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= 043470
(629 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 192 bits (488), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 94/178 (52%), Positives = 122/178 (68%), Gaps = 2/178 (1%)
Query: 5 PPTATTP-ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSP 63
P + P ASLYVGDLHPDVT+ L++ FS + S+RVC+D T RS Y YVNF P
Sbjct: 3 PSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQP 62
Query: 64 HDAIRAIEVKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNF 123
DA RA++ N + GK +RI WS RDP RKSGV N+F+KNL +SIDN L + F F
Sbjct: 63 ADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAF 122
Query: 124 GNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGRFIKKSDR 181
GNI+SCKV E+G SKG+GFV FET+E+A AIE +NG + D++++VGRF + +R
Sbjct: 123 GNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRKER 179
Score = 105 bits (263), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 68/196 (34%), Positives = 106/196 (54%), Gaps = 18/196 (9%)
Query: 185 SPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDD 243
+P+ +L++ +L DVTE L EKFS G I S+ + RD S G+ +VNF P D
Sbjct: 5 APSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPAD 64
Query: 244 ARRALEAMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDD 303
A RAL+ MN VI K + +Q R+ LR K N+++KN+D
Sbjct: 65 AERALDTMNFDVIKGKPVRIMWSQ----RDPSLR------------KSGVGNIFIKNLDK 108
Query: 304 DVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFHGYMLHRKP 363
+ ++ L FS G I S KV+ DE G +KG+GFV F + E A +A+ +G +L+ +
Sbjct: 109 SIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEKMNGMLLNDRK 167
Query: 364 LYVAIAQRKEDRQAHL 379
++V + +++R+A L
Sbjct: 168 VFVGRFKSRKEREAEL 183
Score = 89.7 bits (221), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 59/187 (31%), Positives = 96/187 (51%), Gaps = 6/187 (3%)
Query: 91 DPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFET 149
+P A +A+L+V +L + L E F G I+S +V +S G+ +V F+
Sbjct: 2 NPSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQ 61
Query: 150 EESANAAIENLNGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVE 209
A A++ +N + K + I S R + N+F+KNLD + + L +
Sbjct: 62 PADAERALDTMNFDVIKGKPVR----IMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYD 117
Query: 210 KFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKVLYAARAQKK 269
FS FG I S + DENG S+G+GFV+F+ + A RA+E MNG ++ + ++ R + +
Sbjct: 118 TFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR 176
Query: 270 AEREQIL 276
ERE L
Sbjct: 177 KEREAEL 183
>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 = 192 bits (487), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 92/170 (54%), Positives = 119/170 (70%), Gaps = 1/170 (0%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
ASLYVGDLHPDVT+ L++ FS + S+RVC+D T RS Y YVNF P DA RA++
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 75
Query: 72 VKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKV 131
N + GK +RI WS RDP RKSGV N+F+KNL +SIDN L + F FGNI+SCKV
Sbjct: 76 TMNFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKV 135
Query: 132 ATSEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGRFIKKSDR 181
E+G SKG+GFV FET+E+A AIE +NG + D++++VGRF + +R
Sbjct: 136 VCDENG-SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRKER 184
Score = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 72/219 (32%), Positives = 114/219 (52%), Gaps = 22/219 (10%)
Query: 185 SPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDD 243
+P+ +L++ +L DVTE L EKFS G I S+ + RD S G+ +VNF P D
Sbjct: 10 APSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPAD 69
Query: 244 ARRALEAMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDD 303
A RAL+ MN VI K + +Q R+ LR K N+++KN+D
Sbjct: 70 AERALDTMNFDVIKGKPVRIMWSQ----RDPSLR------------KSGVGNIFIKNLDK 113
Query: 304 DVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFHGYMLHRKP 363
+ ++ L FS G I S KV+ DE G +KG+GFV F + E A +A+ +G +L+ +
Sbjct: 114 SIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEKMNGMLLNDRK 172
Query: 364 LYVAIAQRKEDRQAHLQLQ----YAQHMAGIEGSSANVI 398
++V + +++R+A L + Y + GSS ++
Sbjct: 173 VFVGRFKSRKEREAELGARAKEFYPYDVPDYAGSSGRIV 211
Score = 92.8 bits (229), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 63/206 (30%), Positives = 104/206 (50%), Gaps = 6/206 (2%)
Query: 91 DPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFET 149
+P A +A+L+V +L + L E F G I+S +V +S G+ +V F+
Sbjct: 7 NPSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQ 66
Query: 150 EESANAAIENLNGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVE 209
A A++ +N + K + I S R + N+F+KNLD + + L +
Sbjct: 67 PADAERALDTMNFDVIKGKPVR----IMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYD 122
Query: 210 KFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKVLYAARAQKK 269
FS FG I S + DENG S+G+GFV+F+ + A RA+E MNG ++ + ++ R + +
Sbjct: 123 TFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR 181
Query: 270 AEREQILRHQFEEKRKERILKYKGSN 295
ERE L + +E + Y GS+
Sbjct: 182 KEREAELGARAKEFYPYDVPDYAGSS 207
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 117 bits (292), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 57/92 (61%), Positives = 72/92 (78%), Gaps = 1/92 (1%)
Query: 286 ERILKYKGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPE 345
+RI +Y+ N+YVKN+DD + DE L+ FS GTITSAKVM E G +KGFGFVCFSSPE
Sbjct: 8 DRITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMM-EGGRSKGFGFVCFSSPE 66
Query: 346 EASKAVNTFHGYMLHRKPLYVAIAQRKEDRQA 377
EA+KAV +G ++ KPLYVA+AQRKE+RQ+
Sbjct: 67 EATKAVTEMNGRIVATKPLYVALAQRKEERQS 98
Score = 78.2 bits (191), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 38/82 (46%), Positives = 55/82 (67%), Gaps = 1/82 (1%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAM 251
NL++KNLD + +E L + FS FG I S + E G S+GFGFV F +P++A +A+ M
Sbjct: 17 NLYVKNLDDGIDDERLRKAFSPFGTITSAKVMM-EGGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 252 NGSVIGSKVLYAARAQKKAERE 273
NG ++ +K LY A AQ+K ER+
Sbjct: 76 NGRIVATKPLYVALAQRKEERQ 97
Score = 69.7 bits (169), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 38/83 (45%), Positives = 50/83 (60%), Gaps = 1/83 (1%)
Query: 99 VANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIE 158
V NL+VKNL + ID+ RL++ F FG I S KV E G+SKG GFV F + E A A+
Sbjct: 15 VVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMM-EGGRSKGFGFVCFSSPEEATKAVT 73
Query: 159 NLNGTTVGDKRIYVGRFIKKSDR 181
+NG V K +YV +K +R
Sbjct: 74 EMNGRIVATKPLYVALAQRKEER 96
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 46/85 (54%), Gaps = 3/85 (3%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
LYV +L + D L AFS F ++ S +V + GRS +G+V F SP +A +A+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG--GRSKGFGFVCFSSPEEATKAVTEM 75
Query: 74 NHTQLHGKMLRISWSCRDPDARKSG 98
N + K L ++ + R + R+SG
Sbjct: 76 NGRIVATKPLYVALAQRKEE-RQSG 99
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 107 bits (267), Expect = 2e-23, Method: Composition-based stats.
Identities = 50/91 (54%), Positives = 67/91 (73%), Gaps = 1/91 (1%)
Query: 91 DPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETE 150
DP RKSGV N+F+KNL +SIDN L + F FGNI+SCKV E+G SKG+GFV FET+
Sbjct: 3 DPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQ 61
Query: 151 ESANAAIENLNGTTVGDKRIYVGRFIKKSDR 181
E+A AIE +NG + D++++VGRF + +R
Sbjct: 62 EAAERAIEKMNGMLLNDRKVFVGRFKSRKER 92
Score = 72.8 bits (177), Expect = 5e-13, Method: Composition-based stats.
Identities = 34/82 (41%), Positives = 53/82 (64%), Gaps = 1/82 (1%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAM 251
N+F+KNLD + + L + FS FG I S + DENG S+G+GFV+F+ + A RA+E M
Sbjct: 13 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEKM 71
Query: 252 NGSVIGSKVLYAARAQKKAERE 273
NG ++ + ++ R + + ERE
Sbjct: 72 NGMLLNDRKVFVGRFKSRKERE 93
Score = 60.8 bits (146), Expect = 2e-09, Method: Composition-based stats.
Identities = 29/83 (34%), Positives = 53/83 (63%), Gaps = 1/83 (1%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTF 354
N+++KN+D + ++ L FS G I S KV+ DE G +KG+GFV F + E A +A+
Sbjct: 13 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEKM 71
Query: 355 HGYMLHRKPLYVAIAQRKEDRQA 377
+G +L+ + ++V + +++R+A
Sbjct: 72 NGMLLNDRKVFVGRFKSRKEREA 94
Score = 36.2 bits (82), Expect = 0.063, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 2/70 (2%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
++++ +L + + L+D FS F ++ S +V D + YG+V+F + A RAIE
Sbjct: 12 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKG--YGFVHFETQEAAERAIE 69
Query: 72 VKNHTQLHGK 81
N L+ +
Sbjct: 70 KMNGMLLNDR 79
>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 = 103 bits (256), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 50/103 (48%), Positives = 73/103 (70%), Gaps = 3/103 (2%)
Query: 98 GVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAI 157
G N+F+KNL +SIDN L + F FGNI+SCKV E+G SKG+GFV FET+E+A AI
Sbjct: 4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAI 62
Query: 158 ENLNGTTVGDKRIYVGRFIKKSDR--VLPSPAAKYTNLFMKNL 198
E +NG + D++++VGRF + +R L + A ++TN+++KN
Sbjct: 63 EKMNGMLLNDRKVFVGRFKSRKEREAELGARAKEFTNVYIKNF 105
Score = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 41/110 (37%), Positives = 64/110 (58%), Gaps = 11/110 (10%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAM 251
N+F+KNLD + + L + FS FG I S + DENG S+G+GFV+F+ + A RA+E M
Sbjct: 7 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEKM 65
Query: 252 NGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNI 301
NG ++ + ++ R + + ERE L + +E +NVY+KN
Sbjct: 66 NGMLLNDRKVFVGRFKSRKEREAELGARAKEF----------TNVYIKNF 105
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 54/85 (63%), Gaps = 1/85 (1%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTF 354
N+++KN+D + ++ L FS G I S KV+ DE G +KG+GFV F + E A +A+
Sbjct: 7 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEKM 65
Query: 355 HGYMLHRKPLYVAIAQRKEDRQAHL 379
+G +L+ + ++V + +++R+A L
Sbjct: 66 NGMLLNDRKVFVGRFKSRKEREAEL 90
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 51/103 (49%), Gaps = 8/103 (7%)
Query: 11 PASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAI 70
++++ +L + + L+D FS F ++ S +V D S YG+V+F + A RAI
Sbjct: 5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAI 62
Query: 71 EVKNHTQLHGKMLRI----SWSCRDPD--ARKSGVANLFVKNL 107
E N L+ + + + S R+ + AR N+++KN
Sbjct: 63 EKMNGMLLNDRKVFVGRFKSRKEREAELGARAKEFTNVYIKNF 105
>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 = 87.0 bits (214), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 47/154 (30%), Positives = 84/154 (54%), Gaps = 3/154 (1%)
Query: 10 TPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRA 69
+ +L V L ++T E F + S ++ +D TG+S YG+VN++ P DA +A
Sbjct: 1 SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKA 60
Query: 70 IEVKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISC 129
I N +L K +++S++ P + ANL+V L +++ L+++F +G II+
Sbjct: 61 INTLNGLRLQTKTIKVSYA--RPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITS 118
Query: 130 KVATSE-DGKSKGHGFVQFETEESANAAIENLNG 162
++ + G S+G GF++F+ A AI+ LNG
Sbjct: 119 RILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNG 152
Score = 82.0 bits (201), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 48/168 (28%), Positives = 87/168 (51%), Gaps = 20/168 (11%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALE 249
TNL + L ++T+E F G+I S + RD+ G S G+GFVN+ +P DA +A+
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62
Query: 250 AMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEE 309
+NG + +K + + A+ + + +N+YV + +T +E
Sbjct: 63 TLNGLRLQTKTIKVSYARPSSA------------------SIRDANLYVSGLPKTMTQKE 104
Query: 310 LKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVNTFHG 356
L+ FSQ G I +++++ D+ G+++G GF+ F EA +A+ +G
Sbjct: 105 LEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNG 152
Score = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 51/157 (32%), Positives = 82/157 (52%), Gaps = 10/157 (6%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIE 158
NL V L +++ + +F + G I SCK+ + G+S G+GFV + + A AI
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62
Query: 159 NLNGTTVGDKRIYVGRFIKKSDRVLPSPAA-KYTNLFMKNLDSDVTEEHLVEKFSKFGKI 217
LNG + K I K PS A+ + NL++ L +T++ L + FS++G+I
Sbjct: 63 TLNGLRLQTKTI-------KVSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRI 115
Query: 218 ASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAMNG 253
+ I D+ G SRG GF+ FD +A A++ +NG
Sbjct: 116 ITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNG 152
Score = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 48/78 (61%), Gaps = 1/78 (1%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVN 352
+N+ V + ++T EE ++ F G I S K++RD+ G + G+GFV + P++A KA+N
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62
Query: 353 TFHGYMLHRKPLYVAIAQ 370
T +G L K + V+ A+
Sbjct: 63 TLNGLRLQTKTIKVSYAR 80
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 85.1 bits (209), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 57/197 (28%), Positives = 98/197 (49%), Gaps = 22/197 (11%)
Query: 178 KSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFV 236
+SD ++ P A TNL + L D T+ L F G I + I RD + G S G+ FV
Sbjct: 2 ESDDLMNDPRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFV 61
Query: 237 NFDNPDDARRALEAMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNV 296
+F + D++RA++ +NG + +K L + A+ E K +N+
Sbjct: 62 DFTSEXDSQRAIKVLNGITVRNKRLKVSYARPGGE------------------SIKDTNL 103
Query: 297 YVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVNTFH 355
YV N+ +TD++L F + G+I ++RD+ G +G FV ++ EEA +A++ +
Sbjct: 104 YVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALN 163
Query: 356 GYMLH--RKPLYVAIAQ 370
+ +PL V +A+
Sbjct: 164 NVIPEGGSQPLSVRLAE 180
Score = 78.2 bits (191), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 48/151 (31%), Positives = 77/151 (50%), Gaps = 3/151 (1%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
+L V L D TD EL+ F + + R+ +D TG S Y +V+F S D+ RAI+
Sbjct: 15 TNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIK 74
Query: 72 VKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKV 131
V N + K L++S++ P NL+V NL +I + +L +F +G+I+ +
Sbjct: 75 VLNGITVRNKRLKVSYA--RPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNI 132
Query: 132 ATSE-DGKSKGHGFVQFETEESANAAIENLN 161
+ G+ +G FV++ E A AI LN
Sbjct: 133 LRDKLTGRPRGVAFVRYNKREEAQEAISALN 163
Score = 75.9 bits (185), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 53/167 (31%), Positives = 85/167 (50%), Gaps = 11/167 (6%)
Query: 91 DPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFET 149
DP A + NL V L + + L +F+ G I +C++ + G S G+ FV F +
Sbjct: 9 DPRASNT---NLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTS 65
Query: 150 EESANAAIENLNGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVE 209
E + AI+ LNG TV +KR+ V + + K TNL++ NL +T++ L
Sbjct: 66 EXDSQRAIKVLNGITVRNKRLKVSYARPGGESI------KDTNLYVTNLPRTITDDQLDT 119
Query: 210 KFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAMNGSV 255
F K+G I I RD+ G RG FV ++ ++A+ A+ A+N +
Sbjct: 120 IFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVI 166
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
+LYV +L +TD +L F ++ S+ + +D TGR +V + +A AI
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 160
Query: 72 VKNH 75
N+
Sbjct: 161 ALNN 164
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 46/154 (29%), Positives = 84/154 (54%), Gaps = 3/154 (1%)
Query: 10 TPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRA 69
+ +L V L ++T E F + S ++ +D TG+S YG+VN+ P+DA +A
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
Query: 70 IEVKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISC 129
I N +L K +++S++ P + ANL+V L +++ ++++F +G II+
Sbjct: 63 INTLNGLKLQTKTIKVSYA--RPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITS 120
Query: 130 KVATSE-DGKSKGHGFVQFETEESANAAIENLNG 162
++ + G S+G GF++F+ A AI+ LNG
Sbjct: 121 RILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNG 154
Score = 80.1 bits (196), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 49/179 (27%), Positives = 92/179 (51%), Gaps = 24/179 (13%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALE 249
TNL + L ++T++ F G I S + RD+ G S G+GFVN+ +P+DA +A+
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 250 AMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEE 309
+NG + +K + + A+ + + +N+YV + ++ +E
Sbjct: 65 TLNGLKLQTKTIKVSYARPSSA------------------SIRDANLYVSGLPKTMSQKE 106
Query: 310 LKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVNTFHGYMLHRKPLYVA 367
++ FSQ G I +++++ D+ G+++G GF+ F EA +A+ +G +KPL A
Sbjct: 107 MEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNG----QKPLGAA 161
Score = 76.3 bits (186), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 49/157 (31%), Positives = 83/157 (52%), Gaps = 10/157 (6%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIE 158
NL V L +++ + +F + G+I SCK+ + G+S G+GFV + A+ AI
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 159 NLNGTTVGDKRIYVGRFIKKSDRVLPSPAA-KYTNLFMKNLDSDVTEEHLVEKFSKFGKI 217
LNG + K I K PS A+ + NL++ L ++++ + + FS++G+I
Sbjct: 65 TLNGLKLQTKTI-------KVSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRI 117
Query: 218 ASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAMNG 253
+ I D+ G SRG GF+ FD +A A++ +NG
Sbjct: 118 ITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNG 154
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 48/78 (61%), Gaps = 1/78 (1%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVN 352
+N+ V + ++T +E K+ F G I S K++RD+ G + G+GFV +S P +A KA+N
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 353 TFHGYMLHRKPLYVAIAQ 370
T +G L K + V+ A+
Sbjct: 65 TLNGLKLQTKTIKVSYAR 82
>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 = 83.2 bits (204), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 47/152 (30%), Positives = 80/152 (52%), Gaps = 3/152 (1%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
+L V L ++T EL FS + S ++ +D G S YG+VN+++ DA RAI
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 72 VKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKV 131
N +L K +++S++ P + ANL++ L ++ +++MF FG II+ +V
Sbjct: 63 TLNGLRLQSKTIKVSYA--RPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRV 120
Query: 132 ATSE-DGKSKGHGFVQFETEESANAAIENLNG 162
+ G S+G F++F+ A AI + NG
Sbjct: 121 LVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
Score = 79.7 bits (195), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 48/169 (28%), Positives = 90/169 (53%), Gaps = 20/169 (11%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALE 249
TNL + L ++T++ L FS G++ S + RD+ G S G+GFVN+ DA RA+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 250 AMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEE 309
+NG + SK + + A+ +E K +N+Y+ + +T ++
Sbjct: 63 TLNGLRLQSKTIKVSYARPSSE------------------VIKDANLYISGLPRTMTQKD 104
Query: 310 LKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVNTFHGY 357
++ FS+ G I +++V+ D+ G+++G F+ F EA +A+ +F+G+
Sbjct: 105 VEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNGH 153
Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 50/158 (31%), Positives = 82/158 (51%), Gaps = 8/158 (5%)
Query: 98 GVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAA 156
G NL V L +++ L+ +F + G + S K+ + G S G+GFV + T + A A
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 157 IENLNGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGK 216
I LNG + K I V + + S V+ K NL++ L +T++ + + FS+FG+
Sbjct: 61 INTLNGLRLQSKTIKVS-YARPSSEVI-----KDANLYISGLPRTMTQKDVEDMFSRFGR 114
Query: 217 IASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAMNG 253
I + + D+ G SRG F+ FD +A A+ + NG
Sbjct: 115 IINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 83.2 bits (204), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 47/151 (31%), Positives = 80/151 (52%), Gaps = 3/151 (1%)
Query: 13 SLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEV 72
+L V L ++T EL FS + S ++ +D G S YG+VN+++ DA RAI
Sbjct: 4 NLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINT 63
Query: 73 KNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVA 132
N +L K +++S++ P + ANL++ L ++ +++MF FG II+ +V
Sbjct: 64 LNGLRLQSKTIKVSYA--RPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVL 121
Query: 133 TSE-DGKSKGHGFVQFETEESANAAIENLNG 162
+ G S+G F++F+ A AI + NG
Sbjct: 122 VDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
Score = 79.7 bits (195), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 50/175 (28%), Positives = 92/175 (52%), Gaps = 23/175 (13%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALE 249
TNL + L ++T++ L FS G++ S + RD+ G S G+GFVN+ DA RA+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 250 AMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEE 309
+NG + SK + + A+ +E K +N+Y+ + +T ++
Sbjct: 63 TLNGLRLQSKTIKVSYARPSSE------------------VIKDANLYISGLPRTMTQKD 104
Query: 310 LKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVNTFHGYMLHRKP 363
++ FS+ G I +++V+ D+ G+++G F+ F EA +A+ +F+G H+ P
Sbjct: 105 VEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG---HKPP 156
Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 50/158 (31%), Positives = 82/158 (51%), Gaps = 8/158 (5%)
Query: 98 GVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAA 156
G NL V L +++ L+ +F + G + S K+ + G S G+GFV + T + A A
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 157 IENLNGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGK 216
I LNG + K I V + + S V+ K NL++ L +T++ + + FS+FG+
Sbjct: 61 INTLNGLRLQSKTIKVS-YARPSSEVI-----KDANLYISGLPRTMTQKDVEDMFSRFGR 114
Query: 217 IASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAMNG 253
I + + D+ G SRG F+ FD +A A+ + NG
Sbjct: 115 IINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
Score = 35.4 bits (80), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 30/59 (50%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAI 70
A+LY+ L +T ++ D FS F + + RV D TTG S ++ F +A AI
Sbjct: 89 ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 48/151 (31%), Positives = 78/151 (51%), Gaps = 3/151 (1%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
+L V L D+TD EL+ F + + R+ +D TG S Y +V+F S D+ RAI+
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 72 VKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKV 131
V N + K L++S++ P NL+V NL +I + +L +F +G+I+ +
Sbjct: 64 VLNGITVRNKRLKVSYA--RPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNI 121
Query: 132 ATSE-DGKSKGHGFVQFETEESANAAIENLN 161
+ G+ +G FV++ E A AI LN
Sbjct: 122 LRDKLTGRPRGVAFVRYNKREEAQEAISALN 152
Score = 79.0 bits (193), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 54/186 (29%), Positives = 92/186 (49%), Gaps = 22/186 (11%)
Query: 188 AKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARR 246
A TNL + L D+T+ L F G I + I RD + G S G+ FV+F + D++R
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 247 ALEAMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVT 306
A++ +NG + +K L + A+ E K +N+YV N+ +T
Sbjct: 61 AIKVLNGITVRNKRLKVSYARPGGE------------------SIKDTNLYVTNLPRTIT 102
Query: 307 DEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVNTFHGYMLH--RKP 363
D++L F + G+I ++RD+ G +G FV ++ EEA +A++ + + +P
Sbjct: 103 DDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQP 162
Query: 364 LYVAIA 369
L V +A
Sbjct: 163 LSVRLA 168
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 50/158 (31%), Positives = 82/158 (51%), Gaps = 8/158 (5%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIE 158
NL V L + + + L +F+ G I +C++ + G S G+ FV F +E + AI+
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 159 NLNGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIA 218
LNG TV +KR+ V + + K TNL++ NL +T++ L F K+G I
Sbjct: 64 VLNGITVRNKRLKVSYARPGGESI------KDTNLYVTNLPRTITDDQLDTIFGKYGSIV 117
Query: 219 SLLIARDE-NGTSRGFGFVNFDNPDDARRALEAMNGSV 255
I RD+ G RG FV ++ ++A+ A+ A+N +
Sbjct: 118 QKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVI 155
Score = 34.3 bits (77), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
+LYV +L +TD +L F ++ S+ + +D TGR +V + +A AI
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 149
Query: 72 VKNH 75
N+
Sbjct: 150 ALNN 153
>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 = 77.8 bits (190), Expect = 2e-14, Method: Composition-based stats.
Identities = 49/159 (30%), Positives = 81/159 (50%), Gaps = 22/159 (13%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
+F+ L+ D TE++L E F K+G + L I +D G SRGFGF++F+ P ++
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQ 65
Query: 252 NGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEELK 311
+ ++ KV+ RA + E++ K ++V I DV +E +
Sbjct: 66 H--ILDGKVIDPKRAIPRDEQD------------------KTGKIFVGGIGPDVRPKEFE 105
Query: 312 AHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASK 349
FSQ GTI A++M D + G ++GFGFV + S + +
Sbjct: 106 EFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDR 144
Score = 63.2 bits (152), Expect = 4e-10, Method: Composition-based stats.
Identities = 37/147 (25%), Positives = 76/147 (51%), Gaps = 5/147 (3%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+++G L+ D T+ L + F ++ ++ +++ KD TGRS +G+++F P VK
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEV--VK 63
Query: 74 NHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVAT 133
L GK++ + + K+G +FV + + +E F +G II ++
Sbjct: 64 TQHILDGKVIDPKRAIPRDEQDKTG--KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLML 121
Query: 134 SED-GKSKGHGFVQFETEESANAAIEN 159
+D G+S+G GFV +++ ++ + +N
Sbjct: 122 DKDTGQSRGFGFVTYDSADAVDRVCQN 148
Score = 58.2 bits (139), Expect = 1e-08, Method: Composition-based stats.
Identities = 41/141 (29%), Positives = 66/141 (46%), Gaps = 14/141 (9%)
Query: 112 DNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRI 170
DN+R E F +G + K+ G+S+G GF+ FE S + ++ + I
Sbjct: 18 DNLR--EYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT--------QHI 67
Query: 171 YVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKI--ASLLIARDENG 228
G+ I + K +F+ + DV + E FS++G I A L++ +D G
Sbjct: 68 LDGKVIDPKRAIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKD-TG 126
Query: 229 TSRGFGFVNFDNPDDARRALE 249
SRGFGFV +D+ D R +
Sbjct: 127 QSRGFGFVTYDSADAVDRVCQ 147
Score = 47.4 bits (111), Expect = 3e-05, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 37/61 (60%), Gaps = 1/61 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTF 354
+++ ++ D T++ L+ +F + GT+T K+M+D G ++GFGF+ F P + V T
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQ 65
Query: 355 H 355
H
Sbjct: 66 H 66
Score = 33.9 bits (76), Expect = 0.29, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 32/60 (53%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
++VG + PDV E + FS++ ++ ++ D TG+S +G+V + S R + K
Sbjct: 90 IFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNK 149
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 77.8 bits (190), Expect = 2e-14, Method: Composition-based stats.
Identities = 51/183 (27%), Positives = 94/183 (51%), Gaps = 23/183 (12%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L++ NLD +TE+ L + F G IA++ I D+N + + FV + DA AL+ +N
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLN 62
Query: 253 GSVIGS---KVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEE 309
G I + K+ +A ++Q+ + + N++V +++ +V DE
Sbjct: 63 GKQIENNIVKINWAFQSQQSSSDDTF-------------------NLFVGDLNVNVDDET 103
Query: 310 LKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTFHGYMLHRKPLYVAI 368
L+ F + S VM D + G ++G+GFV F+S ++A A+++ G L+ +PL +
Sbjct: 104 LRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINW 163
Query: 369 AQR 371
A +
Sbjct: 164 AAK 166
Score = 74.3 bits (181), Expect = 2e-13, Method: Composition-based stats.
Identities = 41/150 (27%), Positives = 82/150 (54%), Gaps = 2/150 (1%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
LYVG+L +T+ L F +A++++ D ++ Y +V + HDA A++
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNN-KNVNYAFVEYHQSHDANIALQTL 61
Query: 74 NHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVA- 132
N Q+ +++I+W+ + + NLFV +L ++D+ L+ F++F + +S V
Sbjct: 62 NGKQIENNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMW 121
Query: 133 TSEDGKSKGHGFVQFETEESANAAIENLNG 162
+ G S+G+GFV F +++ A A++++ G
Sbjct: 122 DMQTGSSRGYGFVSFTSQDDAQNAMDSMQG 151
Score = 60.5 bits (145), Expect = 3e-09, Method: Composition-based stats.
Identities = 32/78 (41%), Positives = 47/78 (60%)
Query: 13 SLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEV 72
+L+VGDL+ +V D L +AF +F S S V D TG S YG+V+F S DA A++
Sbjct: 89 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 148
Query: 73 KNHTQLHGKMLRISWSCR 90
L+G+ LRI+W+ +
Sbjct: 149 MQGQDLNGRPLRINWAAK 166
>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 = 76.6 bits (187), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 48/184 (26%), Positives = 97/184 (52%), Gaps = 9/184 (4%)
Query: 188 AKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARR 246
A + +++ ++ ++ E+ + + F+ FG I S+ ++ D +GF FV ++ P+ A+
Sbjct: 26 AIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQL 85
Query: 247 ALEAMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVT 306
ALE MN ++G + + R + + I+ EE R + +YV ++ D++
Sbjct: 86 ALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF-------NRIYVASVHQDLS 138
Query: 307 DEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTFHGYMLHRKPLY 365
D+++K+ F G I SA + RD G +KG+GF+ + + + AV++ + + L + L
Sbjct: 139 DDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLR 198
Query: 366 VAIA 369
V A
Sbjct: 199 VGKA 202
Score = 74.3 bits (181), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 46/175 (26%), Positives = 92/175 (52%), Gaps = 7/175 (4%)
Query: 99 VANLFVKNLIESIDNVRLQEMFQNFGNIISCKVA-TSEDGKSKGHGFVQFETEESANAAI 157
++ ++V ++ + +++ F FG I S ++ S K KG FV++E E+A A+
Sbjct: 28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLAL 87
Query: 158 ENLNGTTVGDKRIYVGR--FIKKSDRV---LPSPAAKYTNLFMKNLDSDVTEEHLVEKFS 212
E +N +G + I VGR I ++ + L A + +++ ++ D++++ + F
Sbjct: 88 EQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFE 147
Query: 213 KFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKVLYAARA 266
FGKI S +ARD G +G+GF+ ++ ++ A+ +MN +G + L +A
Sbjct: 148 AFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKA 202
Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 41/173 (23%), Positives = 90/173 (52%), Gaps = 10/173 (5%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+YVG ++ ++ + + AF+ F + S+ + DS T + + +V + P A A+E
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 74 NHTQLHGKMLRI--------SWSCRDPDARKSGVAN-LFVKNLIESIDNVRLQEMFQNFG 124
N L G+ +++ + D A ++ N ++V ++ + + + ++ +F+ FG
Sbjct: 91 NSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFG 150
Query: 125 NIISCKVATS-EDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGRFI 176
I S +A GK KG+GF+++E +S+ A+ ++N +G + + VG+ +
Sbjct: 151 KIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAV 203
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 39/79 (49%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+YV +H D++D ++ F F + S + +D TTG+ YG++ + + A+
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 187
Query: 74 NHTQLHGKMLRISWSCRDP 92
N L G+ LR+ + P
Sbjct: 188 NLFDLGGQYLRVGKAVTPP 206
>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 = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 46/175 (26%), Positives = 91/175 (52%), Gaps = 7/175 (4%)
Query: 99 VANLFVKNLIESIDNVRLQEMFQNFGNIISCKVA-TSEDGKSKGHGFVQFETEESANAAI 157
+ ++V ++ + +++ F FG I S ++ S K KG FV++E E+A A+
Sbjct: 13 MCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLAL 72
Query: 158 ENLNGTTVGDKRIYVGR--FIKKSDRV---LPSPAAKYTNLFMKNLDSDVTEEHLVEKFS 212
E +N +G + I VGR I ++ + L A + +++ ++ D++++ + F
Sbjct: 73 EQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFE 132
Query: 213 KFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKVLYAARA 266
FGKI S +ARD G +G+GF+ ++ ++ A+ +MN +G + L +A
Sbjct: 133 AFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKA 187
Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 47/184 (25%), Positives = 95/184 (51%), Gaps = 9/184 (4%)
Query: 188 AKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARR 246
A +++ ++ ++ E+ + + F+ FG I S+ ++ D +GF FV ++ P+ A+
Sbjct: 11 AIMCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQL 70
Query: 247 ALEAMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVT 306
ALE MN ++G + + R + + I+ EE R + +YV ++ D++
Sbjct: 71 ALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEAR-------AFNRIYVASVHQDLS 123
Query: 307 DEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTFHGYMLHRKPLY 365
D+++K+ F G I S + RD G +KG+GF+ + + + AV++ + + L + L
Sbjct: 124 DDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLR 183
Query: 366 VAIA 369
V A
Sbjct: 184 VGKA 187
Score = 70.1 bits (170), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 42/173 (24%), Positives = 91/173 (52%), Gaps = 10/173 (5%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+YVG ++ ++ + + AF+ F + S+ + DS T + + +V + P A A+E
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 74 NHTQLHGKMLRI--------SWSCRDPDARKSGVAN-LFVKNLIESIDNVRLQEMFQNFG 124
N L G+ +++ + D A ++ N ++V ++ + + + ++ +F+ FG
Sbjct: 76 NSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFG 135
Query: 125 NIISCKVATS-EDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGRFI 176
I SC +A GK KG+GF+++E +S+ A+ ++N +G + + VG+ +
Sbjct: 136 KIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAV 188
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 39/79 (49%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+YV +H D++D ++ F F + S + +D TTG+ YG++ + + A+
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 172
Query: 74 NHTQLHGKMLRISWSCRDP 92
N L G+ LR+ + P
Sbjct: 173 NLFDLGGQYLRVGKAVTPP 191
>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 = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 51/84 (60%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
++VGDL P++T ++ AF+ F ++ RV KD TG+S YG+V+F + DA AI+
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 74 NHTQLHGKMLRISWSCRDPDARKS 97
L G+ +R +W+ R P A KS
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPKS 101
Score = 52.4 bits (124), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 46/79 (58%), Gaps = 1/79 (1%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEA 250
++F+ +L ++T E + F+ FG+I+ + +D G S+G+GFV+F N DA A++
Sbjct: 17 HVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ 76
Query: 251 MNGSVIGSKVLYAARAQKK 269
M G +G + + A +K
Sbjct: 77 MGGQWLGGRQIRTNWATRK 95
Score = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 46/79 (58%), Gaps = 1/79 (1%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNT 353
+V+V ++ ++T E++KA F+ G I+ A+V++D G +KG+GFV F + +A A+
Sbjct: 17 HVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ 76
Query: 354 FHGYMLHRKPLYVAIAQRK 372
G L + + A RK
Sbjct: 77 MGGQWLGGRQIRTNWATRK 95
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 44/91 (48%), Gaps = 5/91 (5%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIEN 159
++FV +L I ++ F FG I +V GKSKG+GFV F + A AI+
Sbjct: 17 HVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ 76
Query: 160 LNGTTVGDKRIYVGRFIKKSDRVLPSPAAKY 190
+ G +G ++I +K P+P + Y
Sbjct: 77 MGGQWLGGRQIRTNWATRKP----PAPKSTY 103
>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 = 69.3 bits (168), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 45/172 (26%), Positives = 87/172 (50%), Gaps = 7/172 (4%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVA-TSEDGKSKGHGFVQFETEESANAAIENL 160
++V ++ + +++ F FG I S + S K KG FV++E E+A A+E
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 161 NGTTVGDKRIYVGR--FIKKSDRV---LPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFG 215
N +G + I VGR I ++ + L A + +++ ++ D++++ + F FG
Sbjct: 75 NSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFG 134
Query: 216 KIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKVLYAARA 266
KI S +ARD G +G+GF+ ++ ++ A+ + N +G + L +A
Sbjct: 135 KIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRVGKA 186
Score = 69.3 bits (168), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 45/179 (25%), Positives = 91/179 (50%), Gaps = 9/179 (5%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAM 251
+++ ++ ++ E+ + + F+ FG I S+ + D +GF FV ++ P+ A+ ALE
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 252 NGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEELK 311
N +G + + R + + I+ EE R + +YV ++ D++D+++K
Sbjct: 75 NSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF-------NRIYVASVHQDLSDDDIK 127
Query: 312 AHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTFHGYMLHRKPLYVAIA 369
+ F G I S + RD G +KG+GF+ + + + AV++ + + L + L V A
Sbjct: 128 SVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRVGKA 186
Score = 68.6 bits (166), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 42/173 (24%), Positives = 89/173 (51%), Gaps = 10/173 (5%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+YVG ++ ++ + + AF+ F + S+ DS T + + +V + P A A+E
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 74 NHTQLHGKMLRI--------SWSCRDPDARKSGVAN-LFVKNLIESIDNVRLQEMFQNFG 124
N L G+ +++ + D A ++ N ++V ++ + + + ++ +F+ FG
Sbjct: 75 NSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFG 134
Query: 125 NIISCKVATS-EDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGRFI 176
I SC +A GK KG+GF+++E +S+ A+ + N +G + + VG+ +
Sbjct: 135 KIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRVGKAV 187
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 39/79 (49%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+YV +H D++D ++ F F + S + +D TTG+ YG++ + + A+
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSX 171
Query: 74 NHTQLHGKMLRISWSCRDP 92
N L G+ LR+ + P
Sbjct: 172 NLFDLGGQYLRVGKAVTPP 190
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/161 (29%), Positives = 79/161 (49%), Gaps = 29/161 (18%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAM 251
LF+ NL +D+TEE F ++G+ + + I RD RGFGF+ ++ A A +
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD-----RGFGFIRLESRTLAEIAKAEL 78
Query: 252 NGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEELK 311
+G+++ S+ L R + H G+ + VKN+ V++E L+
Sbjct: 79 DGTILKSRPL----------RIRFATH--------------GAALTVKNLSPVVSNELLE 114
Query: 312 AHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVN 352
FSQ G + A V+ D++G G GFV F++ A KA+
Sbjct: 115 QAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALE 155
Score = 58.5 bits (140), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 43/150 (28%), Positives = 68/150 (45%), Gaps = 17/150 (11%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
LFV NL I + +F+ +G + + +G GF++ E+ A A
Sbjct: 23 CRLFVGNLPTDITEEDFKRLFERYGEPSEVFI-----NRDRGFGFIRLESRTLAEIAKAE 77
Query: 160 LNGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIAS 219
L+GT + + + + RF A L +KNL V+ E L + FS+FG +
Sbjct: 78 LDGTILKSRPLRI-RF-----------ATHGAALTVKNLSPVVSNELLEQAFSQFGPVEK 125
Query: 220 LLIARDENGTSRGFGFVNFDNPDDARRALE 249
++ D+ G + G GFV F AR+ALE
Sbjct: 126 AVVVVDDRGRATGKGFVEFAAKPPARKALE 155
Score = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 41/153 (26%), Positives = 67/153 (43%), Gaps = 14/153 (9%)
Query: 7 TATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDA 66
T T L+VG+L D+T+ + F + + V + +D +G++ S A
Sbjct: 18 TYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR------GFGFIRLESRTLA 71
Query: 67 IRAIEVKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNI 126
A + T L + LRI ++ A L VKNL + N L++ F FG +
Sbjct: 72 EIAKAELDGTILKSRPLRIRFATHG--------AALTVKNLSPVVSNELLEQAFSQFGPV 123
Query: 127 ISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
V + G++ G GFV+F + A A+E
Sbjct: 124 EKAVVVVDDRGRATGKGFVEFAAKPPARKALER 156
Score = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTF 354
++V N+ D+T+E+ K F + G + + RD +GFGF+ S A A
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD-----RGFGFIRLESRTLAEIAKAEL 78
Query: 355 HGYMLHRKPLYVAIA 369
G +L +PL + A
Sbjct: 79 DGTILKSRPLRIRFA 93
>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 = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 67/143 (46%), Gaps = 3/143 (2%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAIENL 160
LF+ L + L+ F+ +G + C V + K S+G GFV + T E +AA+ N
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-NA 74
Query: 161 NGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASL 220
V + + R + + D P +F+ + D E HL + F ++GKI +
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 134
Query: 221 LIARDE-NGTSRGFGFVNFDNPD 242
I D +G RGF FV FD+ D
Sbjct: 135 EIMTDRGSGKKRGFAFVTFDDHD 157
Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 46/170 (27%), Positives = 76/170 (44%), Gaps = 15/170 (8%)
Query: 184 PSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGT-SRGFGFVNFDNPD 242
P + LF+ L + T+E L F ++G + ++ RD N SRGFGFV + +
Sbjct: 7 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVE 66
Query: 243 DARRALEAMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNID 302
+ A+ A V G +V+ RA + + ++ H +K ++V I
Sbjct: 67 EVDAAMNARPHKVDG-RVVEPKRAVSREDSQRPGAHLTVKK------------IFVGGIK 113
Query: 303 DDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAV 351
+D + L+ +F Q G I ++M D G +GF FV F + K V
Sbjct: 114 EDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 73/149 (48%), Gaps = 6/149 (4%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L++G L + TD L F ++ +L V +D T RS +G+V + + + A+ +
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 75
Query: 74 NHTQLHGKMLRISWSCRDPDARKSG----VANLFVKNLIESIDNVRLQEMFQNFGNIISC 129
H ++ G+++ + D+++ G V +FV + E + L++ F+ +G I
Sbjct: 76 PH-KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 134
Query: 130 KVATSE-DGKSKGHGFVQFETEESANAAI 157
++ T GK +G FV F+ +S + +
Sbjct: 135 EIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 37/58 (63%), Gaps = 1/58 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVN 352
+++ + + TDE L++HF Q GT+T VMRD ++GFGFV +++ EE A+N
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
>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 = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 67/143 (46%), Gaps = 3/143 (2%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAIENL 160
LF+ L + L+ F+ +G + C V + K S+G GFV + T E +AA+ N
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-NA 73
Query: 161 NGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASL 220
V + + R + + D P +F+ + D E HL + F ++GKI +
Sbjct: 74 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 133
Query: 221 LIARDE-NGTSRGFGFVNFDNPD 242
I D +G RGF FV FD+ D
Sbjct: 134 EIMTDRGSGKKRGFAFVTFDDHD 156
Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 46/170 (27%), Positives = 76/170 (44%), Gaps = 15/170 (8%)
Query: 184 PSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGT-SRGFGFVNFDNPD 242
P + LF+ L + T+E L F ++G + ++ RD N SRGFGFV + +
Sbjct: 6 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVE 65
Query: 243 DARRALEAMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNID 302
+ A+ A V G +V+ RA + + ++ H +K ++V I
Sbjct: 66 EVDAAMNARPHKVDG-RVVEPKRAVSREDSQRPGAHLTVKK------------IFVGGIK 112
Query: 303 DDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAV 351
+D + L+ +F Q G I ++M D G +GF FV F + K V
Sbjct: 113 EDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 162
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 73/149 (48%), Gaps = 6/149 (4%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L++G L + TD L F ++ +L V +D T RS +G+V + + + A+ +
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 74
Query: 74 NHTQLHGKMLRISWSCRDPDARKSG----VANLFVKNLIESIDNVRLQEMFQNFGNIISC 129
H ++ G+++ + D+++ G V +FV + E + L++ F+ +G I
Sbjct: 75 PH-KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 133
Query: 130 KVATSE-DGKSKGHGFVQFETEESANAAI 157
++ T GK +G FV F+ +S + +
Sbjct: 134 EIMTDRGSGKKRGFAFVTFDDHDSVDKIV 162
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 37/58 (63%), Gaps = 1/58 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVN 352
+++ + + TDE L++HF Q GT+T VMRD ++GFGFV +++ EE A+N
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 72
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 67/143 (46%), Gaps = 3/143 (2%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAIENL 160
LF+ L + L+ F+ +G + C V + K S+G GFV + T E +AA+ N
Sbjct: 17 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-NA 75
Query: 161 NGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASL 220
V + + R + + D P +F+ + D E HL + F ++GKI +
Sbjct: 76 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 135
Query: 221 LIARDE-NGTSRGFGFVNFDNPD 242
I D +G RGF FV FD+ D
Sbjct: 136 EIMTDRGSGKKRGFAFVTFDDHD 158
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 49/192 (25%), Positives = 86/192 (44%), Gaps = 16/192 (8%)
Query: 184 PSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGT-SRGFGFVNFDNPD 242
P + LF+ L + T+E L F ++G + ++ RD N SRGFGFV + +
Sbjct: 8 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVE 67
Query: 243 DARRALEAMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNID 302
+ A+ A V G +V+ RA + + ++ H +K ++V I
Sbjct: 68 EVDAAMNARPHKVDG-RVVEPKRAVSREDSQRPGAHLTVKK------------IFVGGIK 114
Query: 303 DDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAV-NTFHGYMLH 360
+D + L+ +F Q G I ++M D G +GF FV F + K V +H H
Sbjct: 115 EDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGH 174
Query: 361 RKPLYVAIAQRK 372
+ A+++++
Sbjct: 175 NCEVRKALSKQE 186
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 73/149 (48%), Gaps = 6/149 (4%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L++G L + TD L F ++ +L V +D T RS +G+V + + + A+ +
Sbjct: 17 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 76
Query: 74 NHTQLHGKMLRISWSCRDPDARKSG----VANLFVKNLIESIDNVRLQEMFQNFGNIISC 129
H ++ G+++ + D+++ G V +FV + E + L++ F+ +G I
Sbjct: 77 PH-KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 135
Query: 130 KVATSE-DGKSKGHGFVQFETEESANAAI 157
++ T GK +G FV F+ +S + +
Sbjct: 136 EIMTDRGSGKKRGFAFVTFDDHDSVDKIV 164
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 67/143 (46%), Gaps = 3/143 (2%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAIENL 160
LF+ L + L+ F+ +G + C V + K S+G GFV + T E +AA+ N
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-NA 72
Query: 161 NGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASL 220
V + + R + + D P +F+ + D E HL + F ++GKI +
Sbjct: 73 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 132
Query: 221 LIARDE-NGTSRGFGFVNFDNPD 242
I D +G RGF FV FD+ D
Sbjct: 133 EIMTDRGSGKKRGFAFVTFDDHD 155
Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 46/170 (27%), Positives = 76/170 (44%), Gaps = 15/170 (8%)
Query: 184 PSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGT-SRGFGFVNFDNPD 242
P + LF+ L + T+E L F ++G + ++ RD N SRGFGFV + +
Sbjct: 5 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVE 64
Query: 243 DARRALEAMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNID 302
+ A+ A V G +V+ RA + + ++ H +K ++V I
Sbjct: 65 EVDAAMNARPHKVDG-RVVEPKRAVSREDSQRPGAHLTVKK------------IFVGGIK 111
Query: 303 DDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAV 351
+D + L+ +F Q G I ++M D G +GF FV F + K V
Sbjct: 112 EDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 161
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 73/149 (48%), Gaps = 6/149 (4%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L++G L + TD L F ++ +L V +D T RS +G+V + + + A+ +
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 73
Query: 74 NHTQLHGKMLRISWSCRDPDARKSG----VANLFVKNLIESIDNVRLQEMFQNFGNIISC 129
H ++ G+++ + D+++ G V +FV + E + L++ F+ +G I
Sbjct: 74 PH-KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 132
Query: 130 KVATSE-DGKSKGHGFVQFETEESANAAI 157
++ T GK +G FV F+ +S + +
Sbjct: 133 EIMTDRGSGKKRGFAFVTFDDHDSVDKIV 161
Score = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 37/58 (63%), Gaps = 1/58 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVN 352
+++ + + TDE L++HF Q GT+T VMRD ++GFGFV +++ EE A+N
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 71
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 66.6 bits (161), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 67/143 (46%), Gaps = 3/143 (2%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAIENL 160
LF+ L + L+ F+ +G + C V + K S+G GFV + T E +AA+ N
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-NA 74
Query: 161 NGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASL 220
V + + R + + D P +F+ + D E HL + F ++GKI +
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 134
Query: 221 LIARDE-NGTSRGFGFVNFDNPD 242
I D +G RGF FV FD+ D
Sbjct: 135 EIMTDRGSGKKRGFAFVTFDDHD 157
Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 46/170 (27%), Positives = 76/170 (44%), Gaps = 15/170 (8%)
Query: 184 PSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGT-SRGFGFVNFDNPD 242
P + LF+ L + T+E L F ++G + ++ RD N SRGFGFV + +
Sbjct: 7 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVE 66
Query: 243 DARRALEAMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNID 302
+ A+ A V G +V+ RA + + ++ H +K ++V I
Sbjct: 67 EVDAAMNARPHKVDG-RVVEPKRAVSREDSQRPGAHLTVKK------------IFVGGIK 113
Query: 303 DDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAV 351
+D + L+ +F Q G I ++M D G +GF FV F + K V
Sbjct: 114 EDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 73/149 (48%), Gaps = 6/149 (4%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L++G L + TD L F ++ +L V +D T RS +G+V + + + A+ +
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 75
Query: 74 NHTQLHGKMLRISWSCRDPDARKSG----VANLFVKNLIESIDNVRLQEMFQNFGNIISC 129
H ++ G+++ + D+++ G V +FV + E + L++ F+ +G I
Sbjct: 76 PH-KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 134
Query: 130 KVATSE-DGKSKGHGFVQFETEESANAAI 157
++ T GK +G FV F+ +S + +
Sbjct: 135 EIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Score = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 37/58 (63%), Gaps = 1/58 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVN 352
+++ + + TDE L++HF Q GT+T VMRD ++GFGFV +++ EE A+N
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
>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 = 66.6 bits (161), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 67/143 (46%), Gaps = 3/143 (2%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAIENL 160
LF+ L + L+ F+ +G + C V + K S+G GFV + T E +AA+ N
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-NA 67
Query: 161 NGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASL 220
V + + R + + D P +F+ + D E HL + F ++GKI +
Sbjct: 68 RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 127
Query: 221 LIARDE-NGTSRGFGFVNFDNPD 242
I D +G RGF FV FD+ D
Sbjct: 128 EIMTDRGSGKKRGFAFVTFDDHD 150
Score = 60.1 bits (144), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 45/161 (27%), Positives = 74/161 (45%), Gaps = 15/161 (9%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGT-SRGFGFVNFDNPDDARRALEAM 251
LF+ L + T+E L F ++G + ++ RD N SRGFGFV + ++ A+ A
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 68
Query: 252 NGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEELK 311
V G +V+ RA + + ++ H +K ++V I +D + L+
Sbjct: 69 PHKVDG-RVVEPKRAVSREDSQRPGAHLTVKK------------IFVGGIKEDTEEHHLR 115
Query: 312 AHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAV 351
+F Q G I ++M D G +GF FV F + K V
Sbjct: 116 DYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 156
Score = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 73/149 (48%), Gaps = 6/149 (4%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L++G L + TD L F ++ +L V +D T RS +G+V + + + A+ +
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 68
Query: 74 NHTQLHGKMLRISWSCRDPDARKSG----VANLFVKNLIESIDNVRLQEMFQNFGNIISC 129
H ++ G+++ + D+++ G V +FV + E + L++ F+ +G I
Sbjct: 69 PH-KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI 127
Query: 130 KVATSE-DGKSKGHGFVQFETEESANAAI 157
++ T GK +G FV F+ +S + +
Sbjct: 128 EIMTDRGSGKKRGFAFVTFDDHDSVDKIV 156
Score = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 37/58 (63%), Gaps = 1/58 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVN 352
+++ + + TDE L++HF Q GT+T VMRD ++GFGFV +++ EE A+N
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 31/81 (38%), Positives = 48/81 (59%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
++VGDL P++T ++ AF+ F ++ RV KD TG+S YG+V+F + DA AI
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 74 NHTQLHGKMLRISWSCRDPDA 94
L G+ +R +W+ R P A
Sbjct: 78 GGQWLGGRQIRTNWATRKPPA 98
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 47/83 (56%), Gaps = 1/83 (1%)
Query: 188 AKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARR 246
+ + ++F+ +L ++T E + F+ FGKI+ + +D G S+G+GFV+F N DA
Sbjct: 13 SNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAEN 72
Query: 247 ALEAMNGSVIGSKVLYAARAQKK 269
A+ M G +G + + A +K
Sbjct: 73 AIVHMGGQWLGGRQIRTNWATRK 95
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 46/79 (58%), Gaps = 1/79 (1%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNT 353
+V+V ++ ++T E++K+ F+ G I+ A+V++D G +KG+GFV F + +A A+
Sbjct: 17 HVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVH 76
Query: 354 FHGYMLHRKPLYVAIAQRK 372
G L + + A RK
Sbjct: 77 MGGQWLGGRQIRTNWATRK 95
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIEN 159
++FV +L I ++ F FG I +V GKSKG+GFV F + A AI +
Sbjct: 17 HVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVH 76
Query: 160 LNGTTVGDKRI 170
+ G +G ++I
Sbjct: 77 MGGQWLGGRQI 87
>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 = 65.9 bits (159), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 49/164 (29%), Positives = 88/164 (53%), Gaps = 8/164 (4%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAI 67
+TTP +L++G+L+P+ + EL A SE + + V D TG + +GYV+F S D
Sbjct: 10 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLE 68
Query: 68 RAIEVKNHTQLHGKMLRISWSCRDPDARKSGVA-NLFVKNLIESIDNVRLQEMFQNFGNI 126
+A+E+ ++ G +++ + D++K A L KNL +I L+E+F++ I
Sbjct: 69 KALEL-TGLKVFGNEIKLE-KPKGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDALEI 126
Query: 127 ISCKVATSEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRI 170
S+DGKSKG +++F++E A +E G + + +
Sbjct: 127 ----RLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSV 166
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/165 (23%), Positives = 75/165 (45%), Gaps = 21/165 (12%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAM 251
NLF+ NL+ + + L S+ L + GT+R FG+V+F++ +D +ALE
Sbjct: 15 NLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELT 74
Query: 252 NGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEELK 311
V G+++ ++ + + + +K R + + KN+ ++T++ELK
Sbjct: 75 GLKVFGNEI-------------KLEKPKGRDSKKVRAAR----TLLAKNLSFNITEDELK 117
Query: 312 AHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFHG 356
F I + + G +KG ++ F S +A K + G
Sbjct: 118 EVFEDALEIR----LVSQDGKSKGIAYIEFKSEADAEKNLEEKQG 158
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 44/153 (28%), Positives = 75/153 (49%), Gaps = 16/153 (10%)
Query: 7 TATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDA 66
T T + L+VG+L PD+T+ E+ F ++ V + KD +G++ + A
Sbjct: 18 TFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG------FGFIRLETRTLA 71
Query: 67 -IRAIEVKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGN 125
I +E+ N L GK LR+ ++C A+L V+NL + + N L+E F FG
Sbjct: 72 EIAKVELDNMP-LRGKQLRVRFACHS--------ASLTVRNLPQYVSNELLEEAFSVFGQ 122
Query: 126 IISCKVATSEDGKSKGHGFVQFETEESANAAIE 158
+ V + G+ G G V+F + +A A++
Sbjct: 123 VERAVVIVDDRGRPSGKGIVEFSGKPAARKALD 155
Score = 56.2 bits (134), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 44/150 (29%), Positives = 69/150 (46%), Gaps = 17/150 (11%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
+ LFV NL I ++++F+ +G + K KG GF++ ET A A
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIH-----KDKGFGFIRLETRTLAEIAKVE 77
Query: 160 LNGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIAS 219
L+ + K++ V RF A +L ++NL V+ E L E FS FG++
Sbjct: 78 LDNMPLRGKQLRV-RF-----------ACHSASLTVRNLPQYVSNELLEEAFSVFGQVER 125
Query: 220 LLIARDENGTSRGFGFVNFDNPDDARRALE 249
++ D+ G G G V F AR+AL+
Sbjct: 126 AVVIVDDRGRPSGKGIVEFSGKPAARKALD 155
Score = 33.5 bits (75), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 34/76 (44%), Gaps = 5/76 (6%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
S ++V N+ D+T+EE++ F + G + +D KGFGF+ + A A
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-----KGFGFIRLETRTLAEIAKVE 77
Query: 354 FHGYMLHRKPLYVAIA 369
L K L V A
Sbjct: 78 LDNMPLRGKQLRVRFA 93
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/86 (38%), Positives = 53/86 (61%), Gaps = 1/86 (1%)
Query: 187 AAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDAR 245
A+ LF+ L D E+ L + FSK+G+I+ +++ +D E SRGFGFV F+N DDA+
Sbjct: 9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAK 68
Query: 246 RALEAMNGSVIGSKVLYAARAQKKAE 271
A+ AMNG + + + +A K ++
Sbjct: 69 DAMMAMNGKSVDGRQIRVDQAGKSSD 94
Score = 52.0 bits (123), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 44/88 (50%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAI 67
A+ L+VG L D + L FS++ ++ V V KD T RS +G+V F + DA
Sbjct: 9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAK 68
Query: 68 RAIEVKNHTQLHGKMLRISWSCRDPDAR 95
A+ N + G+ +R+ + + D R
Sbjct: 69 DAMMAMNGKSVDGRQIRVDQAGKSSDNR 96
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 44/88 (50%), Gaps = 2/88 (2%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIENL 160
LFV L + L+++F +G I V E +S+G GFV FE + A A+ +
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 161 NGTTVGDKRIYVGRFIKKSD-RVLPSPA 187
NG +V ++I V + K SD R PS
Sbjct: 75 NGKSVDGRQIRVDQAGKSSDNRSGPSSG 102
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 45/83 (54%), Gaps = 1/83 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTF 354
++V + D ++ L+ FS+ G I+ V++D E ++GFGFV F + ++A A+
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 355 HGYMLHRKPLYVAIAQRKEDRQA 377
+G + + + V A + D ++
Sbjct: 75 NGKSVDGRQIRVDQAGKSSDNRS 97
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 48/79 (60%)
Query: 293 GSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVN 352
GS V+V N+D V ++LK FS G + A ++ D+ G ++G G V F EA +A++
Sbjct: 15 GSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAIS 74
Query: 353 TFHGYMLHRKPLYVAIAQR 371
F+G +L +P++V + +R
Sbjct: 75 MFNGQLLFDRPMHVKMDER 93
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 44/85 (51%), Gaps = 4/85 (4%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
+ +FV NL + +L+E+F G ++ + +DGKS+G G V FE A AI
Sbjct: 16 STVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISM 75
Query: 160 LNGTTVGDKRIYVGRFIKKSDRVLP 184
NG + D+ ++V K +R LP
Sbjct: 76 FNGQLLFDRPMHV----KMDERALP 96
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 36/66 (54%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEA 250
+ +F+ NLD V + L E FS G + I D++G SRG G V F+ +A +A+
Sbjct: 16 STVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISM 75
Query: 251 MNGSVI 256
NG ++
Sbjct: 76 FNGQLL 81
>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 = 60.5 bits (145), Expect = 3e-09, Method: Composition-based stats.
Identities = 32/78 (41%), Positives = 47/78 (60%)
Query: 13 SLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEV 72
+L+VGDL+ +V D L +AF +F S S V D TG S YG+V+F S DA A++
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 73 KNHTQLHGKMLRISWSCR 90
L+G+ LRI+W+ +
Sbjct: 63 MQGQDLNGRPLRINWAAK 80
Score = 50.4 bits (119), Expect = 3e-06, Method: Composition-based stats.
Identities = 28/78 (35%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEA 250
NLF+ +L+ +V +E L F F S + D + G+SRG+GFV+F + DDA+ A+++
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 251 MNGSVIGSKVLYAARAQK 268
M G + + L A K
Sbjct: 63 MQGQDLNGRPLRINWAAK 80
Score = 50.1 bits (118), Expect = 4e-06, Method: Composition-based stats.
Identities = 26/80 (32%), Positives = 48/80 (60%), Gaps = 1/80 (1%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNT 353
N++V +++ +V DE L+ F + S VM D + G ++G+GFV F+S ++A A+++
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 354 FHGYMLHRKPLYVAIAQRKE 373
G L+ +PL + A + E
Sbjct: 63 MQGQDLNGRPLRINWAAKLE 82
Score = 43.1 bits (100), Expect = 5e-04, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 40/63 (63%), Gaps = 1/63 (1%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCKVA-TSEDGKSKGHGFVQFETEESANAAIEN 159
NLFV +L ++D+ L+ F++F + +S V + G S+G+GFV F +++ A A+++
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 160 LNG 162
+ G
Sbjct: 63 MQG 65
>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 = 60.1 bits (144), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 54/83 (65%), Gaps = 1/83 (1%)
Query: 289 LKYKGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEA 347
L ++G+N+ V + + T +EL++ FS G + SAK++RD+ G + G+GFV + + ++A
Sbjct: 15 LYFQGTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDA 74
Query: 348 SKAVNTFHGYMLHRKPLYVAIAQ 370
+A+NT +G L K + V+ A+
Sbjct: 75 ERAINTLNGLRLQSKTIKVSYAR 97
Score = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
+L V L + T EL FS + S ++ +D G S YG+VN+++ DA RAI
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 79
Query: 72 VKNHTQLHGKMLRISWS 88
N +L K +++S++
Sbjct: 80 TLNGLRLQSKTIKVSYA 96
Score = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALE 249
TNL + L + T++ L FS G++ S + RD+ G S G+GFVN+ DA RA+
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 79
Query: 250 AMNGSVIGSKVLYAARAQ 267
+NG + SK + + A+
Sbjct: 80 TLNGLRLQSKTIKVSYAR 97
Score = 38.1 bits (87), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 37/74 (50%), Gaps = 1/74 (1%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIE 158
NL V L ++ L+ +F + G + S K+ + G S G+GFV + T + A AI
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 79
Query: 159 NLNGTTVGDKRIYV 172
LNG + K I V
Sbjct: 80 TLNGLRLQSKTIKV 93
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 59.7 bits (143), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 44/76 (57%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
LF+ L+ + E+ L F K G I+ +L+ +D SRGF F+ F+NP DA+ A + MN
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMN 69
Query: 253 GSVIGSKVLYAARAQK 268
G + K + +A+K
Sbjct: 70 GKSLHGKAIKVEQAKK 85
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 42/76 (55%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
+++ ++ + ++ LKA F + G I+ +++D ++GF F+ F +P +A A +
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMN 69
Query: 356 GYMLHRKPLYVAIAQR 371
G LH K + V A++
Sbjct: 70 GKSLHGKAIKVEQAKK 85
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 1/78 (1%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAI 67
A P L++G L+ + + L F + ++ V + KD T+ +S + ++ F +P DA
Sbjct: 4 ADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTS-KSRGFAFITFENPADAK 62
Query: 68 RAIEVKNHTQLHGKMLRI 85
A + N LHGK +++
Sbjct: 63 NAAKDMNGKSLHGKAIKV 80
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 32/71 (45%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
LF+ L + L+ +F G I + KS+G F+ FE A A +++N
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMN 69
Query: 162 GTTVGDKRIYV 172
G ++ K I V
Sbjct: 70 GKSLHGKAIKV 80
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 58.9 bits (141), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 31/69 (44%), Positives = 46/69 (66%), Gaps = 3/69 (4%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAM- 251
LF+K L D TEE L E F G + + ++ E G+S+GFGFV+F++ +DA+ A EAM
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAME 75
Query: 252 NGSVIGSKV 260
+G + G+KV
Sbjct: 76 DGEIDGNKV 84
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 92 PDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEE 151
P+AR LFVK L E L+E F G++ + V E G SKG GFV F +EE
Sbjct: 8 PNARSQPSKTLFVKGLSEDTTEETLKESFD--GSVRARIVTDRETGSSKGFGFVDFNSEE 65
Query: 152 SANAAIENL-NGTTVGDK 168
A AA E + +G G+K
Sbjct: 66 DAKAAKEAMEDGEIDGNK 83
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 34/55 (61%), Gaps = 2/55 (3%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKA 350
++VK + +D T+E LK F G++ + V E G +KGFGFV F+S E+A A
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSVRARIVTDRETGSSKGFGFVDFNSEEDAKAA 70
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 3/76 (3%)
Query: 13 SLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEV 72
+L+V L D T+ L ++F R+ D TG S +G+V+F S DA A E
Sbjct: 17 TLFVKGLSEDTTEETLKESFD---GSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEA 73
Query: 73 KNHTQLHGKMLRISWS 88
++ G + + W+
Sbjct: 74 MEDGEIDGNKVTLDWA 89
>pdb|1JGN|A Chain A, Solution Structure Of The C-Terminal Pabc Domain Of Human
Poly(A)-Binding Protein In Complex With The Peptide From
Paip2
pdb|1JH4|A Chain A, Solution Structure Of The C-Terminal Pabc Domain Of Human
Poly(A)-Binding Protein In Complex With The Peptide From
Paip1
Length = 98
Score = 58.5 bits (140), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 32/80 (40%), Positives = 46/80 (57%)
Query: 539 MLAAPSPEQQKQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXXXXXXXXXXAVKVE 598
MLA+ P++QKQ+LGERL+PL++ P L KITGM KV+
Sbjct: 11 MLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVD 70
Query: 599 EAVQVLKLSEAKVSTQEAIH 618
EAV VL+ +AK + Q+A++
Sbjct: 71 EAVAVLQAHQAKEAAQKAVN 90
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 58.5 bits (140), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 48/167 (28%), Positives = 82/167 (49%), Gaps = 16/167 (9%)
Query: 9 TTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIR 68
TT +L+VG+L+ + + EL S+ + + V D G + +GYV+F S D +
Sbjct: 5 TTAFNLFVGNLNFNKSAPELKTGISDVFAKNDLAVV-DVRIGMTRKFGYVDFESAEDLEK 63
Query: 69 AIEVKNHTQLHGKMLRISW-----SCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNF 123
A+E+ ++ G +++ S ++ DAR L KNL + L+E+F++
Sbjct: 64 ALEL-TGLKVFGNEIKLEKPKGKDSKKERDAR-----TLLAKNLPYKVTQDELKEVFEDA 117
Query: 124 GNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRI 170
I S+DGKSKG +++F+TE A E GT + + I
Sbjct: 118 AEI----RLVSKDGKSKGIAYIEFKTEADAEKTFEEKQGTEIDGRSI 160
Score = 42.4 bits (98), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 41/165 (24%), Positives = 69/165 (41%), Gaps = 21/165 (12%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAM 251
NLF+ NL+ + + L S L + G +R FG+V+F++ +D +ALE
Sbjct: 9 NLFVGNLNFNKSAPELKTGISDVFAKNDLAVVDVRIGMTRKFGYVDFESAEDLEKALELT 68
Query: 252 NGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEELK 311
V G+++ K +++E+ R + KN+ VT +ELK
Sbjct: 69 GLKVFGNEIKLEKPKGKDSKKERDAR-----------------TLLAKNLPYKVTQDELK 111
Query: 312 AHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFHG 356
F I V +D G +KG ++ F + +A K G
Sbjct: 112 EVFEDAAEIRL--VSKD--GKSKGIAYIEFKTEADAEKTFEEKQG 152
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 58.5 bits (140), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 30/71 (42%), Positives = 44/71 (61%), Gaps = 1/71 (1%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEA 250
NLF+ +L + T+ L F FG + S + D + S+ FGFV+FDNPD A+ A++A
Sbjct: 42 NLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKA 101
Query: 251 MNGSVIGSKVL 261
MNG +G+K L
Sbjct: 102 MNGFQVGTKRL 112
Score = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIE 158
NLF+ +L + + L F FGN+IS KV + SK GFV F+ +SA AI+
Sbjct: 41 CNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIK 100
Query: 159 NLNGTTVGDKRIYV 172
+NG VG KR+ V
Sbjct: 101 AMNGFQVGTKRLKV 114
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 46/78 (58%), Gaps = 1/78 (1%)
Query: 292 KGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEK-GINKGFGFVCFSSPEEASKA 350
+G N+++ ++ + TD +L + F G + SAKV D++ ++K FGFV F +P+ A A
Sbjct: 39 EGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVA 98
Query: 351 VNTFHGYMLHRKPLYVAI 368
+ +G+ + K L V +
Sbjct: 99 IKAMNGFQVGTKRLKVQL 116
Score = 45.4 bits (106), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 40/74 (54%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
+L++ L + TD +L F F ++ S +V D T S C+G+V+F +P A AI+
Sbjct: 41 CNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIK 100
Query: 72 VKNHTQLHGKMLRI 85
N Q+ K L++
Sbjct: 101 AMNGFQVGTKRLKV 114
>pdb|1G9L|A Chain A, Solution Structure Of The Pabc Domain Of Human Poly(A)
Binding Protein
Length = 144
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 32/79 (40%), Positives = 45/79 (56%)
Query: 539 MLAAPSPEQQKQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXXXXXXXXXXAVKVE 598
MLA+ P++QKQ+LGERL+PL++ P L KITGM KV+
Sbjct: 57 MLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVD 116
Query: 599 EAVQVLKLSEAKVSTQEAI 617
EAV VL+ +AK + Q+A+
Sbjct: 117 EAVAVLQAHQAKEAAQKAV 135
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 47/79 (59%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
++VGDL P++T + AF+ F ++ RV KD TG+S YG+V+F + DA AI+
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 74 NHTQLHGKMLRISWSCRDP 92
L G+ +R +W+ R P
Sbjct: 69 GGQWLGGRQIRTNWATRKP 87
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 47/86 (54%), Gaps = 1/86 (1%)
Query: 185 SPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDD 243
P + ++F+ +L ++T + F+ FG+I+ + +D G S+G+GFV+F N D
Sbjct: 1 GPLGSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWD 60
Query: 244 ARRALEAMNGSVIGSKVLYAARAQKK 269
A A++ M G +G + + A +K
Sbjct: 61 AENAIQQMGGQWLGGRQIRTNWATRK 86
Score = 36.2 bits (82), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 123 FGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRI 170
FG I +V GKSKG+GFV F + A AI+ + G +G ++I
Sbjct: 30 FGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI 78
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNT 353
+V+V ++ ++T + A F+ G I+ A+V++D G +KG+GFV F + +A A+
Sbjct: 8 HVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ 67
Query: 354 FHGYMLHRKPLYVAIAQRK 372
G L + + A RK
Sbjct: 68 MGGQWLGGRQIRTNWATRK 86
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 41/73 (56%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTF 354
V+V N++ V +E L F Q G +T + +D +G K FGFVCF PE S A+
Sbjct: 18 TVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALL 77
Query: 355 HGYMLHRKPLYVA 367
+G L+ +P+ V+
Sbjct: 78 NGIRLYGRPINVS 90
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 35/62 (56%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAM 251
+F+ NL++ V EE L E F + G + + I +D G + FGFV F +P+ A+ +
Sbjct: 18 TVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALL 77
Query: 252 NG 253
NG
Sbjct: 78 NG 79
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 13 SLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEV 72
+++VG+L V + L++ F + L V +CKD G+ +G+V F P AI +
Sbjct: 18 TVFVGNLEARVREEILYELFLQAGPLTKVTICKDR-EGKPKSFGFVCFKHPESVSYAIAL 76
Query: 73 KNHTQLHGKMLRIS 86
N +L+G+ + +S
Sbjct: 77 LNGIRLYGRPINVS 90
Score = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENL 160
+FV NL + L E+F G + + +GK K GFV F+ ES + AI L
Sbjct: 18 TVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALL 77
Query: 161 NGTTVGDKRIYV 172
NG + + I V
Sbjct: 78 NGIRLYGRPINV 89
>pdb|3KUS|A Chain A, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KUS|B Chain B, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KUT|A Chain A, Crystal Structure Of The Mlle Domain Of Poly(a)-binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KUT|B Chain B, Crystal Structure Of The Mlle Domain Of Poly(a)-binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KTP|A Chain A, Structural Basis Of Gw182 Recognition By Poly(a)-binding
Protein
pdb|3KTR|A Chain A, Structural Basis Of Ataxin-2 Recognition By
Poly(A)-Binding
pdb|3KUI|A Chain A, Crystal Structure Of C-Terminal Domain Of Pabpc1 In
Complex Binding Region Of Erf3a
pdb|3KUJ|A Chain A, Crystal Structure Of C-Terminal Domain Of Pabpc1 In
Complex With Binding Region Of Erf3a
pdb|3PKN|A Chain A, Crystal Structure Of Mlle Domain Of Poly(A) Binding
Protein In Complex With Pam2 Motif Of La-Related Protein
4 (Larp4)
Length = 88
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 44/78 (56%)
Query: 539 MLAAPSPEQQKQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXXXXXXXXXXAVKVE 598
MLA+ P++QKQ+LGERL+PL++ P L KITGM KV+
Sbjct: 11 MLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVD 70
Query: 599 EAVQVLKLSEAKVSTQEA 616
EAV VL+ +AK + Q+A
Sbjct: 71 EAVAVLQAHQAKEAAQKA 88
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 51/83 (61%), Gaps = 5/83 (6%)
Query: 91 DPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFET 149
+PD + NL V + ++D V+L+++F+ +G I S K+ E +S+G+GFV+F++
Sbjct: 38 EPDVLR----NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQS 93
Query: 150 EESANAAIENLNGTTVGDKRIYV 172
SA AI LNG + +KR+ V
Sbjct: 94 GSSAQQAIAGLNGFNILNKRLKV 116
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 45/85 (52%), Gaps = 1/85 (1%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEA 250
NL + + + V E L + F ++G I S+ I D E SRG+GFV F + A++A+
Sbjct: 44 NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAG 103
Query: 251 MNGSVIGSKVLYAARAQKKAEREQI 275
+NG I +K L A A +R I
Sbjct: 104 LNGFNILNKRLKVALAASGHQRPGI 128
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 43/82 (52%), Gaps = 1/82 (1%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNT 353
N+ V I V + +L+ F + G I S K++ D E ++G+GFV F S A +A+
Sbjct: 44 NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAG 103
Query: 354 FHGYMLHRKPLYVAIAQRKEDR 375
+G+ + K L VA+A R
Sbjct: 104 LNGFNILNKRLKVALAASGHQR 125
>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 = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 51/78 (65%), Gaps = 1/78 (1%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVN 352
+N+ V + ++T +EL++ FS G + SAK++RD+ G + G+GFV + + ++A +A+N
Sbjct: 5 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 64
Query: 353 TFHGYMLHRKPLYVAIAQ 370
T +G L K + V+ A+
Sbjct: 65 TLNGLRLQSKTIKVSYAR 82
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 13 SLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEV 72
+L V L ++T EL FS + S ++ +D G S YG+VN+++ DA RAI
Sbjct: 6 NLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINT 65
Query: 73 KNHTQLHGKMLRISWS 88
N +L K +++S++
Sbjct: 66 LNGLRLQSKTIKVSYA 81
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALE 249
TNL + L ++T++ L FS G++ S + RD+ G S G+GFVN+ DA RA+
Sbjct: 5 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 64
Query: 250 AMNGSVIGSKVLYAARAQ 267
+NG + SK + + A+
Sbjct: 65 TLNGLRLQSKTIKVSYAR 82
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 98 GVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAA 156
G NL V L +++ L+ +F + G + S K+ + G S G+GFV + T + A A
Sbjct: 3 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 62
Query: 157 IENLNGTTVGDKRIYV 172
I LNG + K I V
Sbjct: 63 INTLNGLRLQSKTIKV 78
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 56.2 bits (134), Expect = 6e-08, Method: Composition-based stats.
Identities = 29/78 (37%), Positives = 48/78 (61%), Gaps = 1/78 (1%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVN 352
+N+ V + ++T +E K+ F G I S K++RD+ G + G+GFV +S P +A KA+N
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 353 TFHGYMLHRKPLYVAIAQ 370
T +G L K + V+ A+
Sbjct: 65 TLNGLKLQTKTIKVSYAR 82
Score = 52.4 bits (124), Expect = 7e-07, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALE 249
TNL + L ++T++ F G I S + RD+ G S G+GFVN+ +P+DA +A+
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 250 AMNGSVIGSKVLYAARAQ 267
+NG + +K + + A+
Sbjct: 65 TLNGLKLQTKTIKVSYAR 82
Score = 48.5 bits (114), Expect = 1e-05, Method: Composition-based stats.
Identities = 24/79 (30%), Positives = 43/79 (54%)
Query: 10 TPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRA 69
+ +L V L ++T E F + S ++ +D TG+S YG+VN+ P+DA +A
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
Query: 70 IEVKNHTQLHGKMLRISWS 88
I N +L K +++S++
Sbjct: 63 INTLNGLKLQTKTIKVSYA 81
Score = 43.5 bits (101), Expect = 4e-04, Method: Composition-based stats.
Identities = 25/73 (34%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIEN 159
NL V L +++ + +F + G+I SCK+ + G+S G+GFV + A+ AI
Sbjct: 6 NLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINT 65
Query: 160 LNGTTVGDKRIYV 172
LNG + K I V
Sbjct: 66 LNGLKLQTKTIKV 78
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 55.8 bits (133), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 43/75 (57%)
Query: 11 PASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAI 70
P LYVG LH ++T+ L F F + S+++ DS TGRS YG++ F A +A+
Sbjct: 26 PMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKAL 85
Query: 71 EVKNHTQLHGKMLRI 85
E N +L G+ +++
Sbjct: 86 EQLNGFELAGRPMKV 100
Score = 52.0 bits (123), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 46/80 (57%), Gaps = 1/80 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTF 354
+YV ++ ++T++ L+ F G I S ++M D E G +KG+GF+ FS E A KA+
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 355 HGYMLHRKPLYVAIAQRKED 374
+G+ L +P+ V + D
Sbjct: 89 NGFELAGRPMKVGHVTERTD 108
Score = 52.0 bits (123), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 49/85 (57%), Gaps = 1/85 (1%)
Query: 97 SGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVAT-SEDGKSKGHGFVQFETEESANA 155
+G L+V +L +I L+ +F+ FG I S ++ SE G+SKG+GF+ F E A
Sbjct: 24 AGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKK 83
Query: 156 AIENLNGTTVGDKRIYVGRFIKKSD 180
A+E LNG + + + VG +++D
Sbjct: 84 ALEQLNGFELAGRPMKVGHVTERTD 108
Score = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 44/72 (61%), Gaps = 1/72 (1%)
Query: 183 LPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNP 241
L +A L++ +L ++TE+ L F FG+I S+ + D E G S+G+GF+ F +
Sbjct: 19 LQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDS 78
Query: 242 DDARRALEAMNG 253
+ A++ALE +NG
Sbjct: 79 ECAKKALEQLNG 90
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 48/80 (60%), Gaps = 2/80 (2%)
Query: 187 AAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIA--SLLIARDENGTSRGFGFVNFDNPDDA 244
+ K T + + L +VT++H++E FS +GKI + + R S+G+ +V F+NPD+A
Sbjct: 1 SMKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEA 60
Query: 245 RRALEAMNGSVIGSKVLYAA 264
+AL+ M+G I + + A
Sbjct: 61 EKALKHMDGGQIDGQEITAT 80
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 34/67 (50%), Gaps = 2/67 (2%)
Query: 292 KGSNVYVKNIDDDVTDEELKAHFSQCGTI--TSAKVMRDEKGINKGFGFVCFSSPEEASK 349
K + V++ + +VT + + FS G I V R ++KG+ +V F +P+EA K
Sbjct: 3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEK 62
Query: 350 AVNTFHG 356
A+ G
Sbjct: 63 ALKHMDG 69
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNI--ISCKVATSEDGKSKGHGFVQFETEESANAAI 157
+ + L ++ + E+F +G I I V SKG+ +V+FE + A A+
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKAL 64
Query: 158 ENLNGTTVGDKRI 170
++++G + + I
Sbjct: 65 KHMDGGQIDGQEI 77
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 41/70 (58%), Gaps = 4/70 (5%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGT----SRGFGFVNFDNPDDARR 246
+ LF+KNL+ TEE L FSK G I S I++ +N S GFGFV + P+ A++
Sbjct: 6 SGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQK 65
Query: 247 ALEAMNGSVI 256
AL+ + G +
Sbjct: 66 ALKQLQGHTV 75
Score = 53.5 bits (127), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 48/82 (58%), Gaps = 4/82 (4%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKV--MRDEKGI--NKGFGFVCFSSPEEASK 349
S +++KN++ T+E LK FS+ G I S + +++ G+ + GFGFV + PE+A K
Sbjct: 6 SGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQK 65
Query: 350 AVNTFHGYMLHRKPLYVAIAQR 371
A+ G+ + L V I++R
Sbjct: 66 ALKQLQGHTVDGHKLEVRISER 87
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 42/80 (52%), Gaps = 4/80 (5%)
Query: 97 SGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK----SKGHGFVQFETEES 152
SG + LF+KNL S L+ +F G I SC ++ ++ S G GFV+++ E
Sbjct: 3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQ 62
Query: 153 ANAAIENLNGTTVGDKRIYV 172
A A++ L G TV ++ V
Sbjct: 63 AQKALKQLQGHTVDGHKLEV 82
>pdb|4IVE|A Chain A, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
pdb|4IVE|B Chain B, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
pdb|4IVE|C Chain C, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
pdb|4IVE|D Chain D, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
Length = 98
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 32/79 (40%), Positives = 45/79 (56%)
Query: 540 LAAPSPEQQKQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXXXXXXXXXXAVKVEE 599
LA+ P++QKQ LGERL+PL++ P L KITG KV+E
Sbjct: 12 LASAPPQKQKQXLGERLFPLIQAXHPTLAGKITGXLLEIDNSELLYXLESPESLRSKVDE 71
Query: 600 AVQVLKLSEAKVSTQEAIH 618
AV VL+ +AK +TQ+A++
Sbjct: 72 AVAVLQAHQAKEATQKAVN 90
>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 = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 45/74 (60%), Gaps = 1/74 (1%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAIE 158
ANLF+ +L + + L +MF FGN++S KV + SK GFV ++ SA AAI+
Sbjct: 26 ANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQ 85
Query: 159 NLNGTTVGDKRIYV 172
++NG +G KR+ V
Sbjct: 86 SMNGFQIGMKRLKV 99
Score = 52.0 bits (123), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 44/72 (61%), Gaps = 1/72 (1%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALE 249
NLF+ +L + ++ L++ F FG + S + D + S+ FGFV++DNP A+ A++
Sbjct: 26 ANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQ 85
Query: 250 AMNGSVIGSKVL 261
+MNG IG K L
Sbjct: 86 SMNGFQIGMKRL 97
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 51/87 (58%), Gaps = 1/87 (1%)
Query: 292 KGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEK-GINKGFGFVCFSSPEEASKA 350
+G+N+++ ++ + D++L F G + SAKV D++ ++K FGFV + +P A A
Sbjct: 24 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAA 83
Query: 351 VNTFHGYMLHRKPLYVAIAQRKEDRQA 377
+ + +G+ + K L V + + K D ++
Sbjct: 84 IQSMNGFQIGMKRLKVQLKRSKNDSKS 110
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 45/87 (51%), Gaps = 1/87 (1%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
A+L++ L + D +L F F ++ S +V D T S C+G+V++ +P A AI+
Sbjct: 26 ANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQ 85
Query: 72 VKNHTQLHGKMLRISWSCRDPDARKSG 98
N Q+ K L++ R + KSG
Sbjct: 86 SMNGFQIGMKRLKVQLK-RSKNDSKSG 111
>pdb|3PTH|A Chain A, The Pabc1 Mlle Domain Bound To The Variant Pam2 Motif Of
Larp4b
Length = 82
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/72 (41%), Positives = 40/72 (55%)
Query: 539 MLAAPSPEQQKQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXXXXXXXXXXAVKVE 598
MLA+ P++QKQ+LGERL+PL++ P L KITGM KV+
Sbjct: 10 MLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVD 69
Query: 599 EAVQVLKLSEAK 610
EAV VL+ +AK
Sbjct: 70 EAVAVLQAHQAK 81
>pdb|2RQG|B Chain B, Structure Of Gspt1ERF3A-Pabc
pdb|2RQH|B Chain B, Structure Of Gspt1ERF3A-Pabc
Length = 83
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/72 (41%), Positives = 40/72 (55%)
Query: 539 MLAAPSPEQQKQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXXXXXXXXXXAVKVE 598
MLA+ P++QKQ+LGERL+PL++ P L KITGM KV+
Sbjct: 9 MLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVD 68
Query: 599 EAVQVLKLSEAK 610
EAV VL+ +AK
Sbjct: 69 EAVAVLQAHQAK 80
>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 = 3e-07, Method: Composition-based stats.
Identities = 28/78 (35%), Positives = 45/78 (57%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAI 67
++ + LYVG LH ++T+ L F F + ++ + KDS TGRS YG++ F A
Sbjct: 2 SSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECAR 61
Query: 68 RAIEVKNHTQLHGKMLRI 85
RA+E N +L G+ +R+
Sbjct: 62 RALEQLNGFELAGRPMRV 79
Score = 53.5 bits (127), Expect = 4e-07, Method: Composition-based stats.
Identities = 25/64 (39%), Positives = 44/64 (68%), Gaps = 1/64 (1%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALE 249
+ L++ +L ++TE+ L F FGKI ++++ +D + G S+G+GF+ F + + ARRALE
Sbjct: 6 SGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65
Query: 250 AMNG 253
+NG
Sbjct: 66 QLNG 69
Score = 49.3 bits (116), Expect = 7e-06, Method: Composition-based stats.
Identities = 29/85 (34%), Positives = 47/85 (55%), Gaps = 1/85 (1%)
Query: 97 SGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSED-GKSKGHGFVQFETEESANA 155
SG + L+V +L +I L+ +F+ FG I + + D G+SKG+GF+ F E A
Sbjct: 3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARR 62
Query: 156 AIENLNGTTVGDKRIYVGRFIKKSD 180
A+E LNG + + + VG ++ D
Sbjct: 63 ALEQLNGFELAGRPMRVGHVTERLD 87
Score = 47.0 bits (110), Expect = 3e-05, Method: Composition-based stats.
Identities = 25/82 (30%), Positives = 47/82 (57%), Gaps = 1/82 (1%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVN 352
S +YV ++ ++T++ L+ F G I + +M+D + G +KG+GF+ FS E A +A+
Sbjct: 6 SGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65
Query: 353 TFHGYMLHRKPLYVAIAQRKED 374
+G+ L +P+ V + D
Sbjct: 66 QLNGFELAGRPMRVGHVTERLD 87
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 53.5 bits (127), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 46/75 (61%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
A++YVG L V++ L++ F + + + + KD TG+ YG+V FLS DA AI+
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75
Query: 72 VKNHTQLHGKMLRIS 86
+ + +L+GK +R++
Sbjct: 76 IMDMIKLYGKPIRVN 90
Score = 42.4 bits (98), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVN 352
+ VYV +D+ V++ L F Q G + + + +D G ++G+GFV F S E+A A+
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75
Query: 353 TFHGYMLHRKPLYV 366
L+ KP+ V
Sbjct: 76 IMDMIKLYGKPIRV 89
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 45/84 (53%), Gaps = 1/84 (1%)
Query: 92 PDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETE 150
P + ++ A ++V L E + L E+F G +++ + G+ +G+GFV+F +E
Sbjct: 8 PISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSE 67
Query: 151 ESANAAIENLNGTTVGDKRIYVGR 174
E A+ AI+ ++ + K I V +
Sbjct: 68 EDADYAIKIMDMIKLYGKPIRVNK 91
Score = 36.2 bits (82), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAM 251
+++ LD V+E L E F + G + + + +D G +G+GFV F + +DA A++ M
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 252 N 252
+
Sbjct: 78 D 78
>pdb|2X04|A Chain A, Crystal Structure Of The Pabc-Tnrc6c Complex
pdb|2X04|B Chain B, Crystal Structure Of The Pabc-Tnrc6c Complex
Length = 80
Score = 53.1 bits (126), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 39/71 (54%)
Query: 539 MLAAPSPEQQKQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXXXXXXXXXXAVKVE 598
MLA+ P++QKQ+LGERL+PL++ P L KITGM KV+
Sbjct: 10 MLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVD 69
Query: 599 EAVQVLKLSEA 609
EAV VL+ +A
Sbjct: 70 EAVAVLQAHQA 80
>pdb|3KUR|A Chain A, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|B Chain B, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|C Chain C, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|D Chain D, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|E Chain E, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|F Chain F, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|G Chain G, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|H Chain H, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
Length = 79
Score = 52.4 bits (124), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 28/67 (41%), Positives = 37/67 (55%)
Query: 539 MLAAPSPEQQKQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXXXXXXXXXXAVKVE 598
MLA+ P++QKQ+LGERL+PL++ P L KITGM KV+
Sbjct: 11 MLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVD 70
Query: 599 EAVQVLK 605
EAV VL+
Sbjct: 71 EAVAVLQ 77
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 52.4 bits (124), Expect = 8e-07, Method: Composition-based stats.
Identities = 30/84 (35%), Positives = 51/84 (60%), Gaps = 2/84 (2%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKI-ASLLIARD-ENGTSRGFGFVNFDNPDDARRAL 248
+ +F+ NLD ++ E+ L + FS FG I + I RD + G S+G+ F+NF + D + A+
Sbjct: 6 SGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAI 65
Query: 249 EAMNGSVIGSKVLYAARAQKKAER 272
EAMNG + ++ + + A KK +
Sbjct: 66 EAMNGQYLCNRPITVSYAFKKDSK 89
Score = 49.3 bits (116), Expect = 6e-06, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 48/87 (55%), Gaps = 2/87 (2%)
Query: 97 SGVANLFVKNLIESIDNVRLQEMFQNFGNIISC-KVATSED-GKSKGHGFVQFETEESAN 154
SG + +F+ NL ID L + F FG I+ K+ D G SKG+ F+ F + ++++
Sbjct: 3 SGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASD 62
Query: 155 AAIENLNGTTVGDKRIYVGRFIKKSDR 181
AAIE +NG + ++ I V KK +
Sbjct: 63 AAIEAMNGQYLCNRPITVSYAFKKDSK 89
Score = 46.6 bits (109), Expect = 4e-05, Method: Composition-based stats.
Identities = 25/84 (29%), Positives = 50/84 (59%), Gaps = 2/84 (2%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTI-TSAKVMRD-EKGINKGFGFVCFSSPEEASKAV 351
S +++ N+D ++ ++ L FS G I + K+MRD + G +KG+ F+ F+S + + A+
Sbjct: 6 SGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAI 65
Query: 352 NTFHGYMLHRKPLYVAIAQRKEDR 375
+G L +P+ V+ A +K+ +
Sbjct: 66 EAMNGQYLCNRPITVSYAFKKDSK 89
Score = 46.2 bits (108), Expect = 5e-05, Method: Composition-based stats.
Identities = 26/92 (28%), Positives = 52/92 (56%), Gaps = 2/92 (2%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKS-LASVRVCKDSTTGRSTCYGYVNFLSPHDA 66
++ + +++G+L P++ + L+D FS F L + ++ +D TG S Y ++NF S +
Sbjct: 2 SSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDAS 61
Query: 67 IRAIEVKNHTQLHGKMLRISWSCRDPDARKSG 98
AIE N L + + +S++ + D++ SG
Sbjct: 62 DAAIEAMNGQYLCNRPITVSYAFKK-DSKGSG 92
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 35/62 (56%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENL 160
NL++ NL S+D L+ M + FG +IS ++ G S+G GF + E+ E A I +
Sbjct: 27 NLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHF 86
Query: 161 NG 162
NG
Sbjct: 87 NG 88
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 34/66 (51%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEA 250
TNL++ NL + E+ L FG++ S I RD +GTSRG GF ++ + +
Sbjct: 26 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGH 85
Query: 251 MNGSVI 256
NG I
Sbjct: 86 FNGKFI 91
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 36/70 (51%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
+N+Y+ N+ + ++EL+ G + S +++RD G ++G GF S E+ +
Sbjct: 26 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGH 85
Query: 354 FHGYMLHRKP 363
F+G + P
Sbjct: 86 FNGKFIKTPP 95
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 50.8 bits (120), Expect = 2e-06, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEK-GINKGFGFVCFSSPEEASKAVN 352
+N+ V + D+TD EL A F G I + ++MRD K G + G+ FV F+S ++ +A+
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 353 TFHGYMLHRKPLYVAIAQ 370
+G + K L V+ A+
Sbjct: 64 VLNGITVRNKRLKVSYAR 81
Score = 50.1 bits (118), Expect = 3e-06, Method: Composition-based stats.
Identities = 27/76 (35%), Positives = 43/76 (56%)
Query: 13 SLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEV 72
+L V L D+TD EL+ F + + R+ +D TG S Y +V+F S D+ RAI+V
Sbjct: 5 NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKV 64
Query: 73 KNHTQLHGKMLRISWS 88
N + K L++S++
Sbjct: 65 LNGITVRNKRLKVSYA 80
Score = 49.7 bits (117), Expect = 5e-06, Method: Composition-based stats.
Identities = 29/85 (34%), Positives = 46/85 (54%), Gaps = 1/85 (1%)
Query: 188 AKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARR 246
A TNL + L D+T+ L F G I + I RD + G S G+ FV+F + D++R
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 247 ALEAMNGSVIGSKVLYAARAQKKAE 271
A++ +NG + +K L + A+ E
Sbjct: 61 AIKVLNGITVRNKRLKVSYARPGGE 85
Score = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 26/73 (35%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIEN 159
NL V L + + + L +F+ G I +C++ + G S G+ FV F +E + AI+
Sbjct: 5 NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKV 64
Query: 160 LNGTTVGDKRIYV 172
LNG TV +KR+ V
Sbjct: 65 LNGITVRNKRLKV 77
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 33/97 (34%), Positives = 55/97 (56%), Gaps = 15/97 (15%)
Query: 185 SPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDA 244
S AK LF++NL + VTEE L + FS+FGK+ + +D + F++FD D A
Sbjct: 6 SGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD-------YAFIHFDERDGA 58
Query: 245 RRALEAMNGSVIGS---KVLYA-----ARAQKKAERE 273
+A+E MNG + ++++A R ++KA+R+
Sbjct: 59 VKAMEEMNGKDLEGENIEIVFAKPPDQKRKERKAQRQ 95
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 47/89 (52%), Gaps = 11/89 (12%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
++V+N+ + VT+E L+ FSQ G + K ++D + F+ F + A KA+ +
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKD-------YAFIHFDERDGAVKAMEEMN 66
Query: 356 GYMLHRKPLYVAIA----QRKEDRQAHLQ 380
G L + + + A Q++++R+A Q
Sbjct: 67 GKDLEGENIEIVFAKPPDQKRKERKAQRQ 95
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 9/83 (10%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L+V +L VT+ L AFS+F L V+ KD Y +++F A++A+E
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEEM 65
Query: 74 NHTQLHGKMLRISWSCRDPDARK 96
N L G+ + I + + PD ++
Sbjct: 66 NGKDLEGENIEIVF-AKPPDQKR 87
Score = 36.2 bits (82), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 10/79 (12%)
Query: 97 SGVAN---LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESA 153
SG+A LFV+NL ++ L++ F FG + K K K + F+ F+ + A
Sbjct: 6 SGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVK-------KLKDYAFIHFDERDGA 58
Query: 154 NAAIENLNGTTVGDKRIYV 172
A+E +NG + + I +
Sbjct: 59 VKAMEEMNGKDLEGENIEI 77
>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 = 49.7 bits (117), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 184 PSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPD 242
P T+L + NL + + L F K+G++ + I RD SRGF FV F +
Sbjct: 41 PPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKR 100
Query: 243 DARRALEAMNGSVIGSKVL 261
DA A++AM+G+V+ + L
Sbjct: 101 DAEDAMDAMDGAVLDGREL 119
Score = 36.2 bits (82), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 47/103 (45%), Gaps = 3/103 (2%)
Query: 81 KMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK-S 139
+M R S S P G+ +L V NL L+ +F+ +G + + K S
Sbjct: 29 QMGRGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKES 88
Query: 140 KGHGFVQFETEESANAAIENLNGTTVGDK--RIYVGRFIKKSD 180
+G FV+F + A A++ ++G + + R+ + R+ + D
Sbjct: 89 RGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRPPD 131
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 49.7 bits (117), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 73/173 (42%), Gaps = 18/173 (10%)
Query: 10 TPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRA 69
T A L V +L P +T + + F SL + TG+S YG+ ++ A RA
Sbjct: 94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
Query: 70 IEVKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIIS- 128
L + L + W+ DA + A L + L +D RL F + +
Sbjct: 154 KSDLLGKPLGPRTLYVHWT----DAGQLTPALLHSRCLC--VD--RLPPGFNDVDALCRA 205
Query: 129 ---------CKVATSEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYV 172
C++A +DG+ KG +++ET E A A + +G ++G + V
Sbjct: 206 LSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRV 258
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 38/162 (23%), Positives = 70/162 (43%), Gaps = 19/162 (11%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
+ ++ L + N + ++ ++ + C V K KG FV E A AAI +
Sbjct: 25 ILIRGLPGDVTNQEVHDLLSDY-ELKYCFV-----DKYKGTAFVTLLNGEQAEAAINAFH 78
Query: 162 GTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIA-SL 220
+ + ++ + V ++ P+ A L + NL +T++ E FG +
Sbjct: 79 QSRLRERELSV--------QLQPTDAL----LCVANLPPSLTQQQFEELVRPFGSLERCF 126
Query: 221 LIARDENGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKVLY 262
L+ + G S+G+GF + D A RA + G +G + LY
Sbjct: 127 LVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLY 168
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 37/90 (41%), Gaps = 16/90 (17%)
Query: 279 QFEEKRKERILKYKGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGF 338
QF +RK I G +V + + D ++D ELK F KG F
Sbjct: 18 QFRNRRKILIRGLPG-DVTNQEVHDLLSDYELKYCFVD---------------KYKGTAF 61
Query: 339 VCFSSPEEASKAVNTFHGYMLHRKPLYVAI 368
V + E+A A+N FH L + L V +
Sbjct: 62 VTLLNGEQAEAAINAFHQSRLRERELSVQL 91
>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 = 49.7 bits (117), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 73/173 (42%), Gaps = 18/173 (10%)
Query: 10 TPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRA 69
T A L V +L P +T + + F SL + TG+S YG+ ++ A RA
Sbjct: 92 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
Query: 70 IEVKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIIS- 128
L + L + W+ DA + A L + L +D RL F + +
Sbjct: 152 KSDLLGKPLGPRTLYVHWT----DAGQLTPALLHSRCLC--VD--RLPPGFNDVDALCRA 203
Query: 129 ---------CKVATSEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYV 172
C++A +DG+ KG +++ET E A A + +G ++G + V
Sbjct: 204 LSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRV 256
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 38/162 (23%), Positives = 70/162 (43%), Gaps = 19/162 (11%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
+ ++ L + N + ++ ++ + C V K KG FV E A AAI +
Sbjct: 23 ILIRGLPGDVTNQEVHDLLSDY-ELKYCFV-----DKYKGTAFVTLLNGEQAEAAINAFH 76
Query: 162 GTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIA-SL 220
+ + ++ + V ++ P+ A L + NL +T++ E FG +
Sbjct: 77 QSRLRERELSV--------QLQPTDAL----LCVANLPPSLTQQQFEELVRPFGSLERCF 124
Query: 221 LIARDENGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKVLY 262
L+ + G S+G+GF + D A RA + G +G + LY
Sbjct: 125 LVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLY 166
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 37/90 (41%), Gaps = 16/90 (17%)
Query: 279 QFEEKRKERILKYKGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGF 338
QF +RK I G +V + + D ++D ELK F KG F
Sbjct: 16 QFRNRRKILIRGLPG-DVTNQEVHDLLSDYELKYCFVD---------------KYKGTAF 59
Query: 339 VCFSSPEEASKAVNTFHGYMLHRKPLYVAI 368
V + E+A A+N FH L + L V +
Sbjct: 60 VTLLNGEQAEAAINAFHQSRLRERELSVQL 89
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 49.7 bits (117), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 45/164 (27%), Positives = 72/164 (43%), Gaps = 5/164 (3%)
Query: 92 PDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDG---KSKGHGFVQFE 148
PD +FV + + L+E+F+ +G + V +SKG FV F
Sbjct: 8 PDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFY 67
Query: 149 TEESANAAIENLNGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLV 208
T ++A A L+ V + + +K +D + A + LF+ + TE +
Sbjct: 68 TRKAALEAQNALHNMKVLPGMHHPIQ-MKPADSE-KNNAVEDRKLFIGMISKKCTENDIR 125
Query: 209 EKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
FS FG+I I R +G SRG FV F A+ A++AM+
Sbjct: 126 VMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMH 169
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 49.7 bits (117), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 73/173 (42%), Gaps = 18/173 (10%)
Query: 10 TPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRA 69
T A L V +L P +T + + F SL + TG+S YG+ ++ A RA
Sbjct: 94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
Query: 70 IEVKNHTQLHGKMLRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIIS- 128
L + L + W+ DA + A L + L +D RL F + +
Sbjct: 154 KSDLLGKPLGPRTLYVHWT----DAGQLTPALLHSRCLC--VD--RLPPGFNDVDALCRA 205
Query: 129 ---------CKVATSEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYV 172
C++A +DG+ KG +++ET E A A + +G ++G + V
Sbjct: 206 LSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRV 258
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 38/162 (23%), Positives = 70/162 (43%), Gaps = 19/162 (11%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
+ ++ L + N + ++ ++ + C V K KG FV E A AAI +
Sbjct: 25 ILIRGLPGDVTNQEVHDLLSDY-ELKYCFV-----DKYKGTAFVTLLNGEQAEAAINAFH 78
Query: 162 GTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIA-SL 220
+ + ++ + V ++ P+ A L + NL +T++ E FG +
Sbjct: 79 QSRLRERELSV--------QLQPTDAL----LCVANLPPSLTQQQFEELVRPFGSLERCF 126
Query: 221 LIARDENGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKVLY 262
L+ + G S+G+GF + D A RA + G +G + LY
Sbjct: 127 LVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLY 168
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 37/90 (41%), Gaps = 16/90 (17%)
Query: 279 QFEEKRKERILKYKGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGF 338
QF +RK I G +V + + D ++D ELK F KG F
Sbjct: 18 QFRNRRKILIRGLPG-DVTNQEVHDLLSDYELKYCFVD---------------KYKGTAF 61
Query: 339 VCFSSPEEASKAVNTFHGYMLHRKPLYVAI 368
V + E+A A+N FH L + L V +
Sbjct: 62 VTLLNGEQAEAAINAFHQSRLRERELSVQL 91
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 48.9 bits (115), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 42/73 (57%), Gaps = 3/73 (4%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
+ V+V ID + + E+++ F++ G++ K++ D G++KG+GFV F + + K V +
Sbjct: 11 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVES 70
Query: 354 ---FHGYMLHRKP 363
FHG L P
Sbjct: 71 QINFHGKKLKLGP 83
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 40/72 (55%), Gaps = 6/72 (8%)
Query: 179 SDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNF 238
S +++P+ +F+ +D + E + F+++G + + I D G S+G+GFV+F
Sbjct: 5 SGKIMPN------TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSF 58
Query: 239 DNPDDARRALEA 250
N D ++ +E+
Sbjct: 59 YNDVDVQKIVES 70
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 43/80 (53%), Gaps = 3/80 (3%)
Query: 11 PASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAI 70
P +++VG + + + E+ F+ + S+ V++ D T G S YG+V+F + D + +
Sbjct: 10 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRT-GVSKGYGFVSFYNDVDVQKIV 68
Query: 71 EVKNHTQLHGKMLRISWSCR 90
E + HGK L++ + R
Sbjct: 69 E--SQINFHGKKLKLGPAIR 86
Score = 37.0 bits (84), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 29/58 (50%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
+FV + +D ++ F +G++ K+ T G SKG+GFV F + +E+
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVES 70
>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 = 48.9 bits (115), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 50/91 (54%), Gaps = 9/91 (9%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
+ V+V ID + + E+++ F++ G++ K++ D G++KG+GFV F + + K V +
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVES 69
Query: 354 ---FHGYMLHRKPLYVAIAQRKEDRQA-HLQ 380
FHG L P A RK++ H+Q
Sbjct: 70 QINFHGKKLKLGP-----AIRKQNLSTYHVQ 95
Score = 42.7 bits (99), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 45/87 (51%), Gaps = 3/87 (3%)
Query: 4 VPPTATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSP 63
+P P +++VG + + + E+ F+ + S+ V++ D T G S YG+V+F +
Sbjct: 2 LPEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRT-GVSKGYGFVSFYND 60
Query: 64 HDAIRAIEVKNHTQLHGKMLRISWSCR 90
D + +E + HGK L++ + R
Sbjct: 61 VDVQKIVE--SQINFHGKKLKLGPAIR 85
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 36/68 (52%)
Query: 183 LPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPD 242
LP +F+ +D + E + F+++G + + I D G S+G+GFV+F N
Sbjct: 2 LPEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDV 61
Query: 243 DARRALEA 250
D ++ +E+
Sbjct: 62 DVQKIVES 69
Score = 37.4 bits (85), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 40/82 (48%), Gaps = 8/82 (9%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIE--- 158
+FV + +D ++ F +G++ K+ T G SKG+GFV F + +E
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVESQI 71
Query: 159 NLNGTTVGDKRIYVGRFIKKSD 180
N +G K++ +G I+K +
Sbjct: 72 NFHG-----KKLKLGPAIRKQN 88
>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 = 48.9 bits (115), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 42/73 (57%), Gaps = 3/73 (4%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
+ V+V ID + + E+++ F++ G++ K++ D G++KG+GFV F + + K V +
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVES 69
Query: 354 ---FHGYMLHRKP 363
FHG L P
Sbjct: 70 QINFHGKKLKLGP 82
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 45/87 (51%), Gaps = 3/87 (3%)
Query: 4 VPPTATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSP 63
+P P +++VG + + + E+ F+ + S+ V++ D T G S YG+V+F +
Sbjct: 2 LPEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRT-GVSKGYGFVSFYND 60
Query: 64 HDAIRAIEVKNHTQLHGKMLRISWSCR 90
D + +E + HGK L++ + R
Sbjct: 61 VDVQKIVE--SQINFHGKKLKLGPAIR 85
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 36/68 (52%)
Query: 183 LPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPD 242
LP +F+ +D + E + F+++G + + I D G S+G+GFV+F N
Sbjct: 2 LPEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDV 61
Query: 243 DARRALEA 250
D ++ +E+
Sbjct: 62 DVQKIVES 69
Score = 37.0 bits (84), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
+FV + +D ++ F +G++ K+ T G SKG+GFV F + +E+
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVES 69
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 45/163 (27%), Positives = 73/163 (44%), Gaps = 13/163 (7%)
Query: 97 SGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDG---KSKGHGFVQFETEESA 153
S +FV + + L+E+F+ +G + V +SKG FV F T +
Sbjct: 1 SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK-- 58
Query: 154 NAAIENLNGTTVGDKRIYVGRF----IKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVE 209
AA+E N + + ++ G +K +D + A + LF+ + TE +
Sbjct: 59 -AALEAQNA--LHNMKVLPGMHHPIQMKPADSE-KNNAVEDRKLFIGMISKKCTENDIRV 114
Query: 210 KFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
FS FG+I I R +G SRG FV F A+ A++AM+
Sbjct: 115 MFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMH 157
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALE 249
T+L + NL + + L F K+G++ + I RD SRGF FV F + DA A++
Sbjct: 71 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMD 130
Query: 250 AMNGSVIGSKVL 261
AM+G+V+ + L
Sbjct: 131 AMDGAVLDGREL 142
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 98 GVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAA 156
G+ +L V NL L+ +F+ +G + + K S+G FV+F + A A
Sbjct: 69 GMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDA 128
Query: 157 IENLNGTTVGDKRIYV 172
++ ++G + + + V
Sbjct: 129 MDAMDGAVLDGRELRV 144
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 60/285 (21%), Positives = 116/285 (40%), Gaps = 35/285 (12%)
Query: 94 ARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGF--VQFETEE 151
R + + VKNL +S + ++ + F++ G II VA D K F ++F +
Sbjct: 36 TRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVA---DSLKKNFRFARIEFARYD 92
Query: 152 SANAAIENLNGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKF 211
A AAI + VG I V + L+ N T+ ++ +
Sbjct: 93 GALAAITKTH-KVVGQNEIIVSHLTE-------------CTLWXTNFPPSYTQRNIRDLL 138
Query: 212 SKFGKIA-SLLIARDENGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKVLYAARAQKKA 270
+A S+ + TSR F +++ + +DAR +E +NG I L
Sbjct: 139 QDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTK------ 192
Query: 271 EREQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEE-LKAHFSQCGTITSAKV--MR 327
+ + E+ ++ +G + ++N+ ++ DE L+ F G+I + +
Sbjct: 193 -----VSNPLEKSKRTDSATLEGREIXIRNLSTELLDENLLRESFEGFGSIEKINIPAGQ 247
Query: 328 DEKGINKGFGFVCFSSPEEASKAVNTFHGYMLHRKPLYVAIAQRK 372
E N F F + + A +A+ + +L + + V++A +K
Sbjct: 248 KEHSFNNCCAFXVFENKDSAERALQX-NRSLLGNREISVSLADKK 291
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 202 VTEEHLVEKFSKFGKIASLLIARDENGT-SRGFGFVNFDNPDDARRALEAMNG 253
TE L E FSK+G IA + I D+ SRGF FV F+N DDA+ A E NG
Sbjct: 24 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 76
Score = 35.8 bits (81), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 1/64 (1%)
Query: 116 LQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGR 174
L+E+F +G I + + + S+G FV FE + A A E NG + +RI V
Sbjct: 29 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF 88
Query: 175 FIKK 178
I K
Sbjct: 89 SITK 92
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 202 VTEEHLVEKFSKFGKIASLLIARDENGT-SRGFGFVNFDNPDDARRALEAMNG 253
TE L E FSK+G IA + I D+ SRGF FV F+N DDA+ A E NG
Sbjct: 27 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Score = 34.7 bits (78), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 1/64 (1%)
Query: 116 LQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGR 174
L+E+F +G I + + + S+G FV FE + A A E NG + +RI V
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF 91
Query: 175 FIKK 178
I K
Sbjct: 92 SITK 95
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 202 VTEEHLVEKFSKFGKIASLLIARDENGT-SRGFGFVNFDNPDDARRALEAMNG 253
TE L E FSK+G IA + I D+ SRGF FV F+N DDA+ A E NG
Sbjct: 58 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 110
Score = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 1/64 (1%)
Query: 116 LQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGR 174
L+E+F +G I + + + S+G FV FE + A A E NG + +RI V
Sbjct: 63 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF 122
Query: 175 FIKK 178
I K
Sbjct: 123 SITK 126
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 202 VTEEHLVEKFSKFGKIASLLIARDENGT-SRGFGFVNFDNPDDARRALEAMNG 253
TE L E FSK+G IA + I D+ SRGF FV F+N DDA+ A E NG
Sbjct: 27 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 116 LQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAIENLNGTTVGDKRIYV 172
L+E+F +G I + + + S+G FV FE + A A E NG + +RI V
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV 89
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 42/81 (51%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAI 67
ATT LYVG L +V D L AF F + +++ D T + + +V F DA
Sbjct: 9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 68
Query: 68 RAIEVKNHTQLHGKMLRISWS 88
AI+ N ++L G+ +R++ +
Sbjct: 69 AAIDNMNESELFGRTIRVNLA 89
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIENL 160
L+V L E +D+ L F FG+I ++ E K +G FV+FE E A AAI+N+
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 161 NGTTVGDKRIYV 172
N + + + I V
Sbjct: 75 NESELFGRTIRV 86
Score = 36.6 bits (83), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTF 354
+YV + ++V D+ L A F G IT ++ D E ++GF FV F E+A+ A++
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 355 HGYMLHRKPLYVAIAQ 370
+ L + + V +A+
Sbjct: 75 NESELFGRTIRVNLAK 90
Score = 36.6 bits (83), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
L++ L +V ++ L F FG I + I D E RGF FV F+ +DA A++ M
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 252 NGS 254
N S
Sbjct: 75 NES 77
>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 = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 24/73 (32%), Positives = 41/73 (56%)
Query: 189 KYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
K L++ NL TEE + E FSK G I +++ D+ T+ GF FV + + DA A+
Sbjct: 17 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSRADAENAM 76
Query: 249 EAMNGSVIGSKVL 261
+NG+ + +++
Sbjct: 77 RYINGTRLDDRII 89
Score = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 20/76 (26%), Positives = 41/76 (53%), Gaps = 3/76 (3%)
Query: 13 SLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTC-YGYVNFLSPHDAIRAIE 71
+LYVG+L T+ ++++ FS+ + + + D ++ C + +V + S DA A+
Sbjct: 20 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM--KTACGFCFVEYYSRADAENAMR 77
Query: 72 VKNHTQLHGKMLRISW 87
N T+L +++R W
Sbjct: 78 YINGTRLDDRIIRTDW 93
Score = 34.7 bits (78), Expect = 0.16, Method: Composition-based stats.
Identities = 27/87 (31%), Positives = 43/87 (49%), Gaps = 3/87 (3%)
Query: 273 EQILRHQFEEKRKERILKYKGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGI 332
+Q R EE+ E++LK K +YV N+ T+E++ FS+ G I + D+
Sbjct: 1 DQHFRGDNEEQ--EKLLK-KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKT 57
Query: 333 NKGFGFVCFSSPEEASKAVNTFHGYML 359
GF FV + S +A A+ +G L
Sbjct: 58 ACGFCFVEYYSRADAENAMRYINGTRL 84
Score = 29.6 bits (65), Expect = 5.5, Method: Composition-based stats.
Identities = 18/69 (26%), Positives = 33/69 (47%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
L+V NL ++ E+F G+I + + + G FV++ + A A+ +N
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSRADAENAMRYIN 80
Query: 162 GTTVGDKRI 170
GT + D+ I
Sbjct: 81 GTRLDDRII 89
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 34/60 (56%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
LFV L + + +++MF+ FG I C V DG SKG FV+F+T A AAI L+
Sbjct: 15 LFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAAINTLH 74
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 32/60 (53%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
++V + TDE+++ F GTI V+R G +KG FV F + EA A+NT H
Sbjct: 15 LFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAAINTLH 74
Score = 38.1 bits (87), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
LF+ L T+E + + F FG I + R +GTS+G FV F +A+ A+ ++
Sbjct: 15 LFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAAINTLH 74
Query: 253 GS 254
S
Sbjct: 75 SS 76
>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 = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 47/82 (57%), Gaps = 3/82 (3%)
Query: 292 KGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKA 350
K +N+YV N+ +TD++L F + G+I ++RD+ G +G FV ++ EEA +A
Sbjct: 12 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 71
Query: 351 VNTFHGYMLH--RKPLYVAIAQ 370
++ + + +PL V +A+
Sbjct: 72 ISALNNVIPEGGSQPLSVRLAE 93
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 40/70 (57%), Gaps = 1/70 (1%)
Query: 187 AAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDAR 245
+ K TNL++ NL +T++ L F K+G I I RD+ G RG FV ++ ++A+
Sbjct: 10 SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQ 69
Query: 246 RALEAMNGSV 255
A+ A+N +
Sbjct: 70 EAISALNNVI 79
Score = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIE 158
NL+V NL +I + +L +F +G+I+ + + G+ +G FV++ E A AI
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 73
Query: 159 NLN 161
LN
Sbjct: 74 ALN 76
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
+LYV +L +TD +L F ++ S+ + +D TGR +V + +A AI
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 73
Query: 72 VKNH 75
N+
Sbjct: 74 ALNN 77
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 42/77 (54%), Gaps = 1/77 (1%)
Query: 96 KSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANA 155
KS L V N+ + L++MF FG I+ ++ +E G SKG GFV FE A+
Sbjct: 26 KSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-SKGFGFVTFENSADADR 84
Query: 156 AIENLNGTTVGDKRIYV 172
A E L+GT V ++I V
Sbjct: 85 AREKLHGTVVEGRKIEV 101
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 42/69 (60%), Gaps = 2/69 (2%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L + N+ + L + F +FGKI + I +E G S+GFGFV F+N DA RA E ++
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAREKLH 90
Query: 253 GSVI-GSKV 260
G+V+ G K+
Sbjct: 91 GTVVEGRKI 99
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
++V NI D +L+ F Q G I +++ +E+G +KGFGFV F + +A +A H
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAREKLH 90
Query: 356 GYMLHRKPLYV 366
G ++ + + V
Sbjct: 91 GTVVEGRKIEV 101
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 42/69 (60%), Gaps = 2/69 (2%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L + N+ + L + F +FGKI + I +E G S+GFGFV F+N DA RA E ++
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAREKLH 76
Query: 253 GSVI-GSKV 260
G+V+ G K+
Sbjct: 77 GTVVEGRKI 85
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
L V N+ + L++MF FG I+ ++ +E G SKG GFV FE A+ A E L+
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAREKLH 76
Query: 162 GTTVGDKRIYV 172
GT V ++I V
Sbjct: 77 GTVVEGRKIEV 87
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
++V NI D +L+ F Q G I +++ +E+G +KGFGFV F + +A +A H
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAREKLH 76
Query: 356 GYMLHRKPLYV 366
G ++ + + V
Sbjct: 77 GTVVEGRKIEV 87
>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 = 46.6 bits (109), Expect = 4e-05, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 41/79 (51%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAI 67
ATT LYVG L +V D L AF F + +++ D T + + +V F DA
Sbjct: 4 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 63
Query: 68 RAIEVKNHTQLHGKMLRIS 86
AI+ N ++L G+ +R++
Sbjct: 64 AAIDNMNESELFGRTIRVN 82
Score = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 26/72 (36%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIENL 160
L+V L E +D+ L F FG+I ++ E K +G FV+FE E A AAI+N+
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 161 NGTTVGDKRIYV 172
N + + + I V
Sbjct: 70 NESELFGRTIRV 81
Score = 37.7 bits (86), Expect = 0.019, Method: Composition-based stats.
Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
L++ L +V ++ L F FG I + I D E RGF FV F+ +DA A++ M
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 252 NGS 254
N S
Sbjct: 70 NES 72
Score = 35.8 bits (81), Expect = 0.073, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTF 354
+YV + ++V D+ L A F G IT ++ D E ++GF FV F E+A+ A++
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 355 HGYMLHRKPLYVAIAQ 370
+ L + + V +A+
Sbjct: 70 NESELFGRTIRVNLAK 85
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 46.6 bits (109), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/64 (42%), Positives = 37/64 (57%), Gaps = 4/64 (6%)
Query: 102 LFVK--NLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
LFV N +S D+VR +F+ FGNI C + DG SKG FV++ + A AAI
Sbjct: 18 LFVGMLNKQQSEDDVR--RLFEAFGNIEECTILRGPDGNSKGCAFVKYSSHAEAQAAINA 75
Query: 160 LNGT 163
L+G+
Sbjct: 76 LHGS 79
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%)
Query: 190 YTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALE 249
+ LF+ L+ +E+ + F FG I I R +G S+G FV + + +A+ A+
Sbjct: 15 HRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFVKYSSHAEAQAAIN 74
Query: 250 AMNGS 254
A++GS
Sbjct: 75 ALHGS 79
Score = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 33/61 (54%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
++V ++ ++++++ F G I ++R G +KG FV +SS EA A+N H
Sbjct: 18 LFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFVKYSSHAEAQAAINALH 77
Query: 356 G 356
G
Sbjct: 78 G 78
>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 = 5e-05, Method: Composition-based stats.
Identities = 23/60 (38%), Positives = 36/60 (60%), Gaps = 1/60 (1%)
Query: 195 MKNLDSDVTEEHLVEKFSKFGKIASLLIARDEN-GTSRGFGFVNFDNPDDARRALEAMNG 253
+ NL D E L E F FG I+ + +A+D+ G S+GF F++F +DA RA+ ++G
Sbjct: 20 VTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG 79
Score = 42.7 bits (99), Expect = 6e-04, Method: Composition-based stats.
Identities = 26/72 (36%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 92 PDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETE 150
P+ R A + V NL E LQE+F+ FG+I +A + G+SKG F+ F
Sbjct: 8 PNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRR 67
Query: 151 ESANAAIENLNG 162
E A AI ++G
Sbjct: 68 EDAARAIAGVSG 79
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 41/77 (53%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
A++ V +L D + +L + F F S++ + + KD TTG+S + +++F DA RAI
Sbjct: 16 ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIA 75
Query: 72 VKNHTQLHGKMLRISWS 88
+ +L + W+
Sbjct: 76 GVSGFGYDHLILNVEWA 92
Score = 37.0 bits (84), Expect = 0.032, Method: Composition-based stats.
Identities = 18/65 (27%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEK-GINKGFGFVCFSSPEEASKAVN 352
+ + V N+ +D + +L+ F G+I+ + +D+ G +KGF F+ F E+A++A+
Sbjct: 16 ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIA 75
Query: 353 TFHGY 357
G+
Sbjct: 76 GVSGF 80
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 41/81 (50%)
Query: 5 PPTATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPH 64
P + S++VG++ + T+ +L D FSE + S R+ D TG+ YG+ +
Sbjct: 2 PAVDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQE 61
Query: 65 DAIRAIEVKNHTQLHGKMLRI 85
A+ A+ N + G+ LR+
Sbjct: 62 TALSAMRNLNGREFSGRALRV 82
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 44/85 (51%), Gaps = 1/85 (1%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEA 250
++F+ N+ + TEE L + FS+ G + S + D E G +G+GF + + + A A+
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 251 MNGSVIGSKVLYAARAQKKAEREQI 275
+NG + L A + +E++
Sbjct: 70 LNGREFSGRALRVDNAASEKNKEEL 94
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 46/78 (58%), Gaps = 7/78 (8%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCK-VATSEDGKSKGHGFVQFETEESANAAIEN 159
++FV N+ +L+++F G ++S + V E GK KG+GF +++ +E+A +A+ N
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 160 LNGTTVGDKRIYVGRFIK 177
LNG R + GR ++
Sbjct: 70 LNG------REFSGRALR 81
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 46/83 (55%), Gaps = 1/83 (1%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNT 353
+V+V NI + T+E+LK FS+ G + S +++ D E G KG+GF + E A A+
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 354 FHGYMLHRKPLYVAIAQRKEDRQ 376
+G + L V A +++++
Sbjct: 70 LNGREFSGRALRVDNAASEKNKE 92
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEA 250
NL++ L ++++ + + FS++G+I + I D+ G SRG GF+ FD +A A++
Sbjct: 3 NLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKG 62
Query: 251 MNG 253
+NG
Sbjct: 63 LNG 65
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 45/75 (60%), Gaps = 5/75 (6%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVN 352
+N+YV + ++ +E++ FSQ G I +++++ D+ G+++G GF+ F EA +A+
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 353 TFHGYMLHRKPLYVA 367
+G +KPL A
Sbjct: 62 GLNG----QKPLGAA 72
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 39/64 (60%), Gaps = 1/64 (1%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIE 158
ANL+V L +++ ++++F +G II+ ++ + G S+G GF++F+ A AI+
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 159 NLNG 162
LNG
Sbjct: 62 GLNG 65
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE 71
A+LYV L ++ E+ FS++ + + R+ D TG S G++ F +A AI+
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 72 VKN 74
N
Sbjct: 62 GLN 64
>pdb|1NMR|A Chain A, Solution Structure Of C-Terminal Domain From Trypanosoma
Cruzi Poly(A)-Binding Protein
Length = 85
Score = 45.8 bits (107), Expect = 6e-05, Method: Composition-based stats.
Identities = 28/79 (35%), Positives = 39/79 (49%)
Query: 526 GGVMARKPDMLNGMLAAPSPEQQKQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXX 585
G +A + L+ +LA +PEQQK +LGERLY + P AK+TGM
Sbjct: 1 GSSLASQGQNLSTVLANLTPEQQKNVLGERLYNHIVAINPAAAAKVTGMLLEMDNGEILN 60
Query: 586 XXXXXXXXAVKVEEAVQVL 604
KV+EA++VL
Sbjct: 61 LLDTPGLLDAKVQEALEVL 79
>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 = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 40/169 (23%), Positives = 77/169 (45%), Gaps = 13/169 (7%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDS-----TTGRSTCYGYVNFLSPHDAIR 68
LYVG++ +T+ + D F+ L + + + + ++ F S + +
Sbjct: 9 LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQ 68
Query: 69 AIEVKNHTQLHGKMLRISWSCRDPDARKS--GVANLFVKNLIESIDNVRLQEMFQNFGNI 126
A+ + G+ L+I R P + G LF+ L +++ +++E+ +FG +
Sbjct: 69 AMAF-DGIIFQGQSLKI----RRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPL 123
Query: 127 ISCK-VATSEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGR 174
+ V S G SKG+ F ++ + AI LNG +GDK++ V R
Sbjct: 124 KAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQR 172
Score = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 30/132 (22%), Positives = 60/132 (45%), Gaps = 12/132 (9%)
Query: 138 KSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGRF--IKKSDRVLPSPAAKYTNLFM 195
+ K F++F + + A+ D I+ G+ I++ P P A LF+
Sbjct: 51 QDKNFAFLEFRSVDETTQAM-------AFDGIIFQGQSLKIRRPHDYQPLPGAH--KLFI 101
Query: 196 KNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAMNGS 254
L + + ++ + E + FG + + + +D G S+G+ F + + + +A+ +NG
Sbjct: 102 GGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGM 161
Query: 255 VIGSKVLYAARA 266
+G K L RA
Sbjct: 162 QLGDKKLLVQRA 173
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 45.8 bits (107), Expect = 7e-05, Method: Composition-based stats.
Identities = 25/63 (39%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEA 250
+ +F++NL D T + L +KF++ G + I + ENG S+G G V F++P+ A RA
Sbjct: 6 SGIFVRNLPFDFTWKMLKDKFNECGHVLYADI-KMENGKSKGCGVVKFESPEVAERACRM 64
Query: 251 MNG 253
MNG
Sbjct: 65 MNG 67
Score = 45.8 bits (107), Expect = 7e-05, Method: Composition-based stats.
Identities = 30/84 (35%), Positives = 45/84 (53%), Gaps = 6/84 (7%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
S ++V+N+ D T + LK F++CG + A + + E G +KG G V F SPE A +A
Sbjct: 6 SGIFVRNLPFDFTWKMLKDKFNECGHVLYADI-KMENGKSKGCGVVKFESPEVAERACRM 64
Query: 354 FHGYMLHRKPLYVAIAQRKEDRQA 377
+G L + + V I DR A
Sbjct: 65 MNGMKLSGREIDVRI-----DRNA 83
Score = 43.5 bits (101), Expect = 4e-04, Method: Composition-based stats.
Identities = 29/92 (31%), Positives = 47/92 (51%), Gaps = 6/92 (6%)
Query: 97 SGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAA 156
SG + +FV+NL L++ F G+++ + E+GKSKG G V+FE+ E A A
Sbjct: 3 SGSSGIFVRNLPFDFTWKMLKDKFNECGHVLYADIKM-ENGKSKGCGVVKFESPEVAERA 61
Query: 157 IENLNGTTVGDKRIYVGRFIKKSDRVLPSPAA 188
+NG + + I V + DR P++
Sbjct: 62 CRMMNGMKLSGREIDV-----RIDRNASGPSS 88
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 45.8 bits (107), Expect = 8e-05, Method: Composition-based stats.
Identities = 25/61 (40%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
+F++NL D T + L +KF++ G + I + ENG S+G G V F++P+ A RA MN
Sbjct: 11 IFVRNLPFDFTWKMLKDKFNECGHVLYADI-KMENGKSKGCGVVKFESPEVAERACRMMN 69
Query: 253 G 253
G
Sbjct: 70 G 70
Score = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 29/82 (35%), Positives = 44/82 (53%), Gaps = 6/82 (7%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
++V+N+ D T + LK F++CG + A + + E G +KG G V F SPE A +A +
Sbjct: 11 IFVRNLPFDFTWKMLKDKFNECGHVLYADI-KMENGKSKGCGVVKFESPEVAERACRMMN 69
Query: 356 GYMLHRKPLYVAIAQRKEDRQA 377
G L + + V I DR A
Sbjct: 70 GMKLSGREIDVRI-----DRNA 86
Score = 43.9 bits (102), Expect = 3e-04, Method: Composition-based stats.
Identities = 29/92 (31%), Positives = 46/92 (50%), Gaps = 6/92 (6%)
Query: 97 SGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAA 156
SG +FV+NL L++ F G+++ + E+GKSKG G V+FE+ E A A
Sbjct: 6 SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKM-ENGKSKGCGVVKFESPEVAERA 64
Query: 157 IENLNGTTVGDKRIYVGRFIKKSDRVLPSPAA 188
+NG + + I V + DR P++
Sbjct: 65 CRMMNGMKLSGREIDV-----RIDRNASGPSS 91
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 40/169 (23%), Positives = 77/169 (45%), Gaps = 13/169 (7%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDS-----TTGRSTCYGYVNFLSPHDAIR 68
LYVG++ +T+ + D F+ L + + + + ++ F S + +
Sbjct: 7 LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQ 66
Query: 69 AIEVKNHTQLHGKMLRISWSCRDPDARKS--GVANLFVKNLIESIDNVRLQEMFQNFGNI 126
A+ + G+ L+I R P + G LF+ L +++ +++E+ +FG +
Sbjct: 67 AMAF-DGIIFQGQSLKI----RRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPL 121
Query: 127 ISCK-VATSEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGR 174
+ V S G SKG+ F ++ + AI LNG +GDK++ V R
Sbjct: 122 KAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQR 170
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 30/132 (22%), Positives = 60/132 (45%), Gaps = 12/132 (9%)
Query: 138 KSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVGRF--IKKSDRVLPSPAAKYTNLFM 195
+ K F++F + + A+ D I+ G+ I++ P P A LF+
Sbjct: 49 QDKNFAFLEFRSVDETTQAM-------AFDGIIFQGQSLKIRRPHDYQPLPGAH--KLFI 99
Query: 196 KNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAMNGS 254
L + + ++ + E + FG + + + +D G S+G+ F + + + +A+ +NG
Sbjct: 100 GGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGM 159
Query: 255 VIGSKVLYAARA 266
+G K L RA
Sbjct: 160 QLGDKKLLVQRA 171
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 45.4 bits (106), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 41/70 (58%), Gaps = 7/70 (10%)
Query: 184 PSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDD 243
P AK LF++NL + VTEE L + FS+FGK+ + +D + FV+F++
Sbjct: 9 PEVMAKVKVLFVRNLATTVTEEILEKSFSEFGKLERVKKLKD-------YAFVHFEDRGA 61
Query: 244 ARRALEAMNG 253
A +A++ MNG
Sbjct: 62 AVKAMDEMNG 71
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 8/77 (10%)
Query: 86 SWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFV 145
S S DP+ + V LFV+NL ++ L++ F FG + K K K + FV
Sbjct: 3 SGSSGDPEVM-AKVKVLFVRNLATTVTEEILEKSFSEFGKLERVK-------KLKDYAFV 54
Query: 146 QFETEESANAAIENLNG 162
FE +A A++ +NG
Sbjct: 55 HFEDRGAAVKAMDEMNG 71
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 7/61 (11%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
++V+N+ VT+E L+ FS+ G + K ++D + FV F A KA++ +
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVKKLKD-------YAFVHFEDRGAAVKAMDEMN 70
Query: 356 G 356
G
Sbjct: 71 G 71
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 43/89 (48%), Gaps = 17/89 (19%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L+V +L VT+ L +FSEF L V+ KD Y +V+F A++A++
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVHFEDRGAAVKAMD-- 67
Query: 74 NHTQLHGKMLRISWS----CRDPDARKSG 98
+++GK + + PD ++SG
Sbjct: 68 ---EMNGKEIEGEEIEIVLAKPPDKKRSG 93
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 45.4 bits (106), Expect = 1e-04, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 41/79 (51%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAI 67
+TT LYVG L +V D L AF F + +++ D T + + +V F DA
Sbjct: 2 STTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 61
Query: 68 RAIEVKNHTQLHGKMLRIS 86
AI+ N ++L G+ +R++
Sbjct: 62 AAIDNMNESELFGRTIRVN 80
Score = 44.7 bits (104), Expect = 1e-04, Method: Composition-based stats.
Identities = 26/72 (36%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIENL 160
L+V L E +D+ L F FG+I ++ E K +G FV+FE E A AAI+N+
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 161 NGTTVGDKRIYV 172
N + + + I V
Sbjct: 68 NESELFGRTIRV 79
Score = 37.7 bits (86), Expect = 0.020, Method: Composition-based stats.
Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
L++ L +V ++ L F FG I + I D E RGF FV F+ +DA A++ M
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 252 NGS 254
N S
Sbjct: 68 NES 70
Score = 35.8 bits (81), Expect = 0.075, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTF 354
+YV + ++V D+ L A F G IT ++ D E ++GF FV F E+A+ A++
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 355 HGYMLHRKPLYVAIAQ 370
+ L + + V +A+
Sbjct: 68 NESELFGRTIRVNLAK 83
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 43/162 (26%), Positives = 68/162 (41%), Gaps = 11/162 (6%)
Query: 97 SGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDG---KSKGHGFVQFETEESA 153
S FV + + L+E+F+ +G + V +SKG FV F T +
Sbjct: 1 SDAIKXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK-- 58
Query: 154 NAAIENLNGTTVGDKRIYVGR---FIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEK 210
AA+E N + + ++ G K + A + LF+ + TE +
Sbjct: 59 -AALEAQNA--LHNXKVLPGXHHPIQXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVX 115
Query: 211 FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
FS FG+I I R +G SRG FV F A+ A++A +
Sbjct: 116 FSSFGQIEECRILRGPDGLSRGCAFVTFTTRAXAQTAIKAXH 157
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 41/79 (51%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAI 67
ATT LYVG L +V D L AF F + +++ D T + + +V F DA
Sbjct: 60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 119
Query: 68 RAIEVKNHTQLHGKMLRIS 86
AI+ N ++L G+ +R++
Sbjct: 120 AAIDNMNESELFGRTIRVN 138
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIENL 160
L+V L E +D+ L F FG+I ++ E K +G FV+FE E A AAI+N+
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 161 NGTTVGDKRIYV 172
N + + + I V
Sbjct: 126 NESELFGRTIRV 137
Score = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
L++ L +V ++ L F FG I + I D E RGF FV F+ +DA A++ M
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 252 NGS 254
N S
Sbjct: 126 NES 128
Score = 33.5 bits (75), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTF 354
+YV + ++V D+ L A F G IT ++ D E ++GF FV F E+A+ A++
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 355 HGYMLHRKPLYVAIA 369
+ L + + V +A
Sbjct: 126 NESELFGRTIRVNLA 140
>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 = 1e-04, Method: Composition-based stats.
Identities = 26/72 (36%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIENL 160
L+V L E +D+ L F FG+I ++ E K +G FV+FE E A AAI+N+
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 161 NGTTVGDKRIYV 172
N + + + I V
Sbjct: 65 NESELFGRTIRV 76
Score = 37.7 bits (86), Expect = 0.017, Method: Composition-based stats.
Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
L++ L +V ++ L F FG I + I D E RGF FV F+ +DA A++ M
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 252 NGS 254
N S
Sbjct: 65 NES 67
Score = 35.4 bits (80), Expect = 0.093, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTF 354
+YV + ++V D+ L A F G IT ++ D E ++GF FV F E+A+ A++
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 355 HGYMLHRKPLYVAIA 369
+ L + + V +A
Sbjct: 65 NESELFGRTIRVNLA 79
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 32/52 (61%), Gaps = 1/52 (1%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPE 345
++YV N+D T EEL+AHF CG++ ++ D+ G KGF ++ FS E
Sbjct: 7 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 58
>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 = 1e-04, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 32/52 (61%), Gaps = 1/52 (1%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPE 345
++YV N+D T EEL+AHF CG++ ++ D+ G KGF ++ FS E
Sbjct: 8 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 59
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 39/86 (45%), Gaps = 7/86 (8%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
+FV N+ + + L+ +F+ G +I C V K + FV E E A AAI LN
Sbjct: 12 IFVGNVSAACTSQELRSLFERRGRVIECDVV-------KDYAFVHMEKEADAKAAIAQLN 64
Query: 162 GTTVGDKRIYVGRFIKKSDRVLPSPA 187
G V KRI V K + PS
Sbjct: 65 GKEVKGKRINVELSTKGQKKSGPSSG 90
Score = 32.3 bits (72), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 19/81 (23%), Positives = 39/81 (48%), Gaps = 10/81 (12%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
+F+ N+ + T + L F + G++ + +D + FV+ + DA+ A+ +N
Sbjct: 12 IFVGNVSAACTSQELRSLFERRGRVIECDVVKD-------YAFVHMEKEADAKAAIAQLN 64
Query: 253 GSVIGSK---VLYAARAQKKA 270
G + K V + + QKK+
Sbjct: 65 GKEVKGKRINVELSTKGQKKS 85
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSK-FGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEA 250
+LF+ +L DV + L E F K + + D+ G S+G+GFV F + + +RAL
Sbjct: 11 SLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTE 70
Query: 251 MNGSV-IGSKVLYAARAQKKAER 272
G+V +GSK + + A KA R
Sbjct: 71 CQGAVGLGSKPVRLSVAIPKASR 93
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 42/76 (55%), Gaps = 3/76 (3%)
Query: 13 SLYVGDLHPDVTDGELFDAFSE-FKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAI- 70
SL+VGDL PDV DG L++ F + + S +V D TG S YG+V F + RA+
Sbjct: 11 SLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFTDELEQKRALT 69
Query: 71 EVKNHTQLHGKMLRIS 86
E + L K +R+S
Sbjct: 70 ECQGAVGLGSKPVRLS 85
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 43/86 (50%), Gaps = 2/86 (2%)
Query: 101 NLFVKNLIESIDNVRLQEMF-QNFGNIISCKVATSEDGKSKGHGFVQFETE-ESANAAIE 158
+LFV +L +D+ L E F + + + KV + G SKG+GFV+F E E A E
Sbjct: 11 SLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTE 70
Query: 159 NLNGTTVGDKRIYVGRFIKKSDRVLP 184
+G K + + I K+ RV P
Sbjct: 71 CQGAVGLGSKPVRLSVAIPKASRVKP 96
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQC-GTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
+++V ++ DV D L F + + KV+ D+ G++KG+GFV F+ E +A+
Sbjct: 11 SLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTE 70
Query: 354 FHGYM-LHRKPLYVAIAQRKEDR 375
G + L KP+ +++A K R
Sbjct: 71 CQGAVGLGSKPVRLSVAIPKASR 93
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 28/82 (34%), Positives = 40/82 (48%), Gaps = 5/82 (6%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRAL--- 248
+F+ L T+E L E F +FG++ L+ RD SRGFGFV F + + L
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 87
Query: 249 -EAMNGSVIGSKVLYAARAQKK 269
++ I KV + RAQ K
Sbjct: 88 RHELDSKTIDPKVAFPRRAQPK 109
Score = 32.7 bits (73), Expect = 0.61, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 293 GSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCF 341
G +++ + T E L+ +F Q G + VMRD ++GFGFV F
Sbjct: 25 GCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 74
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 32/62 (51%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
LFV L + + +FQ FG I C V DG SKG FV+F + A AAI L+
Sbjct: 18 LFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALH 77
Query: 162 GT 163
G+
Sbjct: 78 GS 79
Score = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 36/62 (58%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
LF+ L+ +EE ++ F FG I + R +G+S+G FV F + +A+ A+ A++
Sbjct: 18 LFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALH 77
Query: 253 GS 254
GS
Sbjct: 78 GS 79
Score = 37.4 bits (85), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
++V ++ ++E++ F G I V+R G +KG FV FSS EA A++ H
Sbjct: 18 LFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALH 77
Query: 356 G 356
G
Sbjct: 78 G 78
>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 = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 47/92 (51%), Gaps = 5/92 (5%)
Query: 91 DPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFET 149
DP+A+ LFV + +L+ F+ +G I + S+ GK +G+ F+++E
Sbjct: 94 DPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEH 153
Query: 150 EESANAAIENLNGTTVGDKRIYV----GRFIK 177
E ++A ++ +G + +R+ V GR +K
Sbjct: 154 ERDMHSAYKHADGKKIDGRRVLVDVERGRTVK 185
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 190 YTNLFMKNLDSDVTEEHLVEKFSKFGKIASL-LIARDENGTSRGFGFVNFDNPDDARRAL 248
+ LF+ ++ D TE L +F +G I + ++ +G RG+ F+ +++ D A
Sbjct: 102 FKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAY 161
Query: 249 EAMNGSVI-GSKVL 261
+ +G I G +VL
Sbjct: 162 KHADGKKIDGRRVL 175
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFG-KIASLLIARDENGTSRGFGFVNFDNPDDARRALEAM 251
L++KNL VTE LV F++F K + R G RG F+ F N + A +AL +
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLV 87
Query: 252 NGSVIGSKVLYAARAQKKAER 272
NG + K+L + K +R
Sbjct: 88 NGYKLYGKILVIEFGKNKKQR 108
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 43/85 (50%), Gaps = 1/85 (1%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
LY+ +L P VT+ +L F+ F+ + TGR ++ F + A +A+ +
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLV 87
Query: 74 NHTQLHGKMLRISWSCRDPDARKSG 98
N +L+GK+L I + ++ R SG
Sbjct: 88 NGYKLYGKILVIEFG-KNKKQRSSG 111
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 43.9 bits (102), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/51 (41%), Positives = 32/51 (62%), Gaps = 1/51 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPD 242
LF+ LD T+E L FS++G++ +I +D+ SRGFGFV F +P+
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPN 69
Score = 38.5 bits (88), Expect = 0.011, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 30/50 (60%), Gaps = 1/50 (2%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSP 344
++V +D T E L+++FSQ G + +M+D+ ++GFGFV F P
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDP 68
Score = 34.7 bits (78), Expect = 0.17, Method: Composition-based stats.
Identities = 19/63 (30%), Positives = 30/63 (47%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L+VG L T L FS++ + + KD TT +S +G+V F P+ + +
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASR 78
Query: 74 NHT 76
HT
Sbjct: 79 PHT 81
Score = 30.4 bits (67), Expect = 3.2, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 99 VANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFE 148
+ LFV L S L+ F +G ++ C + + +S+G GFV+F+
Sbjct: 16 IGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFK 66
>pdb|2DYD|A Chain A, Solution Structure Of The Pabc Domain From Triticum
Aevestium Poly(A)-Binding Protein
Length = 85
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 35/70 (50%)
Query: 536 LNGMLAAPSPEQQKQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXXXXXXXXXXAV 595
L LA PE Q+ +LGE LYPLV++ + D AK+TGM
Sbjct: 10 LASALANSPPETQRMMLGENLYPLVDQLEHDQAAKVTGMLLEMDQTEVLHLLESPDALKA 69
Query: 596 KVEEAVQVLK 605
KV EA++VL+
Sbjct: 70 KVAEAMEVLR 79
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 44/85 (51%), Gaps = 2/85 (2%)
Query: 6 PTATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDST-TGRSTCYGYVNFLSPH 64
P T + + V ++ E+ + FS F L +VR+ K T TG +G+V+F++
Sbjct: 10 PKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQ 69
Query: 65 DAIRAIEVKNH-TQLHGKMLRISWS 88
DA +A H T L+G+ L + W+
Sbjct: 70 DAKKAFNALCHSTHLYGRRLVLEWA 94
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 36/63 (57%), Gaps = 2/63 (3%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTS--RGFGFVNFDNPDDARRAL 248
+ + ++N+ + + E FS FG++ ++ + + GT RGFGFV+F DA++A
Sbjct: 16 SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
Query: 249 EAM 251
A+
Sbjct: 76 NAL 78
Score = 37.0 bits (84), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 3/83 (3%)
Query: 290 KYKGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGI--NKGFGFVCFSSPEEA 347
K S + V+NI E++ FS G + + ++ + G ++GFGFV F + ++A
Sbjct: 12 KQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDA 71
Query: 348 SKAVNTF-HGYMLHRKPLYVAIA 369
KA N H L+ + L + A
Sbjct: 72 KKAFNALCHSTHLYGRRLVLEWA 94
Score = 33.5 bits (75), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 36/72 (50%), Gaps = 2/72 (2%)
Query: 95 RKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKV--ATSEDGKSKGHGFVQFETEES 152
+K + + V+N+ + ++E+F FG + + ++ + G +G GFV F T++
Sbjct: 11 KKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQD 70
Query: 153 ANAAIENLNGTT 164
A A L +T
Sbjct: 71 AKKAFNALCHST 82
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 2/84 (2%)
Query: 189 KYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRA 247
++ LF+ L + TEE L + ++GK+ ++ RD + SRGFGFV F + + A
Sbjct: 26 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAA 85
Query: 248 LEAMNGSVIGSKVLYAARAQKKAE 271
+ A S+ G +V+ RA + E
Sbjct: 86 MAARPHSIDG-RVVEPKRAVAREE 108
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 40/73 (54%), Gaps = 4/73 (5%)
Query: 280 FEEKRKERILKYKGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGI-NKGFGF 338
E K++E K + +++ + + T+E L+ ++ Q G +T VMRD ++GFGF
Sbjct: 17 LERKKRE---KEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGF 73
Query: 339 VCFSSPEEASKAV 351
V FSS E A+
Sbjct: 74 VTFSSMAEVDAAM 86
Score = 29.6 bits (65), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 5/74 (6%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAI-- 157
LF+ L L+ ++ +G + C V K S+G GFV F + +AA+
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Query: 158 --ENLNGTTVGDKR 169
+++G V KR
Sbjct: 89 RPHSIDGRVVEPKR 102
>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 = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 5/72 (6%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALE-- 249
+F+ L D T++ L + FSKFG++ + D G SRGFGFV F + + ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 250 --AMNGSVIGSK 259
+NG VI K
Sbjct: 62 EHKLNGKVIDPK 73
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+++G L D T +L D FS+F + + D TGRS +G+V F + ++ K
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 74 NHTQLHGKML 83
H +L+GK++
Sbjct: 62 EH-KLNGKVI 70
Score = 38.1 bits (87), Expect = 0.014, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIEN- 159
+F+ L L++ F FG ++ C + G+S+G GFV F+ ES + ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 160 ---LNGTTVGDKR 169
LNG + KR
Sbjct: 62 EHKLNGKVIDPKR 74
Score = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVN 352
+++ + D T ++LK +FS+ G + + D G ++GFGFV F E K ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD 59
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 1/83 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAM 251
LF++NL +EE L + FS +G ++ L D +GF FV F P+ A +A +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 252 NGSVIGSKVLYAARAQKKAEREQ 274
+G V ++L+ + K E Q
Sbjct: 71 DGQVFQGRMLHVLPSTIKKEASQ 93
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 35/74 (47%), Gaps = 6/74 (8%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGIN-KGFGFVCFSSPEEASKAV--- 351
++V+N+ ++E+L+ FS G ++ D KGF FV F PE A KA
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 352 --NTFHGYMLHRKP 363
F G MLH P
Sbjct: 71 DGQVFQGRMLHVLP 84
Score = 37.4 bits (85), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 41/85 (48%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L+V +L ++ +L FS + L+ + DS T + + +V F+ P A++A
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 74 NHTQLHGKMLRISWSCRDPDARKSG 98
+ G+ML + S +A +SG
Sbjct: 71 DGQVFQGRMLHVLPSTIKKEASQSG 95
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 39/89 (43%), Gaps = 11/89 (12%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVAT-SEDGKSKGHGFVQFETEESANAAIENL 160
LFV+NL + L+++F +G + S K KG FV F E A A +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 161 NGTTVGDKRIYVGRFIKKSDRVLPSPAAK 189
+G +++ GR + VLPS K
Sbjct: 71 DG------QVFQGRML----HVLPSTIKK 89
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 9/88 (10%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAK---------VMRDEKGINKGFGFVCFSSP 344
S +YV+ ++D VT ++L F QCG + K + E G KG V + P
Sbjct: 16 SAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDP 75
Query: 345 EEASKAVNTFHGYMLHRKPLYVAIAQRK 372
A AV F G L V++A++K
Sbjct: 76 PTAKAAVEWFDGKDFQGSKLKVSLARKK 103
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 47/81 (58%), Gaps = 8/81 (9%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCK-VATSEDGKSKGHGFVQFETEESANAAIEN 159
N++V NL+ S + +++E+F FG + + K + E K KG GFV+ + EES + AI
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQ-EESVSEAIAK 61
Query: 160 LNGTTVGDKRIYVGRFIKKSD 180
L+ T ++GR I+ ++
Sbjct: 62 LDNTD------FMGRTIRVTE 76
Score = 36.2 bits (82), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFV 339
N+YV N+ T E++K FSQ G + + K++ D E KGFGFV
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFV 48
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 13 SLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEV 72
++YVG+L T ++ + FS+F + +V++ D T + +G+V + AI
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVE-MQEESVSEAIAK 61
Query: 73 KNHTQLHGKMLRIS 86
++T G+ +R++
Sbjct: 62 LDNTDFMGRTIRVT 75
Score = 34.7 bits (78), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASL-LIARDENGTSRGFGFV 236
N+++ NL T E + E FS+FGK+ ++ LI E +GFGFV
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFV 48
>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 = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 50/100 (50%), Gaps = 5/100 (5%)
Query: 83 LRISWSCRDPDARKSGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKG 141
L++ DP+A+ LFV + +L+ F+ +G I + S+ GK +G
Sbjct: 86 LKMWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRG 145
Query: 142 HGFVQFETEESANAAIENLNGTTVGDKRIYV----GRFIK 177
+ F+++E E ++A ++ +G + +R+ V GR +K
Sbjct: 146 YAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERGRTVK 185
Score = 37.0 bits (84), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 190 YTNLFMKNLDSDVTEEHLVEKFSKFGKIASL-LIARDENGTSRGFGFVNFDNPDDARRAL 248
+ LF+ ++ D TE L +F +G I + ++ +G RG+ F+ +++ D A
Sbjct: 102 FKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAY 161
Query: 249 EAMNGSVI-GSKVL 261
+ +G I G +VL
Sbjct: 162 KHADGKKIDGRRVL 175
>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 = 43.1 bits (100), Expect = 5e-04, Method: Composition-based stats.
Identities = 24/74 (32%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 189 KYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRA 247
K L++ NL TEE + E FSK G I +++ D+ T+ GF FV + + DA A
Sbjct: 38 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENA 97
Query: 248 LEAMNGSVIGSKVL 261
+ +NG+ + +++
Sbjct: 98 MRYINGTRLDDRII 111
Score = 38.5 bits (88), Expect = 0.011, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 43/86 (50%)
Query: 13 SLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEV 72
+LYVG+L T+ ++++ FS+ + + + D + + +V + S DA A+
Sbjct: 41 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRY 100
Query: 73 KNHTQLHGKMLRISWSCRDPDARKSG 98
N T+L +++R W + R+ G
Sbjct: 101 INGTRLDDRIIRTDWDAGFKEGRQYG 126
Score = 34.7 bits (78), Expect = 0.16, Method: Composition-based stats.
Identities = 30/103 (29%), Positives = 49/103 (47%), Gaps = 4/103 (3%)
Query: 260 VLYAARAQKKAEREQILRHQF--EEKRKERILKYKGSNVYVKNIDDDVTDEELKAHFSQC 317
+L A R+ E Q F + + +E++LK K +YV N+ T+E++ FS+
Sbjct: 5 LLKALRSDSYVELSQYRDQHFRGDNEEQEKLLK-KSCTLYVGNLSFYTTEEQIYELFSKS 63
Query: 318 GTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVNTFHGYML 359
G I + D+ K GF FV + S +A A+ +G L
Sbjct: 64 GDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRL 106
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 40/65 (61%), Gaps = 1/65 (1%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAI 67
+TTP +L++G+L+P+ + EL A SE + + V D TG + +GYV+F S D
Sbjct: 14 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLE 72
Query: 68 RAIEV 72
+A+E+
Sbjct: 73 KALEL 77
Score = 37.7 bits (86), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 41/81 (50%)
Query: 180 DRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFD 239
D V S + NLF+ NL+ + + L S+ L + GT+R FG+V+F+
Sbjct: 7 DPVEGSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFE 66
Query: 240 NPDDARRALEAMNGSVIGSKV 260
+ +D +ALE V G+++
Sbjct: 67 SAEDLEKALELTGLKVFGNEI 87
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 30/57 (52%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAV 351
N+++ N++ + + ELK S+ V+ G N+ FG+V F S E+ KA+
Sbjct: 19 NLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL 75
>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 = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 34/58 (58%), Gaps = 1/58 (1%)
Query: 295 NVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAV 351
+VYV N+D T ++L+AHFS CG+I ++ D+ G KG+ ++ F+ AV
Sbjct: 38 SVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV 95
Score = 29.3 bits (64), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 13 SLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEV 72
S+YVG++ T +L FS S+ + + D +G Y Y+ F + +++ A
Sbjct: 38 SVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEF-AERNSVDAAVA 96
Query: 73 KNHTQLHGKMLRI 85
+ T G+ +++
Sbjct: 97 MDETVFRGRTIKV 109
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 42.4 bits (98), Expect = 8e-04, Method: Composition-based stats.
Identities = 27/88 (30%), Positives = 47/88 (53%), Gaps = 3/88 (3%)
Query: 11 PASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAI 70
P +LYVG+L DVT+ + FS+ S ++ + T+ C +V F DA A+
Sbjct: 15 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYC--FVEFYEHRDAAAAL 72
Query: 71 EVKNHTQLHGKMLRISWSCRDPDARKSG 98
N ++ GK ++++W+ P ++KSG
Sbjct: 73 AAMNGRKILGKEVKVNWAT-TPSSQKSG 99
Score = 30.0 bits (66), Expect = 3.9, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
L+V NL + V + ++F G SCK+ T E + + FV+F A AA+ +N
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMIT-EHTSNDPYCFVEFYEHRDAAAALAAMN 76
Query: 162 GTTVGDKRIYV 172
G + K + V
Sbjct: 77 GRKILGKEVKV 87
Score = 29.3 bits (64), Expect = 6.2, Method: Composition-based stats.
Identities = 25/69 (36%), Positives = 39/69 (56%), Gaps = 2/69 (2%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L++ NL DVTE +++ FS+ G S + E+ ++ + FV F DA AL AMN
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMI-TEHTSNDPYCFVEFYEHRDAAAALAAMN 76
Query: 253 G-SVIGSKV 260
G ++G +V
Sbjct: 77 GRKILGKEV 85
>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 = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCK-VATSEDGKSKGHGFVQFETEESANAAIENL 160
LF+ L +++ +++E+ +FG + + V S G SKG+ F ++ + AI L
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 176
Query: 161 NGTTVGDKRIYVGR 174
NG +GDK++ V R
Sbjct: 177 NGMQLGDKKLLVQR 190
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 46/91 (50%), Gaps = 4/91 (4%)
Query: 182 VLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDN 240
V+P A K LF+ L + + ++ + E + FG + + + +D G S+G+ F + +
Sbjct: 109 VVPDSAHK---LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 165
Query: 241 PDDARRALEAMNGSVIGSKVLYAARAQKKAE 271
+ +A+ +NG +G K L RA A+
Sbjct: 166 INVTDQAIAGLNGMQLGDKKLLVQRASVGAK 196
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 40/83 (48%), Gaps = 3/83 (3%)
Query: 3 VVPPTATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLS 62
VVP +A L++G L + D ++ + + F L + + KDS TG S Y + ++
Sbjct: 109 VVPDSAH---KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 165
Query: 63 PHDAIRAIEVKNHTQLHGKMLRI 85
+ +AI N QL K L +
Sbjct: 166 INVTDQAIAGLNGMQLGDKKLLV 188
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 21/79 (26%), Positives = 42/79 (53%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAI 67
A + +++YV +L +T+ +L+ FS++ + V + KD T +S ++ FL A
Sbjct: 13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQ 72
Query: 68 RAIEVKNHTQLHGKMLRIS 86
N+ QL G++++ S
Sbjct: 73 NCTRAINNKQLFGRVIKAS 91
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 43/81 (53%), Gaps = 1/81 (1%)
Query: 187 AAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENG-TSRGFGFVNFDNPDDAR 245
A + +++ NL +T L FSK+GK+ + I +D++ S+G F+ F + D A+
Sbjct: 13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQ 72
Query: 246 RALEAMNGSVIGSKVLYAARA 266
A+N + +V+ A+ A
Sbjct: 73 NCTRAINNKQLFGRVIKASIA 93
Score = 33.9 bits (76), Expect = 0.30, Method: Composition-based stats.
Identities = 20/77 (25%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVN 352
S VYV N+ +T+ +L FS+ G + +M+D + +KG F+ F + A
Sbjct: 17 STVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTR 76
Query: 353 TFHGYMLHRKPLYVAIA 369
+ L + + +IA
Sbjct: 77 AINNKQLFGRVIKASIA 93
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 40/76 (52%)
Query: 293 GSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVN 352
G+ + V N+D V+D +++ F++ GT+ A V D G + G V F +A KA+
Sbjct: 88 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMK 147
Query: 353 TFHGYMLHRKPLYVAI 368
+ G L +P+ + +
Sbjct: 148 QYKGVPLDGRPMDIQL 163
Score = 37.7 bits (86), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 29/66 (43%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
A L V NL + + +QE+F FG + V G+S G V FE A A++
Sbjct: 89 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQ 148
Query: 160 LNGTTV 165
G +
Sbjct: 149 YKGVPL 154
Score = 35.4 bits (80), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 33/61 (54%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L + NLD V++ + E F++FG + + D +G S G V+F+ DA +A++
Sbjct: 91 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYK 150
Query: 253 G 253
G
Sbjct: 151 G 151
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 10 TPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRA 69
T A L V +L V+D ++ + F+EF +L V D +GRS V+F DA++A
Sbjct: 87 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADALKA 145
Query: 70 IEVKNHTQLHGKMLRI 85
++ L G+ + I
Sbjct: 146 MKQYKGVPLDGRPMDI 161
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 115 RLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVG 173
++ ++ N G +I+ K+ + G+SKG+ F++F ES+ +A+ NLNG +G + + G
Sbjct: 20 QILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCG 79
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 39/70 (55%), Gaps = 1/70 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTF 354
VY+ +I D T+E++ S G + + K+M D + G +KG+ F+ F E ++ AV
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 355 HGYMLHRKPL 364
+GY L + L
Sbjct: 67 NGYQLGSRFL 76
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 41/70 (58%), Gaps = 1/70 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
+++ ++ D TEE +++ S G + +L + D + G S+G+ F+ F + + + A+ +
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 252 NGSVIGSKVL 261
NG +GS+ L
Sbjct: 67 NGYQLGSRFL 76
Score = 37.7 bits (86), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 37/75 (49%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+Y+G + D T+ ++ D S + ++++ D TGRS Y ++ F + A+
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 74 NHTQLHGKMLRISWS 88
N QL + L+ +S
Sbjct: 67 NGYQLGSRFLKCGYS 81
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 42/71 (59%), Gaps = 1/71 (1%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTS-RGFGFVNFDNPDDARRALE 249
+ L+++ L T++ LV+ +GKI S D+ +G+GFV+FD+P A++A+
Sbjct: 6 SGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVT 65
Query: 250 AMNGSVIGSKV 260
A+ S + +++
Sbjct: 66 ALKASGVQAQM 76
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 21/79 (26%), Positives = 38/79 (48%)
Query: 8 ATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAI 67
++ + LY+ L P TD +L + + S + D TT + YG+V+F SP A
Sbjct: 2 SSGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQ 61
Query: 68 RAIEVKNHTQLHGKMLRIS 86
+A+ + + +M + S
Sbjct: 62 KAVTALKASGVQAQMAKQS 80
Score = 37.4 bits (85), Expect = 0.027, Method: Composition-based stats.
Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 1/70 (1%)
Query: 97 SGVANLFVKNLIESIDNVRLQEMFQNFGNIISCK-VATSEDGKSKGHGFVQFETEESANA 155
SG + L+++ L + L ++ Q +G I+S K + K KG+GFV F++ +A
Sbjct: 3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQK 62
Query: 156 AIENLNGTTV 165
A+ L + V
Sbjct: 63 AVTALKASGV 72
Score = 37.0 bits (84), Expect = 0.033, Method: Composition-based stats.
Identities = 24/63 (38%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINK--GFGFVCFSSPEEASKAV 351
S +Y++ + TD++L G I S K + D K NK G+GFV F SP A KAV
Sbjct: 6 SGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILD-KTTNKCKGYGFVDFDSPSAAQKAV 64
Query: 352 NTF 354
Sbjct: 65 TAL 67
>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 = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 5/71 (7%)
Query: 194 FMKNLDSDVTEEHLVEKFSKFGKIASLLIARDEN-GTSRGFGFVNFDNPDDARRALEA-- 250
F+ L D +++ L + F+KFG++ I D N G SRGFGF+ F + + L+
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQKE 74
Query: 251 --MNGSVIGSK 259
++G VI K
Sbjct: 75 HRLDGRVIDPK 85
Score = 36.2 bits (82), Expect = 0.060, Method: Composition-based stats.
Identities = 19/69 (27%), Positives = 36/69 (52%), Gaps = 1/69 (1%)
Query: 15 YVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVKN 74
+VG L D + +L D F++F + + D TGRS +G++ F + ++ K
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQKE 74
Query: 75 HTQLHGKML 83
H +L G+++
Sbjct: 75 H-RLDGRVI 82
Score = 32.0 bits (71), Expect = 0.96, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 5/72 (6%)
Query: 103 FVKNLIESIDNVRLQEMFQNFGNIISCKVATSED-GKSKGHGFVQFETEESANAAIEN-- 159
FV L L++ F FG ++ C + + G+S+G GF+ F+ S ++
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQKE 74
Query: 160 --LNGTTVGDKR 169
L+G + K+
Sbjct: 75 HRLDGRVIDPKK 86
Score = 30.8 bits (68), Expect = 2.2, Method: Composition-based stats.
Identities = 14/57 (24%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 297 YVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVN 352
+V + D + ++LK +F++ G + + D G ++GFGF+ F K ++
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLD 71
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 24/69 (34%), Positives = 40/69 (57%), Gaps = 5/69 (7%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
+++ NL + + L FS +G + ++ IAR+ GF FV F++P DA A+ ++
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARN----PPGFAFVEFEDPRDAEDAVRGLD 58
Query: 253 GSVI-GSKV 260
G VI GS+V
Sbjct: 59 GKVICGSRV 67
Score = 30.8 bits (68), Expect = 2.5, Method: Composition-based stats.
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+YVG+L GEL AFS + L +V + ++ + +V F P DA A+
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPG-----FAFVEFEDPRDAEDAVRGL 57
Query: 74 NHTQLHGKMLRISWSCRDP 92
+ + G +R+ S P
Sbjct: 58 DGKVICGSRVRVELSTGMP 76
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 3/69 (4%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L + NL TEE L E F K I + +++NG S+G+ F+ F + +DA+ AL + N
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIK---VPQNQNGKSKGYAFIEFASFEDAKEALNSCN 74
Query: 253 GSVIGSKVL 261
I + +
Sbjct: 75 KREIEGRAI 83
Score = 37.4 bits (85), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 40/76 (52%), Gaps = 9/76 (11%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
L + NL S LQE+F+ I KV +++GKSKG+ F++F + E A A+ + N
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNSCN 74
Query: 162 GTTVGDKRIYVGRFIK 177
KR GR I+
Sbjct: 75 ------KREIEGRAIR 84
Score = 33.1 bits (74), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 35/58 (60%), Gaps = 3/58 (5%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
+ + N+ T+E L+ F + I KV +++ G +KG+ F+ F+S E+A +A+N+
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNS 72
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCK-VATSEDGKSKGHGFVQFETEESANAAIENL 160
LF+ L +++ +++E+ +FG + + V S G SKG+ F ++ + AI L
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 161 NGTTVGDKRIYVGR 174
NG +GDK++ V R
Sbjct: 64 NGMQLGDKKLLVQR 77
Score = 37.0 bits (84), Expect = 0.034, Method: Composition-based stats.
Identities = 20/80 (25%), Positives = 41/80 (51%), Gaps = 1/80 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAM 251
LF+ L + + ++ + E + FG + + + +D G S+G+ F + + + +A+ +
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 252 NGSVIGSKVLYAARAQKKAE 271
NG +G K L RA A+
Sbjct: 64 NGMQLGDKKLLVQRASVGAK 83
Score = 32.7 bits (73), Expect = 0.57, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 35/72 (48%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L++G L + D ++ + + F L + + KDS TG S Y + ++ + +AI
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 74 NHTQLHGKMLRI 85
N QL K L +
Sbjct: 64 NGMQLGDKKLLV 75
>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
Length = 161
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 39/158 (24%), Positives = 68/158 (43%), Gaps = 20/158 (12%)
Query: 99 VANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGF--VQFETEESANAA 156
+ + VKNL +S + ++ + F++ G II VA D K F ++F + A AA
Sbjct: 4 LTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVA---DSLKKNFRFARIEFARYDGALAA 60
Query: 157 IENLNGTTVGDKRIYVGRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGK 216
I + VG I V + L+M N T+ ++ +
Sbjct: 61 ITKTHKV-VGQNEIIVSHLTE-------------CTLWMTNFPPSYTQRNIRDLLQDINV 106
Query: 217 IA-SLLIARDENGTSRGFGFVNFDNPDDARRALEAMNG 253
+A S+ + TSR F +++ + +DAR +E +NG
Sbjct: 107 VALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNG 144
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 43/86 (50%), Gaps = 3/86 (3%)
Query: 179 SDRVLPSPAAKYTN--LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGF 235
D + P P LF+ ++ + E+ + EKF +G+I ++ + D G S+G+
Sbjct: 13 DDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYAL 72
Query: 236 VNFDNPDDARRALEAMNGSVIGSKVL 261
V ++ A A EA+NG+ I + +
Sbjct: 73 VEYETHKQALAAKEALNGAEIMGQTI 98
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 42/82 (51%), Gaps = 2/82 (2%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIENL 160
LFV ++ E +QE F ++G I + + G SKG+ V++ET + A AA E L
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 161 NGTTVGDKRIYVGR-FIKKSDR 181
NG + + I V F+K R
Sbjct: 89 NGAEIMGQTIQVDWCFVKGPKR 110
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 38/71 (53%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
LF+ L S L+E+ + G + ++ T+ GK KG +V++E E A+ A+ ++
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMD 79
Query: 162 GTTVGDKRIYV 172
G T+ + I V
Sbjct: 80 GMTIKENIIKV 90
Score = 37.4 bits (85), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 33/72 (45%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
LF+ L T+E L E G + L + + G +G +V ++N A +A+ M+
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMD 79
Query: 253 GSVIGSKVLYAA 264
G I ++ A
Sbjct: 80 GMTIKENIIKVA 91
Score = 32.3 bits (72), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
+++ + T EEL+ GT+ +++ + G KG +V + + +AS+AV
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMD 79
Query: 356 GYMLHRKPLYVAIA 369
G + + VAI+
Sbjct: 80 GMTIKENIIKVAIS 93
>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 = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 44/86 (51%), Gaps = 2/86 (2%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIENL 160
LFV ++ E +QE F ++G I + + G SKG+ V++ET + A AA E L
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 161 NGTTVGDKRIYVGR-FIKKSDRVLPS 185
NG + + I V F+K RV S
Sbjct: 135 NGAEIMGQTIQVDWCFVKGPKRVKKS 160
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 179 SDRVLPSPAAKYTN--LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGF 235
D + P P LF+ ++ + E+ + EKF +G+I ++ + D G S+G+
Sbjct: 59 DDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYAL 118
Query: 236 VNFDNPDDARRALEAMNGSVI 256
V ++ A A EA+NG+ I
Sbjct: 119 VEYETHKQALAAKEALNGAEI 139
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 115 RLQEMFQNFGNIISCKVA-TSEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVG 173
++ ++ N G +I+ K+ + G+SKG+ F++F ES+ +A+ NLNG +G + + G
Sbjct: 18 QILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCG 77
Score = 38.9 bits (89), Expect = 0.008, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTF 354
VY+ +I D T+E++ S G + + K+M D + G +KG+ F+ F E ++ AV
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 355 HGYML 359
+GY L
Sbjct: 65 NGYQL 69
Score = 38.9 bits (89), Expect = 0.008, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 41/70 (58%), Gaps = 1/70 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
+++ ++ D TEE +++ S G + +L + D + G S+G+ F+ F + + + A+ +
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 252 NGSVIGSKVL 261
NG +GS+ L
Sbjct: 65 NGYQLGSRFL 74
Score = 36.2 bits (82), Expect = 0.057, Method: Composition-based stats.
Identities = 19/75 (25%), Positives = 37/75 (49%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+Y+G + D T+ ++ D S + ++++ D TGRS Y ++ F + A+
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 74 NHTQLHGKMLRISWS 88
N QL + L+ +S
Sbjct: 65 NGYQLGSRFLKCGYS 79
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNF 238
+F+ L T+E L E F +FG++ L+ RD SRGFGFV F
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 49
Score = 32.0 bits (71), Expect = 1.1, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCF 341
+++ + T E L+ +F Q G + VMRD ++GFGFV F
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 49
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 42/82 (51%)
Query: 293 GSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVN 352
G+ + V N+D V+D +++ F++ GT+ A V D G + G V F +A KA+
Sbjct: 35 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMK 94
Query: 353 TFHGYMLHRKPLYVAIAQRKED 374
+ G L +P+ + + + D
Sbjct: 95 QYKGVPLDGRPMDIQLVASQID 116
Score = 37.0 bits (84), Expect = 0.036, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 33/61 (54%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L + NLD V++ + E F++FG + + D +G S G V+F+ DA +A++
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYK 97
Query: 253 G 253
G
Sbjct: 98 G 98
Score = 35.8 bits (81), Expect = 0.070, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 28/63 (44%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
A L V NL + + +QE+F FG + V G+S G V FE A A++
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQ 95
Query: 160 LNG 162
G
Sbjct: 96 YKG 98
Score = 33.1 bits (74), Expect = 0.53, Method: Composition-based stats.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 10 TPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRA 69
T A L V +L V+D ++ + F+EF +L V D +GRS V+F DA++A
Sbjct: 34 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKA 92
Query: 70 IEVKNHTQLHGKMLRI 85
++ L G+ + I
Sbjct: 93 MKQYKGVPLDGRPMDI 108
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 42/82 (51%)
Query: 293 GSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVN 352
G+ + V N+D V+D +++ F++ GT+ A V D G + G V F +A KA+
Sbjct: 35 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMK 94
Query: 353 TFHGYMLHRKPLYVAIAQRKED 374
+ G L +P+ + + + D
Sbjct: 95 QYKGVPLDGRPMDIQLVASQID 116
Score = 37.0 bits (84), Expect = 0.034, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 33/61 (54%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L + NLD V++ + E F++FG + + D +G S G V+F+ DA +A++
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYK 97
Query: 253 G 253
G
Sbjct: 98 G 98
Score = 35.8 bits (81), Expect = 0.066, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 28/63 (44%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
A L V NL + + +QE+F FG + V G+S G V FE A A++
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQ 95
Query: 160 LNG 162
G
Sbjct: 96 YKG 98
Score = 33.1 bits (74), Expect = 0.49, Method: Composition-based stats.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 10 TPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRA 69
T A L V +L V+D ++ + F+EF +L V D +GRS V+F DA++A
Sbjct: 34 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKA 92
Query: 70 IEVKNHTQLHGKMLRI 85
++ L G+ + I
Sbjct: 93 MKQYKGVPLDGRPMDI 108
>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 = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
LF+ + + TEE + +KF+++G+I ++ + D G +G+ V ++ +A+ A+E +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 252 NGS 254
NG
Sbjct: 70 NGQ 72
Score = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 40/84 (47%)
Query: 5 PPTATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPH 64
P + L+V +H + T+ ++ D F+E+ + ++ + D TG Y V + +
Sbjct: 1 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYK 60
Query: 65 DAIRAIEVKNHTQLHGKMLRISWS 88
+A A+E N L G+ + + W
Sbjct: 61 EAQAAMEGLNGQDLMGQPISVDWC 84
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIENL 160
LFV + E + + F +G I + + G KG+ V++ET + A AA+E L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 161 NG 162
NG
Sbjct: 70 NG 71
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 115 RLQEMFQNFGNIISCKVA-TSEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRIYVG 173
++ ++ N G +I+ K+ + G+SKG+ F++F ES+ +A+ NLNG +G + + G
Sbjct: 19 QILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCG 78
Score = 38.9 bits (89), Expect = 0.008, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVNTF 354
VY+ +I D T+E++ S G + + K+M D + G +KG+ F+ F E ++ AV
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 355 HGYML 359
+GY L
Sbjct: 66 NGYQL 70
Score = 38.9 bits (89), Expect = 0.009, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 41/70 (58%), Gaps = 1/70 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
+++ ++ D TEE +++ S G + +L + D + G S+G+ F+ F + + + A+ +
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 252 NGSVIGSKVL 261
NG +GS+ L
Sbjct: 66 NGYQLGSRFL 75
Score = 36.2 bits (82), Expect = 0.058, Method: Composition-based stats.
Identities = 19/75 (25%), Positives = 37/75 (49%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
+Y+G + D T+ ++ D S + ++++ D TGRS Y ++ F + A+
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 74 NHTQLHGKMLRISWS 88
N QL + L+ +S
Sbjct: 66 NGYQLGSRFLKCGYS 80
>pdb|1A9N|B Chain B, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
pdb|1A9N|D Chain D, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
Length = 96
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 40/83 (48%), Gaps = 6/83 (7%)
Query: 296 VYVKNIDDDVTDEELK----AHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAV 351
+Y+ N++D + EELK A FSQ G + ++ K +G FV F ++ A+
Sbjct: 9 IYINNMNDKIKKEELKRSLYALFSQFGHVVDIVALKTMK--MRGQAFVIFKELGSSTNAL 66
Query: 352 NTFHGYMLHRKPLYVAIAQRKED 374
G+ + KP+ + A+ D
Sbjct: 67 RQLQGFPFYGKPMRIQYAKTDSD 89
>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 = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
LF+ + + TEE + +KF+++G+I ++ + D G +G+ V ++ +A+ A+E +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 252 NGS 254
NG
Sbjct: 72 NGQ 74
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 40/84 (47%)
Query: 5 PPTATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPH 64
P + L+V +H + T+ ++ D F+E+ + ++ + D TG Y V + +
Sbjct: 3 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYK 62
Query: 65 DAIRAIEVKNHTQLHGKMLRISWS 88
+A A+E N L G+ + + W
Sbjct: 63 EAQAAMEGLNGQDLMGQPISVDWC 86
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIENL 160
LFV + E + + F +G I + + G KG+ V++ET + A AA+E L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 161 NG 162
NG
Sbjct: 72 NG 73
>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 = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
LF+ + + TEE + +KF+++G+I ++ + D G +G+ V ++ +A+ A+E +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 252 NG 253
NG
Sbjct: 70 NG 71
Score = 38.1 bits (87), Expect = 0.014, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 38/74 (51%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L+V +H + T+ ++ D F+E+ + ++ + D TG Y V + + +A A+E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 74 NHTQLHGKMLRISW 87
N L G+ + + W
Sbjct: 70 NGQDLMGQPISVDW 83
Score = 34.3 bits (77), Expect = 0.24, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIENL 160
LFV + E + + F +G I + + G KG+ V++ET + A AA+E L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 161 NGTTVGDKRIYV 172
NG + + I V
Sbjct: 70 NGQDLMGQPISV 81
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
LF+ + + TEE + +KF+++G+I ++ + D G +G+ V ++ +A+ A+E +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 252 NG 253
NG
Sbjct: 70 NG 71
Score = 38.1 bits (87), Expect = 0.017, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 38/74 (51%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L+V +H + T+ ++ D F+E+ + ++ + D TG Y V + + +A A+E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 74 NHTQLHGKMLRISW 87
N L G+ + + W
Sbjct: 70 NGQDLMGQPISVDW 83
Score = 33.9 bits (76), Expect = 0.28, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIENL 160
LFV + E + + F +G I + + G KG+ V++ET + A AA+E L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 161 NGTTVGDKRIYV 172
NG + + I V
Sbjct: 70 NGQDLMGQPISV 81
>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 = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
LF+ + + TEE + +KF+++G+I ++ + D G +G+ V ++ +A+ A+E +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 252 NG 253
NG
Sbjct: 85 NG 86
Score = 37.7 bits (86), Expect = 0.018, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 38/74 (51%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L+V +H + T+ ++ D F+E+ + ++ + D TG Y V + + +A A+E
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 74 NHTQLHGKMLRISW 87
N L G+ + + W
Sbjct: 85 NGQDLMGQPISVDW 98
Score = 33.9 bits (76), Expect = 0.30, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIENL 160
LFV + E + + F +G I + + G KG+ V++ET + A AA+E L
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 161 NGTTVGDKRIYV 172
NG + + I V
Sbjct: 85 NGQDLMGQPISV 96
>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 = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 43/84 (51%), Gaps = 8/84 (9%)
Query: 7 TATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDA 66
T T + L+VG+L PD+T+ E+ F ++ V + KD +G++ + A
Sbjct: 11 TFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG------FGFIRLETRTLA 64
Query: 67 -IRAIEVKNHTQLHGKMLRISWSC 89
I +E+ N L GK LR+ ++C
Sbjct: 65 EIAKVELDN-MPLRGKQLRVRFAC 87
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 5/50 (10%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDN 240
+ LF+ NL D+TEE + + F K+GK + I +D +GFGF+ +
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-----KGFGFIRLET 60
Score = 32.7 bits (73), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 34/76 (44%), Gaps = 5/76 (6%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
S ++V N+ D+T+EE++ F + G + +D KGFGF+ + A A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-----KGFGFIRLETRTLAEIAKVE 70
Query: 354 FHGYMLHRKPLYVAIA 369
L K L V A
Sbjct: 71 LDNMPLRGKQLRVRFA 86
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 6/89 (6%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
+ LFV NL I ++++F+ +G K K KG GF++ ET A A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYG-----KAGEVFIHKDKGFGFIRLETRTLAEIAKVE 70
Query: 160 LNGTTVGDKRIYVGRFIKKSDRVLPSPAA 188
L+ + K++ V RF S + P++
Sbjct: 71 LDNMPLRGKQLRV-RFACHSASLTSGPSS 98
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 39/73 (53%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
+ V N+D V+D +++ F++ GT+ A V D G + G V F +A KA+ ++
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN 90
Query: 356 GYMLHRKPLYVAI 368
G L +P+ + +
Sbjct: 91 GVPLDGRPMNIQL 103
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 34/61 (55%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L + NLD V++ + E F++FG + + D +G S G V+F+ DA +A++ N
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN 90
Query: 253 G 253
G
Sbjct: 91 G 91
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 29/62 (46%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
L V NL + + +QE+F FG + V G+S G V FE + A A++ N
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN 90
Query: 162 GT 163
G
Sbjct: 91 GV 92
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L V +L V+D ++ + F+EF +L V D +GRS V+F DA++A++
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQY 89
Query: 74 NHTQLHGKMLRI 85
N L G+ + I
Sbjct: 90 NGVPLDGRPMNI 101
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 8/75 (10%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L+VG++ P T+ EL F E+ + + KD Y +V+ DA+ AI
Sbjct: 13 LHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRGL 64
Query: 74 NHTQLHGKMLRISWS 88
++T+ GK + + S
Sbjct: 65 DNTEFQGKRMHVQLS 79
>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 = 39.3 bits (90), Expect = 0.007, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
LF+ + + TEE + +KF+++G+I ++ + D G +G+ V ++ +A+ A+E +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 252 NG 253
NG
Sbjct: 86 NG 87
Score = 37.4 bits (85), Expect = 0.024, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 38/74 (51%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L+V +H + T+ ++ D F+E+ + ++ + D TG Y V + + +A A+E
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 74 NHTQLHGKMLRISW 87
N L G+ + + W
Sbjct: 86 NGQDLMGQPISVDW 99
Score = 33.5 bits (75), Expect = 0.39, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSE-DGKSKGHGFVQFETEESANAAIENL 160
LFV + E + + F +G I + + G KG+ V++ET + A AA+E L
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 161 NGTTVGDKRIYV 172
NG + + I V
Sbjct: 86 NGQDLMGQPISV 97
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 9/78 (11%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFK-SLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIE- 71
LY+G+L P VT +L F + K LA + K + Y +V++ + AIRAIE
Sbjct: 11 LYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLK-------SGYAFVDYPDQNWAIRAIET 63
Query: 72 VKNHTQLHGKMLRISWSC 89
+ +LHGK++ + +S
Sbjct: 64 LSGKVELHGKIMEVDYSV 81
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 7/77 (9%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
+ ++V+ DV + EL F G + K++ GF FV F E A+KA+
Sbjct: 32 TRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL-------NGFAFVEFEEAESAAKAIEE 84
Query: 354 FHGYMLHRKPLYVAIAQ 370
HG +PL V ++
Sbjct: 85 VHGKSFANQPLEVVYSK 101
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 7/82 (8%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEA 250
T LF++ DV E L E F FG + + I GF FV F+ + A +A+E
Sbjct: 32 TRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN-------GFAFVEFEEAESAAKAIEE 84
Query: 251 MNGSVIGSKVLYAARAQKKAER 272
++G ++ L ++ A+R
Sbjct: 85 VHGKSFANQPLEVVYSKLPAKR 106
Score = 36.6 bits (83), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 7/71 (9%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
LFV+ + L E+F FG + K+ G FV+FE ESA AIE ++
Sbjct: 34 LFVRPFPLDVQESELNEIFGPFGPMKEVKILN-------GFAFVEFEEAESAAKAIEEVH 86
Query: 162 GTTVGDKRIYV 172
G + ++ + V
Sbjct: 87 GKSFANQPLEV 97
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 7/77 (9%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
+ ++V+ DV + EL F G + K++ GF FV F E A+KA+
Sbjct: 5 TRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN-------GFAFVEFEEAESAAKAIEE 57
Query: 354 FHGYMLHRKPLYVAIAQ 370
HG +PL V ++
Sbjct: 58 VHGKSFANQPLEVVYSK 74
Score = 36.2 bits (82), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 7/71 (9%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEA 250
T LF++ DV E L E F FG + + I GF FV F+ + A +A+E
Sbjct: 5 TRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN-------GFAFVEFEEAESAAKAIEE 57
Query: 251 MNGSVIGSKVL 261
++G ++ L
Sbjct: 58 VHGKSFANQPL 68
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 7/71 (9%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
LFV+ + L E+F FG + K+ G FV+FE ESA AIE ++
Sbjct: 7 LFVRPFPLDVQESELNEIFGPFGPMKEVKILN-------GFAFVEFEEAESAAKAIEEVH 59
Query: 162 GTTVGDKRIYV 172
G + ++ + V
Sbjct: 60 GKSFANQPLEV 70
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 7/65 (10%)
Query: 97 SGVANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAA 156
SG+ LF+ NL ++ +F+ +G ++ C + K +GFV E + +A A
Sbjct: 6 SGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII-------KNYGFVHIEDKTAAEDA 58
Query: 157 IENLN 161
I NL+
Sbjct: 59 IRNLH 63
Score = 35.4 bits (80), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 17/77 (22%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
+++ N+ + T++E+++ F Q G + ++++ +GFV A A+ H
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDIIKN-------YGFVHIEDKTAAEDAIRNLH 63
Query: 356 GYMLHRKPLYVAIAQRK 372
Y LH + V ++ K
Sbjct: 64 HYKLHGVNINVEASKNK 80
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 34/68 (50%), Gaps = 7/68 (10%)
Query: 185 SPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDA 244
S ++ LF+ NL + TE+ + F ++GK+ I ++ +GFV+ ++ A
Sbjct: 3 SGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKN-------YGFVHIEDKTAA 55
Query: 245 RRALEAMN 252
A+ ++
Sbjct: 56 EDAIRNLH 63
Score = 28.9 bits (63), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 35/75 (46%), Gaps = 8/75 (10%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L++G+L + T+ E+ F ++ + + K+ YG+V+ A AI
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--------YGFVHIEDKTAAEDAIRNL 62
Query: 74 NHTQLHGKMLRISWS 88
+H +LHG + + S
Sbjct: 63 HHYKLHGVNINVEAS 77
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 294 SNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRD-EKGINKGFGFVCFSSPEEASKAVN 352
+ ++V I + + EL+ +F + G +T ++ D EK +GFGF+ F + +AVN
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN 70
Query: 353 T-FHGYM 358
FH M
Sbjct: 71 MHFHDIM 77
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 1/69 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRALEAM 251
+F+ + + E L E F KFG + +++ D E RGFGF+ F++ +A+
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMH 72
Query: 252 NGSVIGSKV 260
++G KV
Sbjct: 73 FHDIMGKKV 81
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 39/74 (52%), Gaps = 2/74 (2%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISC-KVATSEDGKSKGHGFVQFETEESANAAIENL 160
+FV + + L+E F+ FG + + +E + +G GF+ FE E+S + A+ N+
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV-NM 71
Query: 161 NGTTVGDKRIYVGR 174
+ + K++ V R
Sbjct: 72 HFHDIMGKKVEVKR 85
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 5/66 (7%)
Query: 100 ANLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIEN 159
++ + + + +++ F FG I+ +V KG+ FV+F T ESA AI +
Sbjct: 26 CTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVF-----PEKGYSFVRFSTHESAAHAIVS 80
Query: 160 LNGTTV 165
+NGTT+
Sbjct: 81 VNGTTI 86
Score = 37.4 bits (85), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 39/91 (42%), Gaps = 6/91 (6%)
Query: 3 VVPPTATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLS 62
VV ++ ++Y G + +TD + FS F + +RV + Y +V F +
Sbjct: 17 VVNQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKG------YSFVRFST 70
Query: 63 PHDAIRAIEVKNHTQLHGKMLRISWSCRDPD 93
A AI N T + G +++ W PD
Sbjct: 71 HESAAHAIVSVNGTTIEGHVVKCYWGKESPD 101
Score = 35.8 bits (81), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 42/82 (51%), Gaps = 5/82 (6%)
Query: 180 DRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFD 239
+ V+ + K ++ + S +T++ + + FS FG+I + + + +G+ FV F
Sbjct: 15 EDVVNQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE-----KGYSFVRFS 69
Query: 240 NPDDARRALEAMNGSVIGSKVL 261
+ A A+ ++NG+ I V+
Sbjct: 70 THESAAHAIVSVNGTTIEGHVV 91
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 5/68 (7%)
Query: 292 KGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAV 351
K VY I +TD+ ++ FS G I +V + KG+ FV FS+ E A+ A+
Sbjct: 24 KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE-----KGYSFVRFSTHESAAHAI 78
Query: 352 NTFHGYML 359
+ +G +
Sbjct: 79 VSVNGTTI 86
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 38.5 bits (88), Expect = 0.012, Method: Composition-based stats.
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 8/69 (11%)
Query: 182 VLPSPAAKYTNLFMKNLD-SDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDN 240
++P + + LF+ NL +V++E L FS +G I + I FGF+ FDN
Sbjct: 14 LVPRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI-------KNAFGFIQFDN 66
Query: 241 PDDARRALE 249
P R A+E
Sbjct: 67 PQSVRDAIE 75
Score = 28.9 bits (63), Expect = 8.0, Method: Composition-based stats.
Identities = 19/83 (22%), Positives = 38/83 (45%), Gaps = 9/83 (10%)
Query: 2 AVVPPTATTPASLYVGDLH-PDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNF 60
+VP + + L++G+L +V+ +LF FS + + + + +G++ F
Sbjct: 13 GLVPRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI--------KNAFGFIQF 64
Query: 61 LSPHDAIRAIEVKNHTQLHGKML 83
+P AIE ++ GK L
Sbjct: 65 DNPQSVRDAIECESQEMNFGKKL 87
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 55/99 (55%), Gaps = 13/99 (13%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L+++NL +T E + + F K+G I + + +RG +V +++ DA+ A++ ++
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVG--NTPETRGTAYVVYEDIFDAKNAVDHLS 68
Query: 253 GSVIGSK---VLY--AARA------QKKAEREQILRHQF 280
G + ++ VLY A RA +KK E+ ++L+ ++
Sbjct: 69 GFNVSNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKY 107
Score = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 22/101 (21%), Positives = 45/101 (44%), Gaps = 8/101 (7%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
+Y++N+ +T EE+ F + G I +V + +G +V + +A AV+
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPE--TRGTAYVVYEDIFDAKNAVDHLS 68
Query: 356 GYMLHRKPLYVAIA------QRKEDRQAHLQLQYAQHMAGI 390
G+ + + L V Q+ + ++ QL+ + GI
Sbjct: 69 GFNVSNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKYGI 109
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 38.1 bits (87), Expect = 0.014, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 189 KYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNF 238
K ++L + L TE+ L E FS FG++ + + +D + G S+GFGFV F
Sbjct: 14 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRF 64
Score = 38.1 bits (87), Expect = 0.015, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Query: 292 KGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEK-GINKGFGFVCFSSPEEASKA 350
K S++ V + T+++LK +FS G + +V +D K G +KGFGFV F+ E K
Sbjct: 14 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKV 73
Query: 351 VNTFH 355
++ H
Sbjct: 74 MSQRH 78
Score = 33.9 bits (76), Expect = 0.31, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 39/75 (52%), Gaps = 8/75 (10%)
Query: 24 TDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVKNHTQLHGKML 83
T+ +L + FS F + V+V KD TG S +G+V F +VK +Q H M+
Sbjct: 28 TEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTE-----YETQVKVMSQRH--MI 80
Query: 84 RISW-SCRDPDARKS 97
W C+ P++++S
Sbjct: 81 DGRWCDCKLPNSKQS 95
Score = 30.0 bits (66), Expect = 3.9, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 116 LQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEES 152
L+E F FG ++ +V + G SKG GFV+F E+
Sbjct: 32 LKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYET 69
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 38.1 bits (87), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 41/77 (53%), Gaps = 8/77 (10%)
Query: 186 PAAKYTNLFMKNLDSDVTEEHLVEK-FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDA 244
P + + +F+ NL++ + ++ VE FSK+G++A + +G+ FV + N A
Sbjct: 23 PKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV-------HKGYAFVQYSNERHA 75
Query: 245 RRALEAMNGSVIGSKVL 261
R A+ NG V+ + L
Sbjct: 76 RAAVLGENGRVLAGQTL 92
Score = 32.3 bits (72), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 43/92 (46%), Gaps = 9/92 (9%)
Query: 96 KSGVANLFVKNLIES-IDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESAN 154
KS + +F+ NL + + ++ +F +G + C V KG+ FVQ+ E A
Sbjct: 24 KSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV-------HKGYAFVQYSNERHAR 76
Query: 155 AAIENLNGTTVGDKRIYVGRFIK-KSDRVLPS 185
AA+ NG + + + + + K DR PS
Sbjct: 77 AAVLGENGRVLAGQTLDINMAGEPKPDRSGPS 108
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 38.1 bits (87), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTS-RGFGFVNFDNPDDARRALEA 250
L + NL + + L F K+G++ + I R+ + + RGF FV F + DA+ A A
Sbjct: 15 TLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAA 74
Query: 251 MNGSVIGSKVL 261
M+G+ + + L
Sbjct: 75 MDGAELDGREL 85
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 190 YTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARD-ENGTSRGFGFVNFDNPDDARRAL 248
+T +F+ L T+ L + F FG I ++ D + G SRG+GFV + A RA
Sbjct: 17 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERAC 76
Query: 249 EAMNGSVIGSK 259
+ N + G K
Sbjct: 77 KDPNPIIDGRK 87
Score = 35.4 bits (80), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATS-EDGKSKGHGFVQFETEESANAAIENL 160
+FV L + L++ F+ FG+I V T + GKS+G+GFV +A A ++
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP 79
Query: 161 N 161
N
Sbjct: 80 N 80
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 28/66 (42%)
Query: 9 TTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIR 68
TT ++VG L TD L F F + V D TG+S YG+V A R
Sbjct: 15 TTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAER 74
Query: 69 AIEVKN 74
A + N
Sbjct: 75 ACKDPN 80
>pdb|3NTW|A Chain A, Structure Of The Mlle Domain Of Edd In Complex With A Pam2
Peptide From Paip1
pdb|3NTW|C Chain C, Structure Of The Mlle Domain Of Edd In Complex With A Pam2
Peptide From Paip1
Length = 65
Score = 37.7 bits (86), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%)
Query: 549 KQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXXXXXXXXXXAVKVEEAVQVL 604
+Q LGERLYP V+ +P +KITGM +VEEA++++
Sbjct: 7 RQALGERLYPRVQAMQPAFASKITGMLLELSPAQLLLLLASEDSLRARVEEAMELI 62
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 37.7 bits (86), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 8/69 (11%)
Query: 182 VLPSPAAKYTNLFMKNLD-SDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDN 240
++P + + LF+ NL +V++E L FS +G I + I FGF+ FDN
Sbjct: 14 LVPRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI-------KNAFGFIQFDN 66
Query: 241 PDDARRALE 249
P R A+E
Sbjct: 67 PQSVRDAIE 75
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/91 (21%), Positives = 41/91 (45%), Gaps = 9/91 (9%)
Query: 2 AVVPPTATTPASLYVGDL-HPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNF 60
+VP + + L++G+L +V+ +LF FS + + + + +G++ F
Sbjct: 13 GLVPRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI--------KNAFGFIQF 64
Query: 61 LSPHDAIRAIEVKNHTQLHGKMLRISWSCRD 91
+P AIE ++ GK L + S +
Sbjct: 65 DNPQSVRDAIEXESQEMNFGKKLILEVSSSN 95
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 37.4 bits (85), Expect = 0.025, Method: Composition-based stats.
Identities = 22/60 (36%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 191 TNLFMKNLD-SDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALE 249
+ LF+ NL +V++E L FS +G I + I FGF+ FDNP R A+E
Sbjct: 3 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI-------KNAFGFIQFDNPQSVRDAIE 55
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 37.4 bits (85), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 37/73 (50%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFH 355
+ V N+D V+D +++ F++ GT+ A V D G + G V F +A KA ++
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAXKQYN 91
Query: 356 GYMLHRKPLYVAI 368
G L +P + +
Sbjct: 92 GVPLDGRPXNIQL 104
Score = 37.0 bits (84), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 28/62 (45%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
L V NL + + +QE+F FG + V G+S G V FE + A A + N
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAXKQYN 91
Query: 162 GT 163
G
Sbjct: 92 GV 93
Score = 37.0 bits (84), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 33/61 (54%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L + NLD V++ + E F++FG + + D +G S G V+F+ DA +A + N
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAXKQYN 91
Query: 253 G 253
G
Sbjct: 92 G 92
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
L V +L V+D ++ + F+EF +L V D +GRS V+F DA++A +
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAXKQY 90
Query: 74 NHTQLHGK 81
N L G+
Sbjct: 91 NGVPLDGR 98
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 191 TNLFMKNLD-SDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALE 249
+ LF+ NL +V++E L FS +G I + I FGF+ FDNP R A+E
Sbjct: 11 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI-------KNAFGFIQFDNPQSVRDAIE 63
Query: 250 A 250
Sbjct: 64 C 64
>pdb|1I2T|A Chain A, X-Ray Structure Of The Human Hyperplastic Discs Protein:
An Ortholog Of The C-Terminal Domain Of Poly(A)-Binding
Protein
Length = 61
Score = 37.0 bits (84), Expect = 0.034, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 28/57 (49%)
Query: 548 QKQILGERLYPLVEKHKPDLVAKITGMXXXXXXXXXXXXXXXXXXXAVKVEEAVQVL 604
+Q LGERLYP V+ +P +KITGM +V+EA++++
Sbjct: 1 HRQALGERLYPRVQAMQPAFASKITGMLLELSPAQLLLLLASEDSLRARVDEAMELI 57
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 36.6 bits (83), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 2/98 (2%)
Query: 190 YTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALE 249
Y N + + D ++ L FS+FG+I +L++R RG FV F A AL
Sbjct: 13 YINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLK--MRGQAFVIFKEVSSATNALR 70
Query: 250 AMNGSVIGSKVLYAARAQKKAEREQILRHQFEEKRKER 287
+M G K + A+ ++ ++ F E+ ++R
Sbjct: 71 SMQGFPFYDKPMRIQYAKTDSDIIAKMKGTFVERDRKR 108
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 36.2 bits (82), Expect = 0.053, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
+++ NL ++ + L F +G + S+ +AR+ GF FV F++P DA A+ ++
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVRELD 131
Query: 253 GSVI 256
G +
Sbjct: 132 GRTL 135
Score = 30.0 bits (66), Expect = 3.6, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 4/71 (5%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
++V NL + + L+ F +G + S VA + G FV+FE A A+ L+
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVRELD 131
Query: 162 GTTVGDKRIYV 172
G T+ R+ V
Sbjct: 132 GRTLCGCRVRV 142
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 35.8 bits (81), Expect = 0.065, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
+++ NL ++ + L F +G + S+ +AR+ GF FV F++P DA A+ ++
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVRDLD 131
Query: 253 GSVI 256
G +
Sbjct: 132 GRTL 135
Score = 30.8 bits (68), Expect = 2.2, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
++V NL + + L+ F +G + S VA + G FV+FE A A+ +L+
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVRDLD 131
Query: 162 GTTVGDKRIYV 172
G T+ R+ V
Sbjct: 132 GRTLCGCRVRV 142
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 35.8 bits (81), Expect = 0.068, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTS-RGFGFVNFDNPDDARRALE 249
+F+ L + T E + F +FGK+ ++ D+ RGFGFV F++ D + E
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE 59
Score = 35.4 bits (80), Expect = 0.086, Method: Composition-based stats.
Identities = 21/68 (30%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEK-GINKGFGFVCFSSPEEASKAVNTF 354
++V + + T E++K +F Q G + A +M D+ ++GFGFV F S E+ + V
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFES-EDIVEKVCEI 60
Query: 355 HGYMLHRK 362
H + ++ K
Sbjct: 61 HFHEINNK 68
Score = 29.6 bits (65), Expect = 5.6, Method: Composition-based stats.
Identities = 18/70 (25%), Positives = 34/70 (48%), Gaps = 1/70 (1%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
++VG L + T ++ F +F + + D TT R +G+V F S + E+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 74 NHTQLHGKML 83
H +++ KM+
Sbjct: 62 FH-EINNKMV 70
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 35.8 bits (81), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 41/77 (53%), Gaps = 9/77 (11%)
Query: 296 VYVKNIDDDVTDEELKAHFSQC--GTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
+YV+N+ ++E ++ F+ G + K +RD + FV FS+ E+A +A+
Sbjct: 18 LYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRD-------YAFVHFSNREDAVEAMKA 70
Query: 354 FHGYMLHRKPLYVAIAQ 370
+G +L P+ V +A+
Sbjct: 71 LNGKVLDGSPIEVTLAK 87
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 38/66 (57%), Gaps = 9/66 (13%)
Query: 193 LFMKNLDSDVTEEHLVEKFS--KFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEA 250
L+++NL +EE + ++F+ K G + + RD + FV+F N +DA A++A
Sbjct: 18 LYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRD-------YAFVHFSNREDAVEAMKA 70
Query: 251 MNGSVI 256
+NG V+
Sbjct: 71 LNGKVL 76
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 35.8 bits (81), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 44/92 (47%), Gaps = 2/92 (2%)
Query: 185 SPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIA-SLLIARDENGTSRGFGFVNFDNPDD 243
SP +++K L + +H+++ F K + S+ IA NG + G GFV F N D
Sbjct: 20 SPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEAD 79
Query: 244 ARRALEAMNGSVIGSKVLYAARAQKKAEREQI 275
+ AL + +G++ + KK E+I
Sbjct: 80 YKAAL-CRHKQYMGNRFIQVHPITKKGMLEKI 110
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 35.8 bits (81), Expect = 0.082, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 4/69 (5%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
L KNL +I L+E+F++ I S+DGKSKG +++F++E A +E
Sbjct: 19 LLAKNLSFNITEDELKEVFEDALEI----RLVSQDGKSKGIAYIEFKSEADAEKNLEEKQ 74
Query: 162 GTTVGDKRI 170
G + + +
Sbjct: 75 GAEIDGRSV 83
Score = 35.0 bits (79), Expect = 0.12, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L KNL ++TE+ L E F +I L+++D G S+G ++ F + DA + LE
Sbjct: 19 LLAKNLSFNITEDELKEVFEDALEIR--LVSQD--GKSKGIAYIEFKSEADAEKNLEEKQ 74
Query: 253 GSVIGSK 259
G+ I +
Sbjct: 75 GAEIDGR 81
>pdb|2A3J|A Chain A, Structure Of Urndesign, A Complete Computational Redesign
Of Human U1a Protein
Length = 127
Score = 35.4 bits (80), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 39/87 (44%), Gaps = 6/87 (6%)
Query: 296 VYVKNIDDDVTDEELKAHF----SQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAV 351
V + NI+ +V E+L+A S G I ++ D N G ++ F++ E A V
Sbjct: 32 VLITNINPEVPKEKLQALLYALASSQGDIL--DIVVDLSDDNSGKAYIVFATQESAQAFV 89
Query: 352 NTFHGYMLHRKPLYVAIAQRKEDRQAH 378
F GY PL + ++ + + A
Sbjct: 90 EAFQGYPFQGNPLVITFSETPQSQVAE 116
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 35.4 bits (80), Expect = 0.092, Method: Composition-based stats.
Identities = 26/99 (26%), Positives = 54/99 (54%), Gaps = 13/99 (13%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L+++NL +T E + + F K+G I + + +RG +V +++ DA+ A + ++
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPE--TRGTAYVVYEDIFDAKNACDHLS 78
Query: 253 GSVIGSK---VLY--AARA------QKKAEREQILRHQF 280
G + ++ VLY A RA +KK E+ ++L+ ++
Sbjct: 79 GFNVCNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKY 117
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 101 NLFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGK-SKGHGFVQFETEESANAAI 157
+F++NL + L E+ Q FG++ +V D + SKG F QF T+E+A +
Sbjct: 17 TVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCL 74
Score = 33.9 bits (76), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 183 LPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASL-LIARDENGTSRGFGFVNFDNP 241
LPS + +F++NL D EE L E +FG + + ++ + S+G F F
Sbjct: 8 LPSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQ 67
Query: 242 DDARRALEAMN 252
+ A++ L A +
Sbjct: 68 EAAQKCLAAAS 78
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 33/65 (50%), Gaps = 4/65 (6%)
Query: 305 VTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVNTFHGYML---H 360
V + L + FS+ G + + + DE G KGF FV S +A K + +FHG L H
Sbjct: 24 VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKH 83
Query: 361 RKPLY 365
R LY
Sbjct: 84 RLFLY 88
Score = 33.5 bits (75), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 202 VTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKV 260
V ++ L FSK GK+ ++ DE G ++GF FV + +DA++ +++ +G + K
Sbjct: 24 VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKH 83
Query: 261 LYAARAQKKAER 272
K ER
Sbjct: 84 RLFLYTMKDVER 95
>pdb|1OIA|A Chain A, U1a Rnp Domain 1-95
pdb|1OIA|B Chain B, U1a Rnp Domain 1-95
Length = 95
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 190 YTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALE 249
Y N + + D ++ L FS+FG+I +L++R + RG FV F A AL
Sbjct: 13 YINNLNEKIKKDELKKSLYAIFSQFGQILDILVSR--SLKMRGQAFVIFKEVSSATNALR 70
Query: 250 AMNG 253
+M G
Sbjct: 71 SMQG 74
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 34.3 bits (77), Expect = 0.20, Method: Composition-based stats.
Identities = 26/99 (26%), Positives = 53/99 (53%), Gaps = 13/99 (13%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L ++NL +T E + + F K+G I + + +RG +V +++ DA+ A + ++
Sbjct: 21 LMIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPE--TRGTAYVVYEDIFDAKNACDHLS 78
Query: 253 GSVIGSK---VLY--AARA------QKKAEREQILRHQF 280
G + ++ VLY A RA +KK E+ ++L+ ++
Sbjct: 79 GFNVCNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKY 117
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 190 YTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALE 249
Y N + + D ++ L FS+FG+I +L++R + RG FV F A AL
Sbjct: 12 YINNLNEKIKKDELKKSLYAIFSQFGQILDILVSR--SLKMRGQAFVIFKEVSSATNALR 69
Query: 250 AMNG 253
+M G
Sbjct: 70 SMQG 73
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 33/65 (50%), Gaps = 4/65 (6%)
Query: 305 VTDEELKAHFSQCGTITSAKVMRDE-KGINKGFGFVCFSSPEEASKAVNTFHGYML---H 360
V + L + FS+ G + + + DE G KGF FV S +A K + +FHG L H
Sbjct: 24 VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKH 83
Query: 361 RKPLY 365
R LY
Sbjct: 84 RLFLY 88
Score = 33.1 bits (74), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 202 VTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAMNG 253
V ++ L FSK GK+ ++ DE G ++GF FV + +DA++ +++ +G
Sbjct: 24 VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHG 76
>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 = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 221 LIARDENGTSRGFGFVNFDNPDDARRALEAMNGS--VIGSKV 260
L+ +G SRGF FV F + DA R +EA S ++G KV
Sbjct: 34 LMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKV 75
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 6/65 (9%)
Query: 193 LFMKNLDSDVTEEHLVEK----FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
+++ NL+ + ++ L + FS+FG+I +L++R + RG FV F A AL
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR--SLKMRGQAFVIFKEVSSATNAL 69
Query: 249 EAMNG 253
+M G
Sbjct: 70 RSMQG 74
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 6/65 (9%)
Query: 193 LFMKNLDSDVTEEHLVEK----FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
+++ NL+ + ++ L + FS+FG+I +L++R + RG FV F A AL
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR--SLKMRGQAFVIFKEVSSATNAL 69
Query: 249 EAMNG 253
+M G
Sbjct: 70 RSMQG 74
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 6/65 (9%)
Query: 193 LFMKNLDSDVTEEHLVEK----FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
+++ NL+ + ++ L + FS+FG+I +L++R + RG FV F A AL
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR--SLKMRGQAFVIFKEVSSATNAL 68
Query: 249 EAMNG 253
+M G
Sbjct: 69 RSMQG 73
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 6/65 (9%)
Query: 193 LFMKNLDSDVTEEHLVEK----FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
+++ NL+ + ++ L + FS+FG+I +L++R + RG FV F A AL
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR--SLKMRGQAFVIFKEVSSATNAL 68
Query: 249 EAMNG 253
+M G
Sbjct: 69 RSMQG 73
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 6/65 (9%)
Query: 193 LFMKNLDSDVTEEHLVEK----FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
+++ NL+ + ++ L + FS+FG+I +L++R + RG FV F A AL
Sbjct: 9 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR--SLKMRGQAFVIFKEVSSATNAL 66
Query: 249 EAMNG 253
+M G
Sbjct: 67 RSMQG 71
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 6/65 (9%)
Query: 193 LFMKNLDSDVTEEHLVEK----FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
+++ NL+ + ++ L + FS+FG+I +L++R + RG FV F A AL
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR--SLKMRGQAFVIFKEVSSATNAL 68
Query: 249 EAMNG 253
+M G
Sbjct: 69 RSMQG 73
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 33.9 bits (76), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 6/65 (9%)
Query: 193 LFMKNLDSDVTEEHLVEK----FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
+++ NL+ + ++ L + FS+FG+I +L++R + RG FV F A AL
Sbjct: 8 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR--SLKMRGQAFVIFKEVSSATNAL 65
Query: 249 EAMNG 253
+M G
Sbjct: 66 RSMQG 70
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 33.5 bits (75), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 6/65 (9%)
Query: 193 LFMKNLDSDVTEEHLVEK----FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
+++ NL+ + ++ L + FS+FG+I +L++R + RG FV F A AL
Sbjct: 6 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR--SLKMRGQAFVIFKEVSSATNAL 63
Query: 249 EAMNG 253
+M G
Sbjct: 64 RSMQG 68
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 33.5 bits (75), Expect = 0.35, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
L+++NL +T E + + F K+G I + + +RG +V +++ DA+ A + ++
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPE--TRGTAYVVYEDIFDAKNACDHLS 72
Query: 253 GSVIGSKVL 261
G + ++ L
Sbjct: 73 GFNVCNRYL 81
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 33.5 bits (75), Expect = 0.36, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 2/64 (3%)
Query: 190 YTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALE 249
Y N + + D ++ L FS+FG+I +L++R RG FV F A AL
Sbjct: 8 YINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLK--MRGQAFVIFKEVSSATNALR 65
Query: 250 AMNG 253
+M G
Sbjct: 66 SMQG 69
>pdb|2K3K|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd1
Length = 104
Score = 33.5 bits (75), Expect = 0.36, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 42/89 (47%), Gaps = 6/89 (6%)
Query: 296 VYVKNID----DDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAV 351
+Y+ N++ + + L A FSQ G I ++ K +G FV F AS A+
Sbjct: 9 IYINNLNEKIKKEELKKSLYAIFSQFGQILDIVALKTLK--MRGQAFVIFKEIGSASNAL 66
Query: 352 NTFHGYMLHRKPLYVAIAQRKEDRQAHLQ 380
T G+ + KP+ +A ++ D A ++
Sbjct: 67 RTMQGFPFYDKPMQIAYSKSDSDIVAKIK 95
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 33.5 bits (75), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 109 ESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLNGTTV 165
E + L+ F FGNII + + FV +E ESA+ A+ LNGT V
Sbjct: 47 EDMTPTLLRGAFSPFGNIIDLSM-----DPPRNCAFVTYEKMESADQAVAELNGTQV 98
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 33.5 bits (75), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 108 IESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLNG 162
+E + NV + ++F FG I + EDGK+KG+ F+++ + A A++N +G
Sbjct: 31 LEKLKNV-IHKIFSKFGKI-TNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADG 83
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 314 FSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFHGYMLHRK 362
FS+ G IT+ +E G KG+ F+ ++SP A AV GY L ++
Sbjct: 42 FSKFGKITN-DFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQ 89
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 33.5 bits (75), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 108 IESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLNG 162
+E + NV + ++F FG I + EDGK+KG+ F+++ + A A++N +G
Sbjct: 17 LEKLKNV-IHKIFSKFGKI-TNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADG 69
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 314 FSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNTFHGYMLHRK 362
FS+ G IT+ +E G KG+ F+ ++SP A AV GY L ++
Sbjct: 28 FSKFGKITN-DFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQ 75
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 33.1 bits (74), Expect = 0.52, Method: Composition-based stats.
Identities = 20/82 (24%), Positives = 39/82 (47%), Gaps = 3/82 (3%)
Query: 6 PTATTPASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHD 65
P +YVG+L PD+ ++ D F ++ ++ + + K+ G + +V F P D
Sbjct: 17 PAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL-KNRRGGPP--FAFVEFEDPRD 73
Query: 66 AIRAIEVKNHTQLHGKMLRISW 87
A A+ ++ G LR+ +
Sbjct: 74 AEDAVYGRDGYDYDGYRLRVEF 95
Score = 32.0 bits (71), Expect = 1.1, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 31/61 (50%), Gaps = 2/61 (3%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRALEAMN 252
+++ NL D+ + + + F K+G I + + G F FV F++P DA A+ +
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPP--FAFVEFEDPRDAEDAVYGRD 82
Query: 253 G 253
G
Sbjct: 83 G 83
>pdb|2QFV|A Chain A, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)-Dependent Isocitrate Dehydrogenase
In Complex With Nadp(+)
pdb|2QFV|B Chain B, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)-Dependent Isocitrate Dehydrogenase
In Complex With Nadp(+)
pdb|2QFV|C Chain C, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)-Dependent Isocitrate Dehydrogenase
In Complex With Nadp(+)
pdb|2QFV|D Chain D, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)-Dependent Isocitrate Dehydrogenase
In Complex With Nadp(+)
pdb|2QFW|A Chain A, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Isocitrate
pdb|2QFW|B Chain B, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Isocitrate
pdb|2QFW|C Chain C, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Isocitrate
pdb|2QFW|D Chain D, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Isocitrate
pdb|2QFW|E Chain E, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Isocitrate
pdb|2QFW|F Chain F, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Isocitrate
pdb|2QFX|A Chain A, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Nadph, A- Ketoglutarate
And Ca(2+)
pdb|2QFX|B Chain B, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Nadph, A- Ketoglutarate
And Ca(2+)
pdb|2QFX|C Chain C, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Nadph, A- Ketoglutarate
And Ca(2+)
pdb|2QFX|D Chain D, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Nadph, A- Ketoglutarate
And Ca(2+)
pdb|2QFX|E Chain E, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Nadph, A- Ketoglutarate
And Ca(2+)
pdb|2QFX|F Chain F, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With Nadph, A- Ketoglutarate
And Ca(2+)
pdb|2QFY|A Chain A, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With A-ketoglutarate
pdb|2QFY|B Chain B, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With A-ketoglutarate
pdb|2QFY|C Chain C, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With A-ketoglutarate
pdb|2QFY|D Chain D, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With A-ketoglutarate
pdb|2QFY|E Chain E, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With A-ketoglutarate
pdb|2QFY|F Chain F, Crystal Structure Of Saccharomyces Cerevesiae
Mitochondrial Nadp(+)- Dependent Isocitrate
Dehydrogenase In Complex With A-ketoglutarate
Length = 427
Score = 32.7 bits (73), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 59/249 (23%), Positives = 96/249 (38%), Gaps = 44/249 (17%)
Query: 118 EMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLNGTTV------------ 165
E + +G I C T ++ + K F + +S N I N+ G TV
Sbjct: 77 EAIKKYGVGIKCATITPDEARVKE--FNLHKMWKSPNGTIRNILGGTVFREPIVIPRIPR 134
Query: 166 ----GDKRIYVGRF-----IKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGK 216
+K I +GR K +D ++P P + L K D + ++ + G
Sbjct: 135 LVPRWEKPIIIGRHAHGDQYKATDTLIPGPGS--LELVYKPSDPTTAQPQTLKVYDYKGS 192
Query: 217 -IASLLIARDENGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKVLYAAR---------- 265
+A + DE + GF +F D + L + I K Y R
Sbjct: 193 GVAMAMYNTDE--SIEGFAHSSFKLAIDKKLNLFLSTKNTILKK--YDGRFKDIFQEVYE 248
Query: 266 AQKKAEREQI---LRHQFEEKRKERILKYKGSNVY-VKNIDDDVTDEELKAHFSQCGTIT 321
AQ K++ EQ+ H+ + +++K KG + +KN D DV + + F G +T
Sbjct: 249 AQYKSKFEQLGIHYEHRLIDDMVAQMIKSKGGFIMALKNYDGDVQSDIVAQGFGSLGLMT 308
Query: 322 SAKVMRDEK 330
S V D K
Sbjct: 309 SILVTPDGK 317
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 32.7 bits (73), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 109 ESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLNGTTV 165
E + L+ F FGNII + + FV +E ESA+ A+ LNGT V
Sbjct: 23 EDMTPTLLRGAFSPFGNIIDLSMD-----PPRNCAFVTYEKMESADQAVAELNGTQV 74
>pdb|1S79|A Chain A, Solution Structure Of The Central Rrm Of Human La Protein
Length = 103
Score = 32.3 bits (72), Expect = 0.78, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 29/62 (46%)
Query: 292 KGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAV 351
K +VY+K D T +++K G + + ++ R KG FV F S E A K V
Sbjct: 10 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV 69
Query: 352 NT 353
T
Sbjct: 70 ET 71
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 25/106 (23%), Positives = 51/106 (48%), Gaps = 11/106 (10%)
Query: 173 GRFIKKSDRVLPSPAAKYTNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRG 232
GR+I K+D K ++++K +D T + + E G++ ++ + R + +G
Sbjct: 1 GRWILKND-------VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKG 53
Query: 233 FGFVNFDNPDDARRALEAMNGSVIGSKVLYAAR----AQKKAEREQ 274
FV FD+ + A++ +E + +L + A+K ER+Q
Sbjct: 54 SIFVVFDSIESAKKFVETPGQKYKETDLLILFKDDYFAKKNEERKQ 99
>pdb|2DGW|A Chain A, Solution Structure Of The Second Rna Recognition Motif In
Rna-Binding Protein 19
Length = 91
Score = 32.3 bits (72), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 35/60 (58%), Gaps = 5/60 (8%)
Query: 201 DVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL----EAMNGSVI 256
+VTE++++E + +A + I R+ +G G+ FV+F N ++ ++AL E M G I
Sbjct: 21 NVTEKNVMEFLAPLKPVA-IRIVRNAHGNKTGYIFVDFSNEEEVKQALKCNREYMGGRYI 79
>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VOD|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VON|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VON|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VOO|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOO|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOP|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auuuu
Length = 193
Score = 32.0 bits (71), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 29/62 (46%)
Query: 292 KGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAV 351
K +VY+K D T +++K G + + ++ R KG FV F S E A K V
Sbjct: 108 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV 167
Query: 352 NT 353
T
Sbjct: 168 ET 169
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 192 NLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEA 250
LF+ + + E+ L F +FG+I L + +D G +G F+ + D A +A A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 251 MN 252
++
Sbjct: 77 LH 78
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 31.6 bits (70), Expect = 1.2, Method: Composition-based stats.
Identities = 21/88 (23%), Positives = 41/88 (46%), Gaps = 9/88 (10%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASL---------LIARDENGTSRGFGFVNFDNPDD 243
+F++ L +VT E + + F + G I + L E G +G V+FD+P
Sbjct: 10 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 69
Query: 244 ARRALEAMNGSVIGSKVLYAARAQKKAE 271
A+ A++ +G + + A ++A+
Sbjct: 70 AKAAIDWFDGKEFSGNPIKVSFATRRAD 97
Score = 29.6 bits (65), Expect = 5.1, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 9/88 (10%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCK---------VATSEDGKSKGHGFVQFETEES 152
+FV+ L E++ + + F+ G I + K E GK KG V F+ S
Sbjct: 10 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 69
Query: 153 ANAAIENLNGTTVGDKRIYVGRFIKKSD 180
A AAI+ +G I V +++D
Sbjct: 70 AKAAIDWFDGKEFSGNPIKVSFATRRAD 97
>pdb|1DRZ|A Chain A, U1a Spliceosomal ProteinHEPATITIS DELTA VIRUS GENOMIC
Ribozyme Complex
Length = 97
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%), Gaps = 6/65 (9%)
Query: 193 LFMKNLDSDVTEEHLVEK----FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
+++ NL+ + ++ L + FS+FG+I +L++R + RG FV F A AL
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR--SLKXRGQAFVIFKEVSSATNAL 68
Query: 249 EAMNG 253
+ G
Sbjct: 69 RSXQG 73
>pdb|3CUL|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUL|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3EGZ|A Chain A, Crystal Structure Of An In Vitro Evolved Tetracycline
Aptamer And Artificial Riboswitch
Length = 98
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%), Gaps = 6/65 (9%)
Query: 193 LFMKNLDSDVTEEHLVEK----FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
+++ NL+ + ++ L + FS+FG+I +L++R + RG FV F A AL
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR--SLKXRGQAFVIFKEVSSATNAL 69
Query: 249 EAMNG 253
+ G
Sbjct: 70 RSXQG 74
>pdb|1CX0|A Chain A, Hepatitis Delta Virus Ribozyme
Length = 95
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%), Gaps = 6/65 (9%)
Query: 193 LFMKNLDSDVTEEHLVEK----FSKFGKIASLLIARDENGTSRGFGFVNFDNPDDARRAL 248
+++ NL+ + ++ L + FS+FG+I +L++R + RG FV F A AL
Sbjct: 9 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR--SLKXRGQAFVIFKEVSSATNAL 66
Query: 249 EAMNG 253
+ G
Sbjct: 67 RSXQG 71
>pdb|2CPI|A Chain A, Solution Structure Of The Rna Recognition Motif Of Cnot4
Length = 111
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 10/68 (14%)
Query: 209 EKFSKFGKIASLLIARDENGTS-------RGFGFVNFDNPDDARRALEAMNGSVIGSKVL 261
E F KFGKI ++I N TS +V + +DA RA++ +N V+ + L
Sbjct: 37 EYFGKFGKIHKVVI---NNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTL 93
Query: 262 YAARAQKK 269
A+ K
Sbjct: 94 KASLGTTK 101
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDE-NGTSRGFGFVNFDNPDDARRALEAM 251
LF+ + ++ E+ L F +FGKI L + +D G +G F+ + + A +A A+
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSAL 75
Query: 252 N 252
+
Sbjct: 76 H 76
>pdb|1YTY|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
pdb|1YTY|B Chain B, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
Length = 194
Score = 31.6 bits (70), Expect = 1.5, Method: Composition-based stats.
Identities = 29/104 (27%), Positives = 45/104 (43%), Gaps = 10/104 (9%)
Query: 260 VLYAARAQKKAEREQILRHQFEEKRK------ERILKYKGS----NVYVKNIDDDVTDEE 309
V+ A ++ KAE +I + + +R E +YK +VY+K D T ++
Sbjct: 67 VIVEALSKSKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDD 126
Query: 310 LKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAVNT 353
+K G + + + R KG FV F S E A K V T
Sbjct: 127 IKEWLEDKGQVLNIQXRRTLHKAFKGSIFVVFDSIESAKKFVET 170
>pdb|1ZH5|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
pdb|1ZH5|B Chain B, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
Length = 195
Score = 31.2 bits (69), Expect = 1.6, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 28/62 (45%)
Query: 292 KGSNVYVKNIDDDVTDEELKAHFSQCGTITSAKVMRDEKGINKGFGFVCFSSPEEASKAV 351
K +VY+K D T +++K G + + + R KG FV F S E A K V
Sbjct: 110 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQXRRTLHKAFKGSIFVVFDSIESAKKFV 169
Query: 352 NT 353
T
Sbjct: 170 ET 171
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 102 LFVKNL-IESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENL 160
+F+ NL + ++ +F +G I+ C V KG FVQ+ E +A AA+
Sbjct: 18 VFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV-------HKGFAFVQYVNERNARAAVAGE 70
Query: 161 NGTTV 165
+G +
Sbjct: 71 DGRMI 75
>pdb|3EGN|A Chain A, C-Terminal Rna Recognition Motif Of The U11U12 65K PROTEIN
Length = 143
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 296 VYVKNIDDDVTDEELKAHFSQCGTITSA--KVMRD----EKGINKGFGFVCFSSPEEASK 349
+YVKN+ V +++LK F + +S ++M D ++G KG F+ + + A+K
Sbjct: 48 IYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAK 107
Query: 350 AVNTFHGYMLHRKPLYVAIAQRKEDRQ 376
A+ +GY+L KP+ V A+ +Q
Sbjct: 108 ALKEANGYVLFGKPMVVQFARSARPKQ 134
>pdb|2EK6|A Chain A, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|B Chain B, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|C Chain C, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|D Chain D, Crystal Structure Of Human Rna-Binding Protein 12
Length = 95
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 96 KSGVANLFVKNLIESIDNVRLQEMFQNFGNII-SCKVATSEDGKSKGHGFVQFETEESAN 154
K G + V+N+ ++ + + F + I S + +E G G V FE+ + A
Sbjct: 12 KPGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEAT 71
Query: 155 AAIENLNGTTVGDKRI 170
AA+ +LN +G +++
Sbjct: 72 AAVIDLNDRPIGSRKV 87
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 30.4 bits (67), Expect = 2.9, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 36/70 (51%), Gaps = 1/70 (1%)
Query: 12 ASLYVGDLHPDVTDGELFDAFSEF-KSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAI 70
ASL++GDL P + + + AF+ +++ SV++ ++ TG Y +V F A + +
Sbjct: 10 ASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCL 69
Query: 71 EVKNHTQLHG 80
N L G
Sbjct: 70 HKINGKPLPG 79
>pdb|2CQP|A Chain A, Solution Structure Of The Rna Binding Domain Of
Rna-Binding Protein 12
Length = 98
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 96 KSGVANLFVKNLIESIDNVRLQEMFQNFGNII-SCKVATSEDGKSKGHGFVQFETEESAN 154
K G + V+N+ ++ + + F + I S + +E G G V FE+ + A
Sbjct: 12 KPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEAT 71
Query: 155 AAIENLNGTTVGDKRI 170
AA+ +LN +G +++
Sbjct: 72 AAVIDLNDRPIGSRKV 87
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 30.0 bits (66), Expect = 4.2, Method: Composition-based stats.
Identities = 14/62 (22%), Positives = 30/62 (48%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
++VG L PD + ++ + F F + S+ + D+ T + + ++ F + +E K
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 74 NH 75
H
Sbjct: 62 YH 63
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 30.0 bits (66), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 191 TNLFMKNLDSDVTEEHLVEKFSKFGKIASLLIARDENGTSRGFGFVNF 238
+ +F+ D+TE+ L E FS++G + + I + R F FV F
Sbjct: 6 SGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPK----PFRAFAFVTF 49
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 30.0 bits (66), Expect = 4.4, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 9/70 (12%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIASL---------LIARDENGTSRGFGFVNFDNPDD 243
+F++ L +VT E + + F + G I + L E G +G V+FD+P
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 244 ARRALEAMNG 253
A+ A++ +G
Sbjct: 76 AKAAIDWFDG 85
>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 = 30.0 bits (66), Expect = 4.5, Method: Composition-based stats.
Identities = 14/62 (22%), Positives = 30/62 (48%)
Query: 14 LYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAIEVK 73
++VG L PD + ++ + F F + S+ + D+ T + + ++ F + +E K
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 63
Query: 74 NH 75
H
Sbjct: 64 YH 65
>pdb|2KH9|A Chain A, Solution Structure Of Yeast Prp24-Rrm2 Bound To A Fragment
Of U6 Rna
Length = 92
Score = 30.0 bits (66), Expect = 4.6, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 193 LFMKNLDSDVTEEHLVEKFSKFGKIA-SLLIARDENGTSRGFGFVNFDNPDDARRALEAM 251
L+M N T+ ++ + +A S+ + TSR F +++ + +DAR +E +
Sbjct: 6 LWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKL 65
Query: 252 NG 253
NG
Sbjct: 66 NG 67
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 29.6 bits (65), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 38/75 (50%), Gaps = 2/75 (2%)
Query: 11 PASLYVGDLHPDVTDGELFDAFSEFKSLASVRVCKDSTTGRSTCYGYVNFLSPHDAIRAI 70
P + YVG+L + G++ DA + S+ SVR+ +D T + + YV F D+++
Sbjct: 15 PYTAYVGNLPFNTVQGDI-DAIFKDLSIRSVRLVRDKDTDKFKGFCYVEF-DEVDSLKEA 72
Query: 71 EVKNHTQLHGKMLRI 85
+ L + LR+
Sbjct: 73 LTYDGALLGDRSLRV 87
>pdb|2B0G|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
pdb|2AYM|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
Length = 83
Score = 29.6 bits (65), Expect = 5.8, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 4/77 (5%)
Query: 102 LFVKNLIESIDNVRLQEMFQNFGNIISCKVATSEDGKSKGHGFVQFETEESANAAIENLN 161
LF+ NL E + + L +F F ++ + + FV+F TE +NAA E L
Sbjct: 11 LFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHDIA----FVEFTTELQSNAAKEALQ 66
Query: 162 GTTVGDKRIYVGRFIKK 178
G + F KK
Sbjct: 67 GFKITPTHAMKITFAKK 83
>pdb|2EK1|A Chain A, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|B Chain B, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|C Chain C, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|D Chain D, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|E Chain E, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|F Chain F, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|G Chain G, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|H Chain H, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
Length = 95
Score = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 134 SEDGKSKGHGFVQFETEESANAAIENLNGTTVGDKRI 170
+E G G V FE+ + A AA+ +LN +G +++
Sbjct: 51 NEKGXPTGEAXVAFESRDEATAAVIDLNDRPIGSRKV 87
>pdb|1WI6|A Chain A, Solution Structure Of The Rna Binding Domain From Mouse
Hypothetical Protein Bab23670
Length = 88
Score = 29.3 bits (64), Expect = 7.3, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 19/35 (54%)
Query: 334 KGFGFVCFSSPEEASKAVNTFHGYMLHRKPLYVAI 368
KG FV + E+A A+NTFH L + L V +
Sbjct: 40 KGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQL 74
>pdb|2NLZ|A Chain A, Crystal Structure Of Cephalosporin Acylase From Bacillus
Halodurans
pdb|2NLZ|B Chain B, Crystal Structure Of Cephalosporin Acylase From Bacillus
Halodurans
pdb|2NLZ|C Chain C, Crystal Structure Of Cephalosporin Acylase From Bacillus
Halodurans
pdb|2NLZ|D Chain D, Crystal Structure Of Cephalosporin Acylase From Bacillus
Halodurans
Length = 547
Score = 28.9 bits (63), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 20/94 (21%), Positives = 38/94 (40%), Gaps = 10/94 (10%)
Query: 221 LIARDENGTSRGFGFVNFDNPDDARRALEAMNGSVIGSKVLYAARAQKKAEREQILRHQF 280
L+A + +GF F + D D + +EAM + + + EQ+L ++
Sbjct: 274 LVALEALNIVKGFEFYHKDTVDTYHKQIEAMKLAFVDGMKYVTEPSDMSVSVEQLLSDEY 333
Query: 281 EEKRKERILKY----------KGSNVYVKNIDDD 304
+R++ I + +G VY+ D D
Sbjct: 334 ATERRKEIGEQALTPEPGTPPRGGTVYLATADGD 367
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 0.133 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,682,545
Number of Sequences: 62578
Number of extensions: 718106
Number of successful extensions: 2514
Number of sequences better than 100.0: 228
Number of HSP's better than 100.0 without gapping: 162
Number of HSP's successfully gapped in prelim test: 66
Number of HSP's that attempted gapping in prelim test: 1693
Number of HSP's gapped (non-prelim): 636
length of query: 629
length of database: 14,973,337
effective HSP length: 105
effective length of query: 524
effective length of database: 8,402,647
effective search space: 4402987028
effective search space used: 4402987028
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: 54 (25.4 bits)