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= 015040
(414 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 = 156 bits (394), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 75/181 (41%), Positives = 114/181 (62%), Gaps = 19/181 (10%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
K+FIGG+ WDTTE LR+YF ++G V+ + IM+D TGR RGFGF+ F PS +D+V++
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 67 KHTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGFR 126
+H +DG+ ++ KRA+ R+EQ KT KIFVGG+ P + F
Sbjct: 65 QHILDGKVIDPKRAIPRDEQD-------------------KTGKIFVGGIGPDVRPKEFE 105
Query: 127 QYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVFHELNGKLVEVKRALP 186
++F +G + D +M D++T + RGFGF+T+++ DAVD V Q F + + +E+KRA P
Sbjct: 106 EFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIKRAEP 165
Query: 187 K 187
+
Sbjct: 166 R 166
Score = 80.5 bits (197), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 40/79 (50%), Positives = 55/79 (69%), Gaps = 1/79 (1%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
K+F+GGL TED R+YF YG VTD+ +M D T R RGFGF++FE +VD V+ K
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVV-K 63
Query: 170 VFHELNGKLVEVKRALPKD 188
H L+GK+++ KRA+P+D
Sbjct: 64 TQHILDGKVIDPKRAIPRD 82
Score = 58.5 bits (140), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 6 GKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQ 65
GK+F+GGI D ++F+++G + +M DK TG+ RGFGFV + +D+V Q
Sbjct: 88 GKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ 147
Query: 66 DKHT-IDGRPVEAKRALSR 83
+K R +E KRA R
Sbjct: 148 NKFIDFKDRKIEIKRAEPR 166
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 140 bits (354), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 70/182 (38%), Positives = 108/182 (59%), Gaps = 14/182 (7%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
KLFIGG++++TT+ +LR +F ++G ++ V+MRD T R RGFGFV ++ +D +
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 67 K-HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGF 125
+ H +DGR VE KRA+SRE+ + KKIFVGG+ E
Sbjct: 76 RPHKVDGRVVEPKRAVSREDSQRPGA-------------HLTVKKIFVGGIKEDTEEHHL 122
Query: 126 RQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVFHELNGKLVEVKRAL 185
R YFE YG + + +M D+ + + RGF F+TF+ D+VD ++ + +H +NG EV++AL
Sbjct: 123 RDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKAL 182
Query: 186 PK 187
K
Sbjct: 183 SK 184
Score = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 56/80 (70%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+K+F+GGL T++ R +FE +G +TD VVM D NT+R RGFGF+T+ T + VD +
Sbjct: 15 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 74
Query: 169 KVFHELNGKLVEVKRALPKD 188
H+++G++VE KRA+ ++
Sbjct: 75 ARPHKVDGRVVEPKRAVSRE 94
Score = 79.0 bits (193), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 36/80 (45%), Positives = 54/80 (67%), Gaps = 1/80 (1%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQ-VLQ 65
K+F+GGI DT E LRDYF ++G + + IM D+ +G+ RGF FV F D +D+ V+Q
Sbjct: 107 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 166
Query: 66 DKHTIDGRPVEAKRALSREE 85
HT++G E ++ALS++E
Sbjct: 167 KYHTVNGHNCEVRKALSKQE 186
>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 = 140 bits (353), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 70/182 (38%), Positives = 108/182 (59%), Gaps = 14/182 (7%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
KLFIGG++++TT+ +LR +F ++G ++ V+MRD T R RGFGFV ++ +D +
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 67 K-HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGF 125
+ H +DGR VE KRA+SRE+ + KKIFVGG+ E
Sbjct: 74 RPHKVDGRVVEPKRAVSREDSQRPGA-------------HLTVKKIFVGGIKEDTEEHHL 120
Query: 126 RQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVFHELNGKLVEVKRAL 185
R YFE YG + + +M D+ + + RGF F+TF+ D+VD ++ + +H +NG EV++AL
Sbjct: 121 RDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKAL 180
Query: 186 PK 187
K
Sbjct: 181 SK 182
Score = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 56/80 (70%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+K+F+GGL T++ R +FE +G +TD VVM D NT+R RGFGF+T+ T + VD +
Sbjct: 13 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 72
Query: 169 KVFHELNGKLVEVKRALPKD 188
H+++G++VE KRA+ ++
Sbjct: 73 ARPHKVDGRVVEPKRAVSRE 92
Score = 79.0 bits (193), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 36/80 (45%), Positives = 54/80 (67%), Gaps = 1/80 (1%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQ-VLQ 65
K+F+GGI DT E LRDYF ++G + + IM D+ +G+ RGF FV F D +D+ V+Q
Sbjct: 105 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 164
Query: 66 DKHTIDGRPVEAKRALSREE 85
HT++G E ++ALS++E
Sbjct: 165 KYHTVNGHNCEVRKALSKQE 184
>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 = 140 bits (353), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 70/182 (38%), Positives = 108/182 (59%), Gaps = 14/182 (7%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
KLFIGG++++TT+ +LR +F ++G ++ V+MRD T R RGFGFV ++ +D +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 67 K-HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGF 125
+ H +DGR VE KRA+SRE+ + KKIFVGG+ E
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQRPGA-------------HLTVKKIFVGGIKEDTEEHHL 121
Query: 126 RQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVFHELNGKLVEVKRAL 185
R YFE YG + + +M D+ + + RGF F+TF+ D+VD ++ + +H +NG EV++AL
Sbjct: 122 RDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKAL 181
Query: 186 PK 187
K
Sbjct: 182 SK 183
Score = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 56/80 (70%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+K+F+GGL T++ R +FE +G +TD VVM D NT+R RGFGF+T+ T + VD +
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 169 KVFHELNGKLVEVKRALPKD 188
H+++G++VE KRA+ ++
Sbjct: 74 ARPHKVDGRVVEPKRAVSRE 93
Score = 79.0 bits (193), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 36/80 (45%), Positives = 54/80 (67%), Gaps = 1/80 (1%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQ-VLQ 65
K+F+GGI DT E LRDYF ++G + + IM D+ +G+ RGF FV F D +D+ V+Q
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 165
Query: 66 DKHTIDGRPVEAKRALSREE 85
HT++G E ++ALS++E
Sbjct: 166 KYHTVNGHNCEVRKALSKQE 185
>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 = 139 bits (350), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 70/182 (38%), Positives = 108/182 (59%), Gaps = 14/182 (7%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
KLFIGG++++TT+ +LR +F ++G ++ V+MRD T R RGFGFV ++ +D +
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 67 K-HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGF 125
+ H +DGR VE KRA+SRE+ + KKIFVGG+ E
Sbjct: 68 RPHKVDGRVVEPKRAVSREDSQRPGA-------------HLTVKKIFVGGIKEDTEEHHL 114
Query: 126 RQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVFHELNGKLVEVKRAL 185
R YFE YG + + +M D+ + + RGF F+TF+ D+VD ++ + +H +NG EV++AL
Sbjct: 115 RDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKAL 174
Query: 186 PK 187
K
Sbjct: 175 SK 176
Score = 79.3 bits (194), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 56/80 (70%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+K+F+GGL T++ R +FE +G +TD VVM D NT+R RGFGF+T+ T + VD +
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66
Query: 169 KVFHELNGKLVEVKRALPKD 188
H+++G++VE KRA+ ++
Sbjct: 67 ARPHKVDGRVVEPKRAVSRE 86
Score = 78.6 bits (192), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 36/80 (45%), Positives = 54/80 (67%), Gaps = 1/80 (1%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQ-VLQ 65
K+F+GGI DT E LRDYF ++G + + IM D+ +G+ RGF FV F D +D+ V+Q
Sbjct: 99 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 158
Query: 66 DKHTIDGRPVEAKRALSREE 85
HT++G E ++ALS++E
Sbjct: 159 KYHTVNGHNCEVRKALSKQE 178
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 139 bits (350), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 70/182 (38%), Positives = 108/182 (59%), Gaps = 14/182 (7%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
KLFIGG++++TT+ +LR +F ++G ++ V+MRD T R RGFGFV ++ +D +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 67 K-HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGF 125
+ H +DGR VE KRA+SRE+ + KKIFVGG+ E
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQRPGA-------------HLTVKKIFVGGIKEDTEEHHL 121
Query: 126 RQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVFHELNGKLVEVKRAL 185
R YFE YG + + +M D+ + + RGF F+TF+ D+VD ++ + +H +NG EV++AL
Sbjct: 122 RDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKAL 181
Query: 186 PK 187
K
Sbjct: 182 SK 183
Score = 79.3 bits (194), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 56/80 (70%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+K+F+GGL T++ R +FE +G +TD VVM D NT+R RGFGF+T+ T + VD +
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 169 KVFHELNGKLVEVKRALPKD 188
H+++G++VE KRA+ ++
Sbjct: 74 ARPHKVDGRVVEPKRAVSRE 93
Score = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 35/79 (44%), Positives = 53/79 (67%), Gaps = 1/79 (1%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQ-VLQ 65
K+F+GGI DT E LRDYF ++G + + IM D+ +G+ RGF FV F D +D+ V+Q
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 165
Query: 66 DKHTIDGRPVEAKRALSRE 84
HT++G E ++ALS++
Sbjct: 166 KYHTVNGHNCEVRKALSKQ 184
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 139 bits (349), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 70/182 (38%), Positives = 108/182 (59%), Gaps = 14/182 (7%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
KLFIGG++++TT+ +LR +F ++G ++ V+MRD T R RGFGFV ++ +D +
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 67 K-HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGF 125
+ H +DGR VE KRA+SRE+ + KKIFVGG+ E
Sbjct: 73 RPHKVDGRVVEPKRAVSREDSQRPGA-------------HLTVKKIFVGGIKEDTEEHHL 119
Query: 126 RQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVFHELNGKLVEVKRAL 185
R YFE YG + + +M D+ + + RGF F+TF+ D+VD ++ + +H +NG EV++AL
Sbjct: 120 RDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKAL 179
Query: 186 PK 187
K
Sbjct: 180 SK 181
Score = 79.0 bits (193), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 56/80 (70%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+K+F+GGL T++ R +FE +G +TD VVM D NT+R RGFGF+T+ T + VD +
Sbjct: 12 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 71
Query: 169 KVFHELNGKLVEVKRALPKD 188
H+++G++VE KRA+ ++
Sbjct: 72 ARPHKVDGRVVEPKRAVSRE 91
Score = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 35/79 (44%), Positives = 53/79 (67%), Gaps = 1/79 (1%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQ-VLQ 65
K+F+GGI DT E LRDYF ++G + + IM D+ +G+ RGF FV F D +D+ V+Q
Sbjct: 104 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 163
Query: 66 DKHTIDGRPVEAKRALSRE 84
HT++G E ++ALS++
Sbjct: 164 KYHTVNGHNCEVRKALSKQ 182
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 45/79 (56%), Positives = 57/79 (72%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
KIFVGG+P E R+YF+ +G VT+VV++YD QRPRGFGFITFE E +VD +
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 170 VFHELNGKLVEVKRALPKD 188
FH++ GK VEVKRA P+D
Sbjct: 72 HFHDIMGKKVEVKRAEPRD 90
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 36/81 (44%), Positives = 51/81 (62%), Gaps = 1/81 (1%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
K+F+GGI + E LR+YF +FG V++VV++ D RPRGFGF+ F D +DQ +
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 67 K-HTIDGRPVEAKRALSREEQ 86
H I G+ VE KRA R+ +
Sbjct: 72 HFHDIMGKKVEVKRAEPRDSK 92
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 89.7 bits (221), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 42/82 (51%), Positives = 57/82 (69%), Gaps = 1/82 (1%)
Query: 6 GKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQ 65
GKLF+GG+ W TT+ TLR YF+++G+V VIM+DKTT + RGFGFV F DP+ + VL
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLA 76
Query: 66 DK-HTIDGRPVEAKRALSREEQ 86
+ HT+DGR ++ K R Q
Sbjct: 77 SRPHTLDGRNIDPKPCTPRGMQ 98
Score = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 47/78 (60%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
K+FVGGL + T++ R YF YG V D V+M D+ T + RGFGF+ F+ + V VL
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 170 VFHELNGKLVEVKRALPK 187
H L+G+ ++ K P+
Sbjct: 78 RPHTLDGRNIDPKPCTPR 95
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 40/80 (50%), Positives = 60/80 (75%), Gaps = 1/80 (1%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
KLFIGG++++TTE +LR+Y+ ++G ++ V+MRD + R RGFGFV FS + +D +
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Query: 67 K-HTIDGRPVEAKRALSREE 85
+ H+IDGR VE KRA++REE
Sbjct: 89 RPHSIDGRVVEPKRAVAREE 108
Score = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 34/80 (42%), Positives = 53/80 (66%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+K+F+GGL TE+ R Y+E +G +TD VVM D ++R RGFGF+TF + VD +
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA 87
Query: 169 KVFHELNGKLVEVKRALPKD 188
H ++G++VE KRA+ ++
Sbjct: 88 ARPHSIDGRVVEPKRAVARE 107
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 86.3 bits (212), Expect = 3e-17, Method: Composition-based stats.
Identities = 38/74 (51%), Positives = 52/74 (70%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
IFVGGL T + + YFE +G V D ++M+D+ T R RGFGF+TFE+ED V+ V +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 171 FHELNGKLVEVKRA 184
FHE+N K+VE K+A
Sbjct: 62 FHEINNKMVECKKA 75
Score = 63.9 bits (154), Expect = 2e-10, Method: Composition-based stats.
Identities = 30/74 (40%), Positives = 48/74 (64%), Gaps = 1/74 (1%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
+F+GG++ +TT ++ YF +FG V ++M DKTT R RGFGFV F ++++V +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 68 -HTIDGRPVEAKRA 80
H I+ + VE K+A
Sbjct: 62 FHEINNKMVECKKA 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 = 85.9 bits (211), Expect = 4e-17, Method: Composition-based stats.
Identities = 39/80 (48%), Positives = 58/80 (72%), Gaps = 1/80 (1%)
Query: 2 ESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLD 61
E D GK F+GG++WDT++ L+DYFT+FG+V I D TGR RGFGF++F D + ++
Sbjct: 8 EEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVE 67
Query: 62 QVL-QDKHTIDGRPVEAKRA 80
+VL Q +H +DGR ++ K+A
Sbjct: 68 KVLDQKEHRLDGRVIDPKKA 87
Score = 61.2 bits (147), Expect = 1e-09, Method: Composition-based stats.
Identities = 30/75 (40%), Positives = 45/75 (60%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
K FVGGL ++ + YF +G V D + D NT R RGFGFI F+ +V+ VL +
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 170 VFHELNGKLVEVKRA 184
H L+G++++ K+A
Sbjct: 73 KEHRLDGRVIDPKKA 87
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 84.7 bits (208), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 40/87 (45%), Positives = 58/87 (66%), Gaps = 1/87 (1%)
Query: 1 MESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVL 60
M S K+FIGG++W TT+ LR+YF +FG+V + ++MRD T R RGFGFV F D + +
Sbjct: 21 MGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGV 80
Query: 61 DQVL-QDKHTIDGRPVEAKRALSREEQ 86
D+VL Q +H +D + ++ K A R Q
Sbjct: 81 DKVLAQSRHELDSKTIDPKVAFPRRAQ 107
Score = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 35/78 (44%), Positives = 51/78 (65%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
K+F+GGL T++G R+YF +G V + +VM D T+R RGFGF+TF + VD VL +
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
Query: 170 VFHELNGKLVEVKRALPK 187
HEL+ K ++ K A P+
Sbjct: 87 SRHELDSKTIDPKVAFPR 104
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 36/76 (47%), Positives = 54/76 (71%), Gaps = 1/76 (1%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL-Q 65
K+FIGG++W TT+ LR+YF +FG+V + ++MRD T R RGFGFV F D + +D+VL Q
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 66 DKHTIDGRPVEAKRAL 81
+H +D + ++ K A
Sbjct: 62 SRHELDSKTIDPKVAF 77
Score = 72.0 bits (175), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 34/76 (44%), Positives = 49/76 (64%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
K+F+GGL T++G R+YF +G V + +VM D T+R RGFGF+TF + VD VL +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 170 VFHELNGKLVEVKRAL 185
HEL+ K ++ K A
Sbjct: 62 SRHELDSKTIDPKVAF 77
>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 = 78.6 bits (192), Expect = 6e-15, Method: Composition-based stats.
Identities = 34/74 (45%), Positives = 54/74 (72%), Gaps = 1/74 (1%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL-QD 66
+FIGG++WDTT+ L+DYF++FG+V + D TGR RGFGFV+F + +D+V+ Q
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 67 KHTIDGRPVEAKRA 80
+H ++G+ ++ KRA
Sbjct: 62 EHKLNGKVIDPKRA 75
Score = 65.5 bits (158), Expect = 5e-11, Method: Composition-based stats.
Identities = 30/74 (40%), Positives = 46/74 (62%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+F+GGL T+ + YF +G V D + D T R RGFGF+ F+ ++VD V+ +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 171 FHELNGKLVEVKRA 184
H+LNGK+++ KRA
Sbjct: 62 EHKLNGKVIDPKRA 75
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 74.7 bits (182), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 34/82 (41%), Positives = 55/82 (67%), Gaps = 2/82 (2%)
Query: 1 MESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFS--DPS 58
M SDEGKLF+GG+++DT E +L F+++G +S+VV+++D+ T R RGFGFV F D +
Sbjct: 8 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDA 67
Query: 59 VLDQVLQDKHTIDGRPVEAKRA 80
+ + ++DGR + +A
Sbjct: 68 KDAMMAMNGKSVDGRQIRVDQA 89
Score = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 32/76 (42%), Positives = 47/76 (61%), Gaps = 1/76 (1%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDNVLQ 168
K+FVGGL E Q F YG +++VVV+ D+ TQR RGFGF+TFE +DA D ++
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 169 KVFHELNGKLVEVKRA 184
++G+ + V +A
Sbjct: 74 MNGKSVDGRQIRVDQA 89
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 71.2 bits (173), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 42/160 (26%), Positives = 72/160 (45%), Gaps = 21/160 (13%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + + + T+ + F GD+ ++RDK TG+ G+GFV +SDP+ D+ +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI--- 63
Query: 68 HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGFRQ 127
+T++G ++ K + ++V GLP T+++ Q
Sbjct: 64 NTLNGLKLQTK--------------TIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQ 109
Query: 128 YFENYGHVTDVVVMYDQNTQRPRGFGFITF----ETEDAV 163
F YG + ++ DQ T RG GFI F E E+A+
Sbjct: 110 LFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 149
Score = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+ V LP +T+D F+ F + G + ++ D+ T + G+GF+ + + D K
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDAD----KA 62
Query: 171 FHELNGKLVEVK 182
+ LNG ++ K
Sbjct: 63 INTLNGLKLQTK 74
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 27/50 (54%)
Query: 5 EGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
+ L++ G+ ++ + F+++G + I+ D+ TG RG GF+ F
Sbjct: 90 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRF 139
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 67.8 bits (164), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 48/79 (60%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + G+ W TTE L++YF+ FG+V V + +D TG +GFGFV F++ +V+ +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR 77
Query: 68 HTIDGRPVEAKRALSREEQ 86
H IDGR + K S++ Q
Sbjct: 78 HMIDGRWCDCKLPNSKQSQ 96
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 40/77 (51%), Gaps = 3/77 (3%)
Query: 107 KTKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITF-ETEDAVDN 165
KT + V GLP TE ++YF +G V V V D T +GFGF+ F E E V
Sbjct: 14 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKV 73
Query: 166 VLQKVFHELNGKLVEVK 182
+ Q+ H ++G+ + K
Sbjct: 74 MSQR--HMIDGRWCDCK 88
>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 = 67.4 bits (163), Expect = 2e-11, Method: Composition-based stats.
Identities = 31/77 (40%), Positives = 46/77 (59%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
KKIFVGGL P E+ R+YF +G V + + D T + RGF FITF+ E+ V +++
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
Query: 169 KVFHELNGKLVEVKRAL 185
K +H + E+K A+
Sbjct: 62 KKYHNVGLSKCEIKVAM 78
Score = 54.7 bits (130), Expect = 1e-07, Method: Composition-based stats.
Identities = 26/77 (33%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
K+F+GG++ DT E +R+YF FG+V + + D T + RGF F+ F + + ++++
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
Query: 67 K-HTIDGRPVEAKRALS 82
K H + E K A+S
Sbjct: 63 KYHNVGLSKCEIKVAMS 79
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 47/68 (69%), Gaps = 1/68 (1%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
K+F+GG+ + TT+ +LR YF FGD+ + V++ D+ TG+ RG+GFV +D + ++ +D
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 67 KH-TIDGR 73
+ IDGR
Sbjct: 79 PNPIIDGR 86
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 42/75 (56%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
KIFVGGLP T+ R+YFE +G + + VV+ D+ T + RG+GF+T A + +
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 170 VFHELNGKLVEVKRA 184
++G+ V A
Sbjct: 79 PNPIIDGRKANVNLA 93
>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 = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 41/160 (25%), Positives = 70/160 (43%), Gaps = 21/160 (13%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + + + T+ R F G++ ++RDK TG+ G+GFV + DP ++ +
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI--- 61
Query: 68 HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGFRQ 127
+T++G ++ K + ++V GLP T+T+ Q
Sbjct: 62 NTLNGLRLQTK--------------TIKVSYARPSSASIRDANLYVSGLPKTMTQKELEQ 107
Query: 128 YFENYGHVTDVVVMYDQNTQRPRGFGFITF----ETEDAV 163
F YG + ++ DQ T RG GFI F E E+A+
Sbjct: 108 LFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAI 147
Score = 35.4 bits (80), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 6/68 (8%)
Query: 5 EGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
+ L++ G+ T+ L F+++G + I+ D+ TG RG GF+ F D+ +
Sbjct: 88 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRF------DKRI 141
Query: 65 QDKHTIDG 72
+ + I G
Sbjct: 142 EAEEAIKG 149
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 62.4 bits (150), Expect = 5e-10, Method: Composition-based stats.
Identities = 29/74 (39%), Positives = 43/74 (58%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
IFVGGL P E+ R+YF +G V + + D T + RGF FITF+ E+ V +++K
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 171 FHELNGKLVEVKRA 184
+H + E+K A
Sbjct: 62 YHNVGLSKCEIKVA 75
Score = 50.4 bits (119), Expect = 2e-06, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 38/61 (62%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
+F+GG++ DT E +R+YF FG+V + + D T + RGF F+ F + + ++++ K
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 68 H 68
+
Sbjct: 62 Y 62
>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 = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 68/160 (42%), Gaps = 21/160 (13%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + + + T+ LR F+ G+V ++RDK G G+GFV + ++ +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI--- 61
Query: 68 HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGFRQ 127
+T++G +++K K +++ GLP T+T+
Sbjct: 62 NTLNGLRLQSK--------------TIKVSYARPSSEVIKDANLYISGLPRTMTQKDVED 107
Query: 128 YFENYGHVTDVVVMYDQNTQRPRGFGFITF----ETEDAV 163
F +G + + V+ DQ T RG FI F E E+A+
Sbjct: 108 MFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%)
Query: 5 EGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
+ L+I G+ T+ + D F+RFG + ++ D+TTG RG F+ F S ++ +
Sbjct: 88 DANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 68/160 (42%), Gaps = 21/160 (13%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + + + T+ LR F+ G+V ++RDK G G+GFV + ++ +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI--- 61
Query: 68 HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGFRQ 127
+T++G +++K K +++ GLP T+T+
Sbjct: 62 NTLNGLRLQSK--------------TIKVSYARPSSEVIKDANLYISGLPRTMTQKDVED 107
Query: 128 YFENYGHVTDVVVMYDQNTQRPRGFGFITF----ETEDAV 163
F +G + + V+ DQ T RG FI F E E+A+
Sbjct: 108 MFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%)
Query: 5 EGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
+ L+I G+ T+ + D F+RFG + ++ D+TTG RG F+ F S ++ +
Sbjct: 88 DANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
>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 = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 39/182 (21%), Positives = 80/182 (43%), Gaps = 11/182 (6%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
++++G I ++ E T+R F FG + + + D T + +GF FV + P L+
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 89
Query: 67 KHTI--DGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDG 124
+++ GR ++ R + + +I+V + L++D
Sbjct: 90 MNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF--------NRIYVASVHQDLSDDD 141
Query: 125 FRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDNVLQKVFHELNGKLVEVKR 183
+ FE +G + + D T + +G+GFI +E + + D V +L G+ + V +
Sbjct: 142 IKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGK 201
Query: 184 AL 185
A+
Sbjct: 202 AV 203
>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 = 58.9 bits (141), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 41/188 (21%), Positives = 79/188 (42%), Gaps = 23/188 (12%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
++++G I ++ E T+R F FG + + D T + +GF FV + P L+
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 67 KHTID--------GRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPP 118
+++ GRP +A +Q +I+V +
Sbjct: 74 XNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF--------------NRIYVASVHQ 119
Query: 119 TLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDNVLQKVFHELNGK 177
L++D + FE +G + + D T + +G+GFI +E + + D V +L G+
Sbjct: 120 DLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQ 179
Query: 178 LVEVKRAL 185
+ V +A+
Sbjct: 180 YLRVGKAV 187
>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 = 58.2 bits (139), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 41/182 (22%), Positives = 78/182 (42%), Gaps = 25/182 (13%)
Query: 6 GKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQ 65
L++G + D TE L + F+ G + + + RD T R G+ +V F P+ ++ L
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 75
Query: 66 DKH--TIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTED 123
+ I G+PV R + + IF+ L ++
Sbjct: 76 TMNFDVIKGKPV---RIMWSQRDPSLRKSG--------------VGNIFIKNLDKSIDNK 118
Query: 124 GFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVFHELNGKLVEVKR 183
F +G++ V+ D+N + G+GF+ FET++A + ++K +NG L+ ++
Sbjct: 119 ALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEK----MNGMLLNDRK 172
Query: 184 AL 185
Sbjct: 173 VF 174
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 41/88 (46%), Gaps = 4/88 (4%)
Query: 2 ESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLD 61
+S G +FI + L D F+ FG++ ++ D+ +G+GFV F +
Sbjct: 100 KSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS--KGYGFVHFETQEAAE 157
Query: 62 QVLQDKH--TIDGRPVEAKRALSREEQH 87
+ ++ + ++ R V R SR+E+
Sbjct: 158 RAIEKMNGMLLNDRKVFVGRFKSRKERE 185
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 41/188 (21%), Positives = 80/188 (42%), Gaps = 23/188 (12%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
++++G I ++ E T+R F FG + + + D T + +GF FV + P L+
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 67 KHTID--------GRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPP 118
+++ GRP +A +Q +I+V +
Sbjct: 75 MNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF--------------NRIYVASVHQ 120
Query: 119 TLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDNVLQKVFHELNGK 177
L++D + FE +G + + D T + +G+GFI +E + + D V +L G+
Sbjct: 121 DLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQ 180
Query: 178 LVEVKRAL 185
+ V +A+
Sbjct: 181 YLRVGKAV 188
>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 = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 41/176 (23%), Positives = 76/176 (43%), Gaps = 25/176 (14%)
Query: 6 GKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQ 65
L++G + D TE L + F+ G + + + RD T R G+ +V F P+ ++ L
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 70
Query: 66 DKH--TIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTED 123
+ I G+PV R + + IF+ L ++
Sbjct: 71 TMNFDVIKGKPV---RIMWSQRDPSLRKSG--------------VGNIFIKNLDKSIDNK 113
Query: 124 GFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVFHELNGKLV 179
F +G++ V+ D+N + G+GF+ FET++A + ++K +NG L+
Sbjct: 114 ALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEK----MNGMLL 163
Score = 35.0 bits (79), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 1/72 (1%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
++VG L P +TE + F G + + V D T+R G+ ++ F+ + L +
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 171 -FHELNGKLVEV 181
F + GK V +
Sbjct: 73 NFDVIKGKPVRI 84
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 39/84 (46%), Gaps = 4/84 (4%)
Query: 6 GKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQ 65
G +FI + L D F+ FG++ ++ D+ +G+GFV F ++ ++
Sbjct: 99 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS--KGYGFVHFETQEAAERAIE 156
Query: 66 DKH--TIDGRPVEAKRALSREEQH 87
+ ++ R V R SR+E+
Sbjct: 157 KMNGMLLNDRKVFVGRFKSRKERE 180
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQ-- 65
L++G + ++ TE LR F FG + +V+M+D TGR +G+GF+ FSD + L+
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 66 DKHTIDGRPVEAKRALSR 83
+ + GRP+ R
Sbjct: 68 NGFELAGRPMRVGHVTER 85
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%), Gaps = 1/72 (1%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
++VG L +TED R FE +G + ++V+M D +T R +G+GFITF + L+++
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 171 -FHELNGKLVEV 181
EL G+ + V
Sbjct: 68 NGFELAGRPMRV 79
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
+L++G + ++ TE LR F FG + + +M D TGR +G+GF+ FSD + L+
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 67 KH--TIDGRPVEAKRALSR 83
+ + GRP++ R
Sbjct: 88 LNGFELAGRPMKVGHVTER 106
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
+++VG L +TED R FE +G + + +M D T R +G+GFITF + L++
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 170 VF-HELNGKLVEV 181
+ EL G+ ++V
Sbjct: 88 LNGFELAGRPMKV 100
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 43/181 (23%), Positives = 79/181 (43%), Gaps = 23/181 (12%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L++G + TE L+ YF G ++ + IM DK + + FV + + LQ
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNN-KNVNYAFVEYHQSHDANIALQ-- 59
Query: 68 HTIDGRPVE---AKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDG 124
T++G+ +E K + + Q T +FVG L + ++
Sbjct: 60 -TLNGKQIENNIVKINWAFQSQQSSSD---------------DTFNLFVGDLNVNVDDET 103
Query: 125 FRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVF-HELNGKLVEVKR 183
R F+++ VM+D T RG+GF++F ++D N + + +LNG+ + +
Sbjct: 104 LRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINW 163
Query: 184 A 184
A
Sbjct: 164 A 164
Score = 37.0 bits (84), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 35/79 (44%), Gaps = 2/79 (2%)
Query: 4 DEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQV 63
D LF+G + + + TLR+ F F +M D TG RG+GFV F+
Sbjct: 86 DTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNA 145
Query: 64 LQDK--HTIDGRPVEAKRA 80
+ ++GRP+ A
Sbjct: 146 MDSMQGQDLNGRPLRINWA 164
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 41/178 (23%), Positives = 79/178 (44%), Gaps = 27/178 (15%)
Query: 3 SDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRP--RGFGFVVF-SDPSV 59
SD K+F+G + +E LR+ F ++G V ++ ++RD++ P +G FV F + +
Sbjct: 1 SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAA 60
Query: 60 LD--QVLQDKHTIDG--RPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGG 115
L+ L + + G P++ K A S + + +K+F+G
Sbjct: 61 LEAQNALHNMKVLPGMHHPIQMKPADSEKNN------------------AVEDRKLFIGM 102
Query: 116 LPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVFHE 173
+ TE+ R F ++G + + ++ + RG F+TF T + K H+
Sbjct: 103 ISKKCTENDIRVMFSSFGQIEECRILRGPDG-LSRGCAFVTFTTRAMAQTAI-KAMHQ 158
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 113 VGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVF- 171
V GL TE R+ F YG + DV ++YDQ ++R RGF F+ FE D ++
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Query: 172 HELNGKLVEVKRALPK 187
EL+G+ + V ++ K
Sbjct: 80 MELDGRRIRVDFSITK 95
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 42/72 (58%), Gaps = 3/72 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + G++ TTE LR+ F+++G ++ V I+ D+ + R RGF FV F + +D + K
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN---VDDAKEAK 74
Query: 68 HTIDGRPVEAKR 79
+G ++ +R
Sbjct: 75 ERANGMELDGRR 86
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 41/167 (24%), Positives = 67/167 (40%), Gaps = 24/167 (14%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + + D T+ L F G ++ IMRD TG G+ FV F+ + ++
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 68 HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGFRQ 127
+ I R K + +R K ++V LP T+T+D
Sbjct: 66 NGITVRNKRLKVSYARPGGES-----------------IKDTNLYVTNLPRTITDDQLDT 108
Query: 128 YFENYGHVTDVVVMYDQNTQRPRGFGFITF-------ETEDAVDNVL 167
F YG + ++ D+ T RPRG F+ + E A++NV+
Sbjct: 109 IFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVI 155
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 113 VGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVF- 171
V GL TE R+ F YG + DV ++YDQ ++R RGF F+ FE D ++
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Query: 172 HELNGKLVEV 181
EL+G+ + V
Sbjct: 80 MELDGRRIRV 89
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 42/72 (58%), Gaps = 3/72 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + G++ TTE LR+ F+++G ++ V I+ D+ + R RGF FV F + +D + K
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN---VDDAKEAK 74
Query: 68 HTIDGRPVEAKR 79
+G ++ +R
Sbjct: 75 ERANGMELDGRR 86
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 113 VGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVF- 171
V GL TE R+ F YG + DV ++YDQ ++R RGF F+ FE D ++
Sbjct: 51 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 110
Query: 172 HELNGKLVEVKRALPK 187
EL+G+ + V ++ K
Sbjct: 111 MELDGRRIRVDFSITK 126
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 42/72 (58%), Gaps = 3/72 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + G++ TTE LR+ F+++G ++ V I+ D+ + R RGF FV F + +D + K
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN---VDDAKEAK 105
Query: 68 HTIDGRPVEAKR 79
+G ++ +R
Sbjct: 106 ERANGMELDGRR 117
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 113 VGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVF- 171
V GL TE R+ F YG + DV ++YDQ ++R RGF F+ FE D ++
Sbjct: 17 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 76
Query: 172 HELNGKLVEVKRALPK 187
EL+G+ + V ++ K
Sbjct: 77 MELDGRRIRVDFSITK 92
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 42/72 (58%), Gaps = 3/72 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + G++ TTE LR+ F+++G ++ V I+ D+ + R RGF FV F + +D + K
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN---VDDAKEAK 71
Query: 68 HTIDGRPVEAKR 79
+G ++ +R
Sbjct: 72 ERANGMELDGRR 83
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 41/177 (23%), Positives = 79/177 (44%), Gaps = 27/177 (15%)
Query: 4 DEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRP--RGFGFVVF-SDPSVL 60
D K+F+G + +E LR+ F ++G V ++ ++RD++ P +G FV F + + L
Sbjct: 14 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAAL 73
Query: 61 D--QVLQDKHTIDG--RPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGL 116
+ L + + G P++ K A S + + +K+F+G +
Sbjct: 74 EAQNALHNMKVLPGMHHPIQMKPADSEKNN------------------AVEDRKLFIGMI 115
Query: 117 PPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVFHE 173
TE+ R F ++G + + ++ + RG F+TF T A+ K H+
Sbjct: 116 SKKCTENDIRVMFSSFGQIEECRILRGPDGLS-RGCAFVTFTTR-AMAQTAIKAMHQ 170
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 51.2 bits (121), Expect = 1e-06, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 54/83 (65%), Gaps = 4/83 (4%)
Query: 1 MESDE-GKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSV 59
+E+D GKLFIGG+ +T E L+ F + G +S+V++++D+T+ + RGF F+ F +P+
Sbjct: 2 VEADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTS-KSRGFAFITFENPAD 60
Query: 60 LDQVLQDKH--TIDGRPVEAKRA 80
+D + ++ G+ ++ ++A
Sbjct: 61 AKNAAKDMNGKSLHGKAIKVEQA 83
Score = 42.4 bits (98), Expect = 5e-04, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 44/76 (57%), Gaps = 2/76 (2%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
K+F+GGL E + F +G +++V+++ D+ T + RGF FITFE N +
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 170 VF-HELNGKLVEVKRA 184
+ L+GK ++V++A
Sbjct: 68 MNGKSLHGKAIKVEQA 83
>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 = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 39/173 (22%), Positives = 76/173 (43%), Gaps = 26/173 (15%)
Query: 3 SDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRP--RGFGFVVF-SDPSV 59
SD K F+G + +E LR+ F ++G V ++ ++RD++ P +G FV F + +
Sbjct: 1 SDAIKXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAA 60
Query: 60 LD--QVLQDKHTIDG--RPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGG 115
L+ L + + G P++ K A S + + +K+F+G
Sbjct: 61 LEAQNALHNXKVLPGXHHPIQXKPADSEKNN------------------AVEDRKLFIGX 102
Query: 116 LPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+ TE+ R F ++G + + ++ + RG F+TF T ++
Sbjct: 103 ISKKCTENDIRVXFSSFGQIEECRILRGPDGLS-RGCAFVTFTTRAXAQTAIK 154
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 45/79 (56%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+ I+VG L + T + ++ F +G V +V ++YD+ T++P+GFGF+ + E + + +
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAK 61
Query: 169 KVFHELNGKLVEVKRALPK 187
+ G+ + V A PK
Sbjct: 62 LDNTDFMGRTIRVTEANPK 80
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQ-D 66
+++G + + T +++ F++FG V V ++ D+ T +P+GFGFV + SV + + + D
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLD 63
Query: 67 KHTIDGRPVEAKRA 80
GR + A
Sbjct: 64 NTDFMGRTIRVTEA 77
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 48.9 bits (115), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 40/167 (23%), Positives = 66/167 (39%), Gaps = 24/167 (14%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + + D T+ L F G ++ I RD TG G+ FV F+ + ++
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 68 HTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGFRQ 127
+ I R K + +R K ++V LP T+T+D
Sbjct: 77 NGITVRNKRLKVSYARPGGES-----------------IKDTNLYVTNLPRTITDDQLDT 119
Query: 128 YFENYGHVTDVVVMYDQNTQRPRGFGFITF-------ETEDAVDNVL 167
F YG + ++ D+ T RPRG F+ + E A++NV+
Sbjct: 120 IFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVI 166
>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 = 48.5 bits (114), Expect = 7e-06, Method: Composition-based stats.
Identities = 25/77 (32%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 1 MESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDP-SV 59
ME+D +++G + + T L +F G V++V I+ DK +G P+GF ++ FSD SV
Sbjct: 1 MEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESV 60
Query: 60 LDQVLQDKHTIDGRPVE 76
+ D+ GR ++
Sbjct: 61 RTSLALDESLFRGRQIK 77
Score = 34.7 bits (78), Expect = 0.093, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 30/59 (50%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVL 167
+ I+VG + T + +F G V V ++ D+ + P+GF +I F +++V L
Sbjct: 6 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 64
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 40/164 (24%), Positives = 67/164 (40%), Gaps = 30/164 (18%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
+LF+G + D TE + F R+G+ S+V I RD RGFGF+ ++ +
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRLESRTLAEIA--- 74
Query: 67 KHTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGFR 126
K +DG ++++ R H + V L P ++ +
Sbjct: 75 KAELDGTILKSRPLRIRFATHGAA--------------------LTVKNLSPVVSNELLE 114
Query: 127 QYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
Q F +G V VV+ D + R G GF+ F + L++
Sbjct: 115 QAFSQFGPVEKAVVVVD-DRGRATGKGFVEFAAKPPARKALERC 157
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 6/55 (10%)
Query: 105 YFKTKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFET 159
Y + ++FVG LP +TE+ F++ FE YG ++V + D RGFGFI E+
Sbjct: 19 YTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRLES 67
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 48.1 bits (113), Expect = 8e-06, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
++V LP +LT + + F YG V V +M D++T++ +G FI F +D+ N + +
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 171 FH-ELNGKLVEVKRAL 185
+ +L G++++ A+
Sbjct: 79 NNKQLFGRVIKASIAI 94
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 29/49 (59%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSD 56
+++ + + T L F+++G V +V IM+DK T + +G F++F D
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLD 67
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 30/50 (60%), Gaps = 6/50 (12%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFET 159
++FVG LPP +TE+ R+ FE YG +V + D +GFGFI ET
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLET 67
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 39/165 (23%), Positives = 66/165 (40%), Gaps = 30/165 (18%)
Query: 6 GKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQ 65
+LF+G + D TE +R F ++G +V I +DK GFGF+ ++ +
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIA-- 74
Query: 66 DKHTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVGGLPPTLTEDGF 125
K +D P+ K+ R H + + V LP ++ +
Sbjct: 75 -KVELDNMPLRGKQLRVRFACH--------------------SASLTVRNLPQYVSNELL 113
Query: 126 RQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+ F +G V VV+ D + RP G G + F + A L +
Sbjct: 114 EEAFSVFGQVERAVVIVD-DRGRPSGKGIVEFSGKPAARKALDRC 157
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 37/66 (56%), Gaps = 3/66 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
+F+G I ++ TE L+D F+ G V ++ D+ TG+P+G+GF + D + L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQ---ETALSAM 67
Query: 68 HTIDGR 73
++GR
Sbjct: 68 RNLNGR 73
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 42/77 (54%), Gaps = 1/77 (1%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+ +FVG +P TE+ + F G V ++YD+ T +P+G+GF ++ ++ + ++
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68
Query: 169 KVF-HELNGKLVEVKRA 184
+ E +G+ + V A
Sbjct: 69 NLNGREFSGRALRVDNA 85
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+ + V +P T+ E RQ FE YG + V ++ D+ T++ RG+GF+ F++ + +
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIA 102
Query: 169 KV--FHELNGKL 178
+ F+ LN +L
Sbjct: 103 GLNGFNILNKRL 114
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 28/57 (49%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
L + I E LR F R+G + V I+ D+ T + RG+GFV F S Q +
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAI 101
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 41/74 (55%), Gaps = 3/74 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
LF+ + +DTTE LR F +G + ++ ++ K +G+PRG+ F+ + + K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAY--K 162
Query: 68 HTIDGRPVEAKRAL 81
H DG+ ++ +R L
Sbjct: 163 HA-DGKKIDGRRVL 175
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 40/77 (51%), Gaps = 4/77 (5%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
K +FV + TE R+ FE YG + + ++Y + + +PRG+ FI +E E +
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHE----RDMH 158
Query: 169 KVFHELNGKLVEVKRAL 185
+ +GK ++ +R L
Sbjct: 159 SAYKHADGKKIDGRRVL 175
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 41/74 (55%), Gaps = 3/74 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
LF+ + +DTTE LR F +G + ++ ++ K +G+PRG+ F+ + + K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAY--K 162
Query: 68 HTIDGRPVEAKRAL 81
H DG+ ++ +R L
Sbjct: 163 HA-DGKKIDGRRVL 175
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 40/77 (51%), Gaps = 4/77 (5%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
K +FV + TE R+ FE YG + + ++Y + + +PRG+ FI +E E +
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHE----RDMH 158
Query: 169 KVFHELNGKLVEVKRAL 185
+ +GK ++ +R L
Sbjct: 159 SAYKHADGKKIDGRRVL 175
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+FVG L P +T + + F +G ++D V+ D T + +G+GF++F + +N +Q++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 171 FHE-LNGKLVEVKRALPK 187
+ L G+ + A K
Sbjct: 78 GGQWLGGRQIRTNWATRK 95
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 29/47 (61%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
+F+G ++ + T ++ F FG +S +++D TG+ +G+GFV F
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSF 64
>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 = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 22/55 (40%), Positives = 32/55 (58%), Gaps = 6/55 (10%)
Query: 105 YFKTKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFET 159
+ + ++FVG LPP +TE+ R+ FE YG +V + D +GFGFI ET
Sbjct: 12 FTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLET 60
Score = 36.2 bits (82), Expect = 0.032, Method: Composition-based stats.
Identities = 23/85 (27%), Positives = 39/85 (45%), Gaps = 9/85 (10%)
Query: 3 SDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQ 62
+ +LF+G + D TE +R F ++G +V I +DK GFGF+ ++ +
Sbjct: 13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEI 66
Query: 63 VLQDKHTIDGRPVEAKRALSREEQH 87
K +D P+ K+ R H
Sbjct: 67 A---KVELDNMPLRGKQLRVRFACH 88
>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 = 45.4 bits (106), Expect = 5e-05, Method: Composition-based stats.
Identities = 24/76 (31%), Positives = 42/76 (55%), Gaps = 1/76 (1%)
Query: 2 ESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDP-SVL 60
E+D +++G + + T L +F G V++V I+ DK +G P+GF ++ FSD SV
Sbjct: 3 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 62
Query: 61 DQVLQDKHTIDGRPVE 76
+ D+ GR ++
Sbjct: 63 TSLALDESLFRGRQIK 78
Score = 34.3 bits (77), Expect = 0.14, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 30/59 (50%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVL 167
+ I+VG + T + +F G V V ++ D+ + P+GF +I F +++V L
Sbjct: 7 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 4/60 (6%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITF----ETEDAVDNV 166
++V GLP T+++ Q F YG + ++ DQ T RG GFI F E E+A+ +
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 34/68 (50%), Gaps = 6/68 (8%)
Query: 5 EGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
+ L++ G+ ++ + F+++G + I+ D+ TG RG GF+ F D+ +
Sbjct: 1 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRF------DKRI 54
Query: 65 QDKHTIDG 72
+ + I G
Sbjct: 55 EAEEAIKG 62
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 2/81 (2%)
Query: 108 TKKI-FVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDN 165
TK++ +VGGL + + F +G +TD+ + D T++ RGF F+ FE EDA
Sbjct: 11 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 70
Query: 166 VLQKVFHELNGKLVEVKRALP 186
+ EL G+ + V A P
Sbjct: 71 IDNMNESELFGRTIRVNLAKP 91
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 30/54 (55%)
Query: 1 MESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
M + + L++GG+A + + L F FGD++ + I D T + RGF FV F
Sbjct: 8 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 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 = 45.1 bits (105), Expect = 7e-05, Method: Composition-based stats.
Identities = 23/55 (41%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYD--QNTQRPRGFGFITFETEDA 162
K+FVG +P T +E R+ FE YG V ++ V+ D QN + +G F+TF T A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKA 59
Score = 37.4 bits (85), Expect = 0.014, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 3 SDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFG--FVVF 54
SD K+F+G + +E LR+ F ++G V ++ ++RD++ P+ G FV F
Sbjct: 1 SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 54
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
+F+GGI E +R +F R+G V +V I+ D+ TG +G+GFV F + + ++++ +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 68 HTIDGRPVEAKRALSRE 84
G+ ++ A+ ++
Sbjct: 72 INFHGKKLKLGPAIRKQ 88
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 44/77 (57%), Gaps = 2/77 (2%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+FVGG+ + E R +F YG V +V ++ D+ T +G+GF++F + V +++
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 171 FHELNGKLVEVKRALPK 187
+ +GK +++ A+ K
Sbjct: 72 IN-FHGKKLKLGPAIRK 87
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 48/85 (56%), Gaps = 6/85 (7%)
Query: 5 EGKL-----FIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSV 59
EGK+ F+GGI E +R +F R+G V +V I+ D+ TG +G+GFV F +
Sbjct: 4 EGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVD 62
Query: 60 LDQVLQDKHTIDGRPVEAKRALSRE 84
+ ++++ + G+ ++ A+ ++
Sbjct: 63 VQKIVESQINFHGKKLKLGPAIRKQ 87
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 34/58 (58%), Gaps = 1/58 (1%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+FVGG+ + E R +F YG V +V ++ D+ T +G+GF++F + V +++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 68
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 1/78 (1%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETE-DAVDNVLQK 169
+FVG L P +T + + F +G ++D V+ D T + +G+GF++F + DA + ++
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 170 VFHELNGKLVEVKRALPK 187
L G+ + A K
Sbjct: 78 GGQWLGGRQIRTNWATRK 95
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 29/47 (61%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
+F+G ++ + T ++ F FG +S +++D TG+ +G+GFV F
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSF 64
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
+F+GGI E +R +F R+G V +V I+ D+ TG +G+GFV F + + ++++ +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 68 HTIDGRPVEAKRALSRE 84
G+ ++ A+ ++
Sbjct: 71 INFHGKKLKLGPAIRKQ 87
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 44/77 (57%), Gaps = 2/77 (2%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+FVGG+ + E R +F YG V +V ++ D+ T +G+GF++F + V +++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 171 FHELNGKLVEVKRALPK 187
+ +GK +++ A+ K
Sbjct: 71 IN-FHGKKLKLGPAIRK 86
>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 = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 2 ESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLD 61
E D+ +++G + + +T L +F+ G ++++ I+ DK +G P+G+ ++ F++ + +D
Sbjct: 33 EIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVD 92
Query: 62 -QVLQDKHTIDGRPVE 76
V D+ GR ++
Sbjct: 93 AAVAMDETVFRGRTIK 108
Score = 33.5 bits (75), Expect = 0.20, Method: Composition-based stats.
Identities = 17/79 (21%), Positives = 38/79 (48%), Gaps = 3/79 (3%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+ ++VG + T +F + G + + ++ D+ + P+G+ +I F ++VD +
Sbjct: 37 RSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVA 96
Query: 169 KVFHELNGKLVEVKRALPK 187
G+ ++V LPK
Sbjct: 97 MDETVFRGRTIKV---LPK 112
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 32/51 (62%)
Query: 4 DEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
D + + ++ DT E L++ F FG +S++ + +DKTTG+ +GF F+ F
Sbjct: 14 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISF 64
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDNV 166
I V L E ++ F +G ++ + + D+ T + +GF FI+F EDA +
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Query: 121 TEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITF-ETEDAVDNVLQKVFHELNGKLV 179
+ D R+ FE YG V DV + + +T+ PRGF F+ F + DA D EL+G+ +
Sbjct: 26 SPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGREL 85
Query: 180 EVKRA 184
V+ A
Sbjct: 86 RVQVA 90
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSD 56
L + + + T+ +LR F ++G V V I R+ T PRGF FV F D
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHD 64
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 40/71 (56%), Gaps = 3/71 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + + + T+ + F GD+ ++RDK TG+ G+GFV +SDP+ D+ +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI--- 63
Query: 68 HTIDGRPVEAK 78
+T++G ++ K
Sbjct: 64 NTLNGLKLQTK 74
Score = 35.0 bits (79), Expect = 0.074, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 9/81 (11%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+ V LP +T+D F+ F + G + ++ D+ T + G+GF+ + + D K
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDAD----KA 62
Query: 171 FHELNG-----KLVEVKRALP 186
+ LNG K ++V A P
Sbjct: 63 INTLNGLKLQTKTIKVSYARP 83
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL--Q 65
L + + + T+ TLR F ++G V V I RD+ T RGF FV F D + +
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 66 DKHTIDGRPVEAKRA 80
D +DGR + + A
Sbjct: 133 DGAVLDGRELRVQMA 147
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 40/76 (52%), Gaps = 7/76 (9%)
Query: 113 VGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITF----ETEDAVDNVLQ 168
V L + D R+ FE YG V DV + D+ T+ RGF F+ F + EDA+D +
Sbjct: 75 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 134
Query: 169 KVFHELNGKLVEVKRA 184
V L+G+ + V+ A
Sbjct: 135 AV---LDGRELRVQMA 147
>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 = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL--Q 65
L + + + T+ TLR F ++G V V I RD+ T RGF FV F D + +
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 66 DKHTIDGRPVEAKRA 80
D +DGR + + A
Sbjct: 110 DGAVLDGRELRVQMA 124
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 38/68 (55%), Gaps = 7/68 (10%)
Query: 121 TEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITF----ETEDAVDNVLQKVFHELNG 176
+ D R+ FE YG V DV + D+ T+ RGF F+ F + EDA+D + V L+G
Sbjct: 60 SPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAV---LDG 116
Query: 177 KLVEVKRA 184
+ + V+ A
Sbjct: 117 RELRVQMA 124
>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 = 42.7 bits (99), Expect = 4e-04, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 2/79 (2%)
Query: 108 TKKI-FVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDN 165
TK++ +VGGL + + F +G +TD+ + D T++ RGF F+ FE EDA
Sbjct: 6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 65
Query: 166 VLQKVFHELNGKLVEVKRA 184
+ EL G+ + V A
Sbjct: 66 IDNMNESELFGRTIRVNLA 84
Score = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 30/54 (55%)
Query: 1 MESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
M + + L++GG+A + + L F FGD++ + I D T + RGF FV F
Sbjct: 3 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 56
>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 = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 1/78 (1%)
Query: 108 TKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVL 167
T +FVG L + ++ R F+++ VM+D T RG+GF++F ++D N +
Sbjct: 1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM 60
Query: 168 QKVF-HELNGKLVEVKRA 184
+ +LNG+ + + A
Sbjct: 61 DSMQGQDLNGRPLRINWA 78
Score = 37.4 bits (85), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 2/81 (2%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
LF+G + + + TLR+ F F +M D TG RG+GFV F+ +
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 67 K--HTIDGRPVEAKRALSREE 85
++GRP+ A E
Sbjct: 63 MQGQDLNGRPLRINWAAKLEH 83
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 41/71 (57%), Gaps = 7/71 (9%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFS---DPSVLDQVL 64
LF+ G++ DTTE TL++ F G V + I+ D+ TG +GFGFV F+ D + +
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSV-RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 65 QDKHTIDGRPV 75
+D IDG V
Sbjct: 75 EDGE-IDGNKV 84
Score = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 4/81 (4%)
Query: 108 TKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVL 167
+K +FV GL TE+ ++ F+ G V +V D+ T +GFGF+ F +E+
Sbjct: 15 SKTLFVKGLSEDTTEETLKESFD--GSVRARIVT-DRETGSSKGFGFVDFNSEEDAKAAK 71
Query: 168 QKVFH-ELNGKLVEVKRALPK 187
+ + E++G V + A PK
Sbjct: 72 EAMEDGEIDGNKVTLDWAKPK 92
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 42.7 bits (99), Expect = 4e-04, Method: Composition-based stats.
Identities = 26/84 (30%), Positives = 45/84 (53%), Gaps = 5/84 (5%)
Query: 2 ESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSD-PSVL 60
+ D KLFIG I + E L+ F FG + ++ +++D+ TG +G F+ + + S L
Sbjct: 10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESAL 69
Query: 61 --DQVLQDKHTIDG--RPVEAKRA 80
L ++ T+ G RP++ K A
Sbjct: 70 KAQSALHEQKTLPGMNRPIQVKPA 93
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 3/65 (4%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITF-ETEDAVDNVLQ 168
K+F+G +P L E + FE +G + ++ V+ D+ T +G F+T+ E E A+ Q
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALK--AQ 72
Query: 169 KVFHE 173
HE
Sbjct: 73 SALHE 77
>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 = 42.7 bits (99), Expect = 4e-04, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDNVLQK 169
++VGGL + + F +G +TD+ + D T++ RGF F+ FE EDA +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 170 VFHELNGKLVEVKRA 184
EL G+ + V A
Sbjct: 65 NESELFGRTIRVNLA 79
Score = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 27/47 (57%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
L++GG+A + + L F FGD++ + I D T + RGF FV F
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 51
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 45/82 (54%), Gaps = 8/82 (9%)
Query: 108 TKKI-FVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TED---A 162
TK++ +VGGL + + F +G +TD+ + D T++ RGF F+ FE ED A
Sbjct: 62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 121
Query: 163 VDNVLQKVFHELNGKLVEVKRA 184
+DN+ + EL G+ + V A
Sbjct: 122 IDNMNES---ELFGRTIRVNLA 140
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
L++GG+A + + L F FGD++ + I D T + RGF FV F
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 112
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 42.4 bits (98), Expect = 5e-04, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 2/79 (2%)
Query: 108 TKKI-FVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDN 165
TK++ +VGGL + + F +G +TD+ + D T++ RGF F+ FE EDA
Sbjct: 4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 63
Query: 166 VLQKVFHELNGKLVEVKRA 184
+ EL G+ + V A
Sbjct: 64 IDNMNESELFGRTIRVNLA 82
Score = 38.5 bits (88), Expect = 0.007, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 27/47 (57%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
L++GG+A + + L F FGD++ + I D T + RGF FV F
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 54
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 42.0 bits (97), Expect = 6e-04, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 39/75 (52%), Gaps = 9/75 (12%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQR-----PRGFGFITFETEDAV 163
+K+FVGGLPP + ED F +G +VV + + P+G+ F+ F+ E +V
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFG---PLVVDWPHKAESKSYFPPKGYAFLLFQEESSV 65
Query: 164 DNVLQKVFHELNGKL 178
++ E +GKL
Sbjct: 66 QALIDACLEE-DGKL 79
Score = 30.0 bits (66), Expect = 2.3, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 6/71 (8%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGR----PRGFGFVVFSDPSVLDQ 62
K+F+GG+ D E + F RFG + VV K + P+G+ F++F + S +
Sbjct: 10 KVFVGGLPPDIDEDEITASFRRFGPL--VVDWPHKAESKSYFPPKGYAFLLFQEESSVQA 67
Query: 63 VLQDKHTIDGR 73
++ DG+
Sbjct: 68 LIDACLEEDGK 78
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 8/74 (10%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
++VGGL T+TE R +F +G + + V+ Q FI F T A + +K
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQFATRQAAEVAAEKS 68
Query: 171 FHEL--NGKLVEVK 182
F++L NG+ + VK
Sbjct: 69 FNKLIVNGRRLNVK 82
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 16/74 (21%), Positives = 37/74 (50%), Gaps = 9/74 (12%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQ-- 65
L++GG+ TE LR++F +FG++ + +++ + F+ F+ + +
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQFATRQAAEVAAEKS 68
Query: 66 -DKHTIDGRPVEAK 78
+K ++GR + K
Sbjct: 69 FNKLIVNGRRLNVK 82
>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 = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 28/48 (58%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFS 55
L++ + T+ L F ++G + Q I+RDK TGRPRG FV ++
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYN 63
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 7/69 (10%)
Query: 106 FKTKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITF-------E 158
K ++V LP T+T+D F YG + ++ D+ T RPRG F+ + E
Sbjct: 11 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQE 70
Query: 159 TEDAVDNVL 167
A++NV+
Sbjct: 71 AISALNNVI 79
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 38/72 (52%), Gaps = 6/72 (8%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
K++ V +P + RQ F +G + DV +++ N + +GFGF+TFE D +
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSADADRARE 73
Query: 169 KVFHELNGKLVE 180
K L+G +VE
Sbjct: 74 K----LHGTVVE 81
Score = 35.8 bits (81), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 4/79 (5%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
+L + I + + LR F +FG + V I+ ++ + GFGFV F + + D+ +
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSK--GFGFVTFENSADADRAREK 74
Query: 67 KH--TIDGRPVEAKRALSR 83
H ++GR +E A +R
Sbjct: 75 LHGTVVEGRKIEVNNATAR 93
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 39/81 (48%), Gaps = 14/81 (17%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRP-RGFGFITFETEDAVDNVLQK 169
+FVG +TED R++F YG V DV + +P R F F+TF A D + Q
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFI------PKPFRAFAFVTF----ADDQIAQS 57
Query: 170 VFHE---LNGKLVEVKRALPK 187
+ E + G V + A PK
Sbjct: 58 LCGEDLIIKGISVHISNAEPK 78
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
+F+G D TE LR++F+++GDV V I + R F FV F+D + + +
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPF-----RAFAFVTFADDQIAQSLCGED 62
Query: 68 HTIDGRPVEAKRA 80
I G V A
Sbjct: 63 LIIKGISVHISNA 75
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 38/72 (52%), Gaps = 6/72 (8%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
K++ V +P + RQ F +G + DV +++ N + +GFGF+TFE D +
Sbjct: 30 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSADADRARE 87
Query: 169 KVFHELNGKLVE 180
K L+G +VE
Sbjct: 88 K----LHGTVVE 95
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 4/84 (4%)
Query: 2 ESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLD 61
+S +L + I + + LR F +FG + V I+ ++ + GFGFV F + + D
Sbjct: 26 KSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSK--GFGFVTFENSADAD 83
Query: 62 QVLQDKH--TIDGRPVEAKRALSR 83
+ + H ++GR +E A +R
Sbjct: 84 RAREKLHGTVVEGRKIEVNNATAR 107
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 32/58 (55%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
KLFIGG+ + +++ T FG + +++D TG +G+ F + D +V DQ +
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 40/192 (20%), Positives = 76/192 (39%), Gaps = 20/192 (10%)
Query: 7 KLFIGGIAWDTTEGTLRDYF---TRFGDVSQ--------VVIMRDKTTGRPRGFGFVVFS 55
+L++G I + TE + D+F R G ++Q V I +DK F F+ F
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FAFLEFR 59
Query: 56 DPSVLDQVLQ-DKHTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTK-KIFV 113
Q + D G+ ++ +R + + K+F+
Sbjct: 60 SVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFI 119
Query: 114 GGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVF-H 172
GGLP L +D ++ ++G + ++ D T +G+ F + + D + +
Sbjct: 120 GGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGM 179
Query: 173 ELNGKLVEVKRA 184
+L K + V+RA
Sbjct: 180 QLGDKKLLVQRA 191
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 32/58 (55%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
KLFIGG+ + +++ T FG + +++D TG +G+ F + D +V DQ +
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 155
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 40/191 (20%), Positives = 75/191 (39%), Gaps = 38/191 (19%)
Query: 7 KLFIGGIAWDTTEGTLRDYF---TRFGDVSQ--------VVIMRDKTTGRPRGFGFVVFS 55
+L++G I + TE + D+F R G ++Q V I +DK F F+ F
Sbjct: 8 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FAFLEFR 61
Query: 56 DPSVLDQVLQ-DKHTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVG 114
Q + D G+ ++ +R + K+F+G
Sbjct: 62 SVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPG-------------------AHKLFIG 102
Query: 115 GLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVF-HE 173
GLP L +D ++ ++G + ++ D T +G+ F + + D + + +
Sbjct: 103 GLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQ 162
Query: 174 LNGKLVEVKRA 184
L K + V+RA
Sbjct: 163 LGDKKLLVQRA 173
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 26/86 (30%), Positives = 46/86 (53%), Gaps = 5/86 (5%)
Query: 2 ESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF--SDPSV 59
+ D KLF+G I E L+ F FG + ++ +++D+ TG +G F+ + D ++
Sbjct: 12 DHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSAL 71
Query: 60 LDQ-VLQDKHTIDG--RPVEAKRALS 82
Q L ++ T+ G RP++ K A S
Sbjct: 72 KAQSALHEQKTLPGMNRPIQVKPAAS 97
Score = 38.1 bits (87), Expect = 0.009, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
K+FVG +P L E + FE +G + ++ V+ D+ T +G F+T+ D+ Q
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKA-QS 75
Query: 170 VFHE 173
HE
Sbjct: 76 ALHE 79
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 32/58 (55%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
KLFIGG+ + +++ T FG + +++D TG +G+ F + D +V DQ +
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 153
Score = 34.7 bits (78), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 40/191 (20%), Positives = 75/191 (39%), Gaps = 38/191 (19%)
Query: 7 KLFIGGIAWDTTEGTLRDYF---TRFGDVSQ--------VVIMRDKTTGRPRGFGFVVFS 55
+L++G I + TE + D+F R G ++Q V I +DK F F+ F
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FAFLEFR 59
Query: 56 DPSVLDQVLQ-DKHTIDGRPVEAKRALSREEQHXXXXXXXXXXXXXXXXXYFKTKKIFVG 114
Q + D G+ ++ +R + K+F+G
Sbjct: 60 SVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPG-------------------AHKLFIG 100
Query: 115 GLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKVF-HE 173
GLP L +D ++ ++G + ++ D T +G+ F + + D + + +
Sbjct: 101 GLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQ 160
Query: 174 LNGKLVEVKRA 184
L K + V+RA
Sbjct: 161 LGDKKLLVQRA 171
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
+LF+ +++ ++E L F+ +G +S++ D T +P+GF FV F P + ++
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFP---EHAVKA 66
Query: 67 KHTIDGR 73
+DG+
Sbjct: 67 YAEVDGQ 73
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 6/72 (8%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDNVLQ 168
++FV L T +E+ + F YG ++++ D T++P+GF F+TF E AV
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAV----- 64
Query: 169 KVFHELNGKLVE 180
K + E++G++ +
Sbjct: 65 KAYAEVDGQVFQ 76
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 5/81 (6%)
Query: 3 SDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTG---RPRGFGFVVFSDPSV 59
S LFI + + TTE TL+ F++ G + I + K GFGFV + P
Sbjct: 3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQ 62
Query: 60 LDQVLQ--DKHTIDGRPVEAK 78
+ L+ HT+DG +E +
Sbjct: 63 AQKALKQLQGHTVDGHKLEVR 83
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 32/58 (55%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
KLFIGG+ + +++ T FG + +++D TG +G+ F + D +V DQ +
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60
Score = 33.5 bits (75), Expect = 0.21, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 38/77 (49%), Gaps = 6/77 (7%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVD-NVLQ 168
K+F+GGLP L +D ++ ++G + ++ D T +G+ F + VD NV
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY-----VDINVTD 57
Query: 169 KVFHELNGKLVEVKRAL 185
+ LNG + K+ L
Sbjct: 58 QAIAGLNGMQLGDKKLL 74
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 38.5 bits (88), Expect = 0.007, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 3/76 (3%)
Query: 2 ESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLD 61
E + +F+G + E L + F + G +++V I +D+ G+P+ FGFV F P +
Sbjct: 13 EEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESVS 71
Query: 62 QVLQDKHTID--GRPV 75
+ + I GRP+
Sbjct: 72 YAIALLNGIRLYGRPI 87
Score = 32.7 bits (73), Expect = 0.40, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAV 163
+ +FVG L + E+ + F G +T V + D+ +P+ FGF+ F+ ++V
Sbjct: 17 RTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREG-KPKSFGFVCFKHPESV 70
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 38.1 bits (87), Expect = 0.008, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 28/49 (57%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSD 56
+++G I +D TE + D + G V + +M D TGR +G+ F+ F D
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRD 53
Score = 35.0 bits (79), Expect = 0.073, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 28/50 (56%)
Query: 108 TKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITF 157
++ +++G +P TE+ N G V ++ +M+D T R +G+ FI F
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEF 51
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 5 EGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
+ +++GG+ +E L + F + G V + +D+ TG+ +G+GFV F D +
Sbjct: 15 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74
Query: 65 Q--DKHTIDGRPVEAKRA 80
+ D + G+P+ +A
Sbjct: 75 KIMDMIKLYGKPIRVNKA 92
Score = 35.4 bits (80), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
++VGGL ++E + F G V + + D+ T + +G+GF+ F +E+ D ++ +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 171 -FHELNGKLVEVKRA 184
+L GK + V +A
Sbjct: 78 DMIKLYGKPIRVNKA 92
>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 = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 29/53 (54%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAV 163
+ V LPP+LT+ F + +G + ++Y + T + +G+GF + +D+
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 148
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 29/53 (54%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAV 163
+ V LPP+LT+ F + +G + ++Y + T + +G+GF + +D+
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 150
>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 = 38.1 bits (87), Expect = 0.010, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 28/49 (57%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSD 56
+++G I +D TE + D + G V + +M D TGR +G+ F+ F D
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRD 55
Score = 35.0 bits (79), Expect = 0.083, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 28/50 (56%)
Query: 108 TKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITF 157
++ +++G +P TE+ N G V ++ +M+D T R +G+ FI F
Sbjct: 4 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEF 53
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 29/53 (54%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAV 163
+ V LPP+LT+ F + +G + ++Y + T + +G+GF + +D+
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 150
>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 = 37.7 bits (86), Expect = 0.011, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 28/49 (57%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSD 56
+++G I +D TE + D + G V + +M D TGR +G+ F+ F D
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRD 54
Score = 34.7 bits (78), Expect = 0.098, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 28/50 (56%)
Query: 108 TKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITF 157
++ +++G +P TE+ N G V ++ +M+D T R +G+ FI F
Sbjct: 3 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEF 52
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 37.7 bits (86), Expect = 0.011, Method: Composition-based stats.
Identities = 28/82 (34%), Positives = 39/82 (47%), Gaps = 14/82 (17%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRP-RGFGFITFETEDAVDNVLQ 168
K+FVG +T + +Q+F YG V DV + +P R F F+TF A D V Q
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFI------PKPFRAFAFVTF----ADDKVAQ 62
Query: 169 KVFHE---LNGKLVEVKRALPK 187
+ E + G V + A PK
Sbjct: 63 SLCGEDLIIKGISVHISNAEPK 84
Score = 34.3 bits (77), Expect = 0.13, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 7/75 (9%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRP-RGFGFVVFSDPSVLDQVLQ 65
K+F+G D T L+ +F ++G+V V I +P R F FV F+D V +
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFI------PKPFRAFAFVTFADDKVAQSLCG 66
Query: 66 DKHTIDGRPVEAKRA 80
+ I G V A
Sbjct: 67 EDLIIKGISVHISNA 81
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 37.7 bits (86), Expect = 0.013, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 9/74 (12%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
K+F+G LP TE R FE YG V + ++ + +GF+ E + A ++ ++
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRN 61
Query: 170 VFH-ELNGKLVEVK 182
+ H +L+G + V+
Sbjct: 62 LHHYKLHGVNINVE 75
>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 = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 11/88 (12%)
Query: 105 YFKTKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFET-EDAV 163
YF+ + V LP T+D R F + G V ++ D+ G+GF+ + T +DA
Sbjct: 16 YFQGTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDA- 74
Query: 164 DNVLQKVFHELNG-----KLVEVKRALP 186
++ + LNG K ++V A P
Sbjct: 75 ----ERAINTLNGLRLQSKTIKVSYARP 98
Score = 36.6 bits (83), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 37/71 (52%), Gaps = 3/71 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L + + + T+ LR F+ G+V ++RDK G G+GFV + ++ +
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI--- 78
Query: 68 HTIDGRPVEAK 78
+T++G +++K
Sbjct: 79 NTLNGLRLQSK 89
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 36.6 bits (83), Expect = 0.024, Method: Composition-based stats.
Identities = 24/87 (27%), Positives = 41/87 (47%), Gaps = 3/87 (3%)
Query: 3 SDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQV-VIMRDKTTGRPRGFGFVVFSDPSVLD 61
S +FIG + + E L D F+ FG + Q IMRD TG +G+ F+ F+ D
Sbjct: 3 SGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASD 62
Query: 62 QVLQ--DKHTIDGRPVEAKRALSREEQ 86
++ + + RP+ A ++ +
Sbjct: 63 AAIEAMNGQYLCNRPITVSYAFKKDSK 89
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 22 LRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDKH--TIDGRPVEAKR 79
LR F+ FG ++ +M + GR +GFGFV FS P + + + + + +P+
Sbjct: 32 LRKAFSPFGTITSAKVMMEG--GRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVAL 89
Query: 80 ALSREEQH 87
A +EE+
Sbjct: 90 AQRKEERQ 97
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 36.2 bits (82), Expect = 0.031, Method: Composition-based stats.
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 6/75 (8%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
IF+ L ++ F +G++ V+ D+N + G+GF+ FET++A + ++K
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEK- 70
Query: 171 FHELNGKLVEVKRAL 185
+NG L+ ++
Sbjct: 71 ---MNGMLLNDRKVF 82
Score = 28.1 bits (61), Expect = 8.3, Method: Composition-based stats.
Identities = 21/87 (24%), Positives = 41/87 (47%), Gaps = 4/87 (4%)
Query: 2 ESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLD 61
+S G +FI + L D F+ FG++ ++ D+ +G+GFV F +
Sbjct: 8 KSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS--KGYGFVHFETQEAAE 65
Query: 62 QVLQDKH--TIDGRPVEAKRALSREEQ 86
+ ++ + ++ R V R SR+E+
Sbjct: 66 RAIEKMNGMLLNDRKVFVGRFKSRKER 92
>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 = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFV 52
L + + + T+ LR F+ G+V ++RDK G G+GFV
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFV 51
Score = 35.0 bits (79), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 11/82 (13%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFET-EDAVDNVLQK 169
+ V LP +T+D R F + G V ++ D+ G+GF+ + T +DA ++
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDA-----ER 61
Query: 170 VFHELNG-----KLVEVKRALP 186
+ LNG K ++V A P
Sbjct: 62 AINTLNGLRLQSKTIKVSYARP 83
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 36.2 bits (82), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 34/60 (56%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+FVG L P +T F +G ++D V+ D T + +G+GF++F + +N +Q++
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 22/37 (59%)
Query: 29 FGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQ 65
FG +S +++D TG+ +G+GFV F + + +Q
Sbjct: 30 FGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 66
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 36.2 bits (82), Expect = 0.039, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 39/77 (50%), Gaps = 4/77 (5%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGD-VSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQD 66
L++G + E + F G+ V V I+R++ TG P G+ FV F+D + ++ L
Sbjct: 12 LWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCL-- 69
Query: 67 KHTIDGRPVEAKRALSR 83
H I+G+P+ R
Sbjct: 70 -HKINGKPLPGATPAKR 85
>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 = 35.8 bits (81), Expect = 0.042, Method: Composition-based stats.
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 6/75 (8%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
IF+ L ++ F +G++ V+ D+N + G+GF+ FET++A + ++K
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEK- 64
Query: 171 FHELNGKLVEVKRAL 185
+NG L+ ++
Sbjct: 65 ---MNGMLLNDRKVF 76
>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 = 35.8 bits (81), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 29/47 (61%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
L++G +++ TTE + + F++ GD+ ++++ DK GF FV +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEY 88
Score = 31.2 bits (69), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 31/64 (48%)
Query: 107 KTKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNV 166
K+ ++VG L TE+ + F G + +++ D+ + GF F+ + + +N
Sbjct: 38 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENA 97
Query: 167 LQKV 170
++ +
Sbjct: 98 MRYI 101
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 35.4 bits (80), Expect = 0.056, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 4/73 (5%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+F+ LP T+ F +G+V V D+ T + FGF++F+ D+ Q
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSA----QVA 98
Query: 171 FHELNGKLVEVKR 183
+NG V KR
Sbjct: 99 IKAMNGFQVGTKR 111
Score = 33.5 bits (75), Expect = 0.22, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 1 MESDEG-KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDP 57
+E EG LFI + + T+ L F FG+V + DK T + FGFV F +P
Sbjct: 35 IEGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNP 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 = 35.0 bits (79), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 34/73 (46%), Gaps = 4/73 (5%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+F+ LP + Q F +G+V V D+ T + FGF++++ + +Q
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQ-- 85
Query: 171 FHELNGKLVEVKR 183
+NG + +KR
Sbjct: 86 --SMNGFQIGMKR 96
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 4/79 (5%)
Query: 2 ESDEG-KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVL 60
E EG LFI + + + L F FG+V + DK T + FGFV + +P
Sbjct: 21 EGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSA 80
Query: 61 DQVLQDKHTIDGRPVEAKR 79
+Q +++G + KR
Sbjct: 81 QAAIQ---SMNGFQIGMKR 96
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 34.3 bits (77), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 29/50 (58%), Gaps = 6/50 (12%)
Query: 32 VSQVVIMRDKTTGRPRGFGFVVFS---DPSVLDQVLQDKH---TIDGRPV 75
V+ + +++DK T + RGF FV S D S L Q+LQ H IDG+ +
Sbjct: 38 VNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTI 87
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 10/74 (13%)
Query: 107 KTKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNV 166
K ++ GG+ LT+ RQ F +G + ++ V + +G+ F+ F T ++ +
Sbjct: 24 KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHA 77
Query: 167 LQKVFHELNGKLVE 180
+ V NG +E
Sbjct: 78 IVSV----NGTTIE 87
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 8/72 (11%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFS--DPSVLDQVLQ 65
++ GGIA T+ +R F+ FG + ++ + +K G+ FV FS + + V
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK------GYSFVRFSTHESAAHAIVSV 81
Query: 66 DKHTIDGRPVEA 77
+ TI+G V+
Sbjct: 82 NGTTIEGHVVKC 93
>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 = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 26/48 (54%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFS 55
LF+ G+ + TE + D F +G++ + + D+ TG +G+ V +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 72
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 25/49 (51%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFET 159
+FV G+ TE+ F YG + ++ + D+ T +G+ + +ET
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 73
>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 = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 26/48 (54%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFS 55
LF+ G+ + TE + D F +G++ + + D+ TG +G+ V +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 73
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 25/49 (51%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFET 159
+FV G+ TE+ F YG + ++ + D+ T +G+ + +ET
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 74
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 33.5 bits (75), Expect = 0.23, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 4/74 (5%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+++ GL P T+ + + YG + + D+ T + +G+GF+ F++ A QK
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAA----QKA 63
Query: 171 FHELNGKLVEVKRA 184
L V+ + A
Sbjct: 64 VTALKASGVQAQMA 77
Score = 33.1 bits (74), Expect = 0.27, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 28/56 (50%)
Query: 3 SDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPS 58
S L+I G+ TT+ L +G + + DKTT + +G+GFV F PS
Sbjct: 3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPS 58
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKT-TGRPRGFGFVVF 54
K+ + I + + +R+ F+ FG++ V + + T TG RGFGFV F
Sbjct: 17 KILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDF 65
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 27/66 (40%), Gaps = 1/66 (1%)
Query: 108 TKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQN-TQRPRGFGFITFETEDAVDNV 166
T KI V +P + R+ F +G + V + T RGFGF+ F T+
Sbjct: 15 TSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKA 74
Query: 167 LQKVFH 172
+ H
Sbjct: 75 FNALCH 80
>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 = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 26/48 (54%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFS 55
LF+ G+ + TE + D F +G++ + + D+ TG +G+ V +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 59
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 25/49 (51%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFET 159
+FV G+ TE+ F YG + ++ + D+ T +G+ + +ET
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 60
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 4/74 (5%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDNVLQ 168
+I+VG LPP + F YG + D+ + +N + F F+ FE DA D V
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL---KNRRGGPPFAFVEFEDPRDAEDAVYG 80
Query: 169 KVFHELNGKLVEVK 182
+ ++ +G + V+
Sbjct: 81 RDGYDYDGYRLRVE 94
>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 = 33.1 bits (74), Expect = 0.30, Method: Composition-based stats.
Identities = 14/61 (22%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 110 KIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
K+F+ GLP + T++ + + +G V D+ ++ ++ +P+G ++ +E E + K
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMK 77
Query: 170 V 170
+
Sbjct: 78 M 78
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 33.1 bits (74), Expect = 0.30, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 9/76 (11%)
Query: 108 TKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE-TEDAVDNV 166
+ K+ VG + PT T R FE YG V + ++ D + F+ E EDAV+ +
Sbjct: 10 STKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAI 61
Query: 167 LQKVFHELNGKLVEVK 182
E GK + V+
Sbjct: 62 RGLDNTEFQGKRMHVQ 77
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 33/74 (44%), Gaps = 12/74 (16%)
Query: 107 KTKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNV 166
K K +FV L T+TE+ + F +G + V + D + FI F+ D
Sbjct: 10 KVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGA--- 58
Query: 167 LQKVFHELNGKLVE 180
K E+NGK +E
Sbjct: 59 -VKAMEEMNGKDLE 71
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 8/64 (12%)
Query: 2 ESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQ--------VVIMRDKTTGRPRGFGFVV 53
+SD +++ G+ T L D+F + G V + I DK TG+P+G V
Sbjct: 12 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVS 71
Query: 54 FSDP 57
+ DP
Sbjct: 72 YEDP 75
>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 = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYG-HVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQK 169
+ + LP TED R +++G +V +M ++++ + RGF F+ F ++
Sbjct: 4 VMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEA 63
Query: 170 VFHELN--GKLVEVKRALPK 187
H LN G+ V + + PK
Sbjct: 64 NQHSLNILGQKVSMHYSDPK 83
Score = 32.0 bits (71), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 17 TTEGTLRDYFTRFG-DVSQVVIMRDKTTGRPRGFGFVVFS 55
TE +R G +V +MR+K++G+ RGF FV FS
Sbjct: 13 ATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFS 52
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 32.7 bits (73), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 22/93 (23%), Positives = 39/93 (41%), Gaps = 10/93 (10%)
Query: 3 SDEGKLFIGGIAWDTTEGTLRDYFTRFGDVS--------QVVIMRDKTTGRPRGFGFVVF 54
SD +F+ G+ + T ++ DYF + G + + + D+ TG+ +G V F
Sbjct: 5 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSF 64
Query: 55 SDPSVLDQVLQ--DKHTIDGRPVEAKRALSREE 85
DP + D G P++ A R +
Sbjct: 65 DDPPSAKAAIDWFDGKEFSGNPIKVSFATRRAD 97
>pdb|2E5G|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 21
Length = 94
Score = 32.3 bits (72), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 11/77 (14%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL-QD 66
+F+ G L +YF FG V+ VV+ +DK F V D + VL Q
Sbjct: 11 VFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGV-----FAIVEMGDVGAREAVLSQS 65
Query: 67 KHTIDG-----RPVEAK 78
+H++ G RP E K
Sbjct: 66 QHSLGGHRLRVRPREQK 82
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 5/74 (6%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
+ +FV G P + +YF +G V VV+ D+ F + A + VL
Sbjct: 9 RSVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGV-----FAIVEMGDVGAREAVLS 63
Query: 169 KVFHELNGKLVEVK 182
+ H L G + V+
Sbjct: 64 QSQHSLGGHRLRVR 77
>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 = 32.3 bits (72), Expect = 0.54, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 26/47 (55%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
LF+ G+ + TE + D F +G++ + + D+ TG +G+ V +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 56
Score = 30.0 bits (66), Expect = 2.4, Method: Composition-based stats.
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+FV G+ TE+ F YG + ++ + D+ T +G+ + +ET Q
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA----QAA 65
Query: 171 FHELNGK 177
LNG+
Sbjct: 66 MEGLNGQ 72
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 32.0 bits (71), Expect = 0.57, Method: Composition-based stats.
Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 5/53 (9%)
Query: 33 SQVVIMRDKTTGRPRGFGFVVFS--DPSVLDQVLQDKH---TIDGRPVEAKRA 80
S V +++DK T RGF F+ S + + L Q+LQ H TIDG+ + + A
Sbjct: 53 SNVRVIKDKQTQLNRGFAFIQLSTIEAAQLLQILQALHPPLTIDGKTINVEFA 105
>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 = 32.0 bits (71), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 26/49 (53%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFET 159
+FV + ED ++ F +YG + ++ + D+ T +G+ + +ET
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYET 123
Score = 31.6 bits (70), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 15/68 (22%), Positives = 32/68 (47%), Gaps = 3/68 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
LF+ I + E +++ F +G++ + + D+ TG +G+ V + Q L K
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHK---QALAAK 131
Query: 68 HTIDGRPV 75
++G +
Sbjct: 132 EALNGAEI 139
>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 = 32.0 bits (71), Expect = 0.62, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 26/47 (55%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
LF+ G+ + TE + D F +G++ + + D+ TG +G+ V +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 56
Score = 30.0 bits (66), Expect = 2.8, Method: Composition-based stats.
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+FV G+ TE+ F YG + ++ + D+ T +G+ + +ET Q
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA----QAA 65
Query: 171 FHELNGK 177
LNG+
Sbjct: 66 MEGLNGQ 72
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 32.0 bits (71), Expect = 0.62, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 26/47 (55%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
LF+ G+ + TE + D F +G++ + + D+ TG +G+ V +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 56
Score = 30.0 bits (66), Expect = 2.8, Method: Composition-based stats.
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+FV G+ TE+ F YG + ++ + D+ T +G+ + +ET Q
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA----QAA 65
Query: 171 FHELNGK 177
LNG+
Sbjct: 66 MEGLNGQ 72
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 32.0 bits (71), Expect = 0.72, Method: Composition-based stats.
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 9/90 (10%)
Query: 5 EGK-LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQV 63
EGK +FI +++D+ E L + +FGD+ V ++ T +G F F +
Sbjct: 14 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKC 73
Query: 64 LQDKH--------TIDGRPVEAKRALSREE 85
L +DGR ++ A++R+E
Sbjct: 74 LAAASLEAEGGGLKLDGRQLKVDLAVTRDE 103
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 31.6 bits (70), Expect = 0.86, Method: Composition-based stats.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 11/68 (16%)
Query: 110 KIFVGGLP--PTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVL 167
++F+G LP ED FR F YGH+ + + FGFI F+ +V + +
Sbjct: 24 RLFIGNLPLKNVSKEDLFR-IFSPYGHIMQINI--------KNAFGFIQFDNPQSVRDAI 74
Query: 168 QKVFHELN 175
+ E+N
Sbjct: 75 EXESQEMN 82
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 31.2 bits (69), Expect = 0.98, Method: Composition-based stats.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 11/68 (16%)
Query: 110 KIFVGGLP--PTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVL 167
++F+G LP ED FR F YGH+ + + FGFI F+ +V + +
Sbjct: 4 RLFIGNLPLKNVSKEDLFR-IFSPYGHIMQINI--------KNAFGFIQFDNPQSVRDAI 54
Query: 168 QKVFHELN 175
+ E+N
Sbjct: 55 ECESQEMN 62
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 3/65 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
L++ ++ TE L F RF + I TGR RG F+ F + + Q L
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQAL--- 84
Query: 68 HTIDG 72
H ++G
Sbjct: 85 HLVNG 89
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 1/75 (1%)
Query: 109 KKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQ 168
K +++ L P +TE F + + + T R RG FITF ++ L
Sbjct: 26 KVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALH 85
Query: 169 KVF-HELNGKLVEVK 182
V ++L GK++ ++
Sbjct: 86 LVNGYKLYGKILVIE 100
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of
Eukaryotic Initiation Factor 4b
Length = 104
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 30/47 (63%), Gaps = 2/47 (4%)
Query: 9 FIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTG-RPRGFGFVVF 54
F+G + +D TE +++++F R ++S V + R+ + R +GFG+ F
Sbjct: 19 FLGNLPYDVTEESIKEFF-RGLNISAVRLPREPSNPERLKGFGYAEF 64
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 24/47 (51%)
Query: 112 FVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE 158
F+G LP +TE+ +++F + N +R +GFG+ FE
Sbjct: 19 FLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFE 65
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 31.2 bits (69), Expect = 1.2, Method: Composition-based stats.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 11/68 (16%)
Query: 110 KIFVGGLP--PTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVL 167
++F+G LP ED FR F YGH+ + + FGFI F+ +V + +
Sbjct: 24 RLFIGNLPLKNVSKEDLFR-IFSPYGHIMQINI--------KNAFGFIQFDNPQSVRDAI 74
Query: 168 QKVFHELN 175
+ E+N
Sbjct: 75 ECESQEMN 82
>pdb|2DHX|A Chain A, Solution Structure Of The Rrm Domain In The Human Poly
(Adp- Ribose) Polymerase Family, Member 10 Variant
Length = 104
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 3/66 (4%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
+ V GLPP + ++ YFEN V+ + QR G +TF + VL +
Sbjct: 11 VEVRGLPPAVPDELLTLYFENRRRSGGGPVL---SWQRLGCGGVLTFREPADAERVLAQA 67
Query: 171 FHELNG 176
HEL+G
Sbjct: 68 DHELHG 73
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 9/67 (13%)
Query: 107 KTKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQR-----PRGFGFITFETED 161
K K+ +G L +T+D + F YG + M D +R +G+ ++ FE D
Sbjct: 3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIK----MIDMPVERMHPHLSKGYAYVEFENPD 58
Query: 162 AVDNVLQ 168
+ L+
Sbjct: 59 EAEKALK 65
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor
9g8
Length = 101
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 5/51 (9%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDP 57
K+++G + +G L F+ +G + V I R+ P GF FV F DP
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDP 47
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 9 FIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
++G + ++T +G + F + V ++RDK T + +GF +V F + L + L
Sbjct: 19 YVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL 73
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation
Initiation Factor 4b
Length = 100
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 30/47 (63%), Gaps = 2/47 (4%)
Query: 9 FIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTG-RPRGFGFVVF 54
F+G + +D TE +++++F R ++S V + R+ + R +GFG+ F
Sbjct: 23 FLGNLPYDVTEESIKEFF-RGLNISAVRLPREPSNPERLKGFGYAEF 68
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 24/47 (51%)
Query: 112 FVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFE 158
F+G LP +TE+ +++F + N +R +GFG+ FE
Sbjct: 23 FLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFE 69
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 11/68 (16%)
Query: 110 KIFVGGLP--PTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVL 167
++F+G LP ED FR F YGH+ + + FGFI F+ +V + +
Sbjct: 12 RLFIGNLPLKNVSKEDLFR-IFSPYGHIMQINI--------KNAFGFIQFDNPQSVRDAI 62
Query: 168 QKVFHELN 175
+ E+N
Sbjct: 63 ECESQEMN 70
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 5 EGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
+ K+++G + + + L F +G + V + R+ P GF FV F DP +
Sbjct: 73 DCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAV 127
Query: 65 QDKHTIDGRPVEAKRA 80
+D +DGR + R
Sbjct: 128 RD---LDGRTLCGCRV 140
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 27/77 (35%), Positives = 34/77 (44%), Gaps = 14/77 (18%)
Query: 108 TKKIFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFETE-DAVDNV 166
T KIFVG + T R FE G V + V+ D + F+ E E DA +
Sbjct: 9 TWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAI 60
Query: 167 LQKVFHELNGKLVEVKR 183
Q LNGK V+ KR
Sbjct: 61 AQ-----LNGKEVKGKR 72
>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 = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 36/87 (41%), Gaps = 10/87 (11%)
Query: 4 DEGKLFIGGIAWDTTEGTLRDYFTRFGDVS--------QVVIMRDKTTGRPRGFGFVVFS 55
D +F+ G+ + T ++ DYF + G + + + D+ TG+ +G V F
Sbjct: 12 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFD 71
Query: 56 DPSVLDQVLQ--DKHTIDGRPVEAKRA 80
DP + D G P++ A
Sbjct: 72 DPPSAKAAIDWFDGKEFSGNPIKVSFA 98
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
KLF+G + T+ +R F FG + + ++R G +G FV F
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGP-DGTSKGCAFVKF 60
>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 = 29.6 bits (65), Expect = 3.5, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVF 54
L++G +++ TTE + + F++ GD+ ++++ DK GF FV +
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK-TACGFCFVEY 66
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 29.6 bits (65), Expect = 3.7, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 7 KLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFS 55
KLF+G + +E +R F FG++ + I+R G +G FV +S
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGP-DGNSKGCAFVKYS 64
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 29.3 bits (64), Expect = 4.4, Method: Composition-based stats.
Identities = 12/49 (24%), Positives = 26/49 (53%)
Query: 111 IFVGGLPPTLTEDGFRQYFENYGHVTDVVVMYDQNTQRPRGFGFITFET 159
+FV + ED ++ F +YG + ++ + D+ T +G+ + +ET
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYET 77
Score = 28.5 bits (62), Expect = 6.4, Method: Composition-based stats.
Identities = 15/65 (23%), Positives = 31/65 (47%), Gaps = 3/65 (4%)
Query: 8 LFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVLQDK 67
LF+ I + E +++ F +G++ + + D+ TG +G+ V + Q L K
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHK---QALAAK 85
Query: 68 HTIDG 72
++G
Sbjct: 86 EALNG 90
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif In Trna Selenocysteine Associated Protein
Length = 104
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%)
Query: 5 EGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSD 56
E LF+G + D +G L ++F + + + TG +G+GFV F+D
Sbjct: 9 EYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTD 60
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 28.9 bits (63), Expect = 5.2, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 2 ESDEGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGF 51
E D L+I + E L + FG V I+RD ++G RG GF
Sbjct: 22 EQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGF 70
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 5 EGKLFIGGIAWDTTEGTLRDYFTRFGDVSQVVIMRDKTTGRPRGFGFVVFSDPSVLDQVL 64
+ K+++G + + + L F +G + V + R+ P GF FV F DP +
Sbjct: 73 DCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAV 127
Query: 65 QDKHTIDGRPVEAKRA 80
++ +DGR + R
Sbjct: 128 RE---LDGRTLCGCRV 140
>pdb|1A9N|B Chain B, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
pdb|1A9N|D Chain D, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
Length = 96
Score = 28.5 bits (62), Expect = 7.2, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 129 FENYGHVTDVVVMYDQNTQRPRGFGFITFETEDAVDNVLQKV 170
F +GHV D+V + T + RG F+ F+ + N L+++
Sbjct: 31 FSQFGHVVDIVAL---KTMKMRGQAFVIFKELGSSTNALRQL 69
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
0.316 0.135 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,878,257
Number of Sequences: 62578
Number of extensions: 270836
Number of successful extensions: 1058
Number of sequences better than 100.0: 157
Number of HSP's better than 100.0 without gapping: 113
Number of HSP's successfully gapped in prelim test: 44
Number of HSP's that attempted gapping in prelim test: 736
Number of HSP's gapped (non-prelim): 301
length of query: 414
length of database: 14,973,337
effective HSP length: 101
effective length of query: 313
effective length of database: 8,652,959
effective search space: 2708376167
effective search space used: 2708376167
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)