query: 342 DGQNLDGRAIRVNVAEDRQRRSSF 365
N G+ +++ A +Q S++
Sbjct: 70 -QINFHGKKLKLGPAIRKQNLSTY 92
>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 = 0.001, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%)
Query: 270 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 329
E ++ + +YVGNL + ++ ++FS+ G + + D+ + GF FV
Sbjct: 30 EEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYY 89
Query: 330 SETELNDAIAALDGQNLDGRAIRVN 354
S + +A+ ++G LD R IR +
Sbjct: 90 SRADAENAMRYINGTRLDDRIIRTD 114
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 27/87 (31%), Positives = 47/87 (54%), Gaps = 3/87 (3%)
Query: 278 PGFRIYVGNLPWEVDNARLEQVFSE-HGKVVNARVVYDRETGRSRGFGFVTMSSETELND 336
P + ++VG+L +VD+ L + F + + +VV D +TG S+G+GFV + E E
Sbjct: 8 PEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLD-QTGVSKGYGFVKFTDELEQKR 66
Query: 337 AIAALDGQ-NLDGRAIRVNVAEDRQRR 362
A+ G L + +R++VA + R
Sbjct: 67 ALTECQGAVGLGSKPVRLSVAIPKASR 93
>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 = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 30/105 (28%), Positives = 52/105 (49%), Gaps = 16/105 (15%)
Query: 266 GTQPERAPR-----VFEPGF----------RIYVGNLPWEVDNARLEQVFSEHGKVVNAR 310
G++P++ P +F+ GF ++ V NL + V +A ++++F+E G + A
Sbjct: 1 GSRPKQLPDKWQHDLFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAA 60
Query: 311 VVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNV 355
V YDR +GRS G V + + A +G LDGR + +
Sbjct: 61 VHYDR-SGRSLGTADVHFERKADALKAXKQYNGVPLDGRPXNIQL 104
>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: 296 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLD 347
L +FS+ GKVVN D TG+++GF FV S + I + G+ LD
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLD 80
>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: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+++VGN+ N L F E+G V+ +V D + FV M + +AI
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRG 63
Query: 341 LDGQNLDGRAIRVNVAEDRQRRSS 364
LD G+ + V ++ R R +S
Sbjct: 64 LDNTEFQGKRMHVQLSTSRLRTAS 87
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 27/84 (32%), Positives = 41/84 (48%), Gaps = 2/84 (2%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+I+V NLP++ L+ F+E G V+ A + E G+S+G G V S A
Sbjct: 10 QIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVAERACRM 67
Query: 341 LDGQNLDGRAIRVNVAEDRQRRSS 364
++G L GR I V + + SS
Sbjct: 68 MNGMKLSGREIDVRIDRNASGPSS 91
Score = 32.3 bits (72), Expect = 0.38, Method: Composition-based stats.
Identities = 25/99 (25%), Positives = 39/99 (39%), Gaps = 28/99 (28%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
++FV NLP+D + L F + G V A++K
Sbjct: 10 QIFVRNLPFDFTWKMLKDKFNECGHVLYADIKM--------------------------- 42
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTV 259
E +S+G G V + E AE+A M + + GR + V
Sbjct: 43 -ENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDV 80
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 3/80 (3%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
++++G +P +D L+ +F E GK+ V+ DR TG +G F+T A +A
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 341 LDGQ-NLDG--RAIRVNVAE 357
L Q L G R I+V A+
Sbjct: 75 LHEQKTLPGMNRPIQVKPAD 94
Score = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 26/88 (29%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
KLF+G +P ++D + L LFE+ G +I E L V+ +
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFG--KIYE------------------------LTVLKD 48
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFH 248
R T +G F+T E A KA H
Sbjct: 49 RFTGMHKGCAFLTYCERESALKAQSALH 76
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 20/52 (38%), Positives = 28/52 (53%)
Query: 296 LEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQNLD 347
L +FS+ GKVVN D TG+++GF FV S + I + G+ LD
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLD 80
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+YVGN+ + LE FS G + ++ D+ +G +G+ ++ + + DA A+
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSV-DAAVAM 97
Query: 342 DGQNLDGRAIRV 353
D GR I+V
Sbjct: 98 DETVFRGRTIKV 109
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 28/87 (32%), Positives = 43/87 (49%), Gaps = 3/87 (3%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
+++VG +P +D L+ +F E G++ V+ DR TG +G F+T + A +A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 341 LDGQ-NLDG--RAIRVNVAEDRQRRSS 364
L Q L G R I+V A R S
Sbjct: 77 LHEQKTLPGMNRPIQVKPAASEGRGES 103
Score = 28.5 bits (62), Expect = 6.9, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTV 186
KLFVG +P +D + L LFE+ G +
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRI 42
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 40/83 (48%), Gaps = 2/83 (2%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
I+V NLP++ L+ F+E G V+ A + E G+S+G G V S A +
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVAERACRMM 65
Query: 342 DGQNLDGRAIRVNVAEDRQRRSS 364
+G L GR I V + + SS
Sbjct: 66 NGMKLSGREIDVRIDRNASGPSS 88
Score = 31.6 bits (70), Expect = 0.69, Method: Composition-based stats.
Identities = 25/98 (25%), Positives = 38/98 (38%), Gaps = 28/98 (28%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
+FV NLP+D + L F + G V A++K
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKM---------------------------- 39
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTV 259
E +S+G G V + E AE+A M + + GR + V
Sbjct: 40 ENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDV 77
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 44/98 (44%), Gaps = 6/98 (6%)
Query: 273 PRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSET 332
P G +++ NL ++ + L +V + G + RVV +T S+G F ++
Sbjct: 9 PSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQE 68
Query: 333 ELNDAIAALD------GQNLDGRAIRVNVAEDRQRRSS 364
+AA G LDGR ++V++A R +S
Sbjct: 69 AAQKCLAAASLEAEGGGLKLDGRQLKVDLAVTRDEAAS 106
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 41/189 (21%), Positives = 79/189 (41%), Gaps = 30/189 (15%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
K+FVG +P + L LFE+ G AV+ +++L+ +
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYG-----------------------AVYEINVLR-DRS 52
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF 280
+ +S+G FVT T + A +A H + + + P ++ A
Sbjct: 53 QNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVE----DR 108
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
++++G + + + +FS G++ R++ + G SRG FVT ++ AI A
Sbjct: 109 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAMAQTAIKA 167
Query: 341 L-DGQNLDG 348
+ Q ++G
Sbjct: 168 MHQAQTMEG 176
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 41/189 (21%), Positives = 79/189 (41%), Gaps = 30/189 (15%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
K+FVG +P + L LFE+ G AV+ +++L+ +
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYG-----------------------AVYEINVLR-DRS 40
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF 280
+ +S+G FVT T + A +A H + + + P ++ A
Sbjct: 41 QNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVE----DR 96
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
++++G + + + +FS G++ R++ + G SRG FVT ++ AI A
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAMAQTAIKA 155
Query: 341 L-DGQNLDG 348
+ Q ++G
Sbjct: 156 MHQAQTMEG 164
>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 = 0.004, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
IYVGN+ + LE F G V ++ D+ +G +GF ++ S + + ++ AL
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 66
Query: 342 DGQNLDGRAIRV 353
D GR I+V
Sbjct: 67 DESLFRGRQIKV 78
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 19/79 (24%), Positives = 43/79 (54%), Gaps = 3/79 (3%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
++VG + +D + F+ +G V +++ DR TG S+G+GFV+ ++ ++ + +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES- 70
Query: 342 DGQNLDGRAIRVNVAEDRQ 360
N G+ +++ A +Q
Sbjct: 71 -QINFHGKKLKLGPAIRKQ 88
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 29/85 (34%), Positives = 44/85 (51%), Gaps = 11/85 (12%)
Query: 282 IYVGNLPWEVDNARLEQ-------VFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL 334
I V N+P +V RLE+ +FS+ GK+ N Y E G+++G+ F+ +S
Sbjct: 18 IVVDNVP-QVGPDRLEKLKNVIHKIFSKFGKITND--FYPEEDGKTKGYIFLEYASPAHA 74
Query: 335 NDAIAALDGQNLDGR-AIRVNVAED 358
DA+ DG LD + RVN+ D
Sbjct: 75 VDAVKNADGYKLDKQHTFRVNLFTD 99
>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 = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 19/79 (24%), Positives = 43/79 (54%), Gaps = 3/79 (3%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
++VG + +D + F+ +G V +++ DR TG S+G+GFV+ ++ ++ + +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES- 69
Query: 342 DGQNLDGRAIRVNVAEDRQ 360
N G+ +++ A +Q
Sbjct: 70 -QINFHGKKLKLGPAIRKQ 87
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 1/83 (1%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
++ L + LE FS GKV + R++ DR + RS+G +V + AI L
Sbjct: 28 VFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GL 86
Query: 342 DGQNLDGRAIRVNVAEDRQRRSS 364
GQ L G I V ++ + R S
Sbjct: 87 TGQRLLGVPIIVQASQAEKNRLS 109
>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: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
++YVGNL + LE+ F +G + + V + GF FV + DA+
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRE 129
Query: 341 LDGQNLDGRAIRVNVAEDRQR 361
LDG+ L G +RV ++ +R
Sbjct: 130 LDGRTLCGCRVRVELSNGEKR 150
>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: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
++++G LP +++ +++++ + G + +V D TG S+G+ F + AIA
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 341 LDGQNLDGRAIRVNVA 356
L+G L + + V A
Sbjct: 63 LNGMQLGDKKLLVQRA 78
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 5/81 (6%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
++YVGNL + LE+ F +G + + V + GF FV + DA+
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRD 129
Query: 341 LDGQNLDGRAIRVNVAEDRQR 361
LDG+ L G +RV ++ +R
Sbjct: 130 LDGRTLCGCRVRVELSNGEKR 150
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 34/55 (61%), Gaps = 3/55 (5%)
Query: 208 AVFYVSLLQVIYNRETDRSRGFGFVTMSTVEEAE--KAVEMFH-RYDIDGRLLTV 259
AV S ++VI +++T +RGF F+ +ST+E A+ + ++ H IDG+ + V
Sbjct: 48 AVLSSSNVRVIKDKQTQLNRGFAFIQLSTIEAAQLLQILQALHPPLTIDGKTINV 102
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 32/57 (56%), Gaps = 3/57 (5%)
Query: 308 NARVVYDRETGRSRGFGFVTMSS--ETELNDAIAALDGQ-NLDGRAIRVNVAEDRQR 361
N RV+ D++T +RGF F+ +S+ +L + AL +DG+ I V A+ +R
Sbjct: 54 NVRVIKDKQTQLNRGFAFIQLSTIEAAQLLQILQALHPPLTIDGKTINVEFAKGSKR 110
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 37.7 bits (86), Expect = 0.009, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 42/81 (51%), Gaps = 11/81 (13%)
Query: 282 IYVGNLPWEVDNARLEQ-------VFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL 334
I V N+P +V RLE+ +FS+ GK+ N Y E G+++G+ F+ +S
Sbjct: 4 IVVDNVP-QVGPDRLEKLKNVIHKIFSKFGKITND--FYPEEDGKTKGYIFLEYASPAHA 60
Query: 335 NDAIAALDGQNLDGR-AIRVN 354
DA+ DG LD + RVN
Sbjct: 61 VDAVKNADGYKLDKQHTFRVN 81
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 37.7 bits (86), Expect = 0.011, Method: Composition-based stats.
Identities = 25/85 (29%), Positives = 45/85 (52%), Gaps = 10/85 (11%)
Query: 281 RIYVGNLPWE-VDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
R+++GNL V + +E +FS++G+V V +G+ FV S+E A+
Sbjct: 29 RVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--------HKGYAFVQYSNERHARAAVL 80
Query: 340 ALDGQNLDGRAIRVNVA-EDRQRRS 363
+G+ L G+ + +N+A E + RS
Sbjct: 81 GENGRVLAGQTLDINMAGEPKPDRS 105
>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 = 37.7 bits (86), Expect = 0.011, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
IYVGN+ + LE F G V ++ D+ +G +GF ++ S + + ++ AL
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 67
Query: 342 DGQNLDGRAIRV 353
D GR I+V
Sbjct: 68 DESLFRGRQIKV 79
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 37.0 bits (84), Expect = 0.016, Method: Composition-based stats.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 1/85 (1%)
Query: 270 ERAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMS 329
E ++ + +YVGNL + ++ ++FS+ G + + D+ + GF FV
Sbjct: 9 EEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDK-MKTACGFCFVEYY 67
Query: 330 SETELNDAIAALDGQNLDGRAIRVN 354
S + +A+ ++G LD R IR +
Sbjct: 68 SRADAENAMRYINGTRLDDRIIRTD 92
>pdb|1WG1|A Chain A, Solution Structure Of Rna Binding Domain In
Bab13405(Homolog Exc-7)
Length = 88
Score = 37.0 bits (84), Expect = 0.019, Method: Composition-based stats.
Identities = 15/36 (41%), Positives = 24/36 (66%)
Query: 224 DRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTV 259
DR++ FVT+ E+A+ A++MFH+Y G+ L V
Sbjct: 37 DRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIV 72
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 37.0 bits (84), Expect = 0.020, Method: Composition-based stats.
Identities = 16/68 (23%), Positives = 34/68 (50%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+Y+ L + L ++ +GK+V+ + + D+ T + +G+GFV S + A+ AL
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 342 DGQNLDGR 349
+ +
Sbjct: 68 KASGVQAQ 75
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 36.6 bits (83), Expect = 0.022, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 226 SRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAP 273
S GFGFV E+A+KA++ + +DG L V + + R T+P P
Sbjct: 49 SMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEV-RISERATKPASGP 95
Score = 36.6 bits (83), Expect = 0.025, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 39/86 (45%), Gaps = 3/86 (3%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETG---RSRGFGFVTMSSETELNDAI 338
+++ NL + L+ VFS+ G + + + + S GFGFV + A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 339 AALDGQNLDGRAIRVNVAEDRQRRSS 364
L G +DG + V ++E + +S
Sbjct: 68 KQLQGHTVDGHKLEVRISERATKPAS 93
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 36/76 (47%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
I V NL + L+++F G + + D+ TG+S+GF F++ + AIA +
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV 77
Query: 342 DGQNLDGRAIRVNVAE 357
G D + V A+
Sbjct: 78 SGFGYDHLILNVEWAK 93
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 28/53 (52%)
Query: 212 VSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAP 264
+S + + ++ T +S+GF F++ E+A +A+ + D +L V A P
Sbjct: 42 ISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAKP 94
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 36.2 bits (82), Expect = 0.028, Method: Composition-based stats.
Identities = 24/112 (21%), Positives = 48/112 (42%), Gaps = 31/112 (27%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L + NL Y E L +FEKA +++ +
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIKVPQ------------------------------N 47
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAP 273
+ +S+G+ F+ ++ E+A++A+ ++ +I+GR + + PRG+ P P
Sbjct: 48 QNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQGPRGS-PNSGP 98
Score = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 18/78 (23%), Positives = 41/78 (52%), Gaps = 4/78 (5%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+ + NL + L++VF + + V + G+S+G+ F+ +S + +A+ +
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 342 DGQNLDGRAIRVNVAEDR 359
+ + ++GRAIR+ + R
Sbjct: 74 NKREIEGRAIRLELQGPR 91
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 36.2 bits (82), Expect = 0.034, Method: Composition-based stats.
Identities = 22/88 (25%), Positives = 43/88 (48%)
Query: 277 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELND 336
EP +Y+ NL V L +F+ + + + TGR RG F+T ++
Sbjct: 23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQ 82
Query: 337 AIAALDGQNLDGRAIRVNVAEDRQRRSS 364
A+ ++G L G+ + + +++++RSS
Sbjct: 83 ALHLVNGYKLYGKILVIEFGKNKKQRSS 110
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 35.0 bits (79), Expect = 0.059, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 33/56 (58%), Gaps = 4/56 (7%)
Query: 306 VVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQN----LDGRAIRVNVAE 357
V N R++ D++T ++RGF FV +SS + + + L + +DG+ I V+ A+
Sbjct: 38 VNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAK 93
Score = 32.0 bits (71), Expect = 0.49, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 35/59 (59%), Gaps = 4/59 (6%)
Query: 208 AVFYVSLLQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMFHR----YDIDGRLLTVNKA 262
A V+ +++I +++T ++RGF FV +S+ +A + +++ IDG+ + V+ A
Sbjct: 34 ASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFA 92
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 35.0 bits (79), Expect = 0.062, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDR-ETGRSRGFGFVTMSSETELNDAIA 339
++++G L V + ++FS +GK+ + +R S+G+ +V + E A+
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
Query: 340 ALDGQNLDGRAI 351
+DG +DG+ I
Sbjct: 66 HMDGGQIDGQEI 77
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 35.0 bits (79), Expect = 0.069, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRE-TGRSRGFGFVTMSSETELNDAIA 339
+I V N+P++ + + ++FS G++ R+ TG RGFGFV ++ + A
Sbjct: 17 KILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFN 76
Query: 340 AL 341
AL
Sbjct: 77 AL 78
>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 = 0.097, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 39/79 (49%), Gaps = 7/79 (8%)
Query: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNA----RVVYDRETGRSRGFGFVTMSSETEL 334
GF + V LPW +++ FS+ K+ N R +Y RE GR G FV + SE E+
Sbjct: 7 GFVVKVRGLPWSCSADEVQRFFSD-CKIQNGAQGIRFIYTRE-GRPSGEAFVELESEDEV 64
Query: 335 NDAIAALDGQNLDGRAIRV 353
A+ D + + R + V
Sbjct: 65 KLALKK-DRETMGHRYVEV 82
>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 = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 39/180 (21%), Positives = 71/180 (39%), Gaps = 29/180 (16%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
K FVG +P + L LFE+ G AV+ +++L+ +
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYG-----------------------AVYEINVLR-DRS 40
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTVNKAAPRGTQPERAPRVFEPGF 280
+ +S+G FVT T + A +A H + + P ++ A
Sbjct: 41 QNPPQSKGCCFVTFYTRKAALEAQNALHNXKVLPGXHHPIQXKPADSEKNNAVE----DR 96
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAA 340
++++G + + + FS G++ R++ + G SRG FVT ++ AI A
Sbjct: 97 KLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAXAQTAIKA 155
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 8/69 (11%)
Query: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETG--RSRGFGFVTMSSETELND 336
+ +VG +P L ++F ++G V V+ DR +S+G FVT +
Sbjct: 3 AIKXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK---- 58
Query: 337 AIAALDGQN 345
AAL+ QN
Sbjct: 59 --AALEAQN 65
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 41/84 (48%), Gaps = 3/84 (3%)
Query: 271 RAPRVFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSS 330
R+P E GF +Y+ LP+E +N + F + V ++ + G++ G GFV +
Sbjct: 19 RSPH--EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRN 76
Query: 331 ETELNDAIAALDGQNLDGRAIRVN 354
E + A+ Q + R I+V+
Sbjct: 77 EADYKAALCR-HKQYMGNRFIQVH 99
>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 = 33.5 bits (75), Expect = 0.18, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 27/51 (52%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 331
+I+VG L + ++ + F G+V + + D +T + RGF F+T E
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEE 53
Score = 28.1 bits (61), Expect = 7.8, Method: Composition-based stats.
Identities = 22/85 (25%), Positives = 32/85 (37%), Gaps = 26/85 (30%)
Query: 161 KLFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYN 220
K+FVG L D EK+ F G VE E+ +
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPM--------------------------D 36
Query: 221 RETDRSRGFGFVTMSTVEEAEKAVE 245
+T++ RGF F+T E +K +E
Sbjct: 37 NKTNKRRGFCFITFKEEEPVKKIME 61
>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 = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 8/69 (11%)
Query: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETG--RSRGFGFVTMSSETELND 336
+++VG +P L ++F ++G V V+ DR +S+G FVT +
Sbjct: 3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK---- 58
Query: 337 AIAALDGQN 345
AAL+ QN
Sbjct: 59 --AALEAQN 65
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 33.1 bits (74), Expect = 0.26, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+Y+ NLP+++ + +F ++G + RV T +RG +V + +A+ L
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNAVDHL 67
Query: 342 DGQNLDGRAIRV 353
G N+ R + V
Sbjct: 68 SGFNVSNRYLVV 79
>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 = 0.32, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHG--KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
+Y+GNL W + L + G ++ + +R G+S+GF V + SE +
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
Query: 340 ALDGQNLDGR 349
L + L G+
Sbjct: 64 LLPKRELHGQ 73
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 19/94 (20%), Positives = 37/94 (39%), Gaps = 24/94 (25%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L++GNL + E L G +I E+KF NR
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKF------------------------FENR 39
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGR 255
+S+GF V + + ++K +++ + ++ G+
Sbjct: 40 ANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQ 73
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 32.7 bits (73), Expect = 0.35, Method: Composition-based stats.
Identities = 16/71 (22%), Positives = 35/71 (49%), Gaps = 6/71 (8%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+Y G + + + + Q FS G+++ RV + +G+ FV S+ AI ++
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVSV 81
Query: 342 DGQNLDGRAIR 352
+G ++G ++
Sbjct: 82 NGTTIEGHVVK 92
>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 = 32.7 bits (73), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+Y+ NLP+++ + +F ++G + RV T +RG +V + +A L
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 77
Query: 342 DGQNLDGRAIRV 353
G N+ R + V
Sbjct: 78 SGFNVCNRYLVV 89
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 32.7 bits (73), Expect = 0.36, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 26/50 (52%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSE 331
I+VG L + ++ + F G+V + + D +T + RGF F+T E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEE 51
>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 = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHG--KVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
+Y+GNL W + L + G ++ + +R G+S+GF V + SE +
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 130
Query: 340 ALDGQNLDGR 349
L + L G+
Sbjct: 131 LLPKRELHGQ 140
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 22/103 (21%), Positives = 41/103 (39%), Gaps = 27/103 (26%)
Query: 162 LFVGNLPYDVDSEKLAMLFEKAGTVEIAEVKFHFLFGNQGFHMWVCAVFYVSLLQVIYNR 221
L++GNL + E L G +I E+KF NR
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKF------------------------FENR 106
Query: 222 ETDRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGR---LLTVNK 261
+S+GF V + + ++K +++ + ++ G+ + VNK
Sbjct: 107 ANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPVNK 149
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 31.2 bits (69), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 2/80 (2%)
Query: 280 FRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIA 339
F +++GNL A L+ SE N V D TG +R FG+V S +L A+
Sbjct: 18 FNLFIGNLNPNKSVAELKVAISEL-FAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL- 75
Query: 340 ALDGQNLDGRAIRVNVAEDR 359
L G + G I++ + R
Sbjct: 76 ELTGLKVFGNEIKLEKPKGR 95
>pdb|3EGN|A Chain A, C-Terminal Rna Recognition Motif Of The U11U12 65K PROTEIN
Length = 143
Score = 31.2 bits (69), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 42/88 (47%), Gaps = 11/88 (12%)
Query: 277 EPGFRIYVGNLPWEVDNARLEQVFSEHGKVVN-----ARVVYD---RETGRSRGFGFVTM 328
EP RIYV NL V L+ +F G+ V+ R+++D + GR +G F+ +
Sbjct: 43 EPNCRIYVKNLAKHVQEKDLKYIF---GRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGL 99
Query: 329 SSETELNDAIAALDGQNLDGRAIRVNVA 356
+E A+ +G L G+ + V A
Sbjct: 100 PNEKAAAKALKEANGYVLFGKPMVVQFA 127
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 6/83 (7%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+YV NL +E+ F+ N + + R + FV S+ + +A+ AL
Sbjct: 18 LYVRNLMLSTSEEMIEKEFN------NIKPGAVERVKKIRDYAFVHFSNREDAVEAMKAL 71
Query: 342 DGQNLDGRAIRVNVAEDRQRRSS 364
+G+ LDG I V +A+ + SS
Sbjct: 72 NGKVLDGSPIEVTLAKPVDKDSS 94
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+Y+ NLP+++ + +F ++G + RV T +RG +V + +A L
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 71
Query: 342 DGQNLDGRAIRV 353
G N+ R + V
Sbjct: 72 SGFNVCNRYLVV 83
>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 = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 224 DRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTV 259
D+ +G FVT+ E+AE A+ FH+ + R L+V
Sbjct: 34 DKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSV 69
>pdb|1WI6|A Chain A, Solution Structure Of The Rna Binding Domain From Mouse
Hypothetical Protein Bab23670
Length = 88
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 224 DRSRGFGFVTMSTVEEAEKAVEMFHRYDIDGRLLTV 259
D+ +G FVT+ E+AE A+ FH+ + R L+V
Sbjct: 37 DKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSV 72
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 275 VFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL 334
+F P +++ N+P V L+ +FS +G VV + ++ R + M S E
Sbjct: 116 IFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD----RKMALIQMGSVEEA 171
Query: 335 NDAIAALDGQNL-DGRAIRVNVAE 357
A+ L +L + +RV+ ++
Sbjct: 172 VQALIDLHNHDLGENHHLRVSFSK 195
>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 = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 34/52 (65%), Gaps = 1/52 (1%)
Query: 215 LQVIYNRETDRSRGFGFVTMSTVEEAEKAVEMF-HRYDIDGRLLTVNKAAPR 265
++++ N+ + +SRGF FV S +++A + +E H +I G+ ++++ + P+
Sbjct: 32 VRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSDPK 83
>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 = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 275 VFEPGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETEL 334
+F P +++ N+P V L+ +FS +G VV + ++ R + M S E
Sbjct: 147 IFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD----RKMALIQMGSVEEA 202
Query: 335 NDAIAALDGQNL-DGRAIRVNVAE 357
A+ L +L + +RV+ ++
Sbjct: 203 VQALIDLHNHDLGENHHLRVSFSK 226
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 281 RIYVGNLPWEVDNARLEQVFSEH---GKVVNA--RVVYDRETGRSRGFGFVTMSSETELN 335
R+YVGN+P+ + + F+ G + A V + + + F F+ S E
Sbjct: 3 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 62
Query: 336 DAIAALDGQNLDGRAIRVNVAEDRQ 360
A+ A DG G+++++ D Q
Sbjct: 63 QAM-AFDGIIFQGQSLKIRRPHDYQ 86
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 47/90 (52%), Gaps = 7/90 (7%)
Query: 278 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETG---RSRGFGFVTMSSETEL 334
P + ++GNLP++V +++ F G ++A V RE R +GFG+ L
Sbjct: 14 PPYTAFLGNLPYDVTEESIKEFF--RGLNISA-VRLPREPSNPERLKGFGYAEFEDLDSL 70
Query: 335 NDAIAALDGQNLDGRAIRVNVAEDRQRRSS 364
+ +L+ ++L + IRV+VA+ Q + S
Sbjct: 71 L-SALSLNEESLGNKRIRVDVADQAQDKDS 99
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 29.6 bits (65), Expect = 2.6, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
+YVGNL +V + Q+FS+ G + +++ + + + FV + A+AA+
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVEFYEHRDAAAALAAM 75
Query: 342 DGQNLDGRAIRVNVA 356
+G+ + G+ ++VN A
Sbjct: 76 NGRKILGKEVKVNWA 90
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation Initiation
Factor 4b
Length = 100
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 44/86 (51%), Gaps = 7/86 (8%)
Query: 278 PGFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETG---RSRGFGFVTMSSETEL 334
P + ++GNLP++V +++ F G ++A V RE R +GFG+
Sbjct: 18 PPYTAFLGNLPYDVTEESIKEFF--RGLNISA-VRLPREPSNPERLKGFGYAEFEDLDS- 73
Query: 335 NDAIAALDGQNLDGRAIRVNVAEDRQ 360
+ +L+ ++L R IRV+VA+ Q
Sbjct: 74 LLSALSLNEESLGNRRIRVDVADQAQ 99
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 314 DRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVAEDRQRRSSF 365
DRETG+ +G V+ AI DG+ G I+V+ A RR+ F
Sbjct: 50 DRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA---TRRADF 98
>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 = 29.3 bits (64), Expect = 3.2, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 21/43 (48%)
Query: 314 DRETGRSRGFGFVTMSSETELNDAIAALDGQNLDGRAIRVNVA 356
DRETG+ +G V+ AI DG+ G I+V+ A
Sbjct: 56 DRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA 98
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 29.3 bits (64), Expect = 3.5, Method: Composition-based stats.
Identities = 16/68 (23%), Positives = 34/68 (50%), Gaps = 5/68 (7%)
Query: 286 NLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAALDGQN 345
NL + + L++VF + + R+V + G+S+G ++ SE + + G
Sbjct: 23 NLSFNITEDELKEVFED---ALEIRLV--SQDGKSKGIAYIEFKSEADAEKNLEEKQGAE 77
Query: 346 LDGRAIRV 353
+DGR++ +
Sbjct: 78 IDGRSVSL 85
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 29.3 bits (64), Expect = 3.6, Method: Composition-based stats.
Identities = 21/79 (26%), Positives = 42/79 (53%), Gaps = 11/79 (13%)
Query: 279 GFRIYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAI 338
G +++VG ++ L+Q F ++G+VV+ + R F FVT + +D +
Sbjct: 11 GSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFI-----PKPFRAFAFVTFA-----DDKV 60
Query: 339 A-ALDGQNLDGRAIRVNVA 356
A +L G++L + I V+++
Sbjct: 61 AQSLCGEDLIIKGISVHIS 79
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 40/83 (48%), Gaps = 10/83 (12%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKVVNARVVYDRETGRSRGFGFVTMSSETELNDAIAAL 341
++V NL V LE+ FS+ GK+ + + D + F+ A+ +
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEEM 65
Query: 342 DGQNLDGRAIRVNVAE--DRQRR 362
+G++L+G I + A+ D++R+
Sbjct: 66 NGKDLEGENIEIVFAKPPDQKRK 88
>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 = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 27/61 (44%), Gaps = 2/61 (3%)
Query: 260 NKAAPRGTQPERAPRVFEPGFRIYVGNLPWEVDNARLEQV--FSEHGKVVNARVVYDRET 317
+KA T P A RVF F ++ G W N QV F+E + NA +DR T
Sbjct: 87 SKAGVPDTDPREAWRVFASHFYLFRGTPSWVWLNHVFSQVFGFTEFLEASNADDYFDRIT 146
Query: 318 G 318
Sbjct: 147 A 147
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 28.5 bits (62), Expect = 5.6, Method: Composition-based stats.
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 8/86 (9%)
Query: 282 IYVGNLPWEVDNARLEQVFSEHGKV-VNAR-------VVYDRETGRSRGFGFVTMSSETE 333
IYV L V L F + G V +N R + D+ETG+ +G V+
Sbjct: 18 IYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPT 77
Query: 334 LNDAIAALDGQNLDGRAIRVNVAEDR 359
A+ DG++ G ++V++A +
Sbjct: 78 AKAAVEWFDGKDFQGSKLKVSLARKK 103
>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 = 9.3, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 10/55 (18%)
Query: 241 EKAVEMFHRYDIDGR--LLTVNKAAPRGTQPERAP--------RVFEPGFRIYVG 285
E ++ + R D+DG+ L K PR P+ P R+ +PG R+YVG
Sbjct: 40 EGFIKGYERVDVDGKPYLRVYLKYGPRRQGPDPRPEQVIHHIRRISKPGRRVYVG 94
>pdb|1EG0|E Chain E, Fitting Of Components With Known Structure Into An 11.5 A
Cryo-Em Map Of The E.Coli 70s Ribosome
pdb|1FKA|H Chain H, Structure Of Functionally Activated Small Ribosomal
Subunit At 3.3 A Resolution
pdb|1FJG|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin, And Paromomycin
pdb|1HR0|H Chain H, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1HNW|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1HNZ|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1GIX|K Chain K, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1gix, Contains The 30s Ribosome Subunit,
Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is
In The File 1giy
pdb|1IBK|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1IBL|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site And With The Antibiotic Paromomycin
pdb|1IBM|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site
pdb|1JGO|K Chain K, The Path Of Messenger Rna Through The Ribosome. This File,
1jgo, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGP|K Chain K, The Path Of Messenger Rna Through The Ribosome. This File,
1jgp, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGQ|K Chain K, The Path Of Messenger Rna Through The Ribosome. This File,
1jgq, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1J5E|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
pdb|1N32|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Bound To Codon And Near-Cognate Transfer Rna
Anticodon Stem-Loop Mismatched At The First Codon
Position At The A Site With Paromomycin
pdb|1N33|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Bound To Codon And Near-Cognate Transfer Rna
Anticodon Stem-Loop Mismatched At The Second Codon
Position At The A Site With Paromomycin
pdb|1N34|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In The Presence Of Codon And
Crystallographically Disordered Near-Cognate Transfer
Rna Anticodon Stem-Loop Mismatched At The First Codon
Position
pdb|1N36|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In The Presence Of Crystallographically
Disordered Codon And Near-cognate Transfer Rna Anticodon
Stem-loop Mismatched At The Second Codon Position
pdb|1ML5|K Chain K, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1PNS|H Chain H, Crystal Structure Of A Streptomycin Dependent Ribosome
From E. Coli, 30s Subunit Of 70s Ribosome. This File,
1pns, Contains The 30s Subunit, Two Trnas, And One Mrna
Molecule. The 50s Ribosomal Subunit Is In File 1pnu.
pdb|1PNX|H Chain H, Crystal Structure Of The Wild Type Ribosome From E. Coli,
30s Subunit Of 70s Ribosome. This File, 1pnx, Contains
Only Molecules Of The 30s Ribosomal Subunit. The 50s
Subunit Is In The Pdb File 1pny.
pdb|1VOQ|H Chain H, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOS|H Chain H, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOV|H Chain H, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOX|H Chain H, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOZ|H Chain H, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1XMO|H Chain H, Crystal Structure Of Mnm5u34t6a37-Trnalysuuu Complexed
With Aag-Mrna In The Decoding Center
pdb|1XMQ|H Chain H, Crystal Structure Of T6a37-Asllysuuu Aaa-Mrna Bound To The
Decoding Center
pdb|1XNQ|H Chain H, Structure Of An Inosine-Adenine Wobble Base Pair Complex
In The Context Of The Decoding Center
pdb|1XNR|H Chain H, Crystal Structure Of An Inosine-Cytosine Wobble Base Pair
In The Context Of The Decoding Center
pdb|1YL4|K Chain K, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. 30s Subunit. The Coordinates For The 50s Subunit
Are In The Pdb Entry 1yl3
pdb|2B64|H Chain H, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf1
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Subunit, Trnas, Mrna And
Release Factor Rf1 From A Crystal Structure Of The Whole
Ribosomal Complex". The Entire Crystal Structure
Contains One 70s Ribosome, Trnas, Mrna And Release
Factor Rf1 And Is Described In Remark 400.
pdb|2B9M|H Chain H, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf2
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Ribosomal Subunit, Trnas,
Mrna And Release Factor Rf2 From A Crystal Structure Of
The Whole Ribosomal Complex". The Entire Crystal
Structure Contains One 70s Ribosome, Trnas, Mrna And
Release Factor Rf2 And Is Described In Remark 400.
pdb|2B9O|H Chain H, 30s Ribosomal Subunit, Trnas And Mrna From A Crystal
Structure Of The Whole Ribosomal Complex With A Stop
Codon In The A-Site. This File Contains The 30s Subunit,
Trnas And Mrna From A Crystal Structure Of The Whole
Ribosomal Complex With A Stop Codon In The A-Site And Is
Described In Remark 400.
pdb|2F4V|H Chain H, 30s Ribosome + Designer Antibiotic
pdb|2HHH|H Chain H, Crystal Structure Of Kasugamycin Bound To The 30s
Ribosomal Subunit
pdb|2J00|H Chain H, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 1 Of 4).
This File Contains The 30s Subunit, Mrna, A-, P- And
E-Site Trnas And Paromomycin For Molecule I.
pdb|2J02|H Chain H, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 3 Of 4)
This File Contains The 30s Subunit, Mrna, A-, P- And
E-Site Trnas And Paromomycin For Molecule Ii.
pdb|2HGI|K Chain K, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
Showing How The 16s 3'-End Mimicks Mrna E And P Codons.
This Entry 2hgi Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgj.
pdb|2HGP|K Chain K, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
With Translocated And Rotated Shine-Dalgarno Duplex.
This Entry 2hgp Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgq.
pdb|2HGR|K Chain K, 70s T.Th. Ribosome Functional Complex With Mrna And E- And
P-Site Trnas At 4.5a. This Entry 2hgr Contains 30s
Ribosomal Subunit. The 50s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgu.
pdb|2E5L|H Chain H, A Snapshot Of The 30s Ribosomal Subunit Capturing Mrna Via
The Shine- Dalgarno Interaction
pdb|2OW8|II Chain i, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals
Functional Interactions And Rearrangements. This File,
2ow8, Contains The 30s Ribosome Subunit, Two Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File
1vsa.
pdb|2UU9|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-asl With Cmo5u In
Position 34 Bound To An Mrna With A Gug-codon In The
A-site And Paromomycin.
pdb|2UUA|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-Asl With Cmo5u In
Position 34 Bound To An Mrna With A Guc-Codon In The
A-Site And Paromomycin.
pdb|2UUB|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-Asl With Cmo5u In
Position 34 Bound To An Mrna With A Guu-Codon In The
A-Site And Paromomycin.
pdb|2UUC|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-asl With Cmo5u In
Position 34 Bound To An Mrna With A Gua-codon In The
A-site And Paromomycin.
pdb|2UXC|H Chain H, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Ucgu In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2UXB|H Chain H, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Gggu In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2V46|H Chain H, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 1 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 1.
pdb|2V48|H Chain H, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 3 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 2.
pdb|2UXD|H Chain H, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Cggg In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2QNH|II Chain i, Interactions And Dynamics Of The Shine-Dalgarno Helix In
The 70s Ribosome. This File, 2qnh, Contains The 30s
Ribosome Subunit, Two Trna, And Mrna Molecules. 50s
Ribosome Subunit Is In The File 1vsp.
pdb|2VQE|H Chain H, Modified Uridines With C5-methylene Substituents At The
First Position Of The Trna Anticodon Stabilize U-g
Wobble Pairing During Decoding
pdb|2VQF|H Chain H, Modified Uridines With C5-Methylene Substituents At The
First Position Of The Trna Anticodon Stabilize U-G
Wobble Pairing During Decoding
pdb|3D5A|H Chain H, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 30s Subunit, Release
Factor 1 (Rf1), Two Trna, And Mrna Molecules Of One 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes As Described In Remark 400.
pdb|3D5C|H Chain H, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 30s Subunit, Release
Factor 1 (Rf1), Two Trna, And Mrna Molecules Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|3F1E|H Chain H, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
30s Subunit, Rf2, Two Trna, And Mrna Molecules Of One
70s Ribosome. The Entire Crystal Structure Contains Two
70s Ribosomes As Described In Remark 400.
pdb|3F1G|H Chain H, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
30s Subunit, Rf2, Two Trna, And Mrna Molecules Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|3FIC|H Chain H, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 30s Subunit
And The Ligands
pdb|2WDG|H Chain H, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 30s Subunit A-,P-, And E-Site Trnas And
Paromomycin For Molecule I.
pdb|2WDH|H Chain H, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 30s Subunit A-,P-, And E-Site Trnas And
Paromomycin For Molecule Ii.
pdb|2WDK|H Chain H, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 30s
Subunit A-,P-, And E-Site Trnas And Paromomycin For
Molecule I.
pdb|2WDM|H Chain H, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 30s
Subunit A-,P-, And E-Site Trnas And Paromomycin For
Molecule Ii.
pdb|2ZM6|H Chain H, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit
pdb|2WH1|H Chain H, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|2WH3|H Chain H, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome). This File Contains The
30s Subunit.
pdb|3HUW|H Chain H, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 30s Subunit, Mrna, P-Site Trna And Ef-P For
Molecule I.
pdb|3HUY|H Chain H, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 30s Subunit, Mrna, P-Site Trna And Ef-P For
Molecule Ii.
pdb|2WRI|H Chain H, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 1 Of 4).
pdb|2WRK|H Chain H, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 3 Of 4).
pdb|2WRN|H Chain H, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 1 Of 4).
pdb|2WRQ|H Chain H, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 3 Of 4).
pdb|3KIQ|HH Chain h, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 1 Of 4)
pdb|3KIS|HH Chain h, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 3 Of 4)
pdb|3KIU|HH Chain h, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 1 Of 4)
pdb|3KIX|HH Chain h, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 3 Of 4)
pdb|3KNH|H Chain H, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 30s Subunit For Molecule I
pdb|3KNJ|H Chain H, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 30s Subunit For Molecule Ii'
pdb|3KNL|H Chain H, The Structures Of Capreomycin Bound To The 70s Ribosome.
This File Contains The 30s Subunit For Molecule I
pdb|3KNN|H Chain H, The Structures Of Capreomycin Bound To The 70s Ribosome.
This File Contains The 30s Subunit For Molecule Ii
pdb|3I8G|K Chain K, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8g Contains 30s Ribosomal Subnit.The 50s
Ribosomal Can Be Found In Pdb Entry 3i8f. Molecule B In
The Same Asym Unit Is Deposited As 3i8g (30s) And 3i8f
(50s).
pdb|3I8H|K Chain K, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8h Contains 30s Ribosomal Subnit. The 50s
Ribosomal Can Be Found In Pdb Entry 3i8i. Molecule A In
The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
(30s).
pdb|3I9B|K Chain K, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9b Contains 30s Ribosomal Subunit Of Molecule B.
The 50s Subunit Can Be Found In Pdb Entry 3i9c. Molecule
A In The S Asymmetric Unit Is Deposited As 3i9d (30s)
And 3i9e (50s)
pdb|3I9D|K Chain K, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9d Contains 30s Ribosomal Subunit Of Molecule A.
The 50s Subunit Can Be Found In Pdb Entry 3i9e. Molecule
B In The S Asymmetric Unit Is Deposited As 3i9b (30s)
And 3i9c (50s)
pdb|2X9R|H Chain H, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9T|H Chain H, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|3MR8|H Chain H, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3mr8 Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 3ms1.
Molecule B In The Same Asymmetric Unit Is Deposited As
3mrz (50s) And 3ms0 (30s).
pdb|3MS0|H Chain H, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3ms0 Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 3mrz.
Molecule A In The Same Asymmetric Unit Is Deposited As
3mr8 (30s) And 3ms1 (50s).
pdb|2XFZ|H Chain H, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 1 Of 4)
pdb|2XG1|H Chain H, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 3 Of 4)
pdb|3OTO|H Chain H, Crystal Structure Of The 30s Ribosomal Subunit From A Ksga
Mutant Of Thermus Thermophilus (Hb8)
pdb|3OGE|H Chain H, Structure Of The Thermus Thermophilus Ribosome Complexed
With Chloramphenicol. This File Contains The 30s Subunit
Of One 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3OGY|H Chain H, Structure Of The Thermus Thermophilus Ribosome Complexed
With Chloramphenicol. This File Contains The 30s Subunit
Of One 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3OHC|H Chain H, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 30s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHD|H Chain H, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 30s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHY|H Chain H, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI0|H Chain H, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI2|H Chain H, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI4|H Chain H, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|2XQD|H Chain H, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The 70s
Ribosome With A Gtp Analog
pdb|2XSY|H Chain H, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUY|H Chain H, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|3PYN|H Chain H, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 30s Subunit Of The First 70s Ribosome.
pdb|3PYQ|H Chain H, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 30s Subunit Of The Second 70s
Ribosome.
pdb|3PYS|H Chain H, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 30s Subunit Of The First 70s Ribosome.
pdb|3PYU|H Chain H, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 30s Subunit Of The Second 70s Ribosome.
pdb|2Y0U|H Chain H, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0W|H Chain H, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0Y|H Chain H, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y10|H Chain H, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|2Y12|H Chain H, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y14|H Chain H, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y16|H Chain H, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y18|H Chain H, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|3ZVO|H Chain H, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release Factor
3
pdb|3T1H|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Human Anti-Codon Stem Loop
(Hasl) Of Transfer Rna Lysine 3 (Trnalys3) Bound To An
Mrna With An Aaa-Codon In The A-Site And Paromomycin
pdb|3T1Y|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Human Anti-Codon Stem Loop
(Hasl) Of Transfer Rna Lysine 3 (Trnalys3) Bound To An
Mrna With An Aag-Codon In The A-Site And Paromomycin
pdb|3UXS|H Chain H, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UXT|H Chain H, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.'
pdb|3TVF|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3TVG|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3UYD|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UYF|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UZ3|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin.
pdb|3UZ4|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin.
pdb|3UZ6|K Chain K, Structure Analysis Of Ribosomal Decoding. This Entry
Contains The 30s Ribosomal Subunit Of The First 70s
Molecule In The Asymmetric Unit For The Cognate Trna-Tyr
Complex
pdb|3UZ7|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZG|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex
pdb|3UZI|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex
pdb|3UZL|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex With Paromomycin
pdb|3UZM|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-cognate
Trna-tyr Complex With Paromomycin
pdb|4ABR|H Chain H, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
pdb|4DH9|H Chain H, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|4DHB|H Chain H, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|3V22|H Chain H, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Rmf Of The 1st Ribosome In The Asu
pdb|3V24|H Chain H, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Rmf Of The 2nd Ribosome In The Asu
pdb|3V26|H Chain H, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Hpf Of The 1st Ribosome In The Asu
pdb|3V28|H Chain H, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Hpf Of The 2nd Ribosome In The Asu
pdb|3V2C|H Chain H, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Yfia Of The 1st Ribosome In The Asu
pdb|3V2E|H Chain H, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Yfia Of The 2nd Ribosome In The Asu
pdb|4AQY|H Chain H, Structure Of Ribosome-Apramycin Complexes
pdb|4DR1|H Chain H, Crystal Structure Of The Apo 30s Ribosomal Subunit From
Thermus Thermophilus (hb8)
pdb|4DR2|H Chain H, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Multiple Copies Of Paromomycin
Molecules Bound
pdb|4DR3|H Chain H, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Streptomycin Bound
pdb|4DR4|H Chain H, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Cognate Transfer Rna
Anticodon Stem-loop And Multiple Copies Of Paromomycin
Molecules Bound
pdb|4DR5|H Chain H, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Crystallographically
Disordered Cognate Transfer Rna Anticodon Stem-loop And
Streptomycin Bound
pdb|4DR6|H Chain H, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Near-cognate Transfer Rna
Anticodon Stem-loop Mismatched At The First Codon
Position And Streptomycin Bound
pdb|4DR7|H Chain H, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Crystallographically
Disordered Near-cognate Transfer Rna Anticodon Stem-loop
Mismatched At The Second Codon Position, And
Streptomycin Bound
pdb|4G5K|K Chain K, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 30s Subunit Of Molecule A.
pdb|4G5M|K Chain K, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 30s Subunit Of Molecule B.
pdb|4G5T|K Chain K, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 30s Subunit Of Molecule A.
pdb|4G5V|K Chain K, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 30s Subunit Of Molecule B.
pdb|4DUY|H Chain H, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U13c
pdb|4DUZ|H Chain H, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U13c, Bound
With Streptomycin
pdb|4DV0|H Chain H, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U20g
pdb|4DV1|H Chain H, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U20g, Bound
With Streptomycin
pdb|4DV2|H Chain H, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, C912a
pdb|4DV3|H Chain H, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, C912a, Bound
With Streptomycin
pdb|4DV4|H Chain H, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A914g
pdb|4DV5|H Chain H, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A914g, Bound
With Streptomycin
pdb|4DV6|H Chain H, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A915g
pdb|4DV7|H Chain H, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A915g, Bound
With Streptomycin
Length = 138
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 10/55 (18%)
Query: 241 EKAVEMFHRYDIDGR--LLTVNKAAPRGTQPERAP--------RVFEPGFRIYVG 285
E ++ + R D+DG+ L K PR P+ P R+ +PG R+YVG
Sbjct: 42 EGFIKGYERVDVDGKPYLRVYLKYGPRRQGPDPRPEQVIHHIRRISKPGRRVYVG 96
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.133 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,523,949
Number of Sequences: 62578
Number of extensions: 293343
Number of successful extensions: 1132
Number of sequences better than 100.0: 181
Number of HSP's better than 100.0 without gapping: 140
Number of HSP's successfully gapped in prelim test: 41
Number of HSP's that attempted gapping in prelim test: 719
Number of HSP's gapped (non-prelim): 374
length of query: 365
length of database: 14,973,337
effective HSP length: 100
effective length of query: 265
effective length of database: 8,715,537
effective search space: 2309617305
effective search space used: 2309617305
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)