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= 011105
(493 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 44/137 (32%), Positives = 69/137 (50%), Gaps = 8/137 (5%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+P + + D+LR SIGEV ++++ K +G + GY FV + T + A +AI LN L
Sbjct: 10 LPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRL 69
Query: 187 KGKKIKCSAAQAKH------RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNAN 240
+ K IK S A+ L+I +PR + D+ ++ G + S LV Q
Sbjct: 70 QSKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVD--QTTG 127
Query: 241 QNRGFAFIEYYNHACAE 257
+RG AFI + + AE
Sbjct: 128 LSRGVAFIRFDKRSEAE 144
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 42/155 (27%), Positives = 77/155 (49%), Gaps = 10/155 (6%)
Query: 199 KHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEY 258
+ L + +P+N +D++R + IG V S +L++D + A + G+ F+ Y AE
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGE-VESAKLIRD-KVAGHSLGYGFVNYVTAKDAER 59
Query: 259 SRQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHG 318
+ ++ +L VS+A P SS + LY+ LP+ +TQ ++++F+ G
Sbjct: 60 AINTLNG--LRLQSKTIKVSYARP----SSEVIKDANLYISGLPRTMTQKDVEDMFSRFG 113
Query: 319 KITKV-VIPPAKPGQERSRYGFVHFAERSSAMKAL 352
+I V+ G R F+ F +RS A +A+
Sbjct: 114 RIINSRVLVDQTTGLSRG-VAFIRFDKRSEAEEAI 147
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 39/80 (48%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V LP+++TQD L+ LF+ G++ + K YGFV++ A +A+
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 356 EKYEIDGQVLDCSLAKPQAD 375
+ + + S A+P ++
Sbjct: 65 NGLRLQSKTIKVSYARPSSE 84
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 31/63 (49%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+ G+P + D+ G + R++ + +G ++G AF+ F + A +AI
Sbjct: 89 ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAIT 148
Query: 180 ELN 182
N
Sbjct: 149 SFN 151
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 44/137 (32%), Positives = 69/137 (50%), Gaps = 8/137 (5%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+P + + D+LR SIGEV ++++ K +G + GY FV + T + A +AI LN L
Sbjct: 10 LPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRL 69
Query: 187 KGKKIKCSAAQAKH------RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNAN 240
+ K IK S A+ L+I +PR + D+ ++ G + S LV Q
Sbjct: 70 QSKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVD--QTTG 127
Query: 241 QNRGFAFIEYYNHACAE 257
+RG AFI + + AE
Sbjct: 128 LSRGVAFIRFDKRSEAE 144
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 42/155 (27%), Positives = 77/155 (49%), Gaps = 10/155 (6%)
Query: 199 KHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEY 258
+ L + +P+N +D++R + IG V S +L++D + A + G+ F+ Y AE
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGE-VESAKLIRD-KVAGHSLGYGFVNYVTAKDAER 59
Query: 259 SRQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHG 318
+ ++ +L VS+A P SS + LY+ LP+ +TQ ++++F+ G
Sbjct: 60 AINTLNG--LRLQSKTIKVSYARP----SSEVIKDANLYISGLPRTMTQKDVEDMFSRFG 113
Query: 319 KITKV-VIPPAKPGQERSRYGFVHFAERSSAMKAL 352
+I V+ G R F+ F +RS A +A+
Sbjct: 114 RIINSRVLVDQTTGLSRG-VAFIRFDKRSEAEEAI 147
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 39/80 (48%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V LP+++TQD L+ LF+ G++ + K YGFV++ A +A+
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 356 EKYEIDGQVLDCSLAKPQAD 375
+ + + S A+P ++
Sbjct: 65 NGLRLQSKTIKVSYARPSSE 84
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 31/63 (49%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+ G+P + D+ G + R++ + +G ++G AF+ F + A +AI
Sbjct: 89 ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAIT 148
Query: 180 ELN 182
N
Sbjct: 149 SFN 151
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 67.4 bits (163), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/154 (27%), Positives = 77/154 (50%), Gaps = 5/154 (3%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKD-PQNANQNRGFAFIEYYNHACAEYS 259
++F+G VPR W E D+R+ + G V I +++D QN Q++G F+ +Y A +
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYG-AVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 75
Query: 260 RQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGK 319
+ + N K + P P ++E + A + + L++ + K T++ ++ +F+ G+
Sbjct: 76 QNALHNMKVLPGMHHPI--QMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQ 133
Query: 320 ITKVVIPPAKPGQERSRYGFVHFAERSSAMKALK 353
I + I G R FV F R+ A A+K
Sbjct: 134 IEECRILRGPDGLSRG-CAFVTFTTRAMAQTAIK 166
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 41/174 (23%), Positives = 84/174 (48%), Gaps = 16/174 (9%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSG--EAKGYAFVTFRTKELASQAI 178
++++G +P S+ DLR + G V E+ +++ + ++KG FVTF T++ A +A
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 76
Query: 179 EELNS----------CELKGKKIKCSAAQAKHRLFIGNVPRNWGEDDMRKAVTKIGPGVI 228
L++ ++K + + A +LFIG + + E+D+R + G +
Sbjct: 77 NALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQ-IE 135
Query: 229 SIELVKDPQNANQNRGFAFIEYYNHACAEYSRQKMSNPKFKLDDNAP-TVSWAD 281
+++ P +RG AF+ + A A+ + + M + ++P V +AD
Sbjct: 136 ECRILRGPDGL--SRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD 187
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/154 (27%), Positives = 77/154 (50%), Gaps = 5/154 (3%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKD-PQNANQNRGFAFIEYYNHACAEYS 259
++F+G VPR W E D+R+ + G V I +++D QN Q++G F+ +Y A +
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYG-AVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
Query: 260 RQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGK 319
+ + N K + P P ++E + A + + L++ + K T++ ++ +F+ G+
Sbjct: 64 QNALHNMKVLPGMHHPI--QMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQ 121
Query: 320 ITKVVIPPAKPGQERSRYGFVHFAERSSAMKALK 353
I + I G R FV F R+ A A+K
Sbjct: 122 IEECRILRGPDGLSRG-CAFVTFTTRAMAQTAIK 154
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 41/174 (23%), Positives = 84/174 (48%), Gaps = 16/174 (9%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSG--EAKGYAFVTFRTKELASQAI 178
++++G +P S+ DLR + G V E+ +++ + ++KG FVTF T++ A +A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 179 EELNS----------CELKGKKIKCSAAQAKHRLFIGNVPRNWGEDDMRKAVTKIGPGVI 228
L++ ++K + + A +LFIG + + E+D+R + G +
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQ-IE 123
Query: 229 SIELVKDPQNANQNRGFAFIEYYNHACAEYSRQKMSNPKFKLDDNAP-TVSWAD 281
+++ P +RG AF+ + A A+ + + M + ++P V +AD
Sbjct: 124 ECRILRGPDGL--SRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD 175
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 37/130 (28%), Positives = 68/130 (52%), Gaps = 8/130 (6%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+P D +D +L ++IG + RIM+ +G + GYAFV F ++ + +AI+ LN +
Sbjct: 11 LPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITV 70
Query: 187 KGKKIKCSAAQ------AKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNAN 240
+ K++K S A+ L++ N+PR +D + K G ++ +++D
Sbjct: 71 RNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYG-SIVQKNILRDKLTG- 128
Query: 241 QNRGFAFIEY 250
+ RG AF+ Y
Sbjct: 129 RPRGVAFVRY 138
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 76/152 (50%), Gaps = 10/152 (6%)
Query: 202 LFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQ 261
L + +P++ + ++ IGP + + +++D + + G+AF+++ + ++ + +
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGP-INTCRIMRDYKTG-YSYGYAFVDFTSEMDSQRAIK 63
Query: 262 KMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGKIT 321
++ + + VS+A P ES + LYV NLP+ IT D+L +F +G I
Sbjct: 64 VLNGITVR--NKRLKVSYARP-GGESIKDTN---LYVTNLPRTITDDQLDTIFGKYGSIV 117
Query: 322 -KVVIPPAKPGQERSRYGFVHFAERSSAMKAL 352
K ++ G+ R FV + +R A +A+
Sbjct: 118 QKNILRDKLTGRPRG-VAFVRYNKREEAQEAI 148
Score = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+ +P +DD L G + + I++ K +G +G AFV + +E A +AI
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 149
Query: 180 ELNSC 184
LN+
Sbjct: 150 ALNNV 154
Score = 32.0 bits (71), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 2/78 (2%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKI-TKVVIPPAKPGQERSRYGFVHFAERSSAMKALKN 354
L V LP+D+T L LF G I T ++ K G Y FV F + +A+K
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYG-YAFVDFTSEMDSQRAIKV 64
Query: 355 TEKYEIDGQVLDCSLAKP 372
+ + L S A+P
Sbjct: 65 LNGITVRNKRLKVSYARP 82
>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 = 66.2 bits (160), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 48/157 (30%), Positives = 82/157 (52%), Gaps = 10/157 (6%)
Query: 198 AKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAE 257
+K L + +P+N +++ R IG + S +LV+D + Q+ G+ F+ Y + AE
Sbjct: 1 SKTNLIVNYLPQNMTQEEFRSLFGSIGE-IESCKLVRD-KITGQSLGYGFVNYIDPKDAE 58
Query: 258 YSRQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHH 317
+ ++ +L VS+A P SSA+ + LYV LPK +TQ L++LF+ +
Sbjct: 59 KAINTLNG--LRLQTKTIKVSYARP----SSASIRDANLYVSGLPKTMTQKELEQLFSQY 112
Query: 318 GK-ITKVVIPPAKPGQERSRYGFVHFAERSSAMKALK 353
G+ IT ++ G R GF+ F +R A +A+K
Sbjct: 113 GRIITSRILVDQVTGVSRG-VGFIRFDKRIEAEEAIK 148
Score = 58.9 bits (141), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 38/137 (27%), Positives = 69/137 (50%), Gaps = 8/137 (5%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+P + + ++ R SIGE+ ++++ K +G++ GY FV + + A +AI LN L
Sbjct: 10 LPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRL 69
Query: 187 KGKKIKCSAAQ---AKHR---LFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNAN 240
+ K IK S A+ A R L++ +P+ + ++ + ++ G + S LV Q
Sbjct: 70 QTKTIKVSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILV--DQVTG 127
Query: 241 QNRGFAFIEYYNHACAE 257
+RG FI + AE
Sbjct: 128 VSRGVGFIRFDKRIEAE 144
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V LP+++TQ+ + LF G+I + K + YGFV++ + A KA+
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 356 EKYEIDGQVLDCSLAKPQA 374
+ + + S A+P +
Sbjct: 65 NGLRLQTKTIKVSYARPSS 83
Score = 36.6 bits (83), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 32/63 (50%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+ G+P + +L G + RI+ + +G ++G F+ F + A +AI+
Sbjct: 89 ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK 148
Query: 180 ELN 182
LN
Sbjct: 149 GLN 151
>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 = 65.5 bits (158), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 42/154 (27%), Positives = 75/154 (48%), Gaps = 5/154 (3%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKD-PQNANQNRGFAFIEYYNHACAEYS 259
+ F+G VPR W E D+R+ + G V I +++D QN Q++G F+ +Y A +
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYG-AVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
Query: 260 RQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGK 319
+ + N K + P P ++E + A + + L++ + K T++ ++ F+ G+
Sbjct: 64 QNALHNXKVLPGXHHPI--QXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQ 121
Query: 320 ITKVVIPPAKPGQERSRYGFVHFAERSSAMKALK 353
I + I G R FV F R+ A A+K
Sbjct: 122 IEECRILRGPDGLSRG-CAFVTFTTRAXAQTAIK 154
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 36/147 (24%), Positives = 71/147 (48%), Gaps = 15/147 (10%)
Query: 123 YLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSG--EAKGYAFVTFRTKELASQAIEE 180
++G +P S+ DLR + G V E+ +++ + ++KG FVTF T++ A +A
Sbjct: 7 FVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNA 66
Query: 181 LNSCEL----------KGKKIKCSAAQAKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISI 230
L++ ++ K + + A +LFIG + + E+D+R + G +
Sbjct: 67 LHNXKVLPGXHHPIQXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQ-IEEC 125
Query: 231 ELVKDPQNANQNRGFAFIEYYNHACAE 257
+++ P +RG AF+ + A A+
Sbjct: 126 RILRGPDGL--SRGCAFVTFTTRAXAQ 150
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 38/59 (64%), Gaps = 1/59 (1%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
++++G I +++D+R S G++ E RI++G D G ++G AFVTF T+ A AI+
Sbjct: 97 KLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAXAQTAIK 154
>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 = 65.1 bits (157), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 72/148 (48%), Gaps = 19/148 (12%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
S VY+G I ++ +D +R G + + + + + KG+AFV + E A A+E
Sbjct: 29 SRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 88
Query: 180 ELNSCELKGKKIKCS-----------------AAQAKHRLFIGNVPRNWGEDDMRKAVTK 222
++NS L G+ IK A+A +R+++ +V ++ +DD++
Sbjct: 89 QMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEA 148
Query: 223 IGPGVISIELVKDPQNANQNRGFAFIEY 250
G + S L +DP +++G+ FIEY
Sbjct: 149 FGK-IKSATLARDP-TTGKHKGYGFIEY 174
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 41/170 (24%), Positives = 85/170 (50%), Gaps = 7/170 (4%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSR 260
R+++G++ GED +R+A GP + SI++ D +++GFAF+EY A+ +
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGP-IKSIDMSWDSVTM-KHKGFAFVEYEVPEAAQLAL 87
Query: 261 QKMSNPKF---KLDDNAPT-VSWADPR-NAESSAASQVKALYVKNLPKDITQDRLKELFA 315
++M++ + P+ + A P + + A +YV ++ +D++ D +K +F
Sbjct: 88 EQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFE 147
Query: 316 HHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQVL 365
GKI + + YGF+ + + S+ A+ + +++ GQ L
Sbjct: 148 AFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYL 197
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 40/75 (53%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+ + D SDDD++ ++ G++ + + +G+ KGY F+ + + + A+ +
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 187
Query: 182 NSCELKGKKIKCSAA 196
N +L G+ ++ A
Sbjct: 188 NLFDLGGQYLRVGKA 202
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 73/145 (50%), Gaps = 8/145 (5%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+P D +D +L ++IG + RI + +G + GYAFV F ++ + +AI+ LN +
Sbjct: 22 LPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVLNGITV 81
Query: 187 KGKKIKCSAAQ------AKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNAN 240
+ K++K S A+ L++ N+PR +D + K G ++ +++D
Sbjct: 82 RNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYG-SIVQKNILRDKLTG- 139
Query: 241 QNRGFAFIEYYNHACAEYSRQKMSN 265
+ RG AF+ Y A+ + ++N
Sbjct: 140 RPRGVAFVRYNKREEAQEAISALNN 164
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+ +P +DD L G + + I++ K +G +G AFV + +E A +AI
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 160
Query: 180 ELNSC 184
LN+
Sbjct: 161 ALNNV 165
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 75/152 (49%), Gaps = 10/152 (6%)
Query: 202 LFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQ 261
L + +P++ + ++ IGP + + + +D + + G+AF+++ + ++ + +
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGP-INTCRIXRDYKTG-YSFGYAFVDFTSEXDSQRAIK 74
Query: 262 KMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGKIT 321
++ + + VS+A P ES + LYV NLP+ IT D+L +F +G I
Sbjct: 75 VLNGITVR--NKRLKVSYARP-GGESIKDTN---LYVTNLPRTITDDQLDTIFGKYGSIV 128
Query: 322 -KVVIPPAKPGQERSRYGFVHFAERSSAMKAL 352
K ++ G+ R FV + +R A +A+
Sbjct: 129 QKNILRDKLTGRPRG-VAFVRYNKREEAQEAI 159
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 35/92 (38%), Gaps = 7/92 (7%)
Query: 281 DPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFV 340
DPR + ++ L V LP+D T L LF G I I Y FV
Sbjct: 9 DPRASNTN-------LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFV 61
Query: 341 HFAERSSAMKALKNTEKYEIDGQVLDCSLAKP 372
F + +A+K + + L S A+P
Sbjct: 62 DFTSEXDSQRAIKVLNGITVRNKRLKVSYARP 93
>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 = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 71/146 (48%), Gaps = 19/146 (13%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
VY+G I ++ +D +R G + + + + + KG+AFV + E A A+E++
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 182 NSCELKGKKIKCS-----------------AAQAKHRLFIGNVPRNWGEDDMRKAVTKIG 224
NS L G+ IK A+A +R+++ +V ++ +DD++ G
Sbjct: 76 NSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFG 135
Query: 225 PGVISIELVKDPQNANQNRGFAFIEY 250
+ S L +DP +++G+ FIEY
Sbjct: 136 K-IKSCTLARDP-TTGKHKGYGFIEY 159
Score = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 41/170 (24%), Positives = 85/170 (50%), Gaps = 7/170 (4%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSR 260
R+++G++ GED +R+A GP + SI++ D +++GFAF+EY A+ +
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGP-IKSIDMSWDSVTM-KHKGFAFVEYEVPEAAQLAL 72
Query: 261 QKMSNPKF---KLDDNAPT-VSWADPR-NAESSAASQVKALYVKNLPKDITQDRLKELFA 315
++M++ + P+ + A P + + A +YV ++ +D++ D +K +F
Sbjct: 73 EQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFE 132
Query: 316 HHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQVL 365
GKI + + YGF+ + + S+ A+ + +++ GQ L
Sbjct: 133 AFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYL 182
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 40/75 (53%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+ + D SDDD++ ++ G++ + + +G+ KGY F+ + + + A+ +
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 172
Query: 182 NSCELKGKKIKCSAA 196
N +L G+ ++ A
Sbjct: 173 NLFDLGGQYLRVGKA 187
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 46/157 (29%), Positives = 82/157 (52%), Gaps = 10/157 (6%)
Query: 198 AKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAE 257
+K L + +P+N +D+ + IG + S +LV+D + Q+ G+ F+ Y + A+
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGD-IESCKLVRD-KITGQSLGYGFVNYSDPNDAD 60
Query: 258 YSRQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHH 317
+ ++ KL VS+A P SSA+ + LYV LPK ++Q +++LF+ +
Sbjct: 61 KAINTLNG--LKLQTKTIKVSYARP----SSASIRDANLYVSGLPKTMSQKEMEQLFSQY 114
Query: 318 GK-ITKVVIPPAKPGQERSRYGFVHFAERSSAMKALK 353
G+ IT ++ G R GF+ F +R A +A+K
Sbjct: 115 GRIITSRILLDQATGVSRG-VGFIRFDKRIEAEEAIK 150
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 37/137 (27%), Positives = 71/137 (51%), Gaps = 8/137 (5%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+P + + D+ + SIG++ ++++ K +G++ GY FV + A +AI LN +L
Sbjct: 12 LPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKL 71
Query: 187 KGKKIKCSAAQ---AKHR---LFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNAN 240
+ K IK S A+ A R L++ +P+ + +M + ++ G +I+ ++ D Q
Sbjct: 72 QTKTIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGR-IITSRILLD-QATG 129
Query: 241 QNRGFAFIEYYNHACAE 257
+RG FI + AE
Sbjct: 130 VSRGVGFIRFDKRIEAE 146
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 40/79 (50%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V LP+++TQD K LF G I + K + YGFV++++ + A KA+
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 356 EKYEIDGQVLDCSLAKPQA 374
++ + + S A+P +
Sbjct: 67 NGLKLQTKTIKVSYARPSS 85
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 32/63 (50%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+ G+P S ++ G + RI+ + +G ++G F+ F + A +AI+
Sbjct: 91 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 150
Query: 180 ELN 182
LN
Sbjct: 151 GLN 153
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 62.8 bits (151), Expect = 4e-10, Method: Composition-based stats.
Identities = 26/72 (36%), Positives = 45/72 (62%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
VYLG IP+D +++ + C ++G V +++M +G +KGYAF+ FR E ++ A+ L
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 182 NSCELKGKKIKC 193
N +L + +KC
Sbjct: 65 NGYQLGSRFLKC 76
Score = 35.0 bits (79), Expect = 0.11, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 42/75 (56%), Gaps = 2/75 (2%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSR-YGFVHFAERSSAMKAL 352
+ +Y+ ++P D T++++ +L ++ G + + + P RS+ Y F+ F + S+ A+
Sbjct: 3 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMM-FDPQTGRSKGYAFIEFRDLESSASAV 61
Query: 353 KNTEKYEIDGQVLDC 367
+N Y++ + L C
Sbjct: 62 RNLNGYQLGSRFLKC 76
>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 = 62.8 bits (151), Expect = 4e-10, Method: Composition-based stats.
Identities = 26/72 (36%), Positives = 45/72 (62%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
VYLG IP+D +++ + C ++G V +++M +G +KGYAF+ FR E ++ A+ L
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 182 NSCELKGKKIKC 193
N +L + +KC
Sbjct: 66 NGYQLGSRFLKC 77
Score = 34.7 bits (78), Expect = 0.11, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 42/75 (56%), Gaps = 2/75 (2%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSR-YGFVHFAERSSAMKAL 352
+ +Y+ ++P D T++++ +L ++ G + + + P RS+ Y F+ F + S+ A+
Sbjct: 4 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMM-FDPQTGRSKGYAFIEFRDLESSASAV 62
Query: 353 KNTEKYEIDGQVLDC 367
+N Y++ + L C
Sbjct: 63 RNLNGYQLGSRFLKC 77
>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 = 62.8 bits (151), Expect = 5e-10, Method: Composition-based stats.
Identities = 27/77 (35%), Positives = 46/77 (59%)
Query: 117 PHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQ 176
P VYLG IP+D +++ + C ++G V +++M +G +KGYAF+ FR E ++
Sbjct: 2 PPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSAS 61
Query: 177 AIEELNSCELKGKKIKC 193
A+ LN +L + +KC
Sbjct: 62 AVRNLNGYQLGSRFLKC 78
Score = 34.3 bits (77), Expect = 0.17, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 42/75 (56%), Gaps = 2/75 (2%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSR-YGFVHFAERSSAMKAL 352
+ +Y+ ++P D T++++ +L ++ G + + + P RS+ Y F+ F + S+ A+
Sbjct: 5 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMM-FDPQTGRSKGYAFIEFRDLESSASAV 63
Query: 353 KNTEKYEIDGQVLDC 367
+N Y++ + L C
Sbjct: 64 RNLNGYQLGSRFLKC 78
>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 = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 69/146 (47%), Gaps = 19/146 (13%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
VY+G I ++ +D +R G + + + + KG+AFV + E A A+E+
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 182 NSCELKGKKIKCS-----------------AAQAKHRLFIGNVPRNWGEDDMRKAVTKIG 224
NS L G+ IK A+A +R+++ +V ++ +DD++ G
Sbjct: 75 NSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFG 134
Query: 225 PGVISIELVKDPQNANQNRGFAFIEY 250
+ S L +DP +++G+ FIEY
Sbjct: 135 K-IKSCTLARDP-TTGKHKGYGFIEY 158
Score = 55.8 bits (133), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 40/170 (23%), Positives = 83/170 (48%), Gaps = 7/170 (4%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSR 260
R+++G++ GED +R+A GP + SI+ D +++GFAF+EY A+ +
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGP-IKSIDXSWDSVT-XKHKGFAFVEYEVPEAAQLAL 71
Query: 261 QKMSNPKF---KLDDNAPT-VSWADPR-NAESSAASQVKALYVKNLPKDITQDRLKELFA 315
++ ++ + P+ + A P + + A +YV ++ +D++ D +K +F
Sbjct: 72 EQXNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFE 131
Query: 316 HHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQVL 365
GKI + + YGF+ + + S+ A+ + +++ GQ L
Sbjct: 132 AFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYL 181
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 39/75 (52%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+ + D SDDD++ ++ G++ + + +G+ KGY F+ + + + A+
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSX 171
Query: 182 NSCELKGKKIKCSAA 196
N +L G+ ++ A
Sbjct: 172 NLFDLGGQYLRVGKA 186
>pdb|2DIS|A Chain A, Solution Structure Of The Rrm Domain Of Unnamed Protein
Product
Length = 109
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 50/89 (56%)
Query: 194 SAAQAKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNH 253
S + RLFIG +P+ +++ + + K+ GV+ + + + +NRGFAF+EY +H
Sbjct: 3 SGSSGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESH 62
Query: 254 ACAEYSRQKMSNPKFKLDDNAPTVSWADP 282
A +R+K+ + +L + V WA+P
Sbjct: 63 RAAAMARRKLMPGRIQLWGHQIAVDWAEP 91
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 59.3 bits (142), Expect = 5e-09, Method: Composition-based stats.
Identities = 26/73 (35%), Positives = 46/73 (63%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
S +Y+G + + ++D LR + G++ + +MK D+G +KGY F+TF E A +A+E
Sbjct: 6 SGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65
Query: 180 ELNSCELKGKKIK 192
+LN EL G+ ++
Sbjct: 66 QLNGFELAGRPMR 78
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 39/75 (52%)
Query: 289 AASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSA 348
+S LYV +L +IT+D L+ +F GKI +V+ YGF+ F++ A
Sbjct: 1 GSSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECA 60
Query: 349 MKALKNTEKYEIDGQ 363
+AL+ +E+ G+
Sbjct: 61 RRALEQLNGFELAGR 75
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 58.9 bits (141), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 47/173 (27%), Positives = 77/173 (44%), Gaps = 27/173 (15%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIG-PGVISIELVKDPQNANQNRGFAFIEYYNHACAEYS 259
RLF+GN+P + E+D ++ + G P + I N++RGF FI + AE +
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFI---------NRDRGFGFIRLESRTLAEIA 74
Query: 260 RQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGK 319
+ ++ K R A+ AL VKNL ++ + L++ F+ G
Sbjct: 75 KAELDGTILK------------SRPLRIRFATHGAALTVKNLSPVVSNELLEQAFSQFGP 122
Query: 320 ITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQVLDCSLAKP 372
+ K V+ G+ + GFV FA + A KAL+ DG L + +P
Sbjct: 123 VEKAVVVVDDRGRATGK-GFVEFAAKPPARKALERCG----DGAFLLTTTPRP 170
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 58.2 bits (139), Expect = 1e-08, Method: Composition-based stats.
Identities = 30/82 (36%), Positives = 46/82 (56%)
Query: 115 LPPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELA 174
L P S VY+ +P +++DL G+V +V IMK KD+ ++KG AF+ F K+ A
Sbjct: 12 LAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSA 71
Query: 175 SQAIEELNSCELKGKKIKCSAA 196
+N+ +L G+ IK S A
Sbjct: 72 QNCTRAINNKQLFGRVIKASIA 93
Score = 45.8 bits (107), Expect = 6e-05, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 41/81 (50%)
Query: 290 ASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAM 349
A +YV NLP +T + L +F+ +GK+ KV I K ++ F+ F ++ SA
Sbjct: 13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQ 72
Query: 350 KALKNTEKYEIDGQVLDCSLA 370
+ ++ G+V+ S+A
Sbjct: 73 NCTRAINNKQLFGRVIKASIA 93
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 60/106 (56%), Gaps = 9/106 (8%)
Query: 287 SSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERS 346
SS ++VK L+V+NL +T++ L++ F+ GK+ +V ++ Y F+HF ER
Sbjct: 5 SSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERV--------KKLKDYAFIHFDERD 56
Query: 347 SAMKALKNTEKYEIDGQVLDCSLAKPQADQKTSGGSNSQKSALNPT 392
A+KA++ +++G+ ++ AKP DQK +++A P+
Sbjct: 57 GAVKAMEEMNGKDLEGENIEIVFAKP-PDQKRKERKAQRQAASGPS 101
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 25/37 (67%)
Query: 161 KGYAFVTFRTKELASQAIEELNSCELKGKKIKCSAAQ 197
K YAF+ F ++ A +A+EE+N +L+G+ I+ A+
Sbjct: 45 KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAK 81
>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 = 57.0 bits (136), Expect = 2e-08, Method: Composition-based stats.
Identities = 28/80 (35%), Positives = 46/80 (57%)
Query: 118 HGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQA 177
G+ + + +P + + D+LR SIGEV ++++ K +G + GY FV + T + A +A
Sbjct: 18 QGTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 77
Query: 178 IEELNSCELKGKKIKCSAAQ 197
I LN L+ K IK S A+
Sbjct: 78 INTLNGLRLQSKTIKVSYAR 97
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 36/77 (46%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V LP++ TQD L+ LF+ G++ + K YGFV++ A +A+
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 356 EKYEIDGQVLDCSLAKP 372
+ + + S A+P
Sbjct: 82 NGLRLQSKTIKVSYARP 98
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 45/175 (25%), Positives = 81/175 (46%), Gaps = 27/175 (15%)
Query: 199 KHRLFIGNVPRNWGEDDMRKAVTKIG-PGVISIELVKDPQNANQNRGFAFIEYYNHACAE 257
+ RLF+GN+P + E++MRK K G G + I ++++GF FI AE
Sbjct: 22 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI---------HKDKGFGFIRLETRTLAE 72
Query: 258 YSRQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHH 317
++ ++ DN P + A +L V+NLP+ ++ + L+E F+
Sbjct: 73 IAKVEL--------DNMPLRG----KQLRVRFACHSASLTVRNLPQYVSNELLEEAFSVF 120
Query: 318 GKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQVLDCSLAKP 372
G++ + V+ G+ + G V F+ + +A KAL +G L + +P
Sbjct: 121 GQVERAVVIVDDRGRPSGK-GIVEFSGKPAARKALDRCS----EGSFLLTTFPRP 170
Score = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 60/116 (51%), Gaps = 6/116 (5%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
S +++G +P D +++++R + G+ EV I K K G+ F+ T+ LA A
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIAKV 76
Query: 180 ELNSCELKGKKIKCSAAQAKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKD 235
EL++ L+GK+++ A L + N+P+ + + +A + G ++ +V D
Sbjct: 77 ELDNMPLRGKQLRVRFACHSASLTVRNLPQYVSNELLEEAFSVFGQVERAVVIVDD 132
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 43/95 (45%), Gaps = 6/95 (6%)
Query: 276 TVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERS 335
T+ + R +Q L+V NLP DIT++ +++LF +GK +V I K
Sbjct: 5 TIDLKNFRKPGEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG----- 59
Query: 336 RYGFVHFAERSSAMKALKNTEKYEIDGQVLDCSLA 370
+GF+ R+ A A + + G+ L A
Sbjct: 60 -FGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFA 93
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 56.6 bits (135), Expect = 3e-08, Method: Composition-based stats.
Identities = 24/71 (33%), Positives = 44/71 (61%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+G + + ++D LR + G + +++M ++G +KGY F+TF E A +A+E+L
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 182 NSCELKGKKIK 192
N EL G+ +K
Sbjct: 89 NGFELAGRPMK 99
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 23/80 (28%), Positives = 42/80 (52%), Gaps = 1/80 (1%)
Query: 284 NAESSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFA 343
N + +A ++ LYV +L +IT+D L+ +F G+I + + YGF+ F+
Sbjct: 18 NLQKGSAGPMR-LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFS 76
Query: 344 ERSSAMKALKNTEKYEIDGQ 363
+ A KAL+ +E+ G+
Sbjct: 77 DSECAKKALEQLNGFELAGR 96
>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 = 55.1 bits (131), Expect = 8e-08, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 46/81 (56%)
Query: 117 PHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQ 176
P + + + +P + + D+LR SIGEV ++++ K +G + GY FV + T + A +
Sbjct: 2 PGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAER 61
Query: 177 AIEELNSCELKGKKIKCSAAQ 197
AI LN L+ K IK S A+
Sbjct: 62 AINTLNGLRLQSKTIKVSYAR 82
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 37/77 (48%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V LP+++TQD L+ LF+ G++ + K YGFV++ A +A+
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 356 EKYEIDGQVLDCSLAKP 372
+ + + S A+P
Sbjct: 67 NGLRLQSKTIKVSYARP 83
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 49/81 (60%), Gaps = 1/81 (1%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
V++G IP++A+++ L+ +G V R++ +++G+ KGY F ++ +E A A+ L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 182 NSCELKGKKIKC-SAAQAKHR 201
N E G+ ++ +AA K++
Sbjct: 71 NGREFSGRALRVDNAASEKNK 91
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 42/73 (57%)
Query: 293 VKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKAL 352
+++++V N+P + T+++LK++F+ G + + + + YGF + ++ +A+ A+
Sbjct: 8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAM 67
Query: 353 KNTEKYEIDGQVL 365
+N E G+ L
Sbjct: 68 RNLNGREFSGRAL 80
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 202 LFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQ 261
+F+GN+P E+ ++ +++GP V+S LV D + + +G+ F EY + A + +
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGP-VVSFRLVYD-RETGKPKGYGFCEYQDQETALSAMR 68
Query: 262 KMSNPKF 268
++ +F
Sbjct: 69 NLNGREF 75
>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 = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 39/170 (22%), Positives = 83/170 (48%), Gaps = 13/170 (7%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++++GG+ D ++D+LR + G VT+++IMK +G ++G+ F++F + ++
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 181 LNSCELKGKKIKCSAAQAKH------RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVK 234
+ L GK I A + ++F+G + + + + ++ G +I +L+
Sbjct: 65 QHI--LDGKVIDPKRAIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGT-IIDAQLML 121
Query: 235 DPQNANQNRGFAFIEYYNHACAEYSRQKMSNPKFKLDDNAPTVSWADPRN 284
D ++ Q+RGF F+ Y A+ + N D + A+PR+
Sbjct: 122 D-KDTGQSRGFGFVTY---DSADAVDRVCQNKFIDFKDRKIEIKRAEPRH 167
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 49/86 (56%), Gaps = 4/86 (4%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSR-YGFVHFAERSSAMKALKN 354
+++ L D T+D L+E F +G +T + I P RSR +GF+ F + SS + +K
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKI-MKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 355 TEKYEIDGQVLDCSLAKPQADQKTSG 380
++ +DG+V+D A P+ +Q +G
Sbjct: 65 --QHILDGKVIDPKRAIPRDEQDKTG 88
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 32/154 (20%), Positives = 67/154 (43%), Gaps = 10/154 (6%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSR 260
++FIG + + ED++R+ K G V ++++KDP ++RGF F+ + + +
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGT-VTDLKIMKDPATG-RSRGFGFLSFEKPSSVD--- 59
Query: 261 QKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGKI 320
++ + LD A PR+ + ++V + D+ +E F+ G I
Sbjct: 60 -EVVKTQHILDGKVIDPKRAIPRDEQDKTGK----IFVGGIGPDVRPKEFEEFFSQWGTI 114
Query: 321 TKVVIPPAKPGQERSRYGFVHFAERSSAMKALKN 354
+ K + +GFV + + + +N
Sbjct: 115 IDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQN 148
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 48/78 (61%), Gaps = 1/78 (1%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+++++GGIPH+ + +LR + K G VTEV ++ + +G+ F+TF ++ QA+
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV- 69
Query: 180 ELNSCELKGKKIKCSAAQ 197
++ ++ GKK++ A+
Sbjct: 70 NMHFHDIMGKKVEVKRAE 87
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 48/88 (54%), Gaps = 2/88 (2%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
++V +P + + L+E F G +T+VV+ Q +GF+ F + S +A+ N
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV-NM 71
Query: 356 EKYEIDGQVLDCSLAKPQADQKTSGGSN 383
++I G+ ++ A+P+ D K+SG S+
Sbjct: 72 HFHDIMGKKVEVKRAEPR-DSKSSGPSS 98
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 48/93 (51%), Gaps = 7/93 (7%)
Query: 200 HRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYS 259
+++F+G +P N GE ++R+ K G V + ++ D + + RGF FI + + E S
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGV-VTEVVMIYDAEK-QRPRGFGFITFED----EQS 64
Query: 260 RQKMSNPKFK-LDDNAPTVSWADPRNAESSAAS 291
+ N F + V A+PR+++SS S
Sbjct: 65 VDQAVNMHFHDIMGKKVEVKRAEPRDSKSSGPS 97
>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 = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 43/83 (51%)
Query: 114 ALPPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKEL 173
+P ++++GG+P+ +DD ++ S G + ++K +G +KGYAF + +
Sbjct: 109 VVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINV 168
Query: 174 ASQAIEELNSCELKGKKIKCSAA 196
QAI LN +L KK+ A
Sbjct: 169 TDQAIAGLNGMQLGDKKLLVQRA 191
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 35/160 (21%), Positives = 70/160 (43%), Gaps = 34/160 (21%)
Query: 122 VYLGGIPHDASDDDLRHFCKS---IGEVTEV--RIMKGKDSGEAKGYAFVTFRTKELASQ 176
+Y+G IP +++ + F + +G +T+ + + K +AF+ FR+ + +Q
Sbjct: 7 LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQ 66
Query: 177 AIEELNSCELKGKKIKC--------------------------SAAQAKHRLFIGNVPRN 210
A+ + +G+ +K + H+LFIG +P
Sbjct: 67 AMA-FDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNY 125
Query: 211 WGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEY 250
+D +++ +T GP + + LVKD ++G+AF EY
Sbjct: 126 LNDDQVKELLTSFGP-LKAFNLVKDSATG-LSKGYAFCEY 163
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 51.2 bits (121), Expect = 1e-06, Method: Composition-based stats.
Identities = 24/71 (33%), Positives = 43/71 (60%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+P D +D +L ++IG + RIM+ +G + GYAFV F ++ + +AI+ LN +
Sbjct: 11 LPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITV 70
Query: 187 KGKKIKCSAAQ 197
+ K++K S A+
Sbjct: 71 RNKRLKVSYAR 81
Score = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 30/77 (38%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V LP+D+T L LF G I I Y FV F + +A+K
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 356 EKYEIDGQVLDCSLAKP 372
+ + L S A+P
Sbjct: 66 NGITVRNKRLKVSYARP 82
>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 = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 42/80 (52%)
Query: 117 PHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQ 176
P ++++GG+P+ +DD ++ S G + ++K +G +KGYAF + + Q
Sbjct: 94 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 153
Query: 177 AIEELNSCELKGKKIKCSAA 196
AI LN +L KK+ A
Sbjct: 154 AIAGLNGMQLGDKKLLVQRA 173
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 38/147 (25%), Positives = 72/147 (48%), Gaps = 16/147 (10%)
Query: 117 PHGS--EVYLGGIPHDASDDDLRHFCKS---IGEVTEV--RIMKGKDSGEAKGYAFVTFR 169
P GS +Y+G IP +++ + F + +G +T+ + + K +AF+ FR
Sbjct: 2 PLGSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFR 61
Query: 170 TKELASQAIEELNSCELKGKKIKCSAAQ------AKHRLFIGNVPRNWGEDDMRKAVTKI 223
+ + +QA+ + +G+ +K H+LFIG +P +D +++ +T
Sbjct: 62 SVDETTQAMA-FDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSF 120
Query: 224 GPGVISIELVKDPQNANQNRGFAFIEY 250
GP + + LVKD ++G+AF EY
Sbjct: 121 GP-LKAFNLVKDSATG-LSKGYAFCEY 145
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/133 (21%), Positives = 58/133 (43%), Gaps = 24/133 (18%)
Query: 198 AKHRLFIGNVPRNWGED---DMRKAVTKIG-----PG--VISIELVKDPQNANQNRGFAF 247
+ RL++GN+P E+ D A ++G PG V+++++ NQ++ FAF
Sbjct: 5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQI-------NQDKNFAF 57
Query: 248 IEYYNHACAEYSRQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQ 307
+E+ + + + Q M+ + + R + L++ LP +
Sbjct: 58 LEFRS---VDETTQAMAFDGIIFQGQSLKIR----RPHDYQPLPGAHKLFIGGLPNYLND 110
Query: 308 DRLKELFAHHGKI 320
D++KEL G +
Sbjct: 111 DQVKELLTSFGPL 123
>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 = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/150 (21%), Positives = 75/150 (50%), Gaps = 15/150 (10%)
Query: 116 PPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELAS 175
P ++++GG+ + +D+ LR + G +T+ +M+ ++ ++G+ FVT+ T E
Sbjct: 10 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVD 69
Query: 176 QAIEELNSCELKGKKIKCSAAQAKH------------RLFIGNVPRNWGEDDMRKAVTKI 223
A+ ++ G+ ++ A ++ ++F+G + + E +R +
Sbjct: 70 AAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQY 128
Query: 224 GPGVISIELVKDPQNANQNRGFAFIEYYNH 253
G + IE++ D + + + RGFAF+ + +H
Sbjct: 129 GK-IEVIEIMTD-RGSGKKRGFAFVTFDDH 156
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 42/80 (52%)
Query: 117 PHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQ 176
P ++++GG+P+ +DD ++ S G + ++K +G +KGYAF + + Q
Sbjct: 92 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 151
Query: 177 AIEELNSCELKGKKIKCSAA 196
AI LN +L KK+ A
Sbjct: 152 AIAGLNGMQLGDKKLLVQRA 171
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 35/140 (25%), Positives = 69/140 (49%), Gaps = 14/140 (10%)
Query: 122 VYLGGIPHDASDDDLRHFCKS---IGEVTEV--RIMKGKDSGEAKGYAFVTFRTKELASQ 176
+Y+G IP +++ + F + +G +T+ + + K +AF+ FR+ + +Q
Sbjct: 7 LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQ 66
Query: 177 AIEELNSCELKGKKIKCSAAQ------AKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISI 230
A+ + +G+ +K H+LFIG +P +D +++ +T GP + +
Sbjct: 67 AMA-FDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGP-LKAF 124
Query: 231 ELVKDPQNANQNRGFAFIEY 250
LVKD ++G+AF EY
Sbjct: 125 NLVKDSATG-LSKGYAFCEY 143
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 29/131 (22%), Positives = 57/131 (43%), Gaps = 24/131 (18%)
Query: 198 AKHRLFIGNVPRNWGED---DMRKAVTKIG-----PG--VISIELVKDPQNANQNRGFAF 247
+ RL++GN+P E+ D A ++G PG V+++++ NQ++ FAF
Sbjct: 3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQI-------NQDKNFAF 55
Query: 248 IEYYNHACAEYSRQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQ 307
+E+ + + + Q M+ + + R + L++ LP +
Sbjct: 56 LEFRS---VDETTQAMAFDGIIFQGQSLKIR----RPHDYQPLPGAHKLFIGGLPNYLND 108
Query: 308 DRLKELFAHHG 318
D++KEL G
Sbjct: 109 DQVKELLTSFG 119
>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 = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/150 (21%), Positives = 75/150 (50%), Gaps = 15/150 (10%)
Query: 116 PPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELAS 175
P ++++GG+ + +D+ LR + G +T+ +M+ ++ ++G+ FVT+ T E
Sbjct: 9 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVD 68
Query: 176 QAIEELNSCELKGKKIKCSAAQAKH------------RLFIGNVPRNWGEDDMRKAVTKI 223
A+ ++ G+ ++ A ++ ++F+G + + E +R +
Sbjct: 69 AAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQY 127
Query: 224 GPGVISIELVKDPQNANQNRGFAFIEYYNH 253
G + IE++ D + + + RGFAF+ + +H
Sbjct: 128 GK-IEVIEIMTD-RGSGKKRGFAFVTFDDH 155
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/150 (21%), Positives = 75/150 (50%), Gaps = 15/150 (10%)
Query: 116 PPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELAS 175
P ++++GG+ + +D+ LR + G +T+ +M+ ++ ++G+ FVT+ T E
Sbjct: 10 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVD 69
Query: 176 QAIEELNSCELKGKKIKCSAAQAKH------------RLFIGNVPRNWGEDDMRKAVTKI 223
A+ ++ G+ ++ A ++ ++F+G + + E +R +
Sbjct: 70 AAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQY 128
Query: 224 GPGVISIELVKDPQNANQNRGFAFIEYYNH 253
G + IE++ D + + + RGFAF+ + +H
Sbjct: 129 GK-IEVIEIMTD-RGSGKKRGFAFVTFDDH 156
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/150 (21%), Positives = 75/150 (50%), Gaps = 15/150 (10%)
Query: 116 PPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELAS 175
P ++++GG+ + +D+ LR + G +T+ +M+ ++ ++G+ FVT+ T E
Sbjct: 11 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVD 70
Query: 176 QAIEELNSCELKGKKIKCSAAQAKH------------RLFIGNVPRNWGEDDMRKAVTKI 223
A+ ++ G+ ++ A ++ ++F+G + + E +R +
Sbjct: 71 AAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQY 129
Query: 224 GPGVISIELVKDPQNANQNRGFAFIEYYNH 253
G + IE++ D + + + RGFAF+ + +H
Sbjct: 130 GK-IEVIEIMTD-RGSGKKRGFAFVTFDDH 157
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/150 (21%), Positives = 75/150 (50%), Gaps = 15/150 (10%)
Query: 116 PPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELAS 175
P ++++GG+ + +D+ LR + G +T+ +M+ ++ ++G+ FVT+ T E
Sbjct: 8 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVD 67
Query: 176 QAIEELNSCELKGKKIKCSAAQAKH------------RLFIGNVPRNWGEDDMRKAVTKI 223
A+ ++ G+ ++ A ++ ++F+G + + E +R +
Sbjct: 68 AAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQY 126
Query: 224 GPGVISIELVKDPQNANQNRGFAFIEYYNH 253
G + IE++ D + + + RGFAF+ + +H
Sbjct: 127 GK-IEVIEIMTD-RGSGKKRGFAFVTFDDH 154
>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 = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/150 (21%), Positives = 75/150 (50%), Gaps = 15/150 (10%)
Query: 116 PPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELAS 175
P ++++GG+ + +D+ LR + G +T+ +M+ ++ ++G+ FVT+ T E
Sbjct: 3 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVD 62
Query: 176 QAIEELNSCELKGKKIKCSAAQAKH------------RLFIGNVPRNWGEDDMRKAVTKI 223
A+ ++ G+ ++ A ++ ++F+G + + E +R +
Sbjct: 63 AAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQY 121
Query: 224 GPGVISIELVKDPQNANQNRGFAFIEYYNH 253
G + IE++ D + + + RGFAF+ + +H
Sbjct: 122 GK-IEVIEIMTD-RGSGKKRGFAFVTFDDH 149
>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 = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 46/78 (58%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
V++G + + + +D++ G +++ R++K +G++KGY FV+F K A AI+++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 182 NSCELKGKKIKCSAAQAK 199
L G++I+ + A K
Sbjct: 78 GGQWLGGRQIRTNWATRK 95
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 43/86 (50%), Gaps = 4/86 (4%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKV-VIPPAKPGQERSRYGFVHFAERSSAMKALKN 354
++V +L +IT + +K FA G+I+ V+ G+ + YGFV F + A A++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKG-YGFVSFFNKWDAENAIQQ 76
Query: 355 TEKYEIDGQVLDCSLA--KPQADQKT 378
+ G+ + + A KP A + T
Sbjct: 77 MGGQWLGGRQIRTNWATRKPPAPKST 102
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 54/98 (55%), Gaps = 10/98 (10%)
Query: 287 SSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERS 346
SS +S + L++ NLP++ T+ ++ LF +GK+ + I YGFVH +++
Sbjct: 2 SSGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDIIK--------NYGFVHIEDKT 53
Query: 347 SAMKALKNTEKYEIDGQVLDCSLAKPQADQKTSGGSNS 384
+A A++N Y++ G ++ +K ++ K S G +S
Sbjct: 54 AAEDAIRNLHHYKLHGVNINVEASKNKS--KASSGPSS 89
Score = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 40/81 (49%), Gaps = 8/81 (9%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++++G +P +A++ ++R + G+V E I+ K Y FV K A AI
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRN 61
Query: 181 LNSCELKGKKIKCSAAQAKHR 201
L+ +L G I A++ K +
Sbjct: 62 LHHYKLHGVNINVEASKNKSK 82
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 8/56 (14%)
Query: 194 SAAQAKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIE 249
S + +LFIGN+PR E ++R + G V+ +++K N GF IE
Sbjct: 3 SGSSGMVKLFIGNLPREATEQEIRSLFEQYGK-VLECDIIK-------NYGFVHIE 50
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 49.3 bits (116), Expect = 5e-06, Method: Composition-based stats.
Identities = 26/77 (33%), Positives = 38/77 (49%), Gaps = 6/77 (7%)
Query: 117 PHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQ 176
P VY GGI +D +R G++ E+R+ KGY+FV F T E A+
Sbjct: 23 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFP------EKGYSFVRFSTHESAAH 76
Query: 177 AIEELNSCELKGKKIKC 193
AI +N ++G +KC
Sbjct: 77 AIVSVNGTTIEGHVVKC 93
Score = 37.0 bits (84), Expect = 0.028, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 7/88 (7%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
+Y + +T +++ F+ G+I ++ + P K Y FV F+ SA A+ +
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKG------YSFVRFSTHESAAHAIVSV 81
Query: 356 EKYEIDGQVLDCSLAKPQADQKTSGGSN 383
I+G V+ C K D TSG S+
Sbjct: 82 NGTTIEGHVVKCYWGKESPDM-TSGPSS 108
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 48.9 bits (115), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 41/75 (54%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
IP + LR + G + V+I+ +++ +++GY FV F++ A QAI LN +
Sbjct: 50 IPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNI 109
Query: 187 KGKKIKCSAAQAKHR 201
K++K + A + H+
Sbjct: 110 LNKRLKVALAASGHQ 124
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%)
Query: 293 VKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKAL 352
++ L V +P + + +L++LF +G I V I + ++ YGFV F SSA +A+
Sbjct: 42 LRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAI 101
Query: 353 KNTEKYEIDGQVLDCSLA 370
+ I + L +LA
Sbjct: 102 AGLNGFNILNKRLKVALA 119
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 46/72 (63%), Gaps = 2/72 (2%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIG-EVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE- 179
V L +P A++DD+R +S G + EVR+M+ K SG+++G+AFV F + A++ +E
Sbjct: 4 VMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEA 63
Query: 180 ELNSCELKGKKI 191
+S + G+K+
Sbjct: 64 NQHSLNILGQKV 75
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 207 VPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEY 250
+P+ EDD+R + G + L+++ +++ Q+RGFAF+E+
Sbjct: 9 LPQAATEDDIRGQLQSHGVQAREVRLMRN-KSSGQSRGFAFVEF 51
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 33/150 (22%), Positives = 73/150 (48%), Gaps = 11/150 (7%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+G + ++D L+ + + G + ++IM K++ YAFV + A+ A++ L
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVN-YAFVEYHQSHDANIALQTL 61
Query: 182 NSCELKGKKIKC--------SAAQAKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELV 233
N +++ +K S++ LF+G++ N ++ +R A P +S ++
Sbjct: 62 NGKQIENNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDF-PSYLSGHVM 120
Query: 234 KDPQNANQNRGFAFIEYYNHACAEYSRQKM 263
D Q + +RG+ F+ + + A+ + M
Sbjct: 121 WDMQTGS-SRGYGFVSFTSQDDAQNAMDSM 149
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 40/76 (52%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
+++G + + D+ LR+ K +M +G ++GY FV+F +++ A A++
Sbjct: 89 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 148
Query: 181 LNSCELKGKKIKCSAA 196
+ +L G+ ++ + A
Sbjct: 149 MQGQDLNGRPLRINWA 164
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 2/86 (2%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALK 353
+ LYV NL K IT+D LK+ F G I + I K + Y FV + + A AL+
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQ 59
Query: 354 NTEKYEIDGQVLDCSLAKPQADQKTS 379
+I+ ++ + A Q+ Q +S
Sbjct: 60 TLNGKQIENNIVKINWA-FQSQQSSS 84
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 45/78 (57%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
V++G + + + +D++ G++++ R++K +G++KGY FV+F K A AI +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 182 NSCELKGKKIKCSAAQAK 199
L G++I+ + A K
Sbjct: 78 GGQWLGGRQIRTNWATRK 95
Score = 33.1 bits (74), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 4/89 (4%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKV-VIPPAKPGQERSRYGFVHFAERSSAMKALKN 354
++V +L +IT + +K FA GKI+ V+ G+ + YGFV F + A A+ +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKG-YGFVSFYNKLDAENAIVH 76
Query: 355 TEKYEIDGQVLDCSLA--KPQADQKTSGG 381
+ G+ + + A KP A S G
Sbjct: 77 MGGQWLGGRQIRTNWATRKPPAPSGPSSG 105
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 47.8 bits (112), Expect = 1e-05, Method: Composition-based stats.
Identities = 23/91 (25%), Positives = 52/91 (57%), Gaps = 7/91 (7%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+++++GG+P+ +D LR + + G++ E ++ + +G+++GY FVT + A +A +
Sbjct: 18 TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACK 77
Query: 180 ELNSCELKGKKIKCSAAQAKHRLFIGNVPRN 210
+ N + G+K + A ++G PR+
Sbjct: 78 DPNPI-IDGRKANVNLA------YLGAKPRS 101
Score = 37.0 bits (84), Expect = 0.024, Method: Composition-based stats.
Identities = 30/86 (34%), Positives = 47/86 (54%), Gaps = 7/86 (8%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITK-VVIPPAKPGQERSRYGFVHFAERSSAMKALKN 354
++V LP T L++ F G I + VVI + G+ R YGFV A+R++A +A K+
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRG-YGFVTMADRAAAERACKD 78
Query: 355 TEKYEIDGQVLDCSL----AKPQADQ 376
IDG+ + +L AKP++ Q
Sbjct: 79 PNPI-IDGRKANVNLAYLGAKPRSLQ 103
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 47.8 bits (112), Expect = 1e-05, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 41/71 (57%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+P + + D+ + SIG++ ++++ K +G++ GY FV + A +AI LN +L
Sbjct: 12 LPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKL 71
Query: 187 KGKKIKCSAAQ 197
+ K IK S A+
Sbjct: 72 QTKTIKVSYAR 82
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 40/79 (50%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V LP+++TQD K LF G I + K + YGFV++++ + A KA+
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 356 EKYEIDGQVLDCSLAKPQA 374
++ + + S A+P +
Sbjct: 67 NGLKLQTKTIKVSYARPSS 85
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 33/93 (35%), Positives = 57/93 (61%), Gaps = 9/93 (9%)
Query: 291 SQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMK 350
++VK L+V+NL +T++ L++ F+ GK+ +V ++ Y FVHF +R +A+K
Sbjct: 13 AKVKVLFVRNLATTVTEEILEKSFSEFGKLERV--------KKLKDYAFVHFEDRGAAVK 64
Query: 351 ALKNTEKYEIDGQVLDCSLAKPQADQKTSGGSN 383
A+ EI+G+ ++ LAKP D+K SG S+
Sbjct: 65 AMDEMNGKEIEGEEIEIVLAKP-PDKKRSGPSS 96
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 47.4 bits (111), Expect = 2e-05, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 40/71 (56%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++++GG+P+ +DD ++ S G + ++K +G +KGYAF + + QAI
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 181 LNSCELKGKKI 191
LN +L KK+
Sbjct: 63 LNGMQLGDKKL 73
Score = 38.5 bits (88), Expect = 0.009, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 2/53 (3%)
Query: 200 HRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYN 252
H+LFIG +P +D +++ +T GP + + LVKD ++G+AF EY +
Sbjct: 2 HKLFIGGLPNYLNDDQVKELLTSFGP-LKAFNLVKDSATG-LSKGYAFCEYVD 52
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 51/95 (53%), Gaps = 17/95 (17%)
Query: 291 SQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQ-ERSR----YGFVHFAER 345
S VK LYV+NL +++ +++ F + KPG ER + Y FVHF+ R
Sbjct: 13 SSVKILYVRNLMLSTSEEMIEKEFNN-----------IKPGAVERVKKIRDYAFVHFSNR 61
Query: 346 SSAMKALKNTEKYEIDGQVLDCSLAKPQADQKTSG 380
A++A+K +DG ++ +LAKP D+ +SG
Sbjct: 62 EDAVEAMKALNGKVLDGSPIEVTLAKP-VDKDSSG 95
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
Length = 88
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKD-PQNANQNRGFAFIEYYNHACAEYS 259
++F+G VPR W E D+R+ + G V I +++D QN Q++G F+ +Y A +
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYG-AVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
Query: 260 RQKMSNPK 267
+ + N K
Sbjct: 64 QNALHNMK 71
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 40/68 (58%), Gaps = 2/68 (2%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSG--EAKGYAFVTFRTKELASQAI 178
++++G +P S+ DLR + G V E+ +++ + ++KG FVTF T++ A +A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 179 EELNSCEL 186
L++ ++
Sbjct: 65 NALHNMKV 72
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 47.0 bits (110), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 43/75 (57%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+GG+ + D L G++T+++I ++ + +G+AFV F E A+ AI+ +
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 182 NSCELKGKKIKCSAA 196
N EL G+ I+ + A
Sbjct: 126 NESELFGRTIRVNLA 140
>pdb|3MDF|A Chain A, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
pdb|3MDF|B Chain B, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
Length = 85
Score = 47.0 bits (110), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 44/76 (57%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+GG+ + D L G++T+++I ++ + +G+AFV F E A+ AI+ +
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 182 NSCELKGKKIKCSAAQ 197
N EL G+ I+ + A+
Sbjct: 70 NESELFGRTIRVNLAK 85
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 44/76 (57%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+GG+ + D L G++T+++I ++ + +G+AFV F E A+ AI+ +
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 182 NSCELKGKKIKCSAAQ 197
N EL G+ I+ + A+
Sbjct: 68 NESELFGRTIRVNLAK 83
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 45/86 (52%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ VY+GG+ S+ L G V + K + +G+ +GY FV F ++E A AI+
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75
Query: 180 ELNSCELKGKKIKCSAAQAKHRLFIG 205
++ +L GK I+ + A A ++ G
Sbjct: 76 IMDMIKLYGKPIRVNKASAHNKNLSG 101
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 43/97 (44%), Gaps = 2/97 (2%)
Query: 288 SAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSS 347
S +Q +YV L + +++ L ELF G + +P + + YGFV F
Sbjct: 10 SERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEED 69
Query: 348 AMKALKNTEKYEIDGQVLDCSLAKPQADQKTSGGSNS 384
A A+K + ++ G+ + + K A K G +S
Sbjct: 70 ADYAIKIMDMIKLYGKPIRVN--KASAHNKNLSGPSS 104
>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 = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 39/192 (20%), Positives = 87/192 (45%), Gaps = 15/192 (7%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+G + D ++ L G + +R+ + + + GYA+V F+ A +A++
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 75
Query: 180 ELNSCELKGKKIKCSAAQ--------AKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIE 231
+N +KGK ++ +Q +FI N+ ++ + + G ++S +
Sbjct: 76 TMNFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFG-NILSCK 134
Query: 232 LVKDPQNANQNRGFAFIEYYNHACAEYSRQKMSNPKFKLDDNAPTVS-WADPRNAESSAA 290
+V D N ++G+ F+ + AE + +KM+ L+D V + + E+
Sbjct: 135 VVCD---ENGSKGYGFVHFETQEAAERAIEKMNG--MLLNDRKVFVGRFKSRKEREAELG 189
Query: 291 SQVKALYVKNLP 302
++ K Y ++P
Sbjct: 190 ARAKEFYPYDVP 201
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 83/168 (49%), Gaps = 19/168 (11%)
Query: 202 LFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQ 261
L++G++ + E + + + GP ++SI + +D ++ G+A++ + A AE +
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGP-ILSIRVCRD-MITRRSLGYAYVNFQQPADAERALD 75
Query: 262 KMSNPKFKLDDNAPT-VSWA--DPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHG 318
M+ F + P + W+ DP S S V +++KNL K I L + F+ G
Sbjct: 76 TMN---FDVIKGKPVRIMWSQRDP----SLRKSGVGNIFIKNLDKSIDNKALYDTFSAFG 128
Query: 319 KITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQVLD 366
I + + G + YGFVHF + +A +A++ +++G +L+
Sbjct: 129 NILSCKVVCDENGSKG--YGFVHFETQEAAERAIE-----KMNGMLLN 169
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 44/97 (45%)
Query: 287 SSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERS 346
S+ + + +LYV +L D+T+ L E F+ G I + + + Y +V+F + +
Sbjct: 9 SAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPA 68
Query: 347 SAMKALKNTEKYEIDGQVLDCSLAKPQADQKTSGGSN 383
A +AL I G+ + ++ + SG N
Sbjct: 69 DAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGN 105
>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 = 46.2 bits (108), Expect = 4e-05, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 43/75 (57%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+GG+ + D L G++T+++I ++ + +G+AFV F E A+ AI+ +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 182 NSCELKGKKIKCSAA 196
N EL G+ I+ + A
Sbjct: 65 NESELFGRTIRVNLA 79
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 45.8 bits (107), Expect = 5e-05, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 46/75 (61%), Gaps = 1/75 (1%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++GG+ + + +D++H+ + G+V + +M K + +G+ FVTF ++++ + + E+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIV-EKVCEI 60
Query: 182 NSCELKGKKIKCSAA 196
+ E+ K ++C A
Sbjct: 61 HFHEINNKMVECKKA 75
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 45.4 bits (106), Expect = 7e-05, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 44/76 (57%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+GG+ + D L G++T+++I ++ + +G+AFV F E A+ AI+ +
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 182 NSCELKGKKIKCSAAQ 197
N EL G+ I+ + A+
Sbjct: 75 NESELFGRTIRVNLAK 90
>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 = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 83/168 (49%), Gaps = 19/168 (11%)
Query: 202 LFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQ 261
L++G++ + E + + + GP ++SI + +D ++ G+A++ + A AE +
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGP-ILSIRVCRD-MITRRSLGYAYVNFQQPADAERALD 70
Query: 262 KMSNPKFKLDDNAPT-VSWA--DPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHG 318
M+ F + P + W+ DP S S V +++KNL K I L + F+ G
Sbjct: 71 TMN---FDVIKGKPVRIMWSQRDP----SLRKSGVGNIFIKNLDKSIDNKALYDTFSAFG 123
Query: 319 KITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQVLD 366
I + + G + YGFVHF + +A +A++ +++G +L+
Sbjct: 124 NILSCKVVCDENGSKG--YGFVHFETQEAAERAIE-----KMNGMLLN 164
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/153 (20%), Positives = 72/153 (47%), Gaps = 12/153 (7%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+G + D ++ L G + +R+ + + + GYA+V F+ A +A++
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 70
Query: 180 ELNSCELKGKKIKCSAAQ--------AKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIE 231
+N +KGK ++ +Q +FI N+ ++ + + G ++S +
Sbjct: 71 TMNFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFG-NILSCK 129
Query: 232 LVKDPQNANQNRGFAFIEYYNHACAEYSRQKMS 264
+V D N ++G+ F+ + AE + +KM+
Sbjct: 130 VVCDE---NGSKGYGFVHFETQEAAERAIEKMN 159
Score = 35.4 bits (80), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++ + + L + G + +++ D +KGY FV F T+E A +AIE++
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVC--DENGSKGYGFVHFETQEAAERAIEKM 158
Query: 182 NSCELKGKKI 191
N L +K+
Sbjct: 159 NGMLLNDRKV 168
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 41/91 (45%)
Query: 293 VKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKAL 352
+ +LYV +L D+T+ L E F+ G I + + + Y +V+F + + A +AL
Sbjct: 10 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 69
Query: 353 KNTEKYEIDGQVLDCSLAKPQADQKTSGGSN 383
I G+ + ++ + SG N
Sbjct: 70 DTMNFDVIKGKPVRIMWSQRDPSLRKSGVGN 100
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 46/80 (57%), Gaps = 1/80 (1%)
Query: 118 HGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQA 177
H ++++GG+ + ++ L+ G ++EV ++K + S +++G+AF+TF A A
Sbjct: 6 HPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTS-KSRGFAFITFENPADAKNA 64
Query: 178 IEELNSCELKGKKIKCSAAQ 197
+++N L GK IK A+
Sbjct: 65 AKDMNGKSLHGKAIKVEQAK 84
Score = 37.7 bits (86), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 37/64 (57%), Gaps = 3/64 (4%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSR 260
+LFIG + R E ++ K GP + + L+KD +++RGFAFI + N A A+ +
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGP-ISEVLLIKD--RTSKSRGFAFITFENPADAKNAA 65
Query: 261 QKMS 264
+ M+
Sbjct: 66 KDMN 69
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 45.4 bits (106), Expect = 8e-05, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 44/76 (57%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++++GG+ D ++ L G+++EV ++K +++ ++G+ FVTF + A A+
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 181 LNSCELKGKKIKCSAA 196
+N + G++I+ A
Sbjct: 74 MNGKSVDGRQIRVDQA 89
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 24/93 (25%), Positives = 44/93 (47%)
Query: 290 ASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAM 349
AS L+V L D + L+++F+ +G+I++VV+ + Q +GFV F A
Sbjct: 9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAK 68
Query: 350 KALKNTEKYEIDGQVLDCSLAKPQADQKTSGGS 382
A+ +DG+ + A +D ++ S
Sbjct: 69 DAMMAMNGKSVDGRQIRVDQAGKSSDNRSGPSS 101
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V NL ++ ++ELFA G + K + + G+ VHF R+ A+KA+K
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTAD-VHFERRADALKAMKQY 96
Query: 356 EKYEIDGQVLDCSLAKPQAD 375
+ +DG+ +D L Q D
Sbjct: 97 KGVPLDGRPMDIQLVASQID 116
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V NL ++ ++ELFA G + K + + G+ VHF R+ A+KA+K
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTAD-VHFERRADALKAMKQY 96
Query: 356 EKYEIDGQVLDCSLAKPQAD 375
+ +DG+ +D L Q D
Sbjct: 97 KGVPLDGRPMDIQLVASQID 116
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V NL ++ ++ELFA G + K + + G+ VHF R+ A+KA+K
Sbjct: 91 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLG-TADVHFERRADALKAMKQY 149
Query: 356 EKYEIDGQVLDCSLAKPQAD 375
+ +DG+ +D L Q D
Sbjct: 150 KGVPLDGRPMDIQLVASQID 169
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 37/170 (21%), Positives = 72/170 (42%), Gaps = 21/170 (12%)
Query: 202 LFIGNVPRNWGEDDMRKAVTKIGP----GVISIELVKDPQNANQNRGFAFIEYYNHACAE 257
LF+GN+ N +++ ++ + V+ + + R F ++++ AE
Sbjct: 10 LFVGNLNFNKSAPELKTGISDVFAKNDLAVVDVRI-------GMTRKFGYVDF---ESAE 59
Query: 258 YSRQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHH 317
+ + K+ N + P+ +S + L KNLP +TQD LKE+F
Sbjct: 60 DLEKALELTGLKVFGNE--IKLEKPKGKDSKKERDARTLLAKNLPYKVTQDELKEVFEDA 117
Query: 318 GKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQVLDC 367
+I V +K G+ + ++ F + A K + + EIDG+ +
Sbjct: 118 AEIRLV----SKDGKSKG-IAYIEFKTEADAEKTFEEKQGTEIDGRSISL 162
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 38/67 (56%), Gaps = 5/67 (7%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+P+ + D+L+ + + E+R++ KD G++KG A++ F+T+ A + EE E+
Sbjct: 101 LPYKVTQDELKEVFE---DAAEIRLV-SKD-GKSKGIAYIEFKTEADAEKTFEEKQGTEI 155
Query: 187 KGKKIKC 193
G+ I
Sbjct: 156 DGRSISL 162
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 20/78 (25%), Positives = 47/78 (60%), Gaps = 1/78 (1%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++++ G+P + ++L CK+ G V ++R++ + +G+ KG A+V + + ASQA+ +
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMK 77
Query: 181 LNSCELKGKKIKCSAAQA 198
++ +K IK + + +
Sbjct: 78 MDGMTIKENIIKVAISNS 95
Score = 31.2 bits (69), Expect = 1.2, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 39/76 (51%), Gaps = 3/76 (3%)
Query: 194 SAAQAKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNH 253
S + KH+LFI +P + ++++ + + K V + LV + A + +G A++EY N
Sbjct: 12 STSLEKHKLFISGLPFSCTKEELEE-ICKAHGTVKDLRLVTN--RAGKPKGLAYVEYENE 68
Query: 254 ACAEYSRQKMSNPKFK 269
+ A + KM K
Sbjct: 69 SQASQAVMKMDGMTIK 84
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 112 LLALPPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTK 171
L PP ++++G + S+DD+R ++ G + E I++G D G +KG AFV + +
Sbjct: 8 CLRQPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPD-GNSKGCAFVKYSSH 66
Query: 172 ELASQAIEELN 182
A AI L+
Sbjct: 67 AEAQAAINALH 77
Score = 32.7 bits (73), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 32/57 (56%), Gaps = 3/57 (5%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAE 257
+LF+G + + EDD+R+ G + +++ P ++G AF++Y +HA A+
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFG-NIEECTILRGPD--GNSKGCAFVKYSSHAEAQ 70
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 28/96 (29%), Positives = 45/96 (46%), Gaps = 4/96 (4%)
Query: 289 AASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSA 348
A + L V LP T+ LKE F+ G++ V + +GFV F E +
Sbjct: 11 AVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQ 70
Query: 349 MKALKNTEKYEIDGQVLDCSLAKPQADQKTSGGSNS 384
+K + ++++ IDG+ DC L P + Q G +S
Sbjct: 71 VKVM--SQRHMIDGRWCDCKL--PNSKQSQDSGPSS 102
Score = 38.1 bits (87), Expect = 0.010, Method: Composition-based stats.
Identities = 20/81 (24%), Positives = 41/81 (50%), Gaps = 2/81 (2%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
S++ + G+P ++ DL+ + + GEV V++ K +G +KG+ FV F E + +
Sbjct: 16 SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS 75
Query: 180 ELNSCELKGKKIKCSAAQAKH 200
+ + + G+ C +K
Sbjct: 76 QRHM--IDGRWCDCKLPNSKQ 94
>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: Composition-based stats.
Identities = 20/81 (24%), Positives = 47/81 (58%), Gaps = 1/81 (1%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+G + + A+ + ++ G+V V+++ +++ + KG+ FV + +E S+AI +L
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQ-EESVSEAIAKL 62
Query: 182 NSCELKGKKIKCSAAQAKHRL 202
++ + G+ I+ + A K L
Sbjct: 63 DNTDFMGRTIRVTEANPKKSL 83
Score = 36.2 bits (82), Expect = 0.044, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 43/81 (53%), Gaps = 1/81 (1%)
Query: 293 VKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKAL 352
++ +YV NL T +++KELF+ GK+ V + + ++ +GFV E S + +A+
Sbjct: 1 MRNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVS-EAI 59
Query: 353 KNTEKYEIDGQVLDCSLAKPQ 373
+ + G+ + + A P+
Sbjct: 60 AKLDNTDFMGRTIRVTEANPK 80
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 43/74 (58%), Gaps = 1/74 (1%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSR-YGFVHFAERSSAMKALKN 354
+++ L +++T+D + E+F+ +GKI + +P + S+ Y +V F A KALK+
Sbjct: 7 VHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKH 66
Query: 355 TEKYEIDGQVLDCS 368
+ +IDGQ + +
Sbjct: 67 MDGGQIDGQEITAT 80
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/80 (20%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRI-MKGKDSGEAKGYAFVTFRTKELASQAI 178
++V++G + + + D + + G++ + + ++ +KGYA+V F + A +A+
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKAL 64
Query: 179 EELNSCELKGKKIKCSAAQA 198
+ ++ ++ G++I +A A
Sbjct: 65 KHMDGGQIDGQEITATAVLA 84
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 39/71 (54%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+ + S D LR + G V +V I + + + E++G+AFV F K A A++ ++ L
Sbjct: 55 LTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVL 114
Query: 187 KGKKIKCSAAQ 197
G++++ A+
Sbjct: 115 DGRELRVQMAR 125
>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 = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+ +P +DD L G + + I++ K +G +G AFV + +E A +AI
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 73
Query: 180 ELNSC 184
LN+
Sbjct: 74 ALNNV 78
Score = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKIT-KVVIPPAKPGQERSRYGFVHFAERSSAMKAL 352
LYV NLP+ IT D+L +F +G I K ++ G+ R FV + +R A +A+
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRG-VAFVRYNKREEAQEAI 72
>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 = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 40/173 (23%), Positives = 77/173 (44%), Gaps = 13/173 (7%)
Query: 191 IKCSAAQAKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEY 250
++ S + LFIGN+ N +++ A++++ +L NR F ++++
Sbjct: 5 VEGSESTTPFNLFIGNLNPNKSVAELKVAISEL---FAKNDLAVVDVRTGTNRKFGYVDF 61
Query: 251 YNHACAEYSRQKMSNPKFKLDDNAPTVSWADPRNAESSAASQVKALYVKNLPKDITQDRL 310
AE + + K+ N + P+ +S + L KNL +IT+D L
Sbjct: 62 ---ESAEDLEKALELTGLKVFGNE--IKLEKPKGRDSKKVRAARTLLAKNLSFNITEDEL 116
Query: 311 KELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQ 363
KE+F +I V ++ G+ + ++ F + A K L+ + EIDG+
Sbjct: 117 KEVFEDALEIRLV----SQDGKSKG-IAYIEFKSEADAEKNLEEKQGAEIDGR 164
>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 = 42.4 bits (98), Expect = 7e-04, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 43/77 (55%), Gaps = 6/77 (7%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
S +++G +P D +++++R + G+ EV I K K G+ F+ T+ LA A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIAKV 69
Query: 180 ELNSCELKGKKIKCSAA 196
EL++ L+GK+++ A
Sbjct: 70 ELDNMPLRGKQLRVRFA 86
Score = 37.7 bits (86), Expect = 0.015, Method: Composition-based stats.
Identities = 29/93 (31%), Positives = 45/93 (48%), Gaps = 7/93 (7%)
Query: 291 SQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMK 350
+Q L+V NLP DIT++ +++LF +GK +V I K +GF+ R+ A
Sbjct: 13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG------FGFIRLETRTLAEI 66
Query: 351 ALKNTEKYEIDGQVLDCSLAKPQADQKTSGGSN 383
A + + G+ L A A TSG S+
Sbjct: 67 AKVELDNMPLRGKQLRVRFACHSASL-TSGPSS 98
Score = 35.4 bits (80), Expect = 0.073, Method: Composition-based stats.
Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 10/68 (14%)
Query: 199 KHRLFIGNVPRNWGEDDMRKAVTKIG-PGVISIELVKDPQNANQNRGFAFIEYYNHACAE 257
+ RLF+GN+P + E++MRK K G G + I ++++GF FI AE
Sbjct: 15 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI---------HKDKGFGFIRLETRTLAE 65
Query: 258 YSRQKMSN 265
++ ++ N
Sbjct: 66 IAKVELDN 73
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 38/73 (52%)
Query: 126 GIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCE 185
G+ ++ DLR G + +V I+ + S ++G+AFV F + A +A E N E
Sbjct: 22 GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGME 81
Query: 186 LKGKKIKCSAAQA 198
L G++I+ S +
Sbjct: 82 LDGRRIRVSGPSS 94
Score = 30.8 bits (68), Expect = 1.8, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 2/50 (4%)
Query: 213 EDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQK 262
E D+R+ +K GP + + +V D Q + ++RGFAF+ + N A+ ++++
Sbjct: 29 ERDLREVFSKYGP-IADVSIVYD-QQSRRSRGFAFVYFENVDDAKEAKER 76
Score = 30.0 bits (66), Expect = 2.8, Method: Composition-based stats.
Identities = 17/63 (26%), Positives = 31/63 (49%)
Query: 306 TQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQVL 365
T+ L+E+F+ +G I V I + + + FV+F A +A + E+DG+ +
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 87
Query: 366 DCS 368
S
Sbjct: 88 RVS 90
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++ IP D DLR G++ +V I+ + +KG+ FVTF A +A E+L
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKL 75
Query: 182 NSCELKGKKIKCSAAQAK 199
+ ++G+KI+ + A A+
Sbjct: 76 HGTVVEGRKIEVNNATAR 93
Score = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 17/63 (26%), Positives = 37/63 (58%), Gaps = 4/63 (6%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSR 260
RL + N+P + + D+R+ + G ++ +E++ N ++GF F+ + N A A+ +R
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGK-ILDVEIIF---NERGSKGFGFVTFENSADADRAR 72
Query: 261 QKM 263
+K+
Sbjct: 73 EKL 75
Score = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALK 353
K L+V N+P L+++F GKI V I + G + +GFV F + A +A +
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSK--GFGFVTFENSADADRARE 73
Query: 354 NTEKYEIDGQVLDCSLA 370
++G+ ++ + A
Sbjct: 74 KLHGTVVEGRKIEVNNA 90
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++ IP D DLR G++ +V I+ + +KG+ FVTF A +A E+L
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKL 89
Query: 182 NSCELKGKKIKCSAAQAK 199
+ ++G+KI+ + A A+
Sbjct: 90 HGTVVEGRKIEVNNATAR 107
Score = 35.4 bits (80), Expect = 0.076, Method: Composition-based stats.
Identities = 18/77 (23%), Positives = 40/77 (51%), Gaps = 4/77 (5%)
Query: 187 KGKKIKCSAAQAKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFA 246
+G + RL + N+P + + D+R+ + G ++ +E++ N ++GF
Sbjct: 17 RGSHMNTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGK-ILDVEIIF---NERGSKGFG 72
Query: 247 FIEYYNHACAEYSRQKM 263
F+ + N A A+ +R+K+
Sbjct: 73 FVTFENSADADRAREKL 89
Score = 33.1 bits (74), Expect = 0.37, Method: Composition-based stats.
Identities = 23/80 (28%), Positives = 40/80 (50%), Gaps = 2/80 (2%)
Query: 291 SQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMK 350
SQ K L+V N+P L+++F GKI V I + G + +GFV F + A +
Sbjct: 27 SQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSK--GFGFVTFENSADADR 84
Query: 351 ALKNTEKYEIDGQVLDCSLA 370
A + ++G+ ++ + A
Sbjct: 85 AREKLHGTVVEGRKIEVNNA 104
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 41/84 (48%)
Query: 117 PHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQ 176
P G+ +++ +P + D DL G V ++ K + +K + FV++ A
Sbjct: 23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQA 82
Query: 177 AIEELNSCELKGKKIKCSAAQAKH 200
AI+ +N ++ K++K ++K+
Sbjct: 83 AIQSMNGFQIGMKRLKVQLKRSKN 106
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/83 (21%), Positives = 38/83 (45%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L++ +LP++ L ++F G + + K +GFV + SA A+++
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 356 EKYEIDGQVLDCSLAKPQADQKT 378
++I + L L + + D K+
Sbjct: 88 NGFQIGMKRLKVQLKRSKNDSKS 110
>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 = 24/82 (29%), Positives = 43/82 (52%), Gaps = 2/82 (2%)
Query: 119 GSEVYLGGIPHDASDDDLRH-FCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQA 177
G +++ I +A +D+++ FC GE+ + + + +G +KGYA V + T + A A
Sbjct: 26 GWILFVTSIHEEAQEDEIQEKFC-DYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 84
Query: 178 IEELNSCELKGKKIKCSAAQAK 199
E LN E+ G+ I+ K
Sbjct: 85 KEALNGAEIMGQTIQVDWCFVK 106
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 33/52 (63%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAI 178
+ D + DL+ + G ++ + + K K +G++KG+AF++F +E A++AI
Sbjct: 23 LSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
>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 = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 35/56 (62%)
Query: 144 GEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCELKGKKIKCSAAQAK 199
G +++ R++K +G++KGY FV+F K A AI+++ L G++I+ + A K
Sbjct: 31 GRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATRK 86
>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 = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 26/81 (32%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
V++GGI + ++R F G V EV+I+ + +G +KGY FV+F + +E
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE-- 68
Query: 182 NSCELKGKKIKCSAAQAKHRL 202
+ GKK+K A K L
Sbjct: 69 SQINFHGKKLKLGPAIRKQNL 89
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 36/67 (53%)
Query: 126 GIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCE 185
G+ ++ DLR G + +V I+ + S ++G+AFV F + A +A E N E
Sbjct: 19 GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGME 78
Query: 186 LKGKKIK 192
L G++I+
Sbjct: 79 LDGRRIR 85
Score = 31.2 bits (69), Expect = 1.5, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 2/50 (4%)
Query: 213 EDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQK 262
E D+R+ +K GP + + +V D Q + ++RGFAF+ + N A+ ++++
Sbjct: 26 ERDLREVFSKYGP-IADVSIVYD-QQSRRSRGFAFVYFENVDDAKEAKER 73
Score = 30.0 bits (66), Expect = 2.8, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 29/58 (50%)
Query: 306 TQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQ 363
T+ L+E+F+ +G I V I + + + FV+F A +A + E+DG+
Sbjct: 25 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGR 82
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 36/67 (53%)
Query: 126 GIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCE 185
G+ ++ DLR G + +V I+ + S ++G+AFV F + A +A E N E
Sbjct: 22 GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGME 81
Query: 186 LKGKKIK 192
L G++I+
Sbjct: 82 LDGRRIR 88
Score = 31.2 bits (69), Expect = 1.5, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 2/50 (4%)
Query: 213 EDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQK 262
E D+R+ +K GP + + +V D Q + ++RGFAF+ + N A+ ++++
Sbjct: 29 ERDLREVFSKYGP-IADVSIVYD-QQSRRSRGFAFVYFENVDDAKEAKER 76
Score = 30.0 bits (66), Expect = 2.8, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 29/58 (50%)
Query: 306 TQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQ 363
T+ L+E+F+ +G I V I + + + FV+F A +A + E+DG+
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGR 85
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 36/67 (53%)
Query: 126 GIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCE 185
G+ ++ DLR G + +V I+ + S ++G+AFV F + A +A E N E
Sbjct: 53 GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGME 112
Query: 186 LKGKKIK 192
L G++I+
Sbjct: 113 LDGRRIR 119
Score = 31.2 bits (69), Expect = 1.5, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 2/50 (4%)
Query: 213 EDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQK 262
E D+R+ +K GP + + +V D Q + ++RGFAF+ + N A+ ++++
Sbjct: 60 ERDLREVFSKYGP-IADVSIVYD-QQSRRSRGFAFVYFENVDDAKEAKER 107
Score = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 29/58 (50%)
Query: 306 TQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEIDGQ 363
T+ L+E+F+ +G I V I + + + FV+F A +A + E+DG+
Sbjct: 59 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGR 116
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 39/75 (52%)
Query: 119 GSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAI 178
G +++ G+ +A+++D+ GE+ + + + +G KGY V + T + A A+
Sbjct: 23 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 82
Query: 179 EELNSCELKGKKIKC 193
E LN +L G+ I
Sbjct: 83 EGLNGQDLMGQPISV 97
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 35/59 (59%), Gaps = 2/59 (3%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGK-ITKVVIPPAKPGQERSRYGFVHFAERSSAMKALK 353
LYV LPK ++Q +++LF+ +G+ IT ++ G R GF+ F +R A +A+K
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRG-VGFIRFDKRIEAEEAIK 61
Score = 37.4 bits (85), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 32/63 (50%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+ G+P S ++ G + RI+ + +G ++G F+ F + A +AI+
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 180 ELN 182
LN
Sbjct: 62 GLN 64
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 39/73 (53%)
Query: 119 GSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAI 178
G +++ G+ +A+++D+ GE+ + + + +G KGY V + T + A A+
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 179 EELNSCELKGKKI 191
E LN +L G+ I
Sbjct: 67 EGLNGQDLMGQPI 79
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 38/62 (61%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++++G IP + + DL+ + G++ E+ ++K + +G KG AF+T+ +E A +A
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 181 LN 182
L+
Sbjct: 75 LH 76
Score = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKA 351
L++ +P+++ + LK LF GKI ++ + + F+ + ER SA+KA
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKA 71
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 2/50 (4%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEY 250
+LFIG +PRN E D++ + G + + ++KD + ++G AF+ Y
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGK-IYELTVLKD-RFTGMHKGCAFLTY 62
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 42/76 (55%), Gaps = 2/76 (2%)
Query: 119 GSEVYLGGIPHDASDDDLRH-FCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQA 177
G +++ I +A +D+++ FC GE+ + + + +G +KGYA V + T + A A
Sbjct: 72 GWILFVTSIHEEAQEDEIQEKFC-DYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 130
Query: 178 IEELNSCELKGKKIKC 193
E LN E+ G+ I+
Sbjct: 131 KEALNGAEIMGQTIQV 146
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 20/79 (25%), Positives = 39/79 (49%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
S +Y+ G+ +D DL C+ G++ + + K + + KGY FV F + A +A+
Sbjct: 6 SGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVT 65
Query: 180 ELNSCELKGKKIKCSAAQA 198
L + ++ + K S +
Sbjct: 66 ALKASGVQAQMAKQSGPSS 84
Score = 28.5 bits (62), Expect = 8.0, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 32/76 (42%)
Query: 289 AASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSA 348
+S LY++ L T L +L +GKI K + YGFV F S+A
Sbjct: 1 GSSGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAA 60
Query: 349 MKALKNTEKYEIDGQV 364
KA+ + + Q+
Sbjct: 61 QKAVTALKASGVQAQM 76
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++++G + +D+D+R + G + E +++G D G +KG AFV F+T A AI
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAEAQAAINT 72
Query: 181 LNS 183
L+S
Sbjct: 73 LHS 75
>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 = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 38/70 (54%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++ G+ +A+++D+ GE+ + + + +G KGY V + T + A A+E L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 182 NSCELKGKKI 191
N +L G+ I
Sbjct: 70 NGQDLMGQPI 79
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 40/79 (50%), Gaps = 3/79 (3%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
V++GGI + ++R F G V EV+I+ + +G +KGY FV+F + +E
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE-- 69
Query: 182 NSCELKGKKIKCSAAQAKH 200
+ GKK+K A K
Sbjct: 70 SQINFHGKKLKLGPAIRKQ 88
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 42/88 (47%), Gaps = 8/88 (9%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTE--------VRIMKGKDSGEAKGYAFVTFRTK 171
S +Y+ G+ + DDL F K G V + I K++G+ KG A V++
Sbjct: 16 SAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDP 75
Query: 172 ELASQAIEELNSCELKGKKIKCSAAQAK 199
A A+E + + +G K+K S A+ K
Sbjct: 76 PTAKAAVEWFDGKDFQGSKLKVSLARKK 103
>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 = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 40/79 (50%), Gaps = 3/79 (3%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
V++GGI + ++R F G V EV+I+ + +G +KGY FV+F + +E
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE-- 68
Query: 182 NSCELKGKKIKCSAAQAKH 200
+ GKK+K A K
Sbjct: 69 SQINFHGKKLKLGPAIRKQ 87
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+G + + A+ ++L G V V I+ K SG KG+A++ F KE ++ L
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 66
Query: 182 NSCELKGKKIK 192
+ +G++IK
Sbjct: 67 DESLFRGRQIK 77
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 26/91 (28%), Positives = 45/91 (49%), Gaps = 4/91 (4%)
Query: 292 QVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKA 351
+ K L + NL T++ L+E+F K T + +P + G+ + Y F+ FA A +A
Sbjct: 14 ESKTLVLSNLSYSATEETLQEVFE---KATFIKVPQNQNGKSKG-YAFIEFASFEDAKEA 69
Query: 352 LKNTEKYEIDGQVLDCSLAKPQADQKTSGGS 382
L + K EI+G+ + L P+ + S
Sbjct: 70 LNSCNKREIEGRAIRLELQGPRGSPNSGPSS 100
Score = 32.3 bits (72), Expect = 0.67, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 25/36 (69%)
Query: 157 SGEAKGYAFVTFRTKELASQAIEELNSCELKGKKIK 192
+G++KGYAF+ F + E A +A+ N E++G+ I+
Sbjct: 49 NGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIR 84
>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 = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 17/73 (23%), Positives = 40/73 (54%), Gaps = 6/73 (8%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++++GG+ D ++ +R + GEV + + + + +G+ F+TF+ +E + +E+
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
Query: 181 ------LNSCELK 187
L+ CE+K
Sbjct: 63 KYHNVGLSKCEIK 75
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 38/70 (54%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++ G+ +A+++D+ GE+ + + + +G KGY V + T + A A+E L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 182 NSCELKGKKI 191
N +L G+ I
Sbjct: 70 NGQDLMGQPI 79
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 39.3 bits (90), Expect = 0.006, Method: Composition-based stats.
Identities = 17/72 (23%), Positives = 39/72 (54%), Gaps = 6/72 (8%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE- 180
+++GG+ D ++ +R + GEV + + + + +G+ F+TF+ +E + +E+
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 181 -----LNSCELK 187
L+ CE+K
Sbjct: 62 YHNVGLSKCEIK 73
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 53/120 (44%), Gaps = 9/120 (7%)
Query: 257 EYSRQKMSNPKFKLDDNAPTVSWADPRNAESSAAS--QVKALYVKNLPKDITQDRLKELF 314
EY + K LD+ +P + + A + ++ + VKNLPK Q+++ + F
Sbjct: 3 EYGHHARPDSKRPLDEGSPAAAGLTSKKANEALTRNRELTTVLVKNLPKSYNQNKVYKYF 62
Query: 315 AHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYE-----IDGQVLDCSL 369
H G I V + A ++ R+ + FA A+ A+ T K I + +C+L
Sbjct: 63 KHCGPIIHVDV--ADSLKKNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHLTECTL 120
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 39/158 (24%), Positives = 74/158 (46%), Gaps = 11/158 (6%)
Query: 202 LFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQ 261
L+ N P ++ + ++R + I +SI L N +R FA+I+ + A Y +
Sbjct: 120 LWXTNFPPSYTQRNIRDLLQDINVVALSIRL--PSLRFNTSRRFAYIDVTSKEDARYCVE 177
Query: 262 KMSNPKFKLDDNAPTVSWADPRNAES-SAASQVKALYVKNLPKDIT-QDRLKELFAHHGK 319
K++ K + VS ++ + SA + + + ++NL ++ ++ L+E F G
Sbjct: 178 KLNGLKIEGYTLVTKVSNPLEKSKRTDSATLEGREIXIRNLSTELLDENLLRESFEGFGS 237
Query: 320 ITKVVIPPAKPGQERSRY----GFVHFAERSSAMKALK 353
I K+ IP GQ+ + F F + SA +AL+
Sbjct: 238 IEKINIP---AGQKEHSFNNCCAFXVFENKDSAERALQ 272
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIG--EVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
VY+G +D L +SIG +V E++ + + +G++KGYA V ++ + +E
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 180 ELNSCELKGKKIKCSAA 196
L L G+K+ A
Sbjct: 118 LLPGKVLNGEKVDVRPA 134
>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 = 0.006, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 45/82 (54%), Gaps = 7/82 (8%)
Query: 287 SSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERS 346
SS +S + LY+ NL +T D L++LF +P A +S Y FV + +++
Sbjct: 2 SSGSSGMNKLYIGNLSPAVTADDLRQLFGDRK------LPLAGQVLLKSGYAFVDYPDQN 55
Query: 347 SAMKALKN-TEKYEIDGQVLDC 367
A++A++ + K E+ G++++
Sbjct: 56 WAIRAIETLSGKVELHGKIMEV 77
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 39/71 (54%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+ + S D LR + G V +V I + + + E++G+AFV F K A A++ ++ L
Sbjct: 78 LTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVL 137
Query: 187 KGKKIKCSAAQ 197
G++++ A+
Sbjct: 138 DGRELRVQMAR 148
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 27/80 (33%), Positives = 40/80 (50%), Gaps = 3/80 (3%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALK 353
K L+VK L +D T++ LKE F G + ++ + G + +GFV F A A +
Sbjct: 16 KTLFVKGLSEDTTEETLKESF--DGSVRARIVTDRETGSSKG-FGFVDFNSEEDAKAAKE 72
Query: 354 NTEKYEIDGQVLDCSLAKPQ 373
E EIDG + AKP+
Sbjct: 73 AMEDGEIDGNKVTLDWAKPK 92
Score = 37.7 bits (86), Expect = 0.013, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++ G+ D +++ L+ +S RI+ +++G +KG+ FV F ++E A A E +
Sbjct: 18 LFVKGLSEDTTEETLK---ESFDGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 182 NSCELKGKKIKCSAAQAK 199
E+ G K+ A+ K
Sbjct: 75 EDGEIDGNKVTLDWAKPK 92
Score = 28.9 bits (63), Expect = 6.1, Method: Composition-based stats.
Identities = 18/88 (20%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 196 AQAKHRLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHAC 255
+Q LF+ + + E+ ++++ G + +V D + + ++GF F+++ +
Sbjct: 12 SQPSKTLFVKGLSEDTTEETLKESFD----GSVRARIVTDRETGS-SKGFGFVDFNSEED 66
Query: 256 AEYSRQKMSNPKFKLDDNAPTVSWADPR 283
A+ +++ M + + +D N T+ WA P+
Sbjct: 67 AKAAKEAMEDGE--IDGNKVTLDWAKPK 92
>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 = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+G + + A+ ++L G V V I+ K SG KG+A++ F KE ++ L
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 67
Query: 182 NSCELKGKKIK 192
+ +G++IK
Sbjct: 68 DESLFRGRQIK 78
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 22/78 (28%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+Y+ + D+ LR G +T ++M + G +KG+ FV F + E A++A+ E+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMM--EGGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 182 NSCELKGKKIKCSAAQAK 199
N + K + + AQ K
Sbjct: 76 NGRIVATKPLYVALAQRK 93
Score = 37.7 bits (86), Expect = 0.014, Method: Composition-based stats.
Identities = 29/92 (31%), Positives = 46/92 (50%), Gaps = 3/92 (3%)
Query: 292 QVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKA 351
QV LYVKNL I +RL++ F+ G IT + G +GFV F+ A KA
Sbjct: 14 QVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKV--MMEGGRSKGFGFVCFSSPEEATKA 71
Query: 352 LKNTEKYEIDGQVLDCSLAKPQADQKTSGGSN 383
+ + + L +LA+ + +++ SG S+
Sbjct: 72 VTEMNGRIVATKPLYVALAQ-RKEERQSGPSS 102
>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 = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 38/70 (54%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++ G+ +A+++D+ GE+ + + + +G KGY V + T + A A+E L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 182 NSCELKGKKI 191
N +L G+ I
Sbjct: 72 NGQDLMGQPI 81
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 30/98 (30%), Positives = 50/98 (51%), Gaps = 4/98 (4%)
Query: 289 AASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAK--PGQERSR-YGFVHFAER 345
+S L++KNL T++ LK +F+ G I I K G S +GFV + +
Sbjct: 1 GSSGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKP 60
Query: 346 SSAMKALKNTEKYEIDGQVLDCSLAKPQADQKTSGGSN 383
A KALK + + +DG L+ +++ +A + SG S+
Sbjct: 61 EQAQKALKQLQGHTVDGHKLEVRISE-RATKPASGPSS 97
>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 = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 19/80 (23%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++G + + D+ LR+ K +M +G ++GY FV+F +++ A A++ +
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 182 NSCELKGKKIKCS-AAQAKH 200
+L G+ ++ + AA+ +H
Sbjct: 64 QGQDLNGRPLRINWAAKLEH 83
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 38.5 bits (88), Expect = 0.009, Method: Composition-based stats.
Identities = 23/85 (27%), Positives = 44/85 (51%), Gaps = 4/85 (4%)
Query: 119 GSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTK----ELA 174
G ++++GG+ + + LR + GEV E +M+ + ++G+ FVTF + ++
Sbjct: 25 GCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL 84
Query: 175 SQAIEELNSCELKGKKIKCSAAQAK 199
+Q+ EL+S + K AQ K
Sbjct: 85 AQSRHELDSKTIDPKVAFPRRAQPK 109
Score = 38.5 bits (88), Expect = 0.009, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 46/82 (56%), Gaps = 3/82 (3%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSR-YGFVHFAERSSAMKALKN 354
+++ L TQ+ L+E F G++ + ++ P +RSR +GFV F +++ K L
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLV-MRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
Query: 355 TEKYEIDGQVLDCSLAKPQADQ 376
+ ++E+D + +D +A P+ Q
Sbjct: 87 S-RHELDSKTIDPKVAFPRRAQ 107
>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 = 38.5 bits (88), Expect = 0.009, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 38/70 (54%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++ G+ +A+++D+ GE+ + + + +G KGY V + T + A A+E L
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 182 NSCELKGKKI 191
N +L G+ I
Sbjct: 85 NGQDLMGQPI 94
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 38.5 bits (88), Expect = 0.009, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 38/76 (50%)
Query: 117 PHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQ 176
P G +++ +P + +D DL G V ++ K + +K + FV+F + A
Sbjct: 38 PEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQV 97
Query: 177 AIEELNSCELKGKKIK 192
AI+ +N ++ K++K
Sbjct: 98 AIKAMNGFQVGTKRLK 113
Score = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 32/76 (42%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L++ +LP++ T L F G + + K +GFV F SA A+K
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 356 EKYEIDGQVLDCSLAK 371
+++ + L L K
Sbjct: 103 NGFQVGTKRLKVQLKK 118
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 38.1 bits (87), Expect = 0.012, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKG-KDSGEAKGYAFVTFRTKELASQAI 178
S++ + IP A+ ++R + GE+ VR+ K +G +G+ FV F TK+ A +A
Sbjct: 16 SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
Query: 179 EEL-NSCELKGKKI 191
L +S L G+++
Sbjct: 76 NALCHSTHLYGRRL 89
Score = 35.8 bits (81), Expect = 0.053, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSR-YGFVHFAERSSAMKAL 352
+ V+N+P Q ++ELF+ G++ V +P G R +GFV F + A KA
Sbjct: 18 ILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 37.7 bits (86), Expect = 0.014, Method: Composition-based stats.
Identities = 18/67 (26%), Positives = 38/67 (56%), Gaps = 4/67 (5%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTK----ELASQ 176
++++GG+ + + LR + GEV E +M+ + ++G+ FVTF + ++ +Q
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 177 AIEELNS 183
+ EL+S
Sbjct: 62 SRHELDS 68
Score = 37.0 bits (84), Expect = 0.023, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 43/76 (56%), Gaps = 3/76 (3%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSR-YGFVHFAERSSAMKALKN 354
+++ L TQ+ L+E F G++ + ++ P +RSR +GFV F +++ K L
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLV-MRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 355 TEKYEIDGQVLDCSLA 370
+ ++E+D + +D +A
Sbjct: 62 S-RHELDSKTIDPKVA 76
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 37.7 bits (86), Expect = 0.016, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 30/49 (61%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFR 169
++++GG+ + + LR + GEV + IMK K + +++G+ FV F+
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFK 66
Score = 37.0 bits (84), Expect = 0.026, Method: Composition-based stats.
Identities = 23/93 (24%), Positives = 43/93 (46%), Gaps = 1/93 (1%)
Query: 290 ASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAM 349
A ++ L+V L TQ+ L+ F+ +G++ VI K + +GFV F + +
Sbjct: 13 ADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVG 72
Query: 350 KALKNTEKYEIDGQVLDCSLAKPQADQKTSGGS 382
L + + +DG+ +D P+ Q + S
Sbjct: 73 TVLA-SRPHTLDGRNIDPKPCTPRGMQPSGPSS 104
Score = 30.0 bits (66), Expect = 3.2, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHAC 255
+LF+G + + ++ +R ++ G V+ ++KD + NQ+RGF F+++ + C
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGE-VVDCVIMKD-KTTNQSRGFGFVKFKDPNC 70
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 37.7 bits (86), Expect = 0.016, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 42/81 (51%), Gaps = 1/81 (1%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEV-RIMKGKDSGEAKGYAFVTFRTKELASQAI 178
S +++G + + + L + G + + +IM+ D+G +KGYAF+ F + + + AI
Sbjct: 6 SGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAI 65
Query: 179 EELNSCELKGKKIKCSAAQAK 199
E +N L + I S A K
Sbjct: 66 EAMNGQYLCNRPITVSYAFKK 86
>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 = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 1/85 (1%)
Query: 279 WADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYG 338
W DP N ++ K L+V + D T+ +L+ F +G I ++ + +K + Y
Sbjct: 89 W-DPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYA 147
Query: 339 FVHFAERSSAMKALKNTEKYEIDGQ 363
F+ + A K+ + +IDG+
Sbjct: 148 FIEYEHERDMHSAYKHADGKKIDGR 172
Score = 35.4 bits (80), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 13/78 (16%), Positives = 39/78 (50%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++ + +D ++ LR + G + + ++ K SG+ +GYAF+ + + A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 182 NSCELKGKKIKCSAAQAK 199
+ ++ G+++ + +
Sbjct: 165 DGKKIDGRRVLVDVERGR 182
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 37.4 bits (85), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 37/79 (46%)
Query: 127 IPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCEL 186
+ + S D LR + G V +V I + + +G+AFV F + A A ++ EL
Sbjct: 21 LTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAEL 80
Query: 187 KGKKIKCSAAQAKHRLFIG 205
G++++ A+ R G
Sbjct: 81 DGRELRVQVARYGRRDLSG 99
>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 = 37.4 bits (85), Expect = 0.019, Method: Composition-based stats.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 1/70 (1%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++GG+ D + DL+ + GEV + + +G ++G+ FV F+ E + +++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQ- 60
Query: 182 NSCELKGKKI 191
+L GK I
Sbjct: 61 KEHKLNGKVI 70
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 36/62 (58%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++++G IP + DL+ + G + E+ ++K + +G KG AF+T+ ++ A +A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 181 LN 182
L+
Sbjct: 77 LH 78
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 28/56 (50%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKA 351
L+V +P+ + + LK LF G+I ++ + + F+ + R SA+KA
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKA 73
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 6/62 (9%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSR 260
+LF+G +PR E D++ + G + + ++KD + ++G AF+ Y CA S
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGR-IYELTVLKD-RLTGLHKGCAFLTY----CARDSA 70
Query: 261 QK 262
K
Sbjct: 71 LK 72
>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
Length = 161
Score = 37.4 bits (85), Expect = 0.020, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 292 QVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKA 351
++ + VKNLPK Q+++ + F H G I V + A ++ R+ + FA A+ A
Sbjct: 3 ELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDV--ADSLKKNFRFARIEFARYDGALAA 60
Query: 352 LKNTEK 357
+ T K
Sbjct: 61 ITKTHK 66
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 37.4 bits (85), Expect = 0.021, Method: Composition-based stats.
Identities = 26/82 (31%), Positives = 41/82 (50%), Gaps = 7/82 (8%)
Query: 119 GSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAI 178
GS+V++G D + ++L+ F GEV +V I K + +AFVTF ++A
Sbjct: 11 GSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPK-----PFRAFAFVTFADDKVAQSLC 65
Query: 179 EELNSCELKGKKIKCSAAQAKH 200
E +KG + S A+ KH
Sbjct: 66 GE--DLIIKGISVHISNAEPKH 85
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V NL ++ ++ELFA G + K + + G+ VHF ++ A+KA+K
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTAD-VHFERKADALKAMKQY 89
Query: 356 EKYEIDGQVLDCSLA 370
+DG+ ++ L
Sbjct: 90 NGVPLDGRPMNIQLV 104
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 37.0 bits (84), Expect = 0.026, Method: Composition-based stats.
Identities = 26/81 (32%), Positives = 40/81 (49%), Gaps = 7/81 (8%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
S V++G D ++D+LR F G+V +V I K + +AFVTF ++A
Sbjct: 6 SGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPK-----PFRAFAFVTFADDQIAQSLCG 60
Query: 180 ELNSCELKGKKIKCSAAQAKH 200
E +KG + S A+ KH
Sbjct: 61 E--DLIIKGISVHISNAEPKH 79
Score = 33.1 bits (74), Expect = 0.37, Method: Composition-based stats.
Identities = 26/94 (27%), Positives = 43/94 (45%), Gaps = 7/94 (7%)
Query: 289 AASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSA 348
+S ++V D+T+D L+E F+ +G + V IP KP + + FV FA+ A
Sbjct: 1 GSSGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIP--KPFRA---FAFVTFADDQIA 55
Query: 349 MKALKNTEKYEIDGQVLDCSLAKPQADQKTSGGS 382
E I G + S A+P+ + + S
Sbjct: 56 QSLCG--EDLIIKGISVHISNAEPKHNSNSGPSS 87
>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 = 36.6 bits (83), Expect = 0.030, Method: Composition-based stats.
Identities = 14/58 (24%), Positives = 31/58 (53%)
Query: 123 YLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++GG+ D S DL+ + GEV + I ++G ++G+ F+ F+ + +++
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Score = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 37/71 (52%), Gaps = 3/71 (4%)
Query: 297 YVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSR-YGFVHFAERSSAMKALKNT 355
+V L D ++ LK+ F G++ I P RSR +GF+ F + +S K L
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIK-XDPNTGRSRGFGFILFKDAASVEKVLDQK 73
Query: 356 EKYEIDGQVLD 366
E + +DG+V+D
Sbjct: 74 E-HRLDGRVID 83
Score = 29.3 bits (64), Expect = 5.5, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 201 RLFIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEYYNHACAE 257
+ F+G + + + D++ TK G V+ + DP N ++RGF FI + + A E
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGE-VVDCTIKXDP-NTGRSRGFGFILFKDAASVE 67
>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 = 36.6 bits (83), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 39/83 (46%)
Query: 281 DPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFV 340
DP N ++ K L+V + D T+ +L+ F +G I ++ + +K + Y F+
Sbjct: 90 DPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFI 149
Query: 341 HFAERSSAMKALKNTEKYEIDGQ 363
+ A K+ + +IDG+
Sbjct: 150 EYEHERDMHSAYKHADGKKIDGR 172
Score = 35.8 bits (81), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 13/78 (16%), Positives = 39/78 (50%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++ + +D ++ LR + G + + ++ K SG+ +GYAF+ + + A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 182 NSCELKGKKIKCSAAQAK 199
+ ++ G+++ + +
Sbjct: 165 DGKKIDGRRVLVDVERGR 182
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 36.2 bits (82), Expect = 0.044, Method: Composition-based stats.
Identities = 13/50 (26%), Positives = 34/50 (68%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRT 170
++++GG+ + +++ LR++ + G++T+ +M+ S ++G+ FVTF +
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSS 78
Score = 35.0 bits (79), Expect = 0.091, Method: Composition-based stats.
Identities = 27/89 (30%), Positives = 45/89 (50%), Gaps = 9/89 (10%)
Query: 282 PRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSR-YGFV 340
P + Q + L++ L + T++ L+ + GK+T V+ P +RSR +GFV
Sbjct: 16 PLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVM-RDPASKRSRGFGFV 74
Query: 341 HF---AERSSAMKALKNTEKYEIDGQVLD 366
F AE +AM A + IDG+V++
Sbjct: 75 TFSSMAEVDAAMAA----RPHSIDGRVVE 99
>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 = 36.2 bits (82), Expect = 0.046, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 23/36 (63%)
Query: 156 DSGEAKGYAFVTFRTKELASQAIEELNSCELKGKKI 191
D +KGY FV F T+E A +AIE++N L +K+
Sbjct: 40 DENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKV 75
Score = 32.3 bits (72), Expect = 0.60, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALK 353
+++KNL K I L + F+ G I + + G + YGFVHF + +A +A++
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKG--YGFVHFETQEAAERAIE 63
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 35.8 bits (81), Expect = 0.049, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 37/70 (52%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
LYV NL T++++ ELF+ G I K+++ K + + FV + R+ A A++
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 356 EKYEIDGQVL 365
+D +++
Sbjct: 102 NGTRLDDRII 111
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 35.8 bits (81), Expect = 0.049, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 23/36 (63%)
Query: 156 DSGEAKGYAFVTFRTKELASQAIEELNSCELKGKKI 191
D +KGY FV F T+E A +AIE++N L +K+
Sbjct: 46 DENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKV 81
Score = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 24/74 (32%), Positives = 37/74 (50%), Gaps = 6/74 (8%)
Query: 280 ADPRNAESSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGF 339
ADP S S V +++KNL K I L + F+ G I + + G + YGF
Sbjct: 2 ADP----SLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKG--YGF 55
Query: 340 VHFAERSSAMKALK 353
VHF + +A +A++
Sbjct: 56 VHFETQEAAERAIE 69
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 35.8 bits (81), Expect = 0.050, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 1/81 (1%)
Query: 119 GSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAI 178
G V++ + D+ ++ L + G++ VR++ D+ +KG AF F T+E A+Q
Sbjct: 15 GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQE-AAQKC 73
Query: 179 EELNSCELKGKKIKCSAAQAK 199
S E +G +K Q K
Sbjct: 74 LAAASLEAEGGGLKLDGRQLK 94
>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 = 35.8 bits (81), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
VY+ G P DA+ DD++ + + G+V ++ M+ KG FV F + E A + +E
Sbjct: 112 VYIKGFPTDATLDDIKEWLEDKGQVLNIQ-MRRTLHKAFKGSIFVVFDSIESAKKFVE 168
>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 = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
VY+ G P DA+ DD++ + + G+V ++ + KG FV F + E A + +E
Sbjct: 113 VYIKGFPTDATLDDIKEWLEDKGQVLNIQXRRTLHKA-FKGSIFVVFDSIESAKKFVE 169
>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 = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
VY+ G P DA+ DD++ + + G+V ++ + KG FV F + E A + +E
Sbjct: 114 VYIKGFPTDATLDDIKEWLEDKGQVLNIQXRRTLHKA-FKGSIFVVFDSIESAKKFVE 170
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 40/78 (51%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEEL 181
+++ + + +S++DL + G ++E+ + + KG+AFVTF E A +A E+
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 182 NSCELKGKKIKCSAAQAK 199
+ +G+ + + K
Sbjct: 71 DGQVFQGRMLHVLPSTIK 88
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 38/70 (54%), Gaps = 5/70 (7%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L+V+NL +++ L++LF+ +G ++++ P ++ + FV F A+KA
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYA-- 68
Query: 356 EKYEIDGQVL 365
E+DGQV
Sbjct: 69 ---EVDGQVF 75
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 26/69 (37%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 135 DLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCELKGKKIKCS 194
DL F ++G+V +VRI+ ++S +KG A+V F + AI L L G I
Sbjct: 41 DLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQ 99
Query: 195 AAQA-KHRL 202
A+QA K+RL
Sbjct: 100 ASQAEKNRL 108
>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 = 34.3 bits (77), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L V NL ++ ++ELFA G + K + + G+ VHF ++ A+KA K
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTAD-VHFERKADALKAXKQY 90
Query: 356 EKYEIDGQVLDCSLA 370
+DG+ + L
Sbjct: 91 NGVPLDGRPXNIQLV 105
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 33.9 bits (76), Expect = 0.19, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 42/89 (47%), Gaps = 5/89 (5%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
+YV NLP DI ++++F +G I + + + G + FV F + A A+
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPP---FAFVEFEDPRDAEDAVYGR 81
Query: 356 EKYEIDGQVLDCSLAKPQADQKTSGGSNS 384
+ Y+ DG L P++ + T G +S
Sbjct: 82 DGYDYDGYRLRVEF--PRSGRGTGSGPSS 108
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 33.9 bits (76), Expect = 0.19, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKAL 352
+ ++V NL + ++ L ELF G +TKV I + G+ +S +GFV F S A+
Sbjct: 17 RTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKS-FGFVCFKHPESVSYAI 74
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 33.9 bits (76), Expect = 0.21, Method: Composition-based stats.
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 116 PPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELAS 175
PP + Y+G IPH A++ DL ++ G + + + KG F+ + T E A+
Sbjct: 24 PPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFK------HYPEKGCCFIKYDTHEQAA 77
Query: 176 QAIEELNSCELKGKKIK 192
I L + +G+ ++
Sbjct: 78 VCIVALANFPFQGRNLR 94
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 33.9 bits (76), Expect = 0.21, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 8/71 (11%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++++G + + +LR + G V E ++K YAFV + A AI +
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIAQ 62
Query: 181 LNSCELKGKKI 191
LN E+KGK+I
Sbjct: 63 LNGKEVKGKRI 73
Score = 30.4 bits (67), Expect = 2.2, Method: Composition-based stats.
Identities = 22/97 (22%), Positives = 41/97 (42%), Gaps = 10/97 (10%)
Query: 287 SSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERS 346
S ++ ++V N+ T L+ LF G++ + + Y FVH + +
Sbjct: 3 SGSSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVV--------KDYAFVHMEKEA 54
Query: 347 SAMKALKNTEKYEIDGQVLDCSLAKPQADQKTSGGSN 383
A A+ E+ G+ ++ L+ QK SG S+
Sbjct: 55 DAKAAIAQLNGKEVKGKRINVELS--TKGQKKSGPSS 89
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 8/76 (10%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L+V+ P D+ + L E+F G + +V I + + FV F E SA KA++
Sbjct: 34 LFVRPFPLDVQESELNEIFGPFGPMKEVKI--------LNGFAFVEFEEAESAAKAIEEV 85
Query: 356 EKYEIDGQVLDCSLAK 371
Q L+ +K
Sbjct: 86 HGKSFANQPLEVVYSK 101
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 8/63 (12%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +++ P D + +L G + EV+I+ G +AFV F E A++AIE
Sbjct: 32 TRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNG--------FAFVEFEEAESAAKAIE 83
Query: 180 ELN 182
E++
Sbjct: 84 EVH 86
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALK 353
+ L KNL +IT+D LKE+F +I V ++ G+ + ++ F + A K L+
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALEIRLV----SQDGKSKG-IAYIEFKSEADAEKNLE 71
Query: 354 NTEKYEIDGQ 363
+ EIDG+
Sbjct: 72 EKQGAEIDGR 81
>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 = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKA 351
L V NLP +TQ + +EL G + + + ++ + YGF + ++ SA +A
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
Score = 32.0 bits (71), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 36/64 (56%), Gaps = 4/64 (6%)
Query: 134 DDLRHFCKSIGEV---TEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCELKGKK 190
+D+ C+++ V T ++ G+D G+ KG+A + + T E+A +A ++ + L G
Sbjct: 195 NDVDALCRALSAVHSPTFCQLACGQD-GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSH 253
Query: 191 IKCS 194
++ S
Sbjct: 254 LRVS 257
Score = 32.0 bits (71), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 34/179 (18%), Positives = 72/179 (40%), Gaps = 17/179 (9%)
Query: 115 LPPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELA 174
L P + + + +P + + G + ++ + +G++KGY F + K+ A
Sbjct: 89 LQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 148
Query: 175 SQAIEELNSCELKGKKIKCSAAQA---------KHRLFIGNVPRNWGE-DDMRKAVTKI- 223
++A +L L + + A L + +P + + D + +A++ +
Sbjct: 149 ARAKSDLLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVH 208
Query: 224 GPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQKMSNPKFKLDDNAPTVSWADP 282
P + +D Q +GFA +EY AE ++Q+ L + VS+ P
Sbjct: 209 SPTFCQLACGQD----GQLKGFAVLEYETAEMAEEAQQQADG--LSLGGSHLRVSFCAP 261
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKA 351
L V NLP +TQ + +EL G + + + ++ + YGF + ++ SA +A
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
Score = 32.0 bits (71), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 36/64 (56%), Gaps = 4/64 (6%)
Query: 134 DDLRHFCKSIGEV---TEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCELKGKK 190
+D+ C+++ V T ++ G+D G+ KG+A + + T E+A +A ++ + L G
Sbjct: 197 NDVDALCRALSAVHSPTFCQLACGQD-GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSH 255
Query: 191 IKCS 194
++ S
Sbjct: 256 LRVS 259
Score = 32.0 bits (71), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 34/179 (18%), Positives = 72/179 (40%), Gaps = 17/179 (9%)
Query: 115 LPPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELA 174
L P + + + +P + + G + ++ + +G++KGY F + K+ A
Sbjct: 91 LQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 150
Query: 175 SQAIEELNSCELKGKKIKCSAAQA---------KHRLFIGNVPRNWGE-DDMRKAVTKI- 223
++A +L L + + A L + +P + + D + +A++ +
Sbjct: 151 ARAKSDLLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVH 210
Query: 224 GPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQKMSNPKFKLDDNAPTVSWADP 282
P + +D Q +GFA +EY AE ++Q+ L + VS+ P
Sbjct: 211 SPTFCQLACGQD----GQLKGFAVLEYETAEMAEEAQQQADG--LSLGGSHLRVSFCAP 263
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKA 351
L V NLP +TQ + +EL G + + + ++ + YGF + ++ SA +A
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
Score = 32.0 bits (71), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 36/64 (56%), Gaps = 4/64 (6%)
Query: 134 DDLRHFCKSIGEV---TEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCELKGKK 190
+D+ C+++ V T ++ G+D G+ KG+A + + T E+A +A ++ + L G
Sbjct: 197 NDVDALCRALSAVHSPTFCQLACGQD-GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSH 255
Query: 191 IKCS 194
++ S
Sbjct: 256 LRVS 259
Score = 32.0 bits (71), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 34/179 (18%), Positives = 72/179 (40%), Gaps = 17/179 (9%)
Query: 115 LPPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELA 174
L P + + + +P + + G + ++ + +G++KGY F + K+ A
Sbjct: 91 LQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 150
Query: 175 SQAIEELNSCELKGKKIKCSAAQA---------KHRLFIGNVPRNWGE-DDMRKAVTKI- 223
++A +L L + + A L + +P + + D + +A++ +
Sbjct: 151 ARAKSDLLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVH 210
Query: 224 GPGVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQKMSNPKFKLDDNAPTVSWADP 282
P + +D Q +GFA +EY AE ++Q+ L + VS+ P
Sbjct: 211 SPTFCQLACGQD----GQLKGFAVLEYETAEMAEEAQQQADG--LSLGGSHLRVSFCAP 263
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 33.1 bits (74), Expect = 0.32, Method: Composition-based stats.
Identities = 18/65 (27%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEE 180
++++G + S++D+ + G + E +++G D G +KG AFV F + A AI
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD-GSSKGCAFVKFSSHTEAQAAIHA 75
Query: 181 LNSCE 185
L+ +
Sbjct: 76 LHGSQ 80
>pdb|1S79|A Chain A, Solution Structure Of The Central Rrm Of Human La Protein
Length = 103
Score = 33.1 bits (74), Expect = 0.35, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 122 VYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
VY+ G P DA+ DD++ + + G+V ++ M+ KG FV F + E A + +E
Sbjct: 14 VYIKGFPTDATLDDIKEWLEDKGQVLNIQ-MRRTLHKAFKGSIFVVFDSIESAKKFVE 70
>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 = 33.1 bits (74), Expect = 0.37, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 37/70 (52%), Gaps = 1/70 (1%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
LYV NL T++++ ELF+ G I K+++ K + + FV + R+ A A++
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM-KTACGFCFVEYYSRADAENAMRYI 79
Query: 356 EKYEIDGQVL 365
+D +++
Sbjct: 80 NGTRLDDRII 89
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 33.1 bits (74), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 6/73 (8%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+ +P + +L + K G+V RI++ SG ++G F + E I
Sbjct: 26 TNLYISNLPLSMDEQELENMLKPFGQVISTRILR-DSSGTSRGVGFARMESTEKCEAVIG 84
Query: 180 ELNSCELKGKKIK 192
N GK IK
Sbjct: 85 HFN-----GKFIK 92
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 32.3 bits (72), Expect = 0.57, Method: Composition-based stats.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 8/72 (11%)
Query: 122 VYLGGIPHDASDDDL----RHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQA 177
+YL + ++ DL F + G + R+M G+ +G AF+TF KE+A QA
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGR----MRGQAFITFPNKEIAWQA 83
Query: 178 IEELNSCELKGK 189
+ +N +L GK
Sbjct: 84 LHLVNGYKLYGK 95
Score = 31.6 bits (70), Expect = 0.96, Method: Composition-based stats.
Identities = 28/94 (29%), Positives = 46/94 (48%), Gaps = 9/94 (9%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAK----PGQERSRYGFVHFAERSSAM 349
K LY+KNL +T+ L LFA + + PP + G+ R + F+ F + A
Sbjct: 26 KVLYLKNLSPRVTERDLVSLFA---RFQEKKGPPIQFRMMTGRMRGQ-AFITFPNKEIAW 81
Query: 350 KALKNTEKYEIDGQVLDCSLAKPQADQKTSGGSN 383
+AL Y++ G++L K Q++SG S+
Sbjct: 82 QALHLVNGYKLYGKILVIEFGK-NKKQRSSGPSS 114
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 32.3 bits (72), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 42/86 (48%), Gaps = 8/86 (9%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+++++G I ++ +LR + G V E I+K YAFV E A +AI
Sbjct: 11 TKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIR 62
Query: 180 ELNSCELKGKKIKCSAAQAKHRLFIG 205
L++ E +GK++ + ++ R G
Sbjct: 63 GLDNTEFQGKRMHVQLSTSRLRTASG 88
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 32.0 bits (71), Expect = 0.77, Method: Composition-based stats.
Identities = 22/84 (26%), Positives = 39/84 (46%), Gaps = 7/84 (8%)
Query: 284 NAESSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFA 343
+ S + LYV L IT+ L+ F G+I + + +R + F+ FA
Sbjct: 3 SGSSGEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITV------VQRQQCAFIQFA 56
Query: 344 ERSSA-MKALKNTEKYEIDGQVLD 366
R +A + A K+ K ++G+ L+
Sbjct: 57 TRQAAEVAAEKSFNKLIVNGRRLN 80
Score = 30.8 bits (68), Expect = 1.8, Method: Composition-based stats.
Identities = 17/73 (23%), Positives = 38/73 (52%), Gaps = 7/73 (9%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +Y+GG+ ++ DLR+ GE+ + +++ + AF+ F T++ A A E
Sbjct: 13 TTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQFATRQAAEVAAE 66
Query: 180 E-LNSCELKGKKI 191
+ N + G+++
Sbjct: 67 KSFNKLIVNGRRL 79
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 32.0 bits (71), Expect = 0.78, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 8/76 (10%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
L+V+ P D+ + L E+F G + +V I + + FV F E SA KA++
Sbjct: 7 LFVRPFPLDVQESELNEIFGPFGPMKEVKI--------LNGFAFVEFEEAESAAKAIEEV 58
Query: 356 EKYEIDGQVLDCSLAK 371
Q L+ +K
Sbjct: 59 HGKSFANQPLEVVYSK 74
Score = 31.6 bits (70), Expect = 1.2, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 8/63 (12%)
Query: 120 SEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIE 179
+ +++ P D + +L G + EV+I+ G +AFV F E A++AIE
Sbjct: 5 TRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNG--------FAFVEFEEAESAAKAIE 56
Query: 180 ELN 182
E++
Sbjct: 57 EVH 59
>pdb|2E5J|A Chain A, Solution Structure Of Rna Binding Domain In
Methenyltetrahydrofolate Synthetase Domain Containing
Length = 97
Score = 31.6 bits (70), Expect = 0.95, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 5/81 (6%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
+YV NLP+D LK G +P Q R F+H+ + ++A +A+
Sbjct: 22 VYVGNLPRDARVSDLKRALRELGS-----VPLRLTWQGPRRRAFLHYPDSAAAQQAVSCL 76
Query: 356 EKYEIDGQVLDCSLAKPQADQ 376
+ + L +LA+ Q D+
Sbjct: 77 QGLRLGTDTLRVALARQQRDK 97
Score = 29.6 bits (65), Expect = 3.6, Method: Composition-based stats.
Identities = 20/83 (24%), Positives = 37/83 (44%), Gaps = 5/83 (6%)
Query: 117 PHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQ 176
P ++VY+G +P DA DL+ + +G V +G + AF+ + A Q
Sbjct: 17 PLAADVYVGNLPRDARVSDLKRALRELGSVPLRLTWQG-----PRRRAFLHYPDSAAAQQ 71
Query: 177 AIEELNSCELKGKKIKCSAAQAK 199
A+ L L ++ + A+ +
Sbjct: 72 AVSCLQGLRLGTDTLRVALARQQ 94
>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 = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 42/87 (48%), Gaps = 8/87 (9%)
Query: 116 PPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELAS 175
P G+ +Y+ G D + LR G + ++ + ++ AFVT+ E A
Sbjct: 36 PRKGNTLYVYG--EDMTPTLLRGAFSPFGNIIDLSMDPPRNC------AFVTYEKMESAD 87
Query: 176 QAIEELNSCELKGKKIKCSAAQAKHRL 202
QA+ ELN +++ ++K + A+ + L
Sbjct: 88 QAVAELNGTQVESVQLKVNIARKQPML 114
>pdb|3GHN|A Chain A, Crystal Structure Of The Exosite-Containing Fragment Of
Human Adamts13 (Form-2)
Length = 419
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 117 PHGSEVYLGG--IPHDASDDDLRHFCKSIGEVTEVRIMKGKDS 157
P G+ Y G +PH D RH C++IGE IMK DS
Sbjct: 178 PGGASFYHWGAAVPHSQGDALCRHMCRAIGESF---IMKRGDS 217
>pdb|3GHM|A Chain A, Crystal Structure Of The Exosite-Containing Fragment Of
Human Adamts13 (Form-1)
Length = 410
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 117 PHGSEVYLGG--IPHDASDDDLRHFCKSIGEVTEVRIMKGKDS 157
P G+ Y G +PH D RH C++IGE IMK DS
Sbjct: 178 PGGASFYHWGAAVPHSQGDALCRHMCRAIGESF---IMKRGDS 217
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 42/87 (48%), Gaps = 8/87 (9%)
Query: 116 PPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELAS 175
P G+ +Y+ G D + LR G + ++ + ++ AFVT+ E A
Sbjct: 12 PRKGNTLYVYG--EDMTPTLLRGAFSPFGNIIDLSMDPPRNC------AFVTYEKMESAD 63
Query: 176 QAIEELNSCELKGKKIKCSAAQAKHRL 202
QA+ ELN +++ ++K + A+ + L
Sbjct: 64 QAVAELNGTQVESVQLKVNIARKQPML 90
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 30.4 bits (67), Expect = 2.2, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 3/58 (5%)
Query: 111 ELLALPPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTF 168
EL PP+ + Y+G +P + D+ K + + VR+++ KD+ + KG+ +V F
Sbjct: 9 ELPTEPPYTA--YVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEF 63
>pdb|2DGX|A Chain A, Solution Structure Of The Rna Recognition Motif In
Kiaa0430 Protein
Length = 96
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 3/70 (4%)
Query: 301 LPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNTEKYEI 360
L + Q L+E FA HGK+ V + P Q ++ V A+ A+ + +Y+I
Sbjct: 21 LSRKELQQLLQEAFARHGKVKSVELSPHTDYQLKA---VVQMENLQDAIGAVNSLHRYKI 77
Query: 361 DGQVLDCSLA 370
+ + SLA
Sbjct: 78 GSKKILVSLA 87
>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 = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/79 (22%), Positives = 36/79 (45%)
Query: 117 PHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQ 176
P + + + +P S D++ F + +K + G G A V F +++ A+
Sbjct: 13 PGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATA 72
Query: 177 AIEELNSCELKGKKIKCSA 195
A+ +LN + +K+K S
Sbjct: 73 AVIDLNDRPIGSRKVKLSG 91
>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 = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 21/32 (65%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVI 325
+ LY++NLP IT + + ++F +G I ++ +
Sbjct: 19 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRV 50
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 30.0 bits (66), Expect = 3.1, Method: Composition-based stats.
Identities = 10/32 (31%), Positives = 21/32 (65%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVI 325
+ LY++NLP IT + + ++F +G I ++ +
Sbjct: 13 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRV 44
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 117 PH--GSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGEAKGYAFVTFRT 170
PH G VYL G+P +A + + F K + V + + +G+A G FV FR
Sbjct: 21 PHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRN 76
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 29.6 bits (65), Expect = 3.8, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 226 GVISIELVKDPQNANQNRGFAFIEYYNHACAEYSRQKMSN--PKFKLDDNAPTVSWA 280
V +I L+KD Q QNRGFAF++ + A Q + + P K+D V +A
Sbjct: 37 AVNNIRLIKDKQT-QQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFA 92
Score = 29.6 bits (65), Expect = 4.1, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 146 VTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNS----CELKGKKIKCSAAQA 198
V +R++K K + + +G+AFV + ASQ ++ L S ++ GK I A++
Sbjct: 38 VNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAKS 94
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 42/79 (53%), Gaps = 6/79 (7%)
Query: 121 EVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKG--KDSGEAKGYAFVTFRTKELASQAI 178
+V++GG+P D +D++ + G + K K KGYAF+ F+ +E + QA+
Sbjct: 10 KVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQ-EESSVQAL 68
Query: 179 EELNSC-ELKGKKIKCSAA 196
+++C E GK C ++
Sbjct: 69 --IDACLEEDGKLYLCVSS 85
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 116 PPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGE-AKGYAFVTFRTKELA 174
PP+ + +LG +P+D +++ ++ F + + ++ VR+ + + E KG+ + F + +
Sbjct: 14 PPYTA--FLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLD-S 69
Query: 175 SQAIEELNSCELKGKKIKCSAA 196
+ LN L K+I+ A
Sbjct: 70 LLSALSLNEESLGNKRIRVDVA 91
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 12/48 (25%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 203 FIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEY 250
F+GN+P + E+ +++ G + ++ L ++P N + +GF + E+
Sbjct: 19 FLGNLPYDVTEESIKEFFR--GLNISAVRLPREPSNPERLKGFGYAEF 64
Score = 28.5 bits (62), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 297 YVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSR-YGFVHF 342
++ NLP D+T++ +KE F I+ V +P ER + +G+ F
Sbjct: 19 FLGNLPYDVTEESIKEFF-RGLNISAVRLPREPSNPERLKGFGYAEF 64
>pdb|3PFE|A Chain A, Crystal Structure Of A M20a Metallo Peptidase (Dape,
Lpg0809) From Legionella Pneumophila Subsp. Pneumophila
Str. Philadelphia 1 At 1.50 A Resolution
Length = 472
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%)
Query: 143 IGEVTEVRIMKGKDSGEAKGYAFVTFRTKELASQAIEELNSCELKGKKIKC 193
+G++T I +G SG A G +FR IE+ N+ E+K ++ C
Sbjct: 211 VGKLTVELINEGVHSGSASGIVADSFRVARQLISRIEDENTGEIKLPQLYC 261
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation Initiation
Factor 4b
Length = 100
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 32/54 (59%), Gaps = 4/54 (7%)
Query: 116 PPHGSEVYLGGIPHDASDDDLRHFCKSIGEVTEVRIMKGKDSGE-AKGYAFVTF 168
PP+ + +LG +P+D +++ ++ F + + ++ VR+ + + E KG+ + F
Sbjct: 18 PPYTA--FLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEF 68
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 12/48 (25%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 203 FIGNVPRNWGEDDMRKAVTKIGPGVISIELVKDPQNANQNRGFAFIEY 250
F+GN+P + E+ +++ G + ++ L ++P N + +GF + E+
Sbjct: 23 FLGNLPYDVTEESIKEFFR--GLNISAVRLPREPSNPERLKGFGYAEF 68
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 28.9 bits (63), Expect = 6.2, Method: Composition-based stats.
Identities = 26/97 (26%), Positives = 44/97 (45%), Gaps = 7/97 (7%)
Query: 287 SSAASQVKALYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERS 346
SS +S ++V+NLP D T LK+ F G + I + G+ + G V F
Sbjct: 2 SSGSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADI-KMENGKSKG-CGVVKFESPE 59
Query: 347 SAMKALKNTEKYEIDGQVLDCSLAKPQADQKTSGGSN 383
A +A + ++ G+ +D + D+ SG S+
Sbjct: 60 VAERACRMMNGMKLSGREIDVRI-----DRNASGPSS 91
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 28.9 bits (63), Expect = 7.0, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 10/70 (14%)
Query: 296 LYVKNLPKDITQDRLKELFAHHGKITKVVIPPAKPGQERSRYGFVHFAERSSAMKALKNT 355
+YV NL + + L+ F ++G + V + PG + FV F + A A++
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPG-----FAFVEFEDPRDAADAVR-- 128
Query: 356 EKYEIDGQVL 365
E+DG+ L
Sbjct: 129 ---ELDGRTL 135
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 28.9 bits (63), Expect = 7.3, Method: Composition-based stats.
Identities = 10/32 (31%), Positives = 21/32 (65%)
Query: 294 KALYVKNLPKDITQDRLKELFAHHGKITKVVI 325
+ LY++NLP IT + + ++F +G I ++ +
Sbjct: 9 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRV 40
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
0.313 0.132 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,681,096
Number of Sequences: 62578
Number of extensions: 463852
Number of successful extensions: 1286
Number of sequences better than 100.0: 185
Number of HSP's better than 100.0 without gapping: 147
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 896
Number of HSP's gapped (non-prelim): 381
length of query: 493
length of database: 14,973,337
effective HSP length: 103
effective length of query: 390
effective length of database: 8,527,803
effective search space: 3325843170
effective search space used: 3325843170
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)