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= psy6490
(398 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 = 174 bits (442), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 79/168 (47%), Positives = 121/168 (72%), Gaps = 4/168 (2%)
Query: 161 SAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL 220
S K+F+GGL+W T+ + LREYFG +G VTD+ IMKDP T RSRGFGF++F +P +V++V+
Sbjct: 3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVV 62
Query: 221 KVPIHTLDGKKIDPKHATPKNRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETV 280
K H LDGK IDPK A P++ ++T KIFVGG+ D +E + +FSQ+G + +
Sbjct: 63 KTQ-HILDGKVIDPKRAIPRDEQ---DKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQ 118
Query: 281 MLMDQQTKRHRGFGFVTFENEEVVDHICEIHFHMIKNKKVECKKAQPK 328
+++D+ T + RGFGFVT+++ + VD +C+ F K++K+E K+A+P+
Sbjct: 119 LMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIKRAEPR 166
Score = 62.0 bits (149), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 34/112 (30%), Positives = 60/112 (53%), Gaps = 4/112 (3%)
Query: 130 NVVREAHQLVLVNGKSSGDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVT 189
VV+ H +++GK D R+ P + + K+FVGG+ ++ E+F +G +
Sbjct: 60 EVVKTQH---ILDGKVI-DPKRAIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTII 115
Query: 190 DVLIMKDPITQRSRGFGFITFAEPETVEKVLKVPIHTLDGKKIDPKHATPKN 241
D +M D T +SRGFGF+T+ + V++V + +KI+ K A P++
Sbjct: 116 DAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIKRAEPRH 167
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 147 bits (372), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 69/174 (39%), Positives = 109/174 (62%), Gaps = 3/174 (1%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
KLF+GGLS++T+ E LR +F +G +TD ++M+DP T+RSRGFGF+T+A E V+ +
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 223 PIHTLDGKKIDPKHATPK---NRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEET 279
H +DG+ ++PK A + RP KKIFVGG+ +DT ++ YF Q+GK+E
Sbjct: 76 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 135
Query: 280 VMLMDQQTKRHRGFGFVTFENEEVVDHICEIHFHMIKNKKVECKKAQPKEAVQA 333
++ D+ + + RGF FVTF++ + VD I +H + E +KA K+ + +
Sbjct: 136 EIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQEMAS 189
Score = 68.2 bits (165), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 39/107 (36%), Positives = 65/107 (60%), Gaps = 4/107 (3%)
Query: 243 PKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
PK + +K+F+GG+S +T+ E ++++F Q+G + + V++ D TKR RGFGFVT+ E
Sbjct: 8 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVE 67
Query: 303 VVDHICEIHFHMIKNKKVECKKAQPKEAVQ---ANLLVGKRVILGPL 346
VD H + + VE K+A +E Q A+L V K++ +G +
Sbjct: 68 EVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTV-KKIFVGGI 113
Score = 61.6 bits (148), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 47/82 (57%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
T K+FVGG+ T LR+YF +G + + IM D + + RGF F+TF + ++V+K+
Sbjct: 104 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 163
Query: 220 LKVPIHTLDGKKIDPKHATPKN 241
+ HT++G + + A K
Sbjct: 164 VIQKYHTVNGHNCEVRKALSKQ 185
>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 = 147 bits (371), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 69/174 (39%), Positives = 109/174 (62%), Gaps = 3/174 (1%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
KLF+GGLS++T+ E LR +F +G +TD ++M+DP T+RSRGFGF+T+A E V+ +
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 223 PIHTLDGKKIDPKHATPK---NRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEET 279
H +DG+ ++PK A + RP KKIFVGG+ +DT ++ YF Q+GK+E
Sbjct: 74 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 133
Query: 280 VMLMDQQTKRHRGFGFVTFENEEVVDHICEIHFHMIKNKKVECKKAQPKEAVQA 333
++ D+ + + RGF FVTF++ + VD I +H + E +KA K+ + +
Sbjct: 134 EIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQEMAS 187
Score = 67.8 bits (164), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 39/107 (36%), Positives = 65/107 (60%), Gaps = 4/107 (3%)
Query: 243 PKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
PK + +K+F+GG+S +T+ E ++++F Q+G + + V++ D TKR RGFGFVT+ E
Sbjct: 6 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVE 65
Query: 303 VVDHICEIHFHMIKNKKVECKKAQPKEAVQ---ANLLVGKRVILGPL 346
VD H + + VE K+A +E Q A+L V K++ +G +
Sbjct: 66 EVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTV-KKIFVGGI 111
Score = 61.6 bits (148), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 47/82 (57%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
T K+FVGG+ T LR+YF +G + + IM D + + RGF F+TF + ++V+K+
Sbjct: 102 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 161
Query: 220 LKVPIHTLDGKKIDPKHATPKN 241
+ HT++G + + A K
Sbjct: 162 VIQKYHTVNGHNCEVRKALSKQ 183
>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 = 147 bits (371), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 69/174 (39%), Positives = 109/174 (62%), Gaps = 3/174 (1%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
KLF+GGLS++T+ E LR +F +G +TD ++M+DP T+RSRGFGF+T+A E V+ +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 223 PIHTLDGKKIDPKHATPK---NRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEET 279
H +DG+ ++PK A + RP KKIFVGG+ +DT ++ YF Q+GK+E
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 134
Query: 280 VMLMDQQTKRHRGFGFVTFENEEVVDHICEIHFHMIKNKKVECKKAQPKEAVQA 333
++ D+ + + RGF FVTF++ + VD I +H + E +KA K+ + +
Sbjct: 135 EIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQEMAS 188
Score = 67.8 bits (164), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 39/107 (36%), Positives = 65/107 (60%), Gaps = 4/107 (3%)
Query: 243 PKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
PK + +K+F+GG+S +T+ E ++++F Q+G + + V++ D TKR RGFGFVT+ E
Sbjct: 7 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVE 66
Query: 303 VVDHICEIHFHMIKNKKVECKKAQPKEAVQ---ANLLVGKRVILGPL 346
VD H + + VE K+A +E Q A+L V K++ +G +
Sbjct: 67 EVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTV-KKIFVGGI 112
Score = 61.6 bits (148), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 47/82 (57%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
T K+FVGG+ T LR+YF +G + + IM D + + RGF F+TF + ++V+K+
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 162
Query: 220 LKVPIHTLDGKKIDPKHATPKN 241
+ HT++G + + A K
Sbjct: 163 VIQKYHTVNGHNCEVRKALSKQ 184
>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 = 147 bits (370), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 69/174 (39%), Positives = 109/174 (62%), Gaps = 3/174 (1%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
KLF+GGLS++T+ E LR +F +G +TD ++M+DP T+RSRGFGF+T+A E V+ +
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 223 PIHTLDGKKIDPKHATPK---NRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEET 279
H +DG+ ++PK A + RP KKIFVGG+ +DT ++ YF Q+GK+E
Sbjct: 68 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 127
Query: 280 VMLMDQQTKRHRGFGFVTFENEEVVDHICEIHFHMIKNKKVECKKAQPKEAVQA 333
++ D+ + + RGF FVTF++ + VD I +H + E +KA K+ + +
Sbjct: 128 EIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQEMAS 181
Score = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 37/100 (37%), Positives = 62/100 (62%), Gaps = 4/100 (4%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE 309
+K+F+GG+S +T+ E ++++F Q+G + + V++ D TKR RGFGFVT+ E VD
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66
Query: 310 IHFHMIKNKKVECKKAQPKEAVQ---ANLLVGKRVILGPL 346
H + + VE K+A +E Q A+L V K++ +G +
Sbjct: 67 ARPHKVDGRVVEPKRAVSREDSQRPGAHLTV-KKIFVGGI 105
Score = 61.6 bits (148), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 47/82 (57%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
T K+FVGG+ T LR+YF +G + + IM D + + RGF F+TF + ++V+K+
Sbjct: 96 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 155
Query: 220 LKVPIHTLDGKKIDPKHATPKN 241
+ HT++G + + A K
Sbjct: 156 VIQKYHTVNGHNCEVRKALSKQ 177
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 146 bits (369), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 69/170 (40%), Positives = 107/170 (62%), Gaps = 3/170 (1%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
KLF+GGLS++T+ E LR +F +G +TD ++M+DP T+RSRGFGF+T+A E V+ +
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 223 PIHTLDGKKIDPKHATPK---NRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEET 279
H +DG+ ++PK A + RP KKIFVGG+ +DT ++ YF Q+GK+E
Sbjct: 73 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 132
Query: 280 VMLMDQQTKRHRGFGFVTFENEEVVDHICEIHFHMIKNKKVECKKAQPKE 329
++ D+ + + RGF FVTF++ + VD I +H + E +KA K+
Sbjct: 133 EIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQ 182
Score = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 39/107 (36%), Positives = 65/107 (60%), Gaps = 4/107 (3%)
Query: 243 PKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
PK + +K+F+GG+S +T+ E ++++F Q+G + + V++ D TKR RGFGFVT+ E
Sbjct: 5 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVE 64
Query: 303 VVDHICEIHFHMIKNKKVECKKAQPKEAVQ---ANLLVGKRVILGPL 346
VD H + + VE K+A +E Q A+L V K++ +G +
Sbjct: 65 EVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTV-KKIFVGGI 110
Score = 61.6 bits (148), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 47/82 (57%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
T K+FVGG+ T LR+YF +G + + IM D + + RGF F+TF + ++V+K+
Sbjct: 101 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 160
Query: 220 LKVPIHTLDGKKIDPKHATPKN 241
+ HT++G + + A K
Sbjct: 161 VIQKYHTVNGHNCEVRKALSKQ 182
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 146 bits (369), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 69/170 (40%), Positives = 107/170 (62%), Gaps = 3/170 (1%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
KLF+GGLS++T+ E LR +F +G +TD ++M+DP T+RSRGFGF+T+A E V+ +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 223 PIHTLDGKKIDPKHATPK---NRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEET 279
H +DG+ ++PK A + RP KKIFVGG+ +DT ++ YF Q+GK+E
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 134
Query: 280 VMLMDQQTKRHRGFGFVTFENEEVVDHICEIHFHMIKNKKVECKKAQPKE 329
++ D+ + + RGF FVTF++ + VD I +H + E +KA K+
Sbjct: 135 EIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQ 184
Score = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 39/107 (36%), Positives = 65/107 (60%), Gaps = 4/107 (3%)
Query: 243 PKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
PK + +K+F+GG+S +T+ E ++++F Q+G + + V++ D TKR RGFGFVT+ E
Sbjct: 7 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVE 66
Query: 303 VVDHICEIHFHMIKNKKVECKKAQPKEAVQ---ANLLVGKRVILGPL 346
VD H + + VE K+A +E Q A+L V K++ +G +
Sbjct: 67 EVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTV-KKIFVGGI 112
Score = 61.6 bits (148), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 47/82 (57%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
T K+FVGG+ T LR+YF +G + + IM D + + RGF F+TF + ++V+K+
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 162
Query: 220 LKVPIHTLDGKKIDPKHATPKN 241
+ HT++G + + A K
Sbjct: 163 VIQKYHTVNGHNCEVRKALSKQ 184
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 114 bits (284), Expect = 1e-25, Method: Composition-based stats.
Identities = 47/74 (63%), Positives = 62/74 (83%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEIH 311
IFVGG+S +T+ E+VK YF QFGKV++ +++ D+ T RHRGFGFVTFE+E++V+ +CEIH
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 312 FHMIKNKKVECKKA 325
FH I NK VECKKA
Sbjct: 62 FHEINNKMVECKKA 75
Score = 73.9 bits (180), Expect = 1e-13, Method: Composition-based stats.
Identities = 33/74 (44%), Positives = 47/74 (63%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
+FVGGLS T+ E ++ YF FG V D ++M D T R RGFGF+TF + VEKV ++
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 224 IHTLDGKKIDPKHA 237
H ++ K ++ K A
Sbjct: 62 FHEINNKMVECKKA 75
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 107 bits (266), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 47/82 (57%), Positives = 60/82 (73%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
+ K+F+GGLSWQT+ E LREYFG FG V + L+M+DP+T+RSRGFGF+TF + V+KV
Sbjct: 24 SGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV 83
Query: 220 LKVPIHTLDGKKIDPKHATPKN 241
L H LD K IDPK A P+
Sbjct: 84 LAQSRHELDSKTIDPKVAFPRR 105
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 35/86 (40%), Positives = 56/86 (65%)
Query: 245 IGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVV 304
+G+ K+F+GG+S T+ E ++ YF QFG+V+E +++ D TKR RGFGFVTF ++ V
Sbjct: 21 MGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGV 80
Query: 305 DHICEIHFHMIKNKKVECKKAQPKEA 330
D + H + +K ++ K A P+ A
Sbjct: 81 DKVLAQSRHELDSKTIDPKVAFPRRA 106
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 105 bits (261), Expect = 6e-23, Method: Composition-based stats.
Identities = 46/75 (61%), Positives = 57/75 (76%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
K+F+GGLSWQT+ E LREYFG FG V + L+M+DP+T+RSRGFGF+TF + V+KVL
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 223 PIHTLDGKKIDPKHA 237
H LD K IDPK A
Sbjct: 62 SRHELDSKTIDPKVA 76
Score = 69.7 bits (169), Expect = 3e-12, Method: Composition-based stats.
Identities = 32/75 (42%), Positives = 50/75 (66%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEI 310
K+F+GG+S T+ E ++ YF QFG+V+E +++ D TKR RGFGFVTF ++ VD +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 311 HFHMIKNKKVECKKA 325
H + +K ++ K A
Sbjct: 62 SRHELDSKTIDPKVA 76
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 44/79 (55%), Positives = 52/79 (65%)
Query: 162 AKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLK 221
KLFVGGL W T+ E LR YF +G V D +IMKD T +SRGFGF+ F +P V VL
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLA 76
Query: 222 VPIHTLDGKKIDPKHATPK 240
HTLDG+ IDPK TP+
Sbjct: 77 SRPHTLDGRNIDPKPCTPR 95
Score = 64.7 bits (156), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 48/78 (61%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEI 310
K+FVGG+ T+ E +++YFSQ+G+V + V++ D+ T + RGFGFV F++ V +
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 311 HFHMIKNKKVECKKAQPK 328
H + + ++ K P+
Sbjct: 78 RPHTLDGRNIDPKPCTPR 95
>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 = 90.5 bits (223), Expect = 1e-18, Method: Composition-based stats.
Identities = 40/74 (54%), Positives = 52/74 (70%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
+F+GGLSW T+ + L++YF FG V D + DPIT RSRGFGF+ F E E+V+KV+
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 224 IHTLDGKKIDPKHA 237
H L+GK IDPK A
Sbjct: 62 EHKLNGKVIDPKRA 75
Score = 66.6 bits (161), Expect = 2e-11, Method: Composition-based stats.
Identities = 30/74 (40%), Positives = 49/74 (66%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEIH 311
+F+GG+S DT+ +++K YFS+FG+V + + +D T R RGFGFV F+ E VD + +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 312 FHMIKNKKVECKKA 325
H + K ++ K+A
Sbjct: 62 EHKLNGKVIDPKRA 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 = 90.5 bits (223), Expect = 2e-18, Method: Composition-based stats.
Identities = 44/81 (54%), Positives = 53/81 (65%)
Query: 157 DDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETV 216
++ + K FVGGLSW TS + L++YF FG V D I DP T RSRGFGFI F + +V
Sbjct: 7 NEEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASV 66
Query: 217 EKVLKVPIHTLDGKKIDPKHA 237
EKVL H LDG+ IDPK A
Sbjct: 67 EKVLDQKEHRLDGRVIDPKKA 87
Score = 62.4 bits (150), Expect = 4e-10, Method: Composition-based stats.
Identities = 29/75 (38%), Positives = 48/75 (64%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEI 310
K FVGG+S DTS +++K YF++FG+V + + D T R RGFGF+ F++ V+ + +
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 311 HFHMIKNKKVECKKA 325
H + + ++ KKA
Sbjct: 73 KEHRLDGRVIDPKKA 87
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 39/80 (48%), Positives = 56/80 (70%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEI 310
KIFVGG+ + E++ YF +FG V E VM+ D + +R RGFGF+TFE+E+ VD +
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 311 HFHMIKNKKVECKKAQPKEA 330
HFH I KKVE K+A+P+++
Sbjct: 72 HFHDIMGKKVEVKRAEPRDS 91
Score = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 35/84 (41%), Positives = 54/84 (64%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
K+FVGG+ +LREYF FG VT+V+++ D QR RGFGFITF + ++V++ + +
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 223 PIHTLDGKKIDPKHATPKNRPKIG 246
H + GKK++ K A P++ G
Sbjct: 72 HFHDIMGKKVEVKRAEPRDSKSSG 95
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 84.0 bits (206), Expect = 2e-16, Method: Composition-based stats.
Identities = 35/84 (41%), Positives = 57/84 (67%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
KLF+GGLS++T+ E LR Y+ +G +TD ++M+DP ++RSRGFGF+TF+ V+ +
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Query: 223 PIHTLDGKKIDPKHATPKNRPKIG 246
H++DG+ ++PK A + G
Sbjct: 89 RPHSIDGRVVEPKRAVAREESGSG 112
Score = 66.2 bits (160), Expect = 3e-11, Method: Composition-based stats.
Identities = 32/80 (40%), Positives = 51/80 (63%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE 309
+K+F+GG+S +T+ E ++ Y+ Q+GK+ + V++ D +KR RGFGFVTF + VD
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA 87
Query: 310 IHFHMIKNKKVECKKAQPKE 329
H I + VE K+A +E
Sbjct: 88 ARPHSIDGRVVEPKRAVARE 107
>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 = 78.2 bits (191), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 47/203 (23%), Positives = 96/203 (47%), Gaps = 14/203 (6%)
Query: 135 AHQLVLVNGKSSGDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIM 194
+H + G+ G + G ++++VG + ++ + +R+ F FG + + +
Sbjct: 2 SHMASMTGGQQMGRGSAAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMS 61
Query: 195 KDPITQRSRGFGFITFAEPETVEKVL-KVPIHTLDGKKIDPKHATPKN----RPKIGNRT 249
D +T + +GF F+ + PE + L ++ L G+ I K P N +P I
Sbjct: 62 WDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNI--KVGRPSNIGQAQPIIDQLA 119
Query: 250 K------KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEV 303
+ +I+V V QD S +++K+ F FGK++ + D T +H+G+GF+ +E +
Sbjct: 120 EEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQS 179
Query: 304 V-DHICEIHFHMIKNKKVECKKA 325
D + ++ + + + KA
Sbjct: 180 SQDAVSSMNLFDLGGQYLRVGKA 202
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 44/147 (29%), Positives = 78/147 (53%), Gaps = 10/147 (6%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
L V L + ++ + FG G + +++D IT +S G+GF+ +++P +K
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKA---- 62
Query: 224 IHTLDGKKIDPKH-ATPKNRPKIGN-RTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVM 281
I+TL+G K+ K RP + R ++V G+ + S +E++ FSQ+G++ + +
Sbjct: 63 INTLNGLKLQTKTIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRI 122
Query: 282 LMDQQTKRHRGFGFVTF----ENEEVV 304
L+DQ T RG GF+ F E EE +
Sbjct: 123 LLDQATGVSRGVGFIRFDKRIEAEEAI 149
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 33/123 (26%), Positives = 53/123 (43%), Gaps = 9/123 (7%)
Query: 100 LVNGKSSGDS-GRSTPTGDDPTSAKLFVGGLNVVREAHQLVLVNGKSSGDSGRSTPTGDD 158
LV K +G S G DP A + LN ++ + + V+ + P+
Sbjct: 36 LVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKVS--------YARPSSAS 87
Query: 159 PTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEK 218
A L+V GL S +++ + F +G + I+ D T SRG GFI F + E+
Sbjct: 88 IRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEE 147
Query: 219 VLK 221
+K
Sbjct: 148 AIK 150
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 75.1 bits (183), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 45/147 (30%), Positives = 78/147 (53%), Gaps = 10/147 (6%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
L V L + E+ R FG G + +++D IT +S G+GF+ + +P+ EK
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEK----A 60
Query: 224 IHTLDGKKIDPKH-ATPKNRPKIGN-RTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVM 281
I+TL+G ++ K RP + R ++V G+ + + +E++ FSQ+G++ + +
Sbjct: 61 INTLNGLRLQTKTIKVSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRI 120
Query: 282 LMDQQTKRHRGFGFVTF----ENEEVV 304
L+DQ T RG GF+ F E EE +
Sbjct: 121 LVDQVTGVSRGVGFIRFDKRIEAEEAI 147
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 40/140 (28%), Positives = 63/140 (45%), Gaps = 15/140 (10%)
Query: 100 LVNGKSSGDS-GRSTPTGDDPTSAKLFVGGLNVVREAHQLVLVNGKSSGDSGRSTPTGDD 158
LV K +G S G DP A+ + LN +R + + V+ + P+
Sbjct: 34 LVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVS--------YARPSSAS 85
Query: 159 PTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEK 218
A L+V GL + ++L + F +G + I+ D +T SRG GFI F + E+
Sbjct: 86 IRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEE 145
Query: 219 VLKVPIHTLDGKKIDPKHAT 238
+K L+G+K P AT
Sbjct: 146 AIK----GLNGQK--PSGAT 159
>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 = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 40/152 (26%), Positives = 78/152 (51%), Gaps = 13/152 (8%)
Query: 162 AKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL- 220
+++VG + ++ + +R+ F FG + + + D +T + +GF F+ + PE + L
Sbjct: 14 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 73
Query: 221 KVPIHTLDGKKIDPKHATPKN----RPKIGNRTK------KIFVGGVSQDTSAEEVKAYF 270
++ L G+ I K P N +P I + +I+V V QD S +++K+ F
Sbjct: 74 QMNSVMLGGRNI--KVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVF 131
Query: 271 SQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
FGK++ + D T +H+G+GF+ +E +
Sbjct: 132 EAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQ 163
Score = 36.2 bits (82), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 12/58 (20%), Positives = 31/58 (53%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL 220
+++V + S + ++ F FG + + +DP T + +G+GFI + + ++ + +
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 169
>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 = 73.2 bits (178), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 40/152 (26%), Positives = 76/152 (50%), Gaps = 13/152 (8%)
Query: 162 AKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLK 221
+++VG + ++ + +R+ F FG + + D +T + +GF F+ + PE + L+
Sbjct: 13 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALE 72
Query: 222 VPIHT-LDGKKIDPKHATPKN----RPKIGNRTK------KIFVGGVSQDTSAEEVKAYF 270
L G+ I K P N +P I + +I+V V QD S +++K+ F
Sbjct: 73 QXNSVXLGGRNI--KVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVF 130
Query: 271 SQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
FGK++ + D T +H+G+GF+ +E +
Sbjct: 131 EAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQ 162
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 12/58 (20%), Positives = 31/58 (53%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL 220
+++V + S + ++ F FG + + +DP T + +G+GFI + + ++ + +
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 168
>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 = 72.0 bits (175), Expect = 6e-13, Method: Composition-based stats.
Identities = 36/76 (47%), Positives = 48/76 (63%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE 309
KKIFVGG+S DT E+++ YF FG+VE + MD +T + RGF F+TF+ EE V I E
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
Query: 310 IHFHMIKNKKVECKKA 325
+H + K E K A
Sbjct: 62 KKYHNVGLSKCEIKVA 77
Score = 64.7 bits (156), Expect = 8e-11, Method: Composition-based stats.
Identities = 35/75 (46%), Positives = 46/75 (61%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
K+FVGGLS T EK+REYFG FG V + + D T + RGF FITF E E V+K+++
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
Query: 223 PIHTLDGKKIDPKHA 237
H + K + K A
Sbjct: 63 KYHNVGLSKCEIKVA 77
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 68.2 bits (165), Expect = 7e-12, Method: Composition-based stats.
Identities = 34/74 (45%), Positives = 46/74 (62%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEIH 311
IFVGG+S DT E+++ YF FG+VE + MD +T + RGF F+TF+ EE V I E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 312 FHMIKNKKVECKKA 325
+H + K E K A
Sbjct: 62 YHNVGLSKCEIKVA 75
Score = 63.2 bits (152), Expect = 3e-10, Method: Composition-based stats.
Identities = 34/74 (45%), Positives = 45/74 (60%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
+FVGGLS T EK+REYFG FG V + + D T + RGF FITF E E V+K+++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 224 IHTLDGKKIDPKHA 237
H + K + K A
Sbjct: 62 YHNVGLSKCEIKVA 75
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 65.9 bits (159), Expect = 3e-11, Method: Composition-based stats.
Identities = 32/87 (36%), Positives = 51/87 (58%)
Query: 158 DPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVE 217
D T K+FVGGL + T+ LR+YF FG + + +++ D T +SRG+GF+T A+ E
Sbjct: 14 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAE 73
Query: 218 KVLKVPIHTLDGKKIDPKHATPKNRPK 244
+ K P +DG+K + A +P+
Sbjct: 74 RACKDPNPIIDGRKANVNLAYLGAKPR 100
Score = 56.6 bits (135), Expect = 2e-08, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 42/75 (56%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEI 310
KIFVGG+ T+ ++ YF FG +EE V++ D+QT + RG+GFVT + + C+
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 311 HFHMIKNKKVECKKA 325
+I +K A
Sbjct: 79 PNPIIDGRKANVNLA 93
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 37/89 (41%), Positives = 49/89 (55%), Gaps = 1/89 (1%)
Query: 147 GDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFG 206
G SG S ++ L V GL W+T+ + L+EYF FG V V + KD T S+GFG
Sbjct: 1 GSSGSSGVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFG 60
Query: 207 FITFAEPETVEKVLKVPIHTLDGKKIDPK 235
F+ F E ET KV+ H +DG+ D K
Sbjct: 61 FVRFTEYETQVKVMS-QRHMIDGRWCDCK 88
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 42/84 (50%), Gaps = 1/84 (1%)
Query: 247 NRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDH 306
+T + V G+ T+ +++K YFS FG+V + D +T +GFGFV F E
Sbjct: 13 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVK 72
Query: 307 ICEIHFHMIKNKKVECKKAQPKEA 330
+ HMI + +CK K++
Sbjct: 73 VMS-QRHMIDGRWCDCKLPNSKQS 95
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 63.5 bits (153), Expect = 2e-10, Method: Composition-based stats.
Identities = 31/75 (41%), Positives = 50/75 (66%), Gaps = 4/75 (5%)
Query: 162 AKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLK 221
KLFVGGLS+ T+ + L + F +G +++V+++KD TQRSRGFGF+TF E ++ K
Sbjct: 13 GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTF---ENIDDA-K 68
Query: 222 VPIHTLDGKKIDPKH 236
+ ++GK +D +
Sbjct: 69 DAMMAMNGKSVDGRQ 83
Score = 63.2 bits (152), Expect = 2e-10, Method: Composition-based stats.
Identities = 26/50 (52%), Positives = 41/50 (82%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN 300
K+FVGG+S DT+ + ++ FS++G++ E V++ D++T+R RGFGFVTFEN
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFEN 63
>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 = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 47/191 (24%), Positives = 88/191 (46%), Gaps = 11/191 (5%)
Query: 150 GRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFIT 209
G P+ A L+VG L + L E F G + + + +D IT+RS G+ ++
Sbjct: 4 GSMNPSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVN 63
Query: 210 FAEPETVEKVLK-VPIHTLDGK--KIDPKHATPKNRPK-IGNRTKKIFVGGVSQDTSAEE 265
F +P E+ L + + GK +I P R +GN IF+ + + +
Sbjct: 64 FQQPADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGN----IFIKNLDKSIDNKA 119
Query: 266 VKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE-IHFHMIKNKKVECKK 324
+ FS FG + ++ D+ +G+GFV FE +E + E ++ ++ ++KV +
Sbjct: 120 LYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGR 177
Query: 325 AQPKEAVQANL 335
+ ++ +A L
Sbjct: 178 FKSRKEREAEL 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 = 61.6 bits (148), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 45/179 (25%), Positives = 85/179 (47%), Gaps = 11/179 (6%)
Query: 162 AKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLK 221
A L+VG L + L E F G + + + +D IT+RS G+ ++ F +P E+ L
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 70
Query: 222 -VPIHTLDGK--KIDPKHATPKNRPK-IGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVE 277
+ + GK +I P R +GN IF+ + + + + FS FG +
Sbjct: 71 TMNFDVIKGKPVRIMWSQRDPSLRKSGVGN----IFIKNLDKSIDNKALYDTFSAFGNIL 126
Query: 278 ETVMLMDQQTKRHRGFGFVTFENEEVVDHICE-IHFHMIKNKKVECKKAQPKEAVQANL 335
++ D+ +G+GFV FE +E + E ++ ++ ++KV + + ++ +A L
Sbjct: 127 SCKVVCDENG--SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRKEREAEL 183
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 61.2 bits (147), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 71/141 (50%), Gaps = 12/141 (8%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
L V L + ++LR F G V +++D + S G+GF+ + + E+
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAER----A 60
Query: 224 IHTLDGKKIDPK-----HATPKNRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEE 278
I+TL+G ++ K +A P + + +++ G+ + + ++V+ FS+FG++
Sbjct: 61 INTLNGLRLQSKTIKVSYARPSSEVI---KDANLYISGLPRTMTQKDVEDMFSRFGRIIN 117
Query: 279 TVMLMDQQTKRHRGFGFVTFE 299
+ +L+DQ T RG F+ F+
Sbjct: 118 SRVLVDQTTGLSRGVAFIRFD 138
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 32/67 (47%)
Query: 154 PTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEP 213
P+ + A L++ GL + + + + F FG + + ++ D T SRG FI F +
Sbjct: 81 PSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKR 140
Query: 214 ETVEKVL 220
E+ +
Sbjct: 141 SEAEEAI 147
>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 = 61.2 bits (147), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 38/150 (25%), Positives = 74/150 (49%), Gaps = 16/150 (10%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
L V L + ++LR F G V +++D + S G+GF+ + + E+
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAER----A 60
Query: 224 IHTLDGKKIDPK-----HATPKNRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEE 278
I+TL+G ++ K +A P + + +++ G+ + + ++V+ FS+FG++
Sbjct: 61 INTLNGLRLQSKTIKVSYARPSSEVI---KDANLYISGLPRTMTQKDVEDMFSRFGRIIN 117
Query: 279 TVMLMDQQTKRHRGFGFVTF----ENEEVV 304
+ +L+DQ T RG F+ F E EE +
Sbjct: 118 SRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
Score = 36.2 bits (82), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 32/67 (47%)
Query: 154 PTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEP 213
P+ + A L++ GL + + + + F FG + + ++ D T SRG FI F +
Sbjct: 81 PSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKR 140
Query: 214 ETVEKVL 220
E+ +
Sbjct: 141 SEAEEAI 147
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 60.1 bits (144), Expect = 2e-09, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 50/83 (60%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE 309
+ I+VG + ++E+VK FSQFGKV ++ D++TK+ +GFGFV + E V + I +
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAK 61
Query: 310 IHFHMIKNKKVECKKAQPKEAVQ 332
+ + + +A PK++++
Sbjct: 62 LDNTDFMGRTIRVTEANPKKSLE 84
Score = 52.0 bits (123), Expect = 6e-07, Method: Composition-based stats.
Identities = 25/77 (32%), Positives = 42/77 (54%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
++VG L + +SE+++E F FG V +V ++ D T++ +GFGF+ E E + K+
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLD 63
Query: 224 IHTLDGKKIDPKHATPK 240
G+ I A PK
Sbjct: 64 NTDFMGRTIRVTEANPK 80
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 58.2 bits (139), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 44/153 (28%), Positives = 76/153 (49%), Gaps = 13/153 (8%)
Query: 154 PTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQ--RSRGFGFITFA 211
P D + K+FVG + S + LRE F +GAV ++ +++D +S+G F+TF
Sbjct: 8 PDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFY 67
Query: 212 EPETVEKVLKVPIHTLDGKKIDP-KHATPKNRPKIGNRT-----KKIFVGGVSQDTSAEE 265
T + L+ + L K+ P H + +P + +K+F+G +S+ + +
Sbjct: 68 ---TRKAALEAQ-NALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTEND 123
Query: 266 VKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTF 298
++ FS FG++EE +L RG FVTF
Sbjct: 124 IRVMFSSFGQIEECRILRGPDG-LSRGCAFVTF 155
>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 = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 42/144 (29%), Positives = 72/144 (50%), Gaps = 13/144 (9%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQ--RSRGFGFITFAEPETVEKVL 220
K FVG + S + LRE F +GAV ++ +++D +S+G F+TF T + L
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFY---TRKAAL 61
Query: 221 KVPIHTLDGKKIDP-KHATPKNRPKIGNRT-----KKIFVGGVSQDTSAEEVKAYFSQFG 274
+ + L K+ P H + +P + +K+F+G +S+ + +++ FS FG
Sbjct: 62 EAQ-NALHNXKVLPGXHHPIQXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFG 120
Query: 275 KVEETVMLMDQQTKRHRGFGFVTF 298
++EE +L RG FVTF
Sbjct: 121 QIEECRILRGPDG-LSRGCAFVTF 143
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 47/76 (61%), Gaps = 2/76 (2%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLK- 221
KLF+GGL+ +T+ + L+ FG G +++VL++KD T +SRGF FITF P + K
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 222 VPIHTLDGKKIDPKHA 237
+ +L GK I + A
Sbjct: 68 MNGKSLHGKAIKVEQA 83
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 37/50 (74%), Gaps = 1/50 (2%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN 300
K+F+GG++++T+ + +KA F + G + E V+L+ +T + RGF F+TFEN
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISE-VLLIKDRTSKSRGFAFITFEN 57
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 42/144 (29%), Positives = 73/144 (50%), Gaps = 13/144 (9%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQ--RSRGFGFITFAEPETVEKVL 220
K+FVG + S + LRE F +GAV ++ +++D +S+G F+TF T + L
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFY---TRKAAL 61
Query: 221 KVPIHTLDGKKIDP-KHATPKNRPKIGNRT-----KKIFVGGVSQDTSAEEVKAYFSQFG 274
+ + L K+ P H + +P + +K+F+G +S+ + +++ FS FG
Sbjct: 62 EAQ-NALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFG 120
Query: 275 KVEETVMLMDQQTKRHRGFGFVTF 298
++EE +L RG FVTF
Sbjct: 121 QIEECRILRGPDG-LSRGCAFVTF 143
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 54.7 bits (130), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 33/143 (23%), Positives = 71/143 (49%), Gaps = 9/143 (6%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
L+VG L + + L++YF + G + ++ IM D ++ + F+ + + +
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDA----NIA 57
Query: 224 IHTLDGKKIDPK----HATPKNRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEET 279
+ TL+GK+I+ + +++ + T +FVG ++ + E ++ F F
Sbjct: 58 LQTLNGKQIENNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSG 117
Query: 280 VMLMDQQTKRHRGFGFVTFENEE 302
++ D QT RG+GFV+F +++
Sbjct: 118 HVMWDMQTGSSRGYGFVSFTSQD 140
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 33/70 (47%), Gaps = 1/70 (1%)
Query: 151 RSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITF 210
+S + D T LFVG L+ E LR F F + +M D T SRG+GF++F
Sbjct: 78 QSQQSSSDDT-FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSF 136
Query: 211 AEPETVEKVL 220
+ + +
Sbjct: 137 TSQDDAQNAM 146
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 53.9 bits (128), Expect = 2e-07, Method: Composition-based stats.
Identities = 24/61 (39%), Positives = 40/61 (65%)
Query: 161 SAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL 220
S+ L+VG L + + + LR F FG + ++++MKD T RS+G+GFITF++ E + L
Sbjct: 5 SSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRAL 64
Query: 221 K 221
+
Sbjct: 65 E 65
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 32/51 (62%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
++VG + + + + ++ F FGK++ V++ D T R +G+GF+TF + E
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSE 58
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL-K 221
+L+VG L + + + LR F FG + + +M D T RS+G+GFITF++ E +K L +
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 222 VPIHTLDGKKIDPKHATPK 240
+ L G+ + H T +
Sbjct: 88 LNGFELAGRPMKVGHVTER 106
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 35/59 (59%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE 309
+++VG + + + + ++ F FG++E ++MD +T R +G+GF+TF + E E
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALE 86
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 45/140 (32%), Positives = 67/140 (47%), Gaps = 21/140 (15%)
Query: 162 AKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLK 221
+LFVG L + E + F +G ++V I +D RGFGFI E T+ ++ K
Sbjct: 23 CRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRL-ESRTLAEIAK 75
Query: 222 VPIHTLDGKKIDPKHATPKNRP---KIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEE 278
LDG + K+RP + + V +S S E ++ FSQFG VE+
Sbjct: 76 A---ELDGTIL-------KSRPLRIRFATHGAALTVKNLSPVVSNELLEQAFSQFGPVEK 125
Query: 279 TVMLMDQQTKRHRGFGFVTF 298
V+++D + R G GFV F
Sbjct: 126 AVVVVDDRG-RATGKGFVEF 144
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 6/55 (10%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVD 305
++FVG + D + E+ K F ++G+ E + R RGFGF+ E+ + +
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAE 72
>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 = 51.2 bits (121), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 50/95 (52%), Gaps = 1/95 (1%)
Query: 147 GDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFG 206
G SG S D +FVG LS + ++E ++ F FG ++D ++KD T +S+G+G
Sbjct: 1 GSSGSSGQKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYG 60
Query: 207 FITFAEPETVEKVL-KVPIHTLDGKKIDPKHATPK 240
F++F E + ++ L G++I AT K
Sbjct: 61 FVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATRK 95
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 50/89 (56%), Gaps = 6/89 (6%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENE-EVVDHICEI 310
+FVG +S + + E++KA F+ FG++ + ++ D T + +G+GFV+F N+ + + I ++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 311 HFHMIKNKKVECKKA-----QPKEAVQAN 334
+ +++ A PK ++N
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPKSTYESN 106
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 50/95 (52%), Gaps = 1/95 (1%)
Query: 147 GDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFG 206
G SG S D +FVG LS + ++E ++ F FG ++D ++KD T +S+G+G
Sbjct: 1 GSSGSSGQKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYG 60
Query: 207 FITFAEPETVEK-VLKVPIHTLDGKKIDPKHATPK 240
F++F E ++ + L G++I AT K
Sbjct: 61 FVSFYNKLDAENAIVHMGGQWLGGRQIRTNWATRK 95
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENE-EVVDHICEI 310
+FVG +S + + E++K+ F+ FGK+ + ++ D T + +G+GFV+F N+ + + I +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 311 HFHMIKNKKVECKKAQPK 328
+ +++ A K
Sbjct: 78 GGQWLGGRQIRTNWATRK 95
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 50.8 bits (120), Expect = 1e-06, Method: Composition-based stats.
Identities = 36/90 (40%), Positives = 48/90 (53%), Gaps = 6/90 (6%)
Query: 145 SSGDSG-RSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSR 203
SSG SG R+ P DP L V GLS T+ LRE F +G + DV I+ D ++RSR
Sbjct: 2 SSGSSGNRANP---DPNCC-LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSR 57
Query: 204 GFGFITFAEPETV-EKVLKVPIHTLDGKKI 232
GF F+ F + E + LDG++I
Sbjct: 58 GFAFVYFENVDDAKEAKERANGMELDGRRI 87
Score = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 32/47 (68%)
Query: 254 VGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN 300
V G+S T+ +++ FS++G + + ++ DQQ++R RGF FV FEN
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 66
>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 = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 48/91 (52%), Gaps = 3/91 (3%)
Query: 143 GKSSGDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRS 202
G+ S GR P + TS K V L+++TS + LR F +G V DV I +D T+ S
Sbjct: 31 GRGSMSYGRPPPDVEGMTSLK--VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKES 88
Query: 203 RGFGFITFAEPETVEKVLK-VPIHTLDGKKI 232
RGF F+ F + E + + LDG+++
Sbjct: 89 RGFAFVRFHDKRDAEDAMDAMDGAVLDGREL 119
Score = 35.0 bits (79), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 254 VGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENE-EVVDHICEIHF 312
V ++ TS + ++ F ++G+V + + D+ TK RGF FV F ++ + D + +
Sbjct: 52 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 111
Query: 313 HMIKNKKVECKKAQ 326
++ +++ + A+
Sbjct: 112 AVLDGRELRVQMAR 125
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 50.8 bits (120), Expect = 1e-06, Method: Composition-based stats.
Identities = 36/90 (40%), Positives = 48/90 (53%), Gaps = 6/90 (6%)
Query: 145 SSGDSG-RSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSR 203
SSG SG R+ P DP L V GLS T+ LRE F +G + DV I+ D ++RSR
Sbjct: 2 SSGSSGNRANP---DPNCC-LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSR 57
Query: 204 GFGFITFAEPETV-EKVLKVPIHTLDGKKI 232
GF F+ F + E + LDG++I
Sbjct: 58 GFAFVYFENVDDAKEAKERANGMELDGRRI 87
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 32/47 (68%)
Query: 254 VGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN 300
V G+S T+ +++ FS++G + + ++ DQQ++R RGF FV FEN
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 66
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 49.7 bits (117), Expect = 3e-06, Method: Composition-based stats.
Identities = 34/104 (32%), Positives = 50/104 (48%), Gaps = 2/104 (1%)
Query: 131 VVREAHQLVLVNGKSSGDSGRSTPTGDDPT-SAKLFVGGLSWQTSSEKLREYFGMFGAVT 189
V R +H + G+ G R +P + L V GLS T+ LRE F +G +
Sbjct: 15 VPRGSHMASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIA 74
Query: 190 DVLIMKDPITQRSRGFGFITFAEPETV-EKVLKVPIHTLDGKKI 232
DV I+ D ++RSRGF F+ F + E + LDG++I
Sbjct: 75 DVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 118
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 37/61 (60%), Gaps = 5/61 (8%)
Query: 245 IGNRTKK-----IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFE 299
+GNR + V G+S T+ +++ FS++G + + ++ DQQ++R RGF FV FE
Sbjct: 37 VGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFE 96
Query: 300 N 300
N
Sbjct: 97 N 97
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 47/90 (52%), Gaps = 4/90 (4%)
Query: 161 SAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQ---RSRGFGFITFAEPETVE 217
S+ LF+ L++ T+ E L+ F GA+ I K S GFGF+ + +PE +
Sbjct: 5 SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQ 64
Query: 218 KVLK-VPIHTLDGKKIDPKHATPKNRPKIG 246
K LK + HT+DG K++ + + +P G
Sbjct: 65 KALKQLQGHTVDGHKLEVRISERATKPASG 94
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 44/78 (56%), Gaps = 6/78 (7%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEI 310
K+FVG ++D +AEE++ +F Q+G+V + + K R F FVTF +++V +C
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFI-----PKPFRAFAFVTFADDKVAQSLCGE 67
Query: 311 HFHMIKNKKVECKKAQPK 328
+IK V A+PK
Sbjct: 68 DL-IIKGISVHISNAEPK 84
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 44/80 (55%), Gaps = 6/80 (7%)
Query: 162 AKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLK 221
+K+FVG + ++E+L+++F +G V DV I K P R F F+TFA+ + + +
Sbjct: 12 SKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPK-PF----RAFAFVTFADDKVAQSLCG 66
Query: 222 VPIHTLDGKKIDPKHATPKN 241
+ + G + +A PK+
Sbjct: 67 EDL-IIKGISVHISNAEPKH 85
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 32/144 (22%), Positives = 63/144 (43%), Gaps = 4/144 (2%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
++ L V L + +L F G + IM+D T S G+ F+ F ++
Sbjct: 2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 61
Query: 220 LKVPIH-TLDGKKIDPKHATPKNRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEE 278
+KV T+ K++ +A P + ++V + + + +++ F ++G + +
Sbjct: 62 IKVLNGITVRNKRLKVSYARPGGESI---KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQ 118
Query: 279 TVMLMDQQTKRHRGFGFVTFENEE 302
+L D+ T R RG FV + E
Sbjct: 119 KNILRDKLTGRPRGVAFVRYNKRE 142
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 34/67 (50%)
Query: 154 PTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEP 213
P G+ L+V L + ++L FG +G++ I++D +T R RG F+ + +
Sbjct: 82 PGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKR 141
Query: 214 ETVEKVL 220
E ++ +
Sbjct: 142 EEAQEAI 148
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 41/64 (64%), Gaps = 3/64 (4%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE-- 309
+FVGG+ E++++F+++G V+E ++ D +T +G+GFV+F N+ V I E
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 310 IHFH 313
I+FH
Sbjct: 72 INFH 75
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 43/69 (62%), Gaps = 2/69 (2%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
+FVGG+ + ++R +F +G+V +V I+ D T S+G+GF++F V+K+++
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 224 IHTLDGKKI 232
I+ GKK+
Sbjct: 72 IN-FHGKKL 79
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 41/64 (64%), Gaps = 3/64 (4%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE-- 309
+FVGG+ E++++F+++G V+E ++ D +T +G+GFV+F N+ V I E
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 310 IHFH 313
I+FH
Sbjct: 71 INFH 74
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 43/69 (62%), Gaps = 2/69 (2%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
+FVGG+ + ++R +F +G+V +V I+ D T S+G+GF++F V+K+++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 224 IHTLDGKKI 232
I+ GKK+
Sbjct: 71 IN-FHGKKL 78
>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 = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 41/64 (64%), Gaps = 3/64 (4%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE-- 309
+FVGG+ E++++F+++G V+E ++ D +T +G+GFV+F N+ V I E
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 310 IHFH 313
I+FH
Sbjct: 71 INFH 74
Score = 44.7 bits (104), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 43/69 (62%), Gaps = 2/69 (2%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
+FVGG+ + ++R +F +G+V +V I+ D T S+G+GF++F V+K+++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 224 IHTLDGKKI 232
I+ GKK+
Sbjct: 71 IN-FHGKKL 78
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 39/70 (55%), Gaps = 1/70 (1%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLK-V 222
L V L+++TS + LR F +G V DV I +D T+ SRGF F+ F + E + +
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 223 PIHTLDGKKI 232
LDG+++
Sbjct: 133 DGAVLDGREL 142
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%)
Query: 254 VGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENE 301
V ++ TS + ++ F ++G+V + + D+ TK RGF FV F ++
Sbjct: 75 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDK 122
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 38/58 (65%), Gaps = 1/58 (1%)
Query: 246 GNRTKKI-FVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
G+ TK++ +VGG++++ + + A F FG + + + +D +T++HRGF FV FE E
Sbjct: 1 GSTTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 58
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 30/55 (54%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPE 214
T L+VGGL+ + + L F FG +TD+ I D T++ RGF F+ F E
Sbjct: 4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 58
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 31/83 (37%), Positives = 43/83 (51%), Gaps = 5/83 (6%)
Query: 151 RSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITF 210
R+ P DP L V GLS T+ LRE F +G + DV I+ D ++RSRGF F+ F
Sbjct: 6 RANP---DPNCC-LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYF 61
Query: 211 AEPETV-EKVLKVPIHTLDGKKI 232
+ E + LDG++I
Sbjct: 62 ENVDDAKEAKERANGMELDGRRI 84
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 32/47 (68%)
Query: 254 VGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN 300
V G+S T+ +++ FS++G + + ++ DQQ++R RGF FV FEN
Sbjct: 17 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 63
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 25/74 (33%), Positives = 38/74 (51%)
Query: 147 GDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFG 206
G SG S P +A + V LS T L+E F FG+++ + + KD T +S+GF
Sbjct: 1 GSSGSSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFA 60
Query: 207 FITFAEPETVEKVL 220
FI+F E + +
Sbjct: 61 FISFHRREDAARAI 74
Score = 35.8 bits (81), Expect = 0.041, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 2/62 (3%)
Query: 241 NRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN 300
NR N T I V +S+DT +++ F FG + + D+ T + +GF F++F
Sbjct: 9 NRRADDNAT--IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHR 66
Query: 301 EE 302
E
Sbjct: 67 RE 68
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/96 (38%), Positives = 46/96 (47%), Gaps = 6/96 (6%)
Query: 147 GDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFG 206
G SG S P S LFV GLS T+ E L+E F G+V I+ D T S+GFG
Sbjct: 1 GSSGSSGPNARSQPSKTLFVKGLSEDTTEETLKESFD--GSVR-ARIVTDRETGSSKGFG 57
Query: 207 FITFAEPETVEKVLKVPIHT--LDGKKIDPKHATPK 240
F+ F E K K + +DG K+ A PK
Sbjct: 58 FVDFNSEEDA-KAAKEAMEDGEIDGNKVTLDWAKPK 92
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 43/81 (53%), Gaps = 4/81 (4%)
Query: 249 TKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHIC 308
+K +FV G+S+DT+ E +K F G V + + D++T +GFGFV F +EE
Sbjct: 15 SKTLFVKGLSEDTTEETLKESFD--GSVRARI-VTDRETGSSKGFGFVDFNSEEDAKAAK 71
Query: 309 E-IHFHMIKNKKVECKKAQPK 328
E + I KV A+PK
Sbjct: 72 EAMEDGEIDGNKVTLDWAKPK 92
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 26/64 (40%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 147 GDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFG 206
G SG S P D + K V L+++TS + LR F +G V DV I ++P T+ RGF
Sbjct: 1 GSSGSSGPDVDGMITLK--VDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFA 58
Query: 207 FITF 210
F+ F
Sbjct: 59 FVRF 62
Score = 31.2 bits (69), Expect = 1.2, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 26/47 (55%)
Query: 254 VGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN 300
V ++ TS + ++ F ++G+V + + + TK RGF FV F +
Sbjct: 18 VDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHD 64
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 43/81 (53%), Gaps = 3/81 (3%)
Query: 247 NRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDH 306
N+ ++VGG+ + S + F Q G V T M D+ T +H+G+GFV F +EE D+
Sbjct: 13 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADY 72
Query: 307 ICEIHFHMIK--NKKVECKKA 325
+I MIK K + KA
Sbjct: 73 AIKI-MDMIKLYGKPIRVNKA 92
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 1/90 (1%)
Query: 154 PTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEP 213
P + A ++VGGL + S L E F G V + + KD +T + +G+GF+ F
Sbjct: 8 PISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSE 67
Query: 214 ETVEKVLKV-PIHTLDGKKIDPKHATPKNR 242
E + +K+ + L GK I A+ N+
Sbjct: 68 EDADYAIKIMDMIKLYGKPIRVNKASAHNK 97
>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 = 45.4 bits (106), Expect = 5e-05, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 36/55 (65%), Gaps = 1/55 (1%)
Query: 249 TKKI-FVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
TK++ +VGG++++ + + A F FG + + + +D +T++HRGF FV FE E
Sbjct: 6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 60
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 30/55 (54%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPE 214
T L+VGGL+ + + L F FG +TD+ I D T++ RGF F+ F E
Sbjct: 6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 60
>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 = 45.1 bits (105), Expect = 8e-05, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 33/51 (64%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
++VGG++++ + + A F FG + + + +D +T++HRGF FV FE E
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 55
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 29/51 (56%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPE 214
L+VGGL+ + + L F FG +TD+ I D T++ RGF F+ F E
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 55
>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 = 44.7 bits (104), Expect = 9e-05, Method: Composition-based stats.
Identities = 26/92 (28%), Positives = 47/92 (51%), Gaps = 5/92 (5%)
Query: 156 GDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPET 215
G + + ++VG + + ++E+L +F G+V V I+ D + +GF +I F++ E+
Sbjct: 1 GXEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKES 60
Query: 216 VEKVLKVPIHTLDGKKID--PKHATPKNRPKI 245
V L + G++I PK NRP I
Sbjct: 61 VRTSLALDESLFRGRQIKVIPKRT---NRPGI 89
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 32/55 (58%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVV 304
+ I+VG V +AEE++A+F G V +L D+ + +GF ++ F ++E V
Sbjct: 7 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESV 61
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 6/77 (7%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEIH 311
+FVG + D + +E++ +FSQ+G V + + K R F FVTF ++++ +C
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFI-----PKPFRAFAFVTFADDQIAQSLCGED 62
Query: 312 FHMIKNKKVECKKAQPK 328
+IK V A+PK
Sbjct: 63 L-IIKGISVHISNAEPK 78
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 26/86 (30%), Positives = 44/86 (51%), Gaps = 6/86 (6%)
Query: 161 SAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL 220
S+ +FVG + + ++LRE+F +G V DV I K P R F F+TFA+ + + +
Sbjct: 5 SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPK-PF----RAFAFVTFADDQIAQSLC 59
Query: 221 KVPIHTLDGKKIDPKHATPKNRPKIG 246
+ + G + +A PK+ G
Sbjct: 60 GEDL-IIKGISVHISNAEPKHNSNSG 84
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 33/52 (63%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPE 214
+LFV LS+ +S E L + F +G ++++ D +T++ +GF F+TF PE
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPE 61
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 30/48 (62%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTF 298
++FV +S +S E+++ FS +G + E +D TK+ +GF FVTF
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTF 57
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 27/70 (38%), Positives = 37/70 (52%), Gaps = 6/70 (8%)
Query: 145 SSGDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRG 204
SSG SG +T T L+VGGL+ + + L F FG +TD+ I D T++ RG
Sbjct: 2 SSGSSGMAT------TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRG 55
Query: 205 FGFITFAEPE 214
F F+ F E
Sbjct: 56 FAFVEFELAE 65
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 36/55 (65%), Gaps = 1/55 (1%)
Query: 249 TKKI-FVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
TK++ +VGG++++ + + A F FG + + + +D +T++HRGF FV FE E
Sbjct: 11 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 65
>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 = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 5/84 (5%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
++VG + + ++E+L +F G+V V I+ D + +GF +I F++ E+V L +
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALD 67
Query: 224 IHTLDGKKID--PKHATPKNRPKI 245
G++I PK NRP I
Sbjct: 68 ESLFRGRQIKVIPKRT---NRPGI 88
Score = 41.6 bits (96), Expect = 8e-04, Method: Composition-based stats.
Identities = 22/87 (25%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE 309
+ I+VG V +AEE++A+F G V +L D+ + +GF ++ F ++E V
Sbjct: 6 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA 65
Query: 310 IHFHMIKNKKVECKKAQPKEAVQANLL 336
+ + + +++ K PK + +L
Sbjct: 66 LDESLFRGRQI---KVIPKRTNRPGIL 89
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 35/52 (67%), Gaps = 1/52 (1%)
Query: 249 TKKI-FVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFE 299
TK++ +VGG++++ + + A F FG + + + +D +T++HRGF FV FE
Sbjct: 62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFE 113
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 30/55 (54%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPE 214
T L+VGGL+ + + L F FG +TD+ I D T++ RGF F+ F E
Sbjct: 62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 116
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 36/60 (60%)
Query: 243 PKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
P + + +FVG + + + E++K FS+ G V ++ D++T + +G+GF ++++E
Sbjct: 2 PAVDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQE 61
Score = 37.4 bits (85), Expect = 0.016, Method: Composition-based stats.
Identities = 16/64 (25%), Positives = 34/64 (53%)
Query: 158 DPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVE 217
D + +FVG + ++ + E+L++ F G V ++ D T + +G+GF + + ET
Sbjct: 5 DRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETAL 64
Query: 218 KVLK 221
++
Sbjct: 65 SAMR 68
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 40/76 (52%), Gaps = 4/76 (5%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
+ L V L + ++ + FG G + +++D IT +S G+GF+ +++P +K
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
Query: 220 LKVPIHTLDGKKIDPK 235
I+TL+G K+ K
Sbjct: 63 ----INTLNGLKLQTK 74
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 55/103 (53%), Gaps = 5/103 (4%)
Query: 153 TPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMK---DPITQRSRGFGFIT 209
T +G A ++VG SW T+ ++L + G V DV+ +K + +S+G+ +
Sbjct: 47 TYSGLRNRRAAVYVGSFSWWTTDQQLIQVIRSIG-VYDVVELKFAENRANGQSKGYAEVV 105
Query: 210 FAEPETVEKVLK-VPIHTLDGKKIDPKHATPKNRPKIGNRTKK 251
A +V K+L+ +P L+G+K+D + AT +N + + +K
Sbjct: 106 VASENSVHKLLELLPGKVLNGEKVDVRPATRQNLSQFEAQARK 148
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 42.7 bits (99), Expect = 4e-04, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 33/59 (55%)
Query: 159 PTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVE 217
P+ + ++V L + ++ L F +G V V IMKD T++S+G FI F + ++ +
Sbjct: 14 PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQ 72
Score = 32.0 bits (71), Expect = 0.62, Method: Composition-based stats.
Identities = 11/51 (21%), Positives = 30/51 (58%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
++V + + ++ FS++GKV + ++ D+ T++ +G F+ F +++
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKD 69
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 42.7 bits (99), Expect = 4e-04, Method: Composition-based stats.
Identities = 26/74 (35%), Positives = 37/74 (50%), Gaps = 5/74 (6%)
Query: 150 GRSTPTGDDPTS---AKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFG 206
G S +GD T L+V L E+LR+ F FG +T +M + RS+GFG
Sbjct: 1 GSSGSSGDRITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFG 58
Query: 207 FITFAEPETVEKVL 220
F+ F+ PE K +
Sbjct: 59 FVCFSSPEEATKAV 72
Score = 37.4 bits (85), Expect = 0.016, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 41/83 (49%), Gaps = 3/83 (3%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN-EEVVDHICEI 310
++V + E ++ FS FG + ++M + R +GFGFV F + EE + E+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMM--EGGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 311 HFHMIKNKKVECKKAQPKEAVQA 333
+ ++ K + AQ KE Q+
Sbjct: 76 NGRIVATKPLYVALAQRKEERQS 98
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 32/52 (61%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
K+F+G + ++ +++K F +FGK+ E +L D+ T H+G F+T+ E
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERE 66
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 5/75 (6%)
Query: 145 SSGDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRG 204
SSG SG D + KLF+G + + L+ F FG + ++ ++KD T +G
Sbjct: 2 SSGSSGMK-----DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKG 56
Query: 205 FGFITFAEPETVEKV 219
F+T+ E E+ K
Sbjct: 57 CAFLTYCERESALKA 71
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 45/82 (54%), Gaps = 3/82 (3%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
T +L V + ++ LR+ FG FG + DV I+ + + S+GFGF+TF ++
Sbjct: 14 TPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNE--RGSKGFGFVTFENSADADRA 71
Query: 220 L-KVPIHTLDGKKIDPKHATPK 240
K+ ++G+KI+ +AT +
Sbjct: 72 REKLHGTVVEGRKIEVNNATAR 93
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 38/65 (58%), Gaps = 3/65 (4%)
Query: 265 EVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE-IHFHMIKNKKVECK 323
+++ F QFGK+ + ++ +++ + GFGFVTFEN D E +H +++ +K+E
Sbjct: 31 DLRQMFGQFGKILDVEIIFNERGSK--GFGFVTFENSADADRAREKLHGTVVEGRKIEVN 88
Query: 324 KAQPK 328
A +
Sbjct: 89 NATAR 93
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 45/80 (56%), Gaps = 5/80 (6%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
+L V + ++ LR+ FG FG + DV I+ + + S+GFGF+TF ++ +
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNE--RGSKGFGFVTFENSADADRA-RE 87
Query: 223 PIH--TLDGKKIDPKHATPK 240
+H ++G+KI+ +AT +
Sbjct: 88 KLHGTVVEGRKIEVNNATAR 107
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 38/65 (58%), Gaps = 3/65 (4%)
Query: 265 EVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE-IHFHMIKNKKVECK 323
+++ F QFGK+ + ++ +++ + GFGFVTFEN D E +H +++ +K+E
Sbjct: 45 DLRQMFGQFGKILDVEIIFNERGSK--GFGFVTFENSADADRAREKLHGTVVEGRKIEVN 102
Query: 324 KAQPK 328
A +
Sbjct: 103 NATAR 107
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 32/48 (66%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFE 299
++V G+ + S +E++ FSQ+G++ + +L+DQ T RG GF+ F+
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFD 51
Score = 37.4 bits (85), Expect = 0.017, Method: Composition-based stats.
Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 4/70 (5%)
Query: 162 AKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLK 221
A L+V GL S +++ + F +G + I+ D T SRG GFI F + E+ +K
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 222 VPIHTLDGKK 231
L+G+K
Sbjct: 62 ----GLNGQK 67
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 30/48 (62%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTF 298
K+FVG + + +++K F +FG++ E +L D+ T H+G F+T+
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTY 64
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 36/73 (49%)
Query: 147 GDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFG 206
G SG S D + KLFVG + + L+ F FG + ++ ++KD +T +G
Sbjct: 1 GSSGSSGVPMKDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCA 60
Query: 207 FITFAEPETVEKV 219
F+T+ ++ K
Sbjct: 61 FLTYCARDSALKA 73
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 235 KHATPKNRPKI-GNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGF 293
K P N P G+ K +FV V+ DT+ +++ F +G ++ M+ +++ + RG+
Sbjct: 87 KMWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGY 146
Query: 294 GFVTFENE 301
F+ +E+E
Sbjct: 147 AFIEYEHE 154
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 4/70 (5%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
LFV +++ T+ KLR F ++G + + ++ + + RG+ FI + + K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK-- 162
Query: 224 IHTLDGKKID 233
DGKKID
Sbjct: 163 --HADGKKID 170
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 235 KHATPKNRPKI-GNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGF 293
K P N P G+ K +FV V+ DT+ +++ F +G ++ M+ +++ + RG+
Sbjct: 87 KMWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGY 146
Query: 294 GFVTFENE 301
F+ +E+E
Sbjct: 147 AFIEYEHE 154
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 36/70 (51%), Gaps = 4/70 (5%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
LFV +++ T+ KLR F ++G + + ++ + + RG+ FI + E+ +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEH----ERDMHSA 160
Query: 224 IHTLDGKKID 233
DGKKID
Sbjct: 161 YKHADGKKID 170
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
Query: 147 GDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPI-TQRSRGF 205
G SG S T++K+ V + +Q + ++RE F FG + V + K T RGF
Sbjct: 1 GSSGSSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGF 60
Query: 206 GFITFAEPETVEKVLKVPIHT--LDGKKI 232
GF+ F + +K H+ L G+++
Sbjct: 61 GFVDFITKQDAKKAFNALCHSTHLYGRRL 89
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 46/91 (50%), Gaps = 9/91 (9%)
Query: 249 TKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKR--HRGFGFVTF----ENEE 302
T KI V + + E++ FS FG+++ TV L + T HRGFGFV F + ++
Sbjct: 15 TSKILVRNIPFQANQREIRELFSTFGELK-TVRLPKKMTGTGAHRGFGFVDFITKQDAKK 73
Query: 303 VVDHICEIHFHMIKNKKVECKKAQPKEAVQA 333
+ +C H + +++ + A + VQ+
Sbjct: 74 AFNALC--HSTHLYGRRLVLEWADSEVTVQS 102
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 41/88 (46%), Gaps = 5/88 (5%)
Query: 147 GDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFG 206
G SG S P+ KLFVG L+ Q S + +R F FG + + I++ P S+G
Sbjct: 1 GSSGSSGCLRQPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGP-DGNSKGCA 59
Query: 207 FITFAEPETVEKVLKVPIHTLDGKKIDP 234
F+ ++ + I+ L G + P
Sbjct: 60 FVKYSSHAEAQ----AAINALHGSQTMP 83
Score = 32.3 bits (72), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 30/53 (56%), Gaps = 5/53 (9%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLM--DQQTKRHRGFGFVTFEN 300
+K+FVG +++ S ++V+ F FG +EE +L D +K G FV + +
Sbjct: 16 RKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSK---GCAFVKYSS 65
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 35/69 (50%)
Query: 152 STPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFA 211
+ P G+ L+V L + ++L FG +G++ I++D +T R RG F+ +
Sbjct: 91 ARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYN 150
Query: 212 EPETVEKVL 220
+ E ++ +
Sbjct: 151 KREEAQEAI 159
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/176 (19%), Positives = 80/176 (45%), Gaps = 17/176 (9%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGM---FGAVTD-----VLIMKDPITQRSRGFGFITFA 211
++ +L+VG + + + E + ++F G +T VL ++ + + F F+ F
Sbjct: 5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQ---INQDKNFAFLEFR 61
Query: 212 EPETVEKVLKVPIHTLDGKKIDPKHATPKN-RPKIGNRTKKIFVGGVSQDTSAEEVKAYF 270
+ + + G+ + K P + +P G K+F+GG+ + ++VK
Sbjct: 62 SVDETTQAMAFDGIIFQGQSL--KIRRPHDYQPLPG--AHKLFIGGLPNYLNDDQVKELL 117
Query: 271 SQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDH-ICEIHFHMIKNKKVECKKA 325
+ FG ++ ++ D T +G+ F + + V D I ++ + +KK+ ++A
Sbjct: 118 TSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 173
Score = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 39/77 (50%), Gaps = 4/77 (5%)
Query: 159 PTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEK 218
P + KLF+GGL + ++++E FG + ++KD T S+G+ F + + ++
Sbjct: 94 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 153
Query: 219 VLKVPIHTLDGKKIDPK 235
I L+G ++ K
Sbjct: 154 A----IAGLNGMQLGDK 166
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 35/176 (19%), Positives = 80/176 (45%), Gaps = 17/176 (9%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGM---FGAVTD-----VLIMKDPITQRSRGFGFITFA 211
++ +L+VG + + + E + ++F G +T VL ++ + + F F+ F
Sbjct: 3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQ---INQDKNFAFLEFR 59
Query: 212 EPETVEKVLKVPIHTLDGKKIDPKHATPKN-RPKIGNRTKKIFVGGVSQDTSAEEVKAYF 270
+ + + G+ + K P + +P G K+F+GG+ + ++VK
Sbjct: 60 SVDETTQAMAFDGIIFQGQSL--KIRRPHDYQPLPG--AHKLFIGGLPNYLNDDQVKELL 115
Query: 271 SQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDH-ICEIHFHMIKNKKVECKKA 325
+ FG ++ ++ D T +G+ F + + V D I ++ + +KK+ ++A
Sbjct: 116 TSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 171
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 39/77 (50%), Gaps = 4/77 (5%)
Query: 159 PTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEK 218
P + KLF+GGL + ++++E FG + ++KD T S+G+ F + + ++
Sbjct: 92 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 151
Query: 219 VLKVPIHTLDGKKIDPK 235
I L+G ++ K
Sbjct: 152 A----IAGLNGMQLGDK 164
>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 = 38.5 bits (88), Expect = 0.007, Method: Composition-based stats.
Identities = 17/72 (23%), Positives = 40/72 (55%), Gaps = 2/72 (2%)
Query: 234 PKHATPKNRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGF 293
P+ + + + +I R+ ++VG V ++A++++A+FS G + +L D+ + +G+
Sbjct: 23 PQPLSAEEKKEIDKRS--VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGY 80
Query: 294 GFVTFENEEVVD 305
++ F VD
Sbjct: 81 AYIEFAERNSVD 92
Score = 36.6 bits (83), Expect = 0.028, Method: Composition-based stats.
Identities = 20/86 (23%), Positives = 44/86 (51%), Gaps = 5/86 (5%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
++VG + + ++++ L +F G++ + I+ D + +G+ +I FAE +V+ + +
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMD 98
Query: 224 IHTLDGK--KIDPKHATPKNRPKIGN 247
G+ K+ PK N P I +
Sbjct: 99 ETVFRGRTIKVLPKRT---NMPGISS 121
>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 = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL-KV 222
+FVG LS + ++ + F FG ++D ++KD T +S+G+GF++F E + ++
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 223 PIHTLDGKKIDPKHATPK 240
L G++I AT K
Sbjct: 69 GGQWLGGRQIRTNWATRK 86
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENE-EVVDHICEI 310
+FVG +S + + + A F+ FG++ + ++ D T + +G+GFV+F N+ + + I ++
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 311 HFHMIKNKKVECKKAQPK 328
+ +++ A K
Sbjct: 69 GGQWLGGRQIRTNWATRK 86
>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 = 38.1 bits (87), Expect = 0.009, Method: Composition-based stats.
Identities = 17/67 (25%), Positives = 34/67 (50%)
Query: 154 PTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEP 213
P G+ L+V L + ++L FG +G++ I++D +T R RG F+ + +
Sbjct: 6 PGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKR 65
Query: 214 ETVEKVL 220
E ++ +
Sbjct: 66 EEAQEAI 72
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 261 TSAEEV--KAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDH-ICEIHFHMIKN 317
T+ +EV + F ++G +E ++ D++T++ RG+GFV F++ I ++ I N
Sbjct: 52 TTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILN 111
Query: 318 KKVECKKA 325
K+++ A
Sbjct: 112 KRLKVALA 119
Score = 35.4 bits (80), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 30/57 (52%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL 220
L V + +LR+ F +G + V I+ D T++SRG+GF+ F + ++ +
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAI 101
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 37.7 bits (86), Expect = 0.013, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 161 SAKLFVGGLSWQTSSEKLREYFGMFGAVTDV-LIMKDPITQRSRGFGFITFA 211
S+ +F+G L + + L + F FG + IM+DP T S+G+ FI FA
Sbjct: 5 SSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFA 56
Score = 28.9 bits (63), Expect = 4.7, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLM-DQQTKRHRGFGFVTFENEEVVDHICE 309
IF+G + + + + FS FG + +T +M D T +G+ F+ F + + D E
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIE 66
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 37.0 bits (84), Expect = 0.017, Method: Composition-based stats.
Identities = 25/88 (28%), Positives = 43/88 (48%), Gaps = 8/88 (9%)
Query: 150 GRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFIT 209
G S +G+D T L+VGGL + LR +F FG + + ++ QR + FI
Sbjct: 1 GSSGSSGEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVV-----QRQQ-CAFIQ 54
Query: 210 FAEPETVEKVLKVPIHTL--DGKKIDPK 235
FA + E + + L +G++++ K
Sbjct: 55 FATRQAAEVAAEKSFNKLIVNGRRLNVK 82
Score = 28.9 bits (63), Expect = 5.0, Method: Composition-based stats.
Identities = 13/64 (20%), Positives = 30/64 (46%), Gaps = 6/64 (9%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEIH 311
++VGG+ + +++ +F QFG++ ++ QQ F+ F + + E
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQFATRQAAEVAAEKS 68
Query: 312 FHMI 315
F+ +
Sbjct: 69 FNKL 72
>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 = 37.0 bits (84), Expect = 0.018, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 28/57 (49%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL 220
LFVG L+ E LR F F + +M D T SRG+GF++F + + +
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM 60
Score = 35.0 bits (79), Expect = 0.083, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 29/54 (53%)
Query: 249 TKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
T +FVG ++ + E ++ F F ++ D QT RG+GFV+F +++
Sbjct: 1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQD 54
>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 = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 161 SAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQ--RSRGFGFITF 210
+ K+FVG + S + LRE F +GAV ++ +++D +S+G F+TF
Sbjct: 3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 54
Score = 34.7 bits (78), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 29/50 (58%), Gaps = 2/50 (4%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMD--QQTKRHRGFGFVTF 298
K+FVG V + S ++++ F Q+G V E +L D Q + +G FVTF
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 54
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 30/108 (27%), Positives = 48/108 (44%), Gaps = 11/108 (10%)
Query: 147 GDSGRSTPTGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFG 206
G SG S + +FV L ++ +KL+E F M G V I++D +SRG G
Sbjct: 1 GSSGSSGALQAGRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDK-DGKSRGIG 59
Query: 207 FITFAEP-ETVEKV--------LKVPIHT-LDGKKIDPKHATPKNRPK 244
+TF + E V+ + P+H +D + + P RP+
Sbjct: 60 TVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDERALPKGDFFPPERPQ 107
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 36.2 bits (82), Expect = 0.032, Method: Composition-based stats.
Identities = 21/53 (39%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETV 216
+FVG L + E L E F G +T V I KD + + FGF+ F PE+V
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDR-EGKPKSFGFVCFKHPESV 70
>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 = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 159 PTSA-KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVE 217
P SA KLF+GGL + ++++E FG + ++KD T S+G+ F + + +
Sbjct: 111 PDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTD 170
Query: 218 KVL 220
+ +
Sbjct: 171 QAI 173
Score = 35.8 bits (81), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 40/76 (52%), Gaps = 1/76 (1%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDH-ICE 309
K+F+GG+ + ++VK + FG ++ ++ D T +G+ F + + V D I
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 175
Query: 310 IHFHMIKNKKVECKKA 325
++ + +KK+ ++A
Sbjct: 176 LNGMQLGDKKLLVQRA 191
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 35.8 bits (81), Expect = 0.044, Method: Composition-based stats.
Identities = 20/69 (28%), Positives = 36/69 (52%), Gaps = 8/69 (11%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETV------- 216
+F L+ + L ++F G V DV I+ D ++RS+G ++ F E ++V
Sbjct: 28 VFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLT 87
Query: 217 -EKVLKVPI 224
+++L VPI
Sbjct: 88 GQRLLGVPI 96
Score = 30.0 bits (66), Expect = 2.5, Method: Composition-based stats.
Identities = 11/49 (22%), Positives = 27/49 (55%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTF 298
+ +F ++ +++ +FS GKV + ++ D+ ++R +G +V F
Sbjct: 26 RTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEF 74
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 35.8 bits (81), Expect = 0.044, Method: Composition-based stats.
Identities = 24/79 (30%), Positives = 39/79 (49%), Gaps = 4/79 (5%)
Query: 189 TDVLIMKDPITQRSRGFGFITFAEPETVE--KVLKV--PIHTLDGKKIDPKHATPKNRPK 244
++V ++KD TQ +RGF FI + E + ++L+ P T+DGK I+ + A R
Sbjct: 53 SNVRVIKDKQTQLNRGFAFIQLSTIEAAQLLQILQALHPPLTIDGKTINVEFAKGSKRDM 112
Query: 245 IGNRTKKIFVGGVSQDTSA 263
N +I V+ A
Sbjct: 113 ASNEGSRISAASVASTAIA 131
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 35.8 bits (81), Expect = 0.046, Method: Composition-based stats.
Identities = 22/83 (26%), Positives = 44/83 (53%), Gaps = 11/83 (13%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVV-DHICE 309
K+F+G + ++ + +E+++ F Q+GKV E ++ + +GFV E++ D I
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRN 61
Query: 310 IHFHMIK--NKKVECKKAQPKEA 330
+H + + N VE K + K +
Sbjct: 62 LHHYKLHGVNINVEASKNKSKAS 84
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 35.8 bits (81), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 64/139 (46%), Gaps = 9/139 (6%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
LF+G L+ S +L+ A D+ ++ D T +R FG++ F E +EK L++
Sbjct: 16 LFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKALELT 74
Query: 224 IHTLDGKKIDPKHATPKNRPKIGNRTKKIFVG-GVSQDTSAEEVKAYFSQFGKVEETVML 282
+ G +I K PK R R + + +S + + +E+K F ++
Sbjct: 75 GLKVFGNEI--KLEKPKGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIR----- 127
Query: 283 MDQQTKRHRGFGFVTFENE 301
+ Q + +G ++ F++E
Sbjct: 128 LVSQDGKSKGIAYIEFKSE 146
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 36/60 (60%), Gaps = 3/60 (5%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQ-FGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEI 310
+F+G ++ + S E+K S+ F K + + ++D +T +R FG+V FE+ E ++ E+
Sbjct: 16 LFIGNLNPNKSVAELKVAISELFAKND--LAVVDVRTGTNRKFGYVDFESAEDLEKALEL 73
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 35.8 bits (81), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 71/160 (44%), Gaps = 18/160 (11%)
Query: 156 GDDPTSA-KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPE 214
G +PT+A LFVG L++ S+ +L+ A D+ ++ D +R FG++ F E
Sbjct: 1 GTEPTTAFNLFVGNLNFNKSAPELKTGISDVFAKNDLAVV-DVRIGMTRKFGYVDFESAE 59
Query: 215 TVEKVLKVPIHTLDGKKIDPKHATPKNRPKIGNRTKKIFVG-----GVSQDTSAEEVKAY 269
+EK L++ + G +I K PK + R + + V+QD E+K
Sbjct: 60 DLEKALELTGLKVFGNEI--KLEKPKGKDSKKERDARTLLAKNLPYKVTQD----ELKEV 113
Query: 270 FSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE 309
F ++ + + + +G ++ F+ E + E
Sbjct: 114 FEDAAEIR-----LVSKDGKSKGIAYIEFKTEADAEKTFE 148
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 35.4 bits (80), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 6/75 (8%)
Query: 159 PTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEP-ETVE 217
P K++VG L + +L FG +G + V + ++P GF F+ F +P + +
Sbjct: 71 PLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPP-----GFAFVEFEDPRDAAD 125
Query: 218 KVLKVPIHTLDGKKI 232
V ++ TL G ++
Sbjct: 126 AVRELDGRTLCGCRV 140
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 35.4 bits (80), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 5/72 (6%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV 222
KLFVG L+ Q S E + F FG + + +++ P S+G F+ F+ +
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGP-DGSSKGCAFVKFSSHTEAQ----A 71
Query: 223 PIHTLDGKKIDP 234
IH L G + P
Sbjct: 72 AIHALHGSQTMP 83
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLM--DQQTKRHRGFGFVTFEN 300
+K+FVG +++ S E+V F FG ++E +L D +K G FV F +
Sbjct: 16 RKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSK---GCAFVKFSS 65
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 35.0 bits (79), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 7/79 (8%)
Query: 227 LDGKKIDPKHATPKNRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQ 286
++G ID K+ R++ +FVG + D + EE++ F ++GK E + D
Sbjct: 1 MEGLTIDLKNFRKPGEKTFTQRSR-LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-- 57
Query: 287 TKRHRGFGFVTFENEEVVD 305
+GFGF+ E + +
Sbjct: 58 ----KGFGFIRLETRTLAE 72
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 6/75 (8%)
Query: 159 PTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEP-ETVE 217
P K++VG L + +L FG +G + V + ++P GF F+ F +P + +
Sbjct: 71 PLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPP-----GFAFVEFEDPRDAAD 125
Query: 218 KVLKVPIHTLDGKKI 232
V + TL G ++
Sbjct: 126 AVRDLDGRTLCGCRV 140
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 34.7 bits (78), Expect = 0.087, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 1/64 (1%)
Query: 158 DPTSAK-LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETV 216
D T K +F+ LS+ + E L E FG + V ++ P T+ S+G F F E
Sbjct: 11 DVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAA 70
Query: 217 EKVL 220
+K L
Sbjct: 71 QKCL 74
Score = 29.6 bits (65), Expect = 3.4, Method: Composition-based stats.
Identities = 13/53 (24%), Positives = 26/53 (49%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
K +F+ +S D+ E + QFG ++ +++ T+ +G F F +E
Sbjct: 16 KTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQE 68
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 34.7 bits (78), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 29/49 (59%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN 300
+F+ + Q+ + ++ + F FG V + +D+QT + FGFV+F+N
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDN 91
>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 = 34.7 bits (78), Expect = 0.097, Method: Composition-based stats.
Identities = 12/48 (25%), Positives = 31/48 (64%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFE 299
+FV GV ++ + E++ F+++G+++ + +D++T +G+ V +E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 57
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 34.3 bits (77), Expect = 0.11, Method: Composition-based stats.
Identities = 15/58 (25%), Positives = 31/58 (53%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL 220
KLF+GGL + ++++E FG + ++KD T S+G+ F + + ++ +
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60
Score = 33.5 bits (75), Expect = 0.21, Method: Composition-based stats.
Identities = 18/76 (23%), Positives = 40/76 (52%), Gaps = 1/76 (1%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDH-ICE 309
K+F+GG+ + ++VK + FG ++ ++ D T +G+ F + + V D I
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 310 IHFHMIKNKKVECKKA 325
++ + +KK+ ++A
Sbjct: 63 LNGMQLGDKKLLVQRA 78
>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 = 34.3 bits (77), Expect = 0.12, Method: Composition-based stats.
Identities = 12/48 (25%), Positives = 31/48 (64%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFE 299
+FV GV ++ + E++ F+++G+++ + +D++T +G+ V +E
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 72
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 34.3 bits (77), Expect = 0.12, Method: Composition-based stats.
Identities = 12/48 (25%), Positives = 31/48 (64%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFE 299
+FV GV ++ + E++ F+++G+++ + +D++T +G+ V +E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 57
>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 = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 6/55 (10%)
Query: 251 KIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVD 305
++FVG + D + EE++ F ++GK E + D +GFGF+ E + +
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAE 65
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 163 KLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITF 210
KLFVG L Q + E +R+ F FG + + +++ P S+G F+ F
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGP-DGTSKGCAFVKF 60
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLM--DQQTKRHRGFGFVTFEN 300
+K+FVG + + + E+V+ F FG ++E +L D +K G FV F+
Sbjct: 13 RKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSK---GCAFVKFQT 62
>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 = 33.9 bits (76), Expect = 0.15, Method: Composition-based stats.
Identities = 12/48 (25%), Positives = 31/48 (64%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFE 299
+FV GV ++ + E++ F+++G+++ + +D++T +G+ V +E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 57
>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 = 33.9 bits (76), Expect = 0.16, Method: Composition-based stats.
Identities = 12/48 (25%), Positives = 31/48 (64%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFE 299
+FV GV ++ + E++ F+++G+++ + +D++T +G+ V +E
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 59
>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: Composition-based stats.
Identities = 12/48 (25%), Positives = 31/48 (64%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFE 299
+FV GV ++ + E++ F+++G+++ + +D++T +G+ V +E
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYE 73
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 11/73 (15%)
Query: 231 KIDPKHATPKNRPKIGNRTKKIFVGGVSQD-TSAEEVKAYFSQFGKVEETVMLMDQQTKR 289
K+ + T KN PK N ++F+G ++ +V+ FS++G+V +
Sbjct: 11 KLQASNVTNKNDPKSIN--SRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV-------- 60
Query: 290 HRGFGFVTFENEE 302
H+G+ FV + NE
Sbjct: 61 HKGYAFVQYSNER 73
>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 = 33.1 bits (74), Expect = 0.25, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 27/47 (57%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTF 298
+ V + Q+ + +E+++ FS G+VE ++ D+ G+GFV +
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNY 68
>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 = 33.1 bits (74), Expect = 0.26, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 35/58 (60%), Gaps = 4/58 (6%)
Query: 190 DVLIMKDPITQRSRGFGFITFAEPETVEKVLKVPIHTLD--GKKIDPKHATPKNRPKI 245
+V +M++ + +SRGF F+ F+ + + ++ H+L+ G+K+ ++ PK PKI
Sbjct: 31 EVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSDPK--PKI 86
>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 = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 33/56 (58%)
Query: 243 PKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTF 298
K+ ++ ++VG +S T+ E++ FS+ G +++ +M +D+ K GF FV +
Sbjct: 33 EKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEY 88
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 33.1 bits (74), Expect = 0.31, Method: Composition-based stats.
Identities = 15/60 (25%), Positives = 30/60 (50%)
Query: 161 SAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL 220
S+ L++ GL T+ + L + +G + + D T + +G+GF+ F P +K +
Sbjct: 5 SSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64
Score = 32.0 bits (71), Expect = 0.61, Method: Composition-based stats.
Identities = 12/49 (24%), Positives = 30/49 (61%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN 300
+++ G+ T+ +++ +GK+ T ++D+ T + +G+GFV F++
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDS 56
>pdb|2FAF|A Chain A, The Structure Of Chicken Mitochondrial Pepck.
pdb|2FAF|B Chain B, The Structure Of Chicken Mitochondrial Pepck.
pdb|2FAH|A Chain A, The Structure Of Mitochondrial Pepck, Complex With Mn And
Gdp
pdb|2FAH|B Chain B, The Structure Of Mitochondrial Pepck, Complex With Mn And
Gdp
pdb|2FAH|C Chain C, The Structure Of Mitochondrial Pepck, Complex With Mn And
Gdp
pdb|2FAH|D Chain D, The Structure Of Mitochondrial Pepck, Complex With Mn And
Gdp
pdb|2QZY|A Chain A, The Structure Of Chicken Mitochondrial Pepck In Complex
With Pep
pdb|2QZY|B Chain B, The Structure Of Chicken Mitochondrial Pepck In Complex
With Pep
Length = 608
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 38/87 (43%), Gaps = 18/87 (20%)
Query: 135 AHQLVLVNGKSSG-DSGRSTPTGDDPTSAKLFVGGLS--------------WQTSSEKLR 179
A L + G+ G D+ R TP G P L +GGL W+ +LR
Sbjct: 520 ARVLAWIFGRIQGRDTARPTPIGWVPKEGDLDLGGLPGVDYSQLFPMEKGFWEEECRQLR 579
Query: 180 EYFGM-FGA--VTDVLIMKDPITQRSR 203
EY+G FGA DV+ + + +R R
Sbjct: 580 EYYGENFGADLPRDVMAELEGLEERVR 606
>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 = 32.7 bits (73), Expect = 0.39, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 27/47 (57%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTF 298
+ V + Q+ + +E+++ FS G+VE ++ D+ G+GFV +
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNY 53
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 32.3 bits (72), Expect = 0.43, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 5/51 (9%)
Query: 187 AVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKV-----PIHTLDGKKI 232
AV ++ ++KD TQ++RGF F+ + ++L++ P +DGK I
Sbjct: 37 AVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTI 87
>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 = 0.44, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
+FV G S +L EYF FG V V++ KD F + + E VL
Sbjct: 11 VFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGV-----FAIVEMGDVGAREAVLSQS 65
Query: 224 IHTLDGKKI 232
H+L G ++
Sbjct: 66 QHSLGGHRL 74
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 32.3 bits (72), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
++ +LFV +L E FG FG + +V I+ GF F+ F E E+ K
Sbjct: 30 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKA 81
Query: 220 LK 221
++
Sbjct: 82 IE 83
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 39/79 (49%), Gaps = 3/79 (3%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVLKVP 223
LF+G L+ S +L+ A D+ ++ D T +R FG++ F E +EK L++
Sbjct: 20 LFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKALELT 78
Query: 224 IHTLDGKKIDPKHATPKNR 242
+ G +I K PK R
Sbjct: 79 GLKVFGNEI--KLEKPKGR 95
Score = 32.0 bits (71), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 46/82 (56%), Gaps = 3/82 (3%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQ-FGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEI 310
+F+G ++ + S E+K S+ F K + + ++D +T +R FG+V FE+ E ++ E+
Sbjct: 20 LFIGNLNPNKSVAELKVAISELFAKND--LAVVDVRTGTNRKFGYVDFESAEDLEKALEL 77
Query: 311 HFHMIKNKKVECKKAQPKEAVQ 332
+ +++ +K + ++ +
Sbjct: 78 TGLKVFGNEIKLEKPKGRDGTR 99
>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 = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN----EEVVDHI 307
+F+ + Q+ +++ F FG V + +D+QT + FGFV+++N + + +
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 308 CEIHFHMIKNKKVECKKAQ 326
M K KV+ K+++
Sbjct: 88 NGFQIGM-KRLKVQLKRSK 105
>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 = 32.0 bits (71), Expect = 0.64, Method: Composition-based stats.
Identities = 19/85 (22%), Positives = 43/85 (50%), Gaps = 3/85 (3%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICE-I 310
IF+ + + + + FS FG + ++ D+ + G+GFV FE +E + E +
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKM 65
Query: 311 HFHMIKNKKVECKKAQPKEAVQANL 335
+ ++ ++KV + + ++ +A L
Sbjct: 66 NGMLLNDRKVFVGRFKSRKEREAEL 90
Score = 30.0 bits (66), Expect = 2.2, Method: Composition-based stats.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 161 SAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKVL 220
S +F+ L ++ L + F FG + ++ D S+G+GF+ F E E+ +
Sbjct: 5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAI 62
Query: 221 K 221
+
Sbjct: 63 E 63
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMK---DPITQRSRGFGFITFAEPETVEKVL 220
L++G L+W T+ E L E G V D+L +K + +S+GF + + +K++
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLG-VNDILEIKFFENRANGQSKGFALVGVGSEASSKKLM 129
Query: 221 K-VPIHTLDGK 230
+P L G+
Sbjct: 130 DLLPKRELHGQ 140
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 31.6 bits (70), Expect = 0.81, Method: Composition-based stats.
Identities = 10/51 (19%), Positives = 29/51 (56%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEE 302
+FV + ++ +E++ F +G+++ + +D++T +G+ V +E +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHK 79
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 31.6 bits (70), Expect = 0.85, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 9/73 (12%)
Query: 249 TKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENE-EVVDHI 307
T KIFVG VS +++E+++ F + G+V E ++ D + FV E E + I
Sbjct: 9 TWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAI 60
Query: 308 CEIHFHMIKNKKV 320
+++ +K K++
Sbjct: 61 AQLNGKEVKGKRI 73
Score = 29.6 bits (65), Expect = 3.0, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 12/81 (14%)
Query: 155 TGDDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPE 214
+G + K+FVG +S +S++LR F G V + ++KD + F+ +
Sbjct: 3 SGSSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEK-- 52
Query: 215 TVEKVLKVPIHTLDGKKIDPK 235
E K I L+GK++ K
Sbjct: 53 --EADAKAAIAQLNGKEVKGK 71
>pdb|3HGY|A Chain A, Crystal Structure Of Cmer Bound To Taurocholic Acid
pdb|3QPS|A Chain A, Crystal Structures Of Cmer-Bile Acid Complexes From
Campylobacter Jejuni
pdb|3QQA|A Chain A, Crystal Structures Of Cmer-Bile Acid Complexes From
Campylobacter Jejuni
Length = 216
Score = 31.6 bits (70), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 302 EVVDHICEIHFHMIKNKKVECKKAQPKEAV 331
E++D IC+ HFH+I +K E K KE +
Sbjct: 69 EILDDICKKHFHLIYSKTQEIKNGTLKEIL 98
>pdb|2QCO|A Chain A, Crystal Structure Of The Transcriptional Regulator Cmer
From Campylobacter Jejuni
Length = 210
Score = 31.6 bits (70), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 302 EVVDHICEIHFHMIKNKKVECKKAQPKEAV 331
E++D IC+ HFH+I +K E K KE +
Sbjct: 63 EILDDICKKHFHLIYSKTQEIKNGTLKEIL 92
>pdb|3HGG|A Chain A, Crystal Structure Of Cmer Bound To Cholic Acid
Length = 220
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 302 EVVDHICEIHFHMIKNKKVECKKAQPKEAV 331
E++D IC+ HFH+I +K E K KE +
Sbjct: 73 EILDDICKKHFHLIYSKTQEIKNGTLKEIL 102
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 31.2 bits (69), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
++ +LFV +L E FG FG + +V I+ GF F+ F E E+ K
Sbjct: 3 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKA 54
Query: 220 LK 221
++
Sbjct: 55 IE 56
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 31.2 bits (69), Expect = 1.0, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 32/68 (47%), Gaps = 2/68 (2%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEIH 311
IF+ + + + + FS FG + ++ D+ + G+GFV FE +E + E
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKM 71
Query: 312 FHMIKNKK 319
M+ N +
Sbjct: 72 NGMLLNDR 79
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 18/71 (25%), Positives = 33/71 (46%), Gaps = 7/71 (9%)
Query: 156 GDDPTSAK-----LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITF 210
G DP+ K +F+ L ++ L + F FG + ++ D S+G+GF+ F
Sbjct: 1 GADPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHF 58
Query: 211 AEPETVEKVLK 221
E E+ ++
Sbjct: 59 ETQEAAERAIE 69
>pdb|3MAJ|A Chain A, Crystal Structure Of Putative Dna Processing Protein Dpra
From Rhodopseudomonas Palustris Cga009
Length = 382
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 48/94 (51%), Gaps = 10/94 (10%)
Query: 169 LSWQTSSEKLREYFGMFGAVTD--VLIMKDPITQRSRGFGFITFAEP--ETVEKVLKVPI 224
++ + ++++ RE F + G+ D D I Q G IT A E V +L+ PI
Sbjct: 253 ITARRAADQGREVFAVPGSPLDPRAAGTNDLIKQ---GATLITSASDIVEAVASILERPI 309
Query: 225 HTLDGKKIDPKHATPKNRPKIGNRTKKIFVGGVS 258
L G+ +P+HA P+ P G+RT+ + + G S
Sbjct: 310 E-LPGR--EPEHAPPEGEPDTGDRTRILALLGPS 340
>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 = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 240 KNRPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTF 298
+ + K+ ++ ++VG +S T+ E++ FS+ G +++ +M +D+ K GF FV +
Sbjct: 9 EEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM-KTACGFCFVEY 66
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 12/62 (19%)
Query: 250 KKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRH-------RGFGFVTFENEE 302
+K+FVGG+ D +E+ A F +FG +++D K +G+ F+ F+ E
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFGP-----LVVDWPHKAESKSYFPPKGYAFLLFQEES 63
Query: 303 VV 304
V
Sbjct: 64 SV 65
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 4/62 (6%)
Query: 164 LFVGGLSWQTSSEKLREYFGMFGAVTDVLIMK---DPITQRSRGFGFITFAEPETVEKVL 220
L++G L+W T+ E L E G V D+L +K + +S+GF + + +K++
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLG-VNDILEIKFFENRANGQSKGFALVGVGSEASSKKLM 62
Query: 221 KV 222
+
Sbjct: 63 DL 64
>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 = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 10/48 (20%), Positives = 28/48 (58%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFE 299
+FV + ++ +E++ F +G+++ + +D++T +G+ V +E
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYE 122
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 32/58 (55%), Gaps = 8/58 (13%)
Query: 243 PKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFEN 300
P++ + K +FV ++ + E ++ FS+FGK+E + K+ + + FV FE+
Sbjct: 9 PEVMAKVKVLFVRNLATTVTEEILEKSFSEFGKLE--------RVKKLKDYAFVHFED 58
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 29/61 (47%)
Query: 159 PTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEK 218
PT A L V L + ++ E FG++ ++ T +S+G+GF + + ++ +
Sbjct: 93 PTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAAR 152
Query: 219 V 219
Sbjct: 153 A 153
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 29/61 (47%)
Query: 159 PTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEK 218
PT A L V L + ++ E FG++ ++ T +S+G+GF + + ++ +
Sbjct: 93 PTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAAR 152
Query: 219 V 219
Sbjct: 153 A 153
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 29/61 (47%)
Query: 159 PTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEK 218
PT A L V L + ++ E FG++ ++ T +S+G+GF + + ++ +
Sbjct: 91 PTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAAR 150
Query: 219 V 219
Sbjct: 151 A 151
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 29.6 bits (65), Expect = 3.1, Method: Composition-based stats.
Identities = 20/81 (24%), Positives = 35/81 (43%), Gaps = 1/81 (1%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
++ L V L + +L F G + IM+D T S G+ F+ F ++
Sbjct: 2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 61
Query: 220 LKVPIH-TLDGKKIDPKHATP 239
+KV T+ K++ +A P
Sbjct: 62 IKVLNGITVRNKRLKVSYARP 82
>pdb|1OZ7|B Chain B, Crystal Structure Of Echicetin From The Venom Of Indian
Saw- Scaled Viper (Echis Carinatus) At 2.4 Resolution
Length = 123
Score = 29.6 bits (65), Expect = 3.2, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 287 TKRHRGFGFVTFENEEVVDHICEIHFHMIKNKKV 320
TK+H+ V+F N + VD + + F M+KN V
Sbjct: 31 TKQHKDGHLVSFRNSKEVDFVISLAFPMLKNDLV 64
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 8/78 (10%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
T AKL V L + S ++E F FG + + D + RS G + F K
Sbjct: 87 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKA 145
Query: 220 LK----VPIHTLDGKKID 233
+K VP LDG+ +D
Sbjct: 146 MKQYKGVP---LDGRPMD 160
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 35/72 (48%), Gaps = 7/72 (9%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDH-ICEI 310
++ GG++ + + ++ FS FG++ E + + +G+ FV F E H I +
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVSV 81
Query: 311 HFHMIKNKKVEC 322
+ I+ V+C
Sbjct: 82 NGTTIEGHVVKC 93
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 14/74 (18%), Positives = 37/74 (50%), Gaps = 7/74 (9%)
Query: 157 DDPTSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPET- 215
P + ++ GG++ + + +R+ F FG + ++ + + +G+ F+ F+ E+
Sbjct: 21 SSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESA 74
Query: 216 VEKVLKVPIHTLDG 229
++ V T++G
Sbjct: 75 AHAIVSVNGTTIEG 88
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 28.9 bits (63), Expect = 4.8, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 9/62 (14%)
Query: 242 RPKIGNRTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRG---FGFVTF 298
R GN +I+VG + D ++++ F ++G + D K RG F FV F
Sbjct: 15 RGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIR------DIDLKNRRGGPPFAFVEF 68
Query: 299 EN 300
E+
Sbjct: 69 ED 70
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 28.9 bits (63), Expect = 5.4, Method: Composition-based stats.
Identities = 19/94 (20%), Positives = 41/94 (43%)
Query: 252 IFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTFENEEVVDHICEIH 311
+++ G+ + + V +F + VE+++ + + G GFV F NE H
Sbjct: 28 VYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRH 87
Query: 312 FHMIKNKKVECKKAQPKEAVQANLLVGKRVILGP 345
+ N+ ++ K ++ ++ KR+ GP
Sbjct: 88 KQYMGNRFIQVHPITKKGMLEKIDMIRKRLQSGP 121
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 28.5 bits (62), Expect = 6.3, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 8/78 (10%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
T AKL V L + S ++E F FG + + D + RS G + F K
Sbjct: 34 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKA 92
Query: 220 LK----VPIHTLDGKKID 233
+K VP LDG+ +D
Sbjct: 93 MKQYKGVP---LDGRPMD 107
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 28.5 bits (62), Expect = 6.4, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 8/78 (10%)
Query: 160 TSAKLFVGGLSWQTSSEKLREYFGMFGAVTDVLIMKDPITQRSRGFGFITFAEPETVEKV 219
T AKL V L + S ++E F FG + + D + RS G + F K
Sbjct: 34 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKA 92
Query: 220 LK----VPIHTLDGKKID 233
+K VP LDG+ +D
Sbjct: 93 MKQYKGVP---LDGRPMD 107
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 9/81 (11%)
Query: 248 RTKKIFVGGVSQDTSAEEVKAYFSQFGKVEETVMLMDQQTKRHRGFGFVTF-ENEEVVDH 306
+ K +FV ++ + E ++ FSQFGK+E L D + F+ F E + V
Sbjct: 10 KVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKA 61
Query: 307 ICEIHFHMIKNKKVECKKAQP 327
+ E++ ++ + +E A+P
Sbjct: 62 MEEMNGKDLEGENIEIVFAKP 82
>pdb|1ET9|A Chain A, Crystal Structure Of The Superantigen Spe-H From
Streptococcus Pyogenes
pdb|1EU4|A Chain A, Crystal Structure Of The Superantigen Spe-H (Zinc Bound)
From Streptococcus Pyogenes
Length = 204
Score = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 200 QRSRGFGFITFAEPETVEKVLKVPIHTLDGKKIDPKHATPKNRPKI 245
+R FG IT E +K +KVP++ D K P N+PK+
Sbjct: 82 KRYEAFGGITLTNSE--KKEIKVPVNVWDKSKQQPPMFITVNKPKV 125
>pdb|1P2Z|A Chain A, Refinement Of Adenovirus Type 2 Hexon With Cns
Length = 967
Score = 28.5 bits (62), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 126 VGGLNVVREAHQLVLVNGKSSGDSGRSTPTGDDPTSAKLFVG 167
+GG+ V + +Q + NG SGD+G +T T D+ + + +G
Sbjct: 428 LGGIGVT-DTYQAIKANGNGSGDNGDTTWTKDETFATRNEIG 468
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 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,522,321
Number of Sequences: 62578
Number of extensions: 460314
Number of successful extensions: 2490
Number of sequences better than 100.0: 168
Number of HSP's better than 100.0 without gapping: 125
Number of HSP's successfully gapped in prelim test: 43
Number of HSP's that attempted gapping in prelim test: 2160
Number of HSP's gapped (non-prelim): 315
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
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: 52 (24.6 bits)