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= 020607
(323 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 107 bits (268), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 58/178 (32%), Positives = 96/178 (53%), Gaps = 16/178 (8%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVGNL ++T L + F G +A+ +I+ D+ +++ + FV +A A++
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQTL 61
Query: 175 DGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLRD 234
+G QI VK+N+ S Q D ++ G+L + + LR+
Sbjct: 62 NGKQIENNIVKINWAF---------------QSQQSSSDDTFNLFVGDLNVNVDDETLRN 106
Query: 235 AFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMA 292
AF+ P LS V+++ TG SRG+GFV+F + +D Q+A+D+M G ++ GRPLR+N A
Sbjct: 107 AFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA 164
>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 = 83.2 bits (204), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 51/191 (26%), Positives = 97/191 (50%), Gaps = 6/191 (3%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
R+YVG++ Y + ++ + FA G + S ++ +D VT + +GF FV E A+ A+
Sbjct: 14 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 73
Query: 173 LFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGL 232
+ +GGR +KV P G+ + +L + F ++IY ++ L+ +
Sbjct: 74 QMNSVMLGGRNIKVGRPS--NIGQAQPIIDQLAEEARAF----NRIYVASVHQDLSDDDI 127
Query: 233 RDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMA 292
+ F+ + S + + TG+ +G+GF+ +E A+ Q A+ +MN ++ G+ LR+ A
Sbjct: 128 KSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKA 187
Query: 293 NERAPPVLPAA 303
P+L A
Sbjct: 188 VTPPMPLLTPA 198
>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 = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 52/191 (27%), Positives = 99/191 (51%), Gaps = 6/191 (3%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
+R+YVG++ Y + ++ + FA G + S ++ +D VT + +GF FV E A+ A+
Sbjct: 29 SRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 88
Query: 173 LFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGL 232
+ +GGR +KV P G+ + +L + F ++IY ++ L+ +
Sbjct: 89 QMNSVMLGGRNIKVGRPS--NIGQAQPIIDQLAEEARAF----NRIYVASVHQDLSDDDI 142
Query: 233 RDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMA 292
+ F+ + SA + + TG+ +G+GF+ +E A+ Q A+ +MN ++ G+ LR+ A
Sbjct: 143 KSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKA 202
Query: 293 NERAPPVLPAA 303
P+L A
Sbjct: 203 VTPPMPLLTPA 213
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 61/122 (50%), Gaps = 5/122 (4%)
Query: 194 GGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYT 253
GG++ G Q QG + ++Y G++ + L +R AF + S + ++ T
Sbjct: 9 GGQQMGRGSAAQR--QGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVT 66
Query: 254 GRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMANE--RAPPVLPA-AKETKTEN 310
+ +GF FV +E E Q AL+ MN V + GR +++ + +A P++ A+E + N
Sbjct: 67 MKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFN 126
Query: 311 SI 312
I
Sbjct: 127 RI 128
>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 = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 50/191 (26%), Positives = 95/191 (49%), Gaps = 6/191 (3%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
R+YVG++ Y + ++ + FA G + S + +D VT + +GF FV E A+ A+
Sbjct: 13 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALE 72
Query: 173 LFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGL 232
+ +GGR +KV P G+ + +L + F ++IY ++ L+ +
Sbjct: 73 QXNSVXLGGRNIKVGRPS--NIGQAQPIIDQLAEEARAF----NRIYVASVHQDLSDDDI 126
Query: 233 RDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMA 292
+ F+ + S + + TG+ +G+GF+ +E A+ Q A+ + N ++ G+ LR+ A
Sbjct: 127 KSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRVGKA 186
Query: 293 NERAPPVLPAA 303
P+L A
Sbjct: 187 VTPPXPLLTPA 197
>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 = 79.0 bits (193), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 58/196 (29%), Positives = 93/196 (47%), Gaps = 20/196 (10%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LYVG+L +T + L E F+ AG + S + D +T RS G+ +V +A+ A+
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 70
Query: 173 LFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGL 232
+ I G+ V++ + + P L+ S G I+ NL + ++ L
Sbjct: 71 TMNFDVIKGKPVRIMWSQ---------RDPSLRKSGVG------NIFIKNLDKSIDNKAL 115
Query: 233 RDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPL---RL 289
D F +LS KV+ + S+G+GFV FET E + A++ MNG+ + R + R
Sbjct: 116 YDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF 173
Query: 290 NMANERAPPVLPAAKE 305
ER + AKE
Sbjct: 174 KSRKEREAELGARAKE 189
>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 = 78.6 bits (192), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 58/196 (29%), Positives = 93/196 (47%), Gaps = 20/196 (10%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LYVG+L +T + L E F+ AG + S + D +T RS G+ +V +A+ A+
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 75
Query: 173 LFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGL 232
+ I G+ V++ + + P L+ S G I+ NL + ++ L
Sbjct: 76 TMNFDVIKGKPVRIMWSQ---------RDPSLRKSGVG------NIFIKNLDKSIDNKAL 120
Query: 233 RDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPL---RL 289
D F +LS KV+ + S+G+GFV FET E + A++ MNG+ + R + R
Sbjct: 121 YDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF 178
Query: 290 NMANERAPPVLPAAKE 305
ER + AKE
Sbjct: 179 KSRKEREAELGARAKE 194
>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 = 74.7 bits (182), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 32/76 (42%), Positives = 52/76 (68%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
++ G+L + + LR+AF+ P LS V+++ TG SRG+GFV+F + +D Q+A+D+
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 277 MNGVEVEGRPLRLNMA 292
M G ++ GRPLR+N A
Sbjct: 63 MQGQDLNGRPLRINWA 78
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 43/74 (58%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+VG+L ++ +L F + + S +++D T SRG+GFV+ S ++A+ A+
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 175 DGSQIGGRTVKVNF 188
G + GR +++N+
Sbjct: 64 QGQDLNGRPLRINW 77
>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 = 74.3 bits (181), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 45/160 (28%), Positives = 80/160 (50%), Gaps = 25/160 (15%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTM---GSVEEAK 168
+ ++++G L + T +L E F + GTV +I+ D T RSRGFGF++ SV+E
Sbjct: 3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVV 62
Query: 169 EAIRLFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLT 228
+ + DG I + +PR + D KI+ G +G +
Sbjct: 63 KTQHILDGKVIDPKRA------IPRDEQ----------------DKTGKIFVGGIGPDVR 100
Query: 229 SQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAE 268
+ + F ++ A+++ ++ TG+SRGFGFVT+++A+
Sbjct: 101 PKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSAD 140
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 73.6 bits (179), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 44/181 (24%), Positives = 85/181 (46%), Gaps = 19/181 (10%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT +F G + S ++V D++T +S G+GFV +A +AI
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 175 DGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLRD 234
+G ++ +T+KV++ R A +Y L ++ + +
Sbjct: 67 NGLKLQTKTIKVSYARPSSASIRDA-----------------NLYVSGLPKTMSQKEMEQ 109
Query: 235 AFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEG--RPLRLNMA 292
F +++++++ ++ TG SRG GF+ F+ + + A+ +NG + G P+ + A
Sbjct: 110 LFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGAAEPITVKFA 169
Query: 293 N 293
N
Sbjct: 170 N 170
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 40/66 (60%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LYV LP +M+ + ++F++ G + ++ I+ D+ T SRG GF+ EA+EAI+
Sbjct: 91 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 150
Query: 173 LFDGSQ 178
+G +
Sbjct: 151 GLNGQK 156
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/81 (23%), Positives = 43/81 (53%)
Query: 212 VDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQ 271
+DS + L +T + F + S K++ ++ TG+S G+GFV + D
Sbjct: 1 MDSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDAD 60
Query: 272 SALDAMNGVEVEGRPLRLNMA 292
A++ +NG++++ + ++++ A
Sbjct: 61 KAINTLNGLKLQTKTIKVSYA 81
>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 = 73.2 bits (178), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 44/165 (26%), Positives = 82/165 (49%), Gaps = 17/165 (10%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT L +F+ G V SA+++ D+V S G+GFV + ++A+ AI
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 175 DGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLRD 234
+G ++ +T+KV++ P + V +Y L +T + + D
Sbjct: 65 NGLRLQSKTIKVSYAR-----------PSSE------VIKDANLYISGLPRTMTQKDVED 107
Query: 235 AFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNG 279
F +++++V+ ++ TG SRG F+ F+ + + A+ + NG
Sbjct: 108 MFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
Score = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 38/66 (57%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LY+ LP +MT + ++F+ G + ++ ++ D+ T SRG F+ EA+EAI
Sbjct: 89 ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAIT 148
Query: 173 LFDGSQ 178
F+G +
Sbjct: 149 SFNGHK 154
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 42/70 (60%)
Query: 223 LGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEV 282
L +T LR F + SAK+I ++ G S G+GFV + TA+D + A++ +NG+ +
Sbjct: 10 LPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRL 69
Query: 283 EGRPLRLNMA 292
+ + ++++ A
Sbjct: 70 QSKTIKVSYA 79
>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 = 2e-13, Method: Compositional matrix adjust.
Identities = 44/165 (26%), Positives = 82/165 (49%), Gaps = 17/165 (10%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT L +F+ G V SA+++ D+V S G+GFV + ++A+ AI
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 175 DGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLRD 234
+G ++ +T+KV++ P + V +Y L +T + + D
Sbjct: 65 NGLRLQSKTIKVSYAR-----------PSSE------VIKDANLYISGLPRTMTQKDVED 107
Query: 235 AFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNG 279
F +++++V+ ++ TG SRG F+ F+ + + A+ + NG
Sbjct: 108 MFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
Score = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 38/66 (57%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LY+ LP +MT + ++F+ G + ++ ++ D+ T SRG F+ EA+EAI
Sbjct: 89 ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAIT 148
Query: 173 LFDGSQ 178
F+G +
Sbjct: 149 SFNGHK 154
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 42/70 (60%)
Query: 223 LGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEV 282
L +T LR F + SAK+I ++ G S G+GFV + TA+D + A++ +NG+ +
Sbjct: 10 LPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRL 69
Query: 283 EGRPLRLNMA 292
+ + ++++ A
Sbjct: 70 QSKTIKVSYA 79
>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 = 72.8 bits (177), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 42/165 (25%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT +F G + S ++V D++T +S G+GFV ++A++AI
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 175 DGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLRD 234
+G ++ +T+KV++ R A +Y L +T + L
Sbjct: 65 NGLRLQTKTIKVSYARPSSASIRDA-----------------NLYVSGLPKTMTQKELEQ 107
Query: 235 AFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNG 279
F +++++++ ++ TG SRG GF+ F+ + + A+ +NG
Sbjct: 108 LFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNG 152
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 43/71 (60%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LYV LP +MT L ++F++ G + ++ I+ D+VT SRG GF+ EA+EAI+
Sbjct: 89 ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK 148
Query: 173 LFDGSQIGGRT 183
+G + G T
Sbjct: 149 GLNGQKPSGAT 159
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 41/70 (58%)
Query: 223 LGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEV 282
L +T + R F + S K++ ++ TG+S G+GFV + +D + A++ +NG+ +
Sbjct: 10 LPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRL 69
Query: 283 EGRPLRLNMA 292
+ + ++++ A
Sbjct: 70 QTKTIKVSYA 79
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 69.3 bits (168), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 52/176 (29%), Positives = 82/176 (46%), Gaps = 16/176 (9%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 174 FDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLR 233
++ GR V+ P+ RA Q G + KI+ G + LR
Sbjct: 73 -RPHKVDGRVVE------PK---RAVSREDSQRP--GAHLTVKKIFVGGIKEDTEEHHLR 120
Query: 234 DAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL----DAMNGVEVEGR 285
D F+ + +++ +R +G+ RGF FVTF+ + + + +NG E R
Sbjct: 121 DYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 176
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 47/90 (52%), Gaps = 1/90 (1%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
K++ G L + T + LR F+ L V+ + T RSRGFGFVT+ T E++ +A++A
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 277 MNGVEVEGRPLRLNMANERAPPVLPAAKET 306
+V+GR + A R P A T
Sbjct: 73 RPH-KVDGRVVEPKRAVSREDSQRPGAHLT 101
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 52/176 (29%), Positives = 82/176 (46%), Gaps = 16/176 (9%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 174 FDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLR 233
++ GR V+ P+ RA Q G + KI+ G + LR
Sbjct: 75 -RPHKVDGRVVE------PK---RAVSREDSQRP--GAHLTVKKIFVGGIKEDTEEHHLR 122
Query: 234 DAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL----DAMNGVEVEGR 285
D F+ + +++ +R +G+ RGF FVTF+ + + + +NG E R
Sbjct: 123 DYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 178
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 47/90 (52%), Gaps = 1/90 (1%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
K++ G L + T + LR F+ L V+ + T RSRGFGFVT+ T E++ +A++A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 277 MNGVEVEGRPLRLNMANERAPPVLPAAKET 306
+V+GR + A R P A T
Sbjct: 75 RPH-KVDGRVVEPKRAVSREDSQRPGAHLT 103
>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 = 68.9 bits (167), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 52/176 (29%), Positives = 82/176 (46%), Gaps = 16/176 (9%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 174 FDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLR 233
++ GR V+ P+ RA Q G + KI+ G + LR
Sbjct: 68 -RPHKVDGRVVE------PK---RAVSREDSQRP--GAHLTVKKIFVGGIKEDTEEHHLR 115
Query: 234 DAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL----DAMNGVEVEGR 285
D F+ + +++ +R +G+ RGF FVTF+ + + + +NG E R
Sbjct: 116 DYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 171
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 47/90 (52%), Gaps = 1/90 (1%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
K++ G L + T + LR F+ L V+ + T RSRGFGFVT+ T E++ +A++A
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 277 MNGVEVEGRPLRLNMANERAPPVLPAAKET 306
+V+GR + A R P A T
Sbjct: 68 RPH-KVDGRVVEPKRAVSREDSQRPGAHLT 96
>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 = 68.9 bits (167), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 52/176 (29%), Positives = 82/176 (46%), Gaps = 16/176 (9%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 174 FDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLR 233
++ GR V+ P+ RA Q G + KI+ G + LR
Sbjct: 74 -RPHKVDGRVVE------PK---RAVSREDSQRP--GAHLTVKKIFVGGIKEDTEEHHLR 121
Query: 234 DAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL----DAMNGVEVEGR 285
D F+ + +++ +R +G+ RGF FVTF+ + + + +NG E R
Sbjct: 122 DYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 177
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 47/90 (52%), Gaps = 1/90 (1%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
K++ G L + T + LR F+ L V+ + T RSRGFGFVT+ T E++ +A++A
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 277 MNGVEVEGRPLRLNMANERAPPVLPAAKET 306
+V+GR + A R P A T
Sbjct: 74 RPH-KVDGRVVEPKRAVSREDSQRPGAHLT 102
>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 = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 52/176 (29%), Positives = 82/176 (46%), Gaps = 16/176 (9%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 174 FDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLR 233
++ GR V+ P+ RA Q G + KI+ G + LR
Sbjct: 75 -RPHKVDGRVVE------PK---RAVSREDSQRP--GAHLTVKKIFVGGIKEDTEEHHLR 122
Query: 234 DAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL----DAMNGVEVEGR 285
D F+ + +++ +R +G+ RGF FVTF+ + + + +NG E R
Sbjct: 123 DYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 178
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 47/90 (52%), Gaps = 1/90 (1%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
K++ G L + T + LR F+ L V+ + T RSRGFGFVT+ T E++ +A++A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 277 MNGVEVEGRPLRLNMANERAPPVLPAAKET 306
+V+GR + A R P A T
Sbjct: 75 RPH-KVDGRVVEPKRAVSREDSQRPGAHLT 103
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 68.2 bits (165), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 52/176 (29%), Positives = 82/176 (46%), Gaps = 16/176 (9%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 174 FDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLR 233
++ GR V+ P+ RA Q G + KI+ G + LR
Sbjct: 76 -RPHKVDGRVVE------PK---RAVSREDSQRP--GAHLTVKKIFVGGIKEDTEEHHLR 123
Query: 234 DAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL----DAMNGVEVEGR 285
D F+ + +++ +R +G+ RGF FVTF+ + + + +NG E R
Sbjct: 124 DYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 179
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 47/90 (52%), Gaps = 1/90 (1%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
K++ G L + T + LR F+ L V+ + T RSRGFGFVT+ T E++ +A++A
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 277 MNGVEVEGRPLRLNMANERAPPVLPAAKET 306
+V+GR + A R P A T
Sbjct: 76 RPH-KVDGRVVEPKRAVSREDSQRPGAHLT 104
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 68.2 bits (165), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 49/180 (27%), Positives = 80/180 (44%), Gaps = 19/180 (10%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP MT L +F G + + I+ D T S G+ FV S +++ AI++
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 175 DGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLRD 234
+G + + +KV++ GGE +Y NL +T L
Sbjct: 66 NGITVRNKRLKVSYARP--GGESI---------------KDTNLYVTNLPRTITDDQLDT 108
Query: 235 AFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEG--RPLRLNMA 292
F ++ ++ ++ TGR RG FV + E+ Q A+ A+N V EG +PL + +A
Sbjct: 109 IFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 168
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 67.8 bits (164), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 49/75 (65%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
+L+VG L + SL +VF++ G ++ +V DR T RSRGFGFVT ++++AK+A+
Sbjct: 13 GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMM 72
Query: 173 LFDGSQIGGRTVKVN 187
+G + GR ++V+
Sbjct: 73 AMNGKSVDGRQIRVD 87
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 44/76 (57%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
K++ G L + Q L F + V+ +R T RSRGFGFVTFE +D + A+ A
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 277 MNGVEVEGRPLRLNMA 292
MNG V+GR +R++ A
Sbjct: 74 MNGKSVDGRQIRVDQA 89
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/72 (44%), Positives = 46/72 (63%), Gaps = 1/72 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+YVGNL YS TS + E+F++ G V + +++YDR T + +GFGFV M E EAI
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAKL 62
Query: 175 DGSQIGGRTVKV 186
D + GRT++V
Sbjct: 63 DNTDFMGRTIRV 74
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
IY GNL + TS+ +++ F + + K+I++R T + +GFGFV + E + A+ +
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQ-EESVSEAIAKL 62
Query: 278 NGVEVEGRPLRLNMAN 293
+ + GR +R+ AN
Sbjct: 63 DNTDFMGRTIRVTEAN 78
>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 = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 49/182 (26%), Positives = 79/182 (43%), Gaps = 19/182 (10%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP T L +F G + + I D T S G+ FV S +++ AI++
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 175 DGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLRD 234
+G + + +KV++ GGE +Y NL +T L
Sbjct: 77 NGITVRNKRLKVSYARP--GGESI---------------KDTNLYVTNLPRTITDDQLDT 119
Query: 235 AFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEG--RPLRLNMA 292
F ++ ++ ++ TGR RG FV + E+ Q A+ A+N V EG +PL + +A
Sbjct: 120 IFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 179
Query: 293 NE 294
E
Sbjct: 180 EE 181
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 64.7 bits (156), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 54/91 (59%)
Query: 206 NSYQGFVDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFE 265
N+ Q P ++Y G+L + +T LR F+ + S +++ + TGRS+G+GF+TF
Sbjct: 17 NNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFS 76
Query: 266 TAEDLQSALDAMNGVEVEGRPLRLNMANERA 296
+E + AL+ +NG E+ GRP+++ ER
Sbjct: 77 DSECAKKALEQLNGFELAGRPMKVGHVTERT 107
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 46/73 (63%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RLYVG+L +++T L +F G + S +++ D T RS+G+GF+T E AK+A+
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 174 FDGSQIGGRTVKV 186
+G ++ GR +KV
Sbjct: 88 LNGFELAGRPMKV 100
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 44/73 (60%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
++VGN+PY T L ++F+E G V S +VYDR T + +G+GF E A A+R
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 175 DGSQIGGRTVKVN 187
+G + GR ++V+
Sbjct: 71 NGREFSGRALRVD 83
Score = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 50/83 (60%), Gaps = 1/83 (1%)
Query: 214 SPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSA 273
S ++ GN+ + T + L+D F ++S +++++R TG+ +G+GF ++ E SA
Sbjct: 7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSA 66
Query: 274 LDAMNGVEVEGRPLRL-NMANER 295
+ +NG E GR LR+ N A+E+
Sbjct: 67 MRNLNGREFSGRALRVDNAASEK 89
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 45/74 (60%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V L T L EVF++ G +A IVYD+ + RSRGF FV +V++AKEA
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 74
Query: 175 DGSQIGGRTVKVNF 188
+G ++ GR ++V+F
Sbjct: 75 NGMELDGRRIRVDF 88
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 42/70 (60%)
Query: 228 TSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPL 287
T + LR+ F + +++++ + RSRGF FV FE +D + A + NG+E++GR +
Sbjct: 25 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 84
Query: 288 RLNMANERAP 297
R++ + + P
Sbjct: 85 RVDFSITKRP 94
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 32/79 (40%), Positives = 46/79 (58%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V L T L EVF++ G +A IVYD+ + RSRGF FV +V++AKEA
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 175 DGSQIGGRTVKVNFPEVPR 193
+G ++ GR ++V+F R
Sbjct: 78 NGMELDGRRIRVDFSITKR 96
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 42/70 (60%)
Query: 228 TSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPL 287
T + LR+ F + +++++ + RSRGF FV FE +D + A + NG+E++GR +
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 87
Query: 288 RLNMANERAP 297
R++ + + P
Sbjct: 88 RVDFSITKRP 97
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 32/79 (40%), Positives = 46/79 (58%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V L T L EVF++ G +A IVYD+ + RSRGF FV +V++AKEA
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 108
Query: 175 DGSQIGGRTVKVNFPEVPR 193
+G ++ GR ++V+F R
Sbjct: 109 NGMELDGRRIRVDFSITKR 127
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 58/114 (50%), Gaps = 7/114 (6%)
Query: 191 VPRGGERAAMGPKLQ----NSYQGFVDSPH-KIYAGNLGWGL--TSQGLRDAFQGQPGLL 243
VPRG A+M Q + + G +P G G L T + LR+ F +
Sbjct: 15 VPRGSHMASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIA 74
Query: 244 SAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMANERAP 297
+++++ + RSRGF FV FE +D + A + NG+E++GR +R++ + + P
Sbjct: 75 DVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSITKRP 128
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 48/78 (61%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y G+L + +T LR F+ + + ++ + TGRS+G+GF+TF +E + AL+ +
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 278 NGVEVEGRPLRLNMANER 295
NG E+ GRP+R+ ER
Sbjct: 68 NGFELAGRPMRVGHVTER 85
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 43/72 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVG+L +++T L +F G + + ++ D T RS+G+GF+T E A+ A+
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 175 DGSQIGGRTVKV 186
+G ++ GR ++V
Sbjct: 68 NGFELAGRPMRV 79
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 41/77 (53%)
Query: 222 NLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVE 281
NL + + LR F+ + + +RYT SRGF FV F D + A+DAM+G
Sbjct: 77 NLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAV 136
Query: 282 VEGRPLRLNMANERAPP 298
++GR LR+ MA PP
Sbjct: 137 LDGRELRVQMARYGRPP 153
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 39/79 (49%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V NL Y + +L VF + G V I DR T SRGF FV +A++A+
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 175 DGSQIGGRTVKVNFPEVPR 193
DG+ + GR ++V R
Sbjct: 133 DGAVLDGRELRVQMARYGR 151
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 45/75 (60%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V L T L EVF++ G +A IVYD+ + RSRGF FV +V++AKEA
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 175 DGSQIGGRTVKVNFP 189
+G ++ GR ++V+ P
Sbjct: 78 NGMELDGRRIRVSGP 92
Score = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 39/63 (61%)
Query: 228 TSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPL 287
T + LR+ F + +++++ + RSRGF FV FE +D + A + NG+E++GR +
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 87
Query: 288 RLN 290
R++
Sbjct: 88 RVS 90
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 37/116 (31%), Positives = 55/116 (47%), Gaps = 8/116 (6%)
Query: 191 VPRGGERAAM--GPKLQNSYQGF------VDSPHKIYAGNLGWGLTSQGLRDAFQGQPGL 242
VPRG A+M G ++ + V+ + NL + + LR F+ +
Sbjct: 15 VPRGSHMASMTGGQQMGRGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRV 74
Query: 243 LSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMANERAPP 298
+ +RYT SRGF FV F D + A+DAM+G ++GR LR+ MA PP
Sbjct: 75 GDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRPP 130
Score = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 38/74 (51%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V NL Y + +L VF + G V I DR T SRGF FV +A++A+
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 175 DGSQIGGRTVKVNF 188
DG+ + GR ++V
Sbjct: 110 DGAVLDGRELRVQM 123
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 46/75 (61%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A +YVG L ++ L E+F +AG V + + DRVT + +G+GFV S E+A AI+
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75
Query: 173 LFDGSQIGGRTVKVN 187
+ D ++ G+ ++VN
Sbjct: 76 IMDMIKLYGKPIRVN 90
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 44/76 (57%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y G L ++ L + F +++ + +R TG+ +G+GFV F + ED A+ M
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 278 NGVEVEGRPLRLNMAN 293
+ +++ G+P+R+N A+
Sbjct: 78 DMIKLYGKPIRVNKAS 93
>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 = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 45/74 (60%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT L +F+ G V SA+++ D+V S G+GFV + ++A+ AI
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 175 DGSQIGGRTVKVNF 188
+G ++ +T+KV++
Sbjct: 67 NGLRLQSKTIKVSY 80
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 41/66 (62%)
Query: 227 LTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRP 286
+T LR F + SAK+I ++ G S G+GFV + TA+D + A++ +NG+ ++ +
Sbjct: 16 MTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKT 75
Query: 287 LRLNMA 292
++++ A
Sbjct: 76 IKVSYA 81
>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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 48/84 (57%), Gaps = 4/84 (4%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
++VG+L +T+ + FA G ++ A +V D T +S+G+GFV+ + +A+ AI+
Sbjct: 17 HVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ 76
Query: 174 FDGSQIGGRTVKVNF----PEVPR 193
G +GGR ++ N+ P P+
Sbjct: 77 MGGQWLGGRQIRTNWATRKPPAPK 100
Score = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 54/94 (57%), Gaps = 1/94 (1%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
++ G+L +T++ ++ AF + A+V+ + TG+S+G+GFV+F D ++A+ M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 278 NGVEVEGRPLRLNMANERAPPVLPAAKETKTENS 311
G + GR +R N A R PP + E+ T+ S
Sbjct: 78 GGQWLGGRQIRTNWAT-RKPPAPKSTYESNTKQS 110
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 43/74 (58%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
L++ +LP T + LA F G V SA++ D+ T S+ FGFV+ + + A+ AI+
Sbjct: 41 CNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIK 100
Query: 173 LFDGSQIGGRTVKV 186
+G Q+G + +KV
Sbjct: 101 AMNGFQVGTKRLKV 114
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 33/50 (66%)
Query: 242 LLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNM 291
++SAKV ++ T S+ FGFV+F+ + Q A+ AMNG +V + L++ +
Sbjct: 67 VISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQL 116
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 47/85 (55%), Gaps = 4/85 (4%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
++VG+L +T+ + FA G ++ A +V D T +S+G+GFV+ + +A+ AI
Sbjct: 17 HVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVH 76
Query: 174 FDGSQIGGRTVKVNF----PEVPRG 194
G +GGR ++ N+ P P G
Sbjct: 77 MGGQWLGGRQIRTNWATRKPPAPSG 101
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 47/80 (58%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
++ G+L +T++ ++ AF + A+V+ + TG+S+G+GFV+F D ++A+ M
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 278 NGVEVEGRPLRLNMANERAP 297
G + GR +R N A + P
Sbjct: 78 GGQWLGGRQIRTNWATRKPP 97
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 44/74 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+Y+G++PY T + ++ + G V + ++++D T RS+G+ F+ +E + A+R
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 175 DGSQIGGRTVKVNF 188
+G Q+G R +K +
Sbjct: 67 NGYQLGSRFLKCGY 80
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 40/72 (55%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y G++ + T + + D +++ K++F+ TGRS+G+ F+ F E SA+ +
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 278 NGVEVEGRPLRL 289
NG ++ R L+
Sbjct: 67 NGYQLGSRFLKC 78
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 44/78 (56%), Gaps = 2/78 (2%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y NL G+ + LR AF + SAKV+ E GRS+GFGFV F + E+ A+ M
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 278 NGVEVEGRPLRLNMANER 295
NG V +PL + +A +
Sbjct: 76 NGRIVATKPLYVALAQRK 93
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 36/62 (58%), Gaps = 2/62 (3%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYV NL + L + F+ GT+ SA+++ + RS+GFGFV S EEA +A+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 175 DG 176
+G
Sbjct: 76 NG 77
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 46/192 (23%), Positives = 89/192 (46%), Gaps = 13/192 (6%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAG-----TVASAEIVYDRVTDRSRGFGFVTMGSVEE 166
A RLYVGN+P+ +T ++ + F T A V ++ + F F+ SV+E
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 167 AKEAIRLFDGSQIGGRTVKVNFPE----VPRGGERAAM-GPKLQNSYQGFVDSPHKIYAG 221
+A+ FDG G+++K+ P +P E ++ P + ++ DS HK++ G
Sbjct: 64 TTQAMA-FDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTV--VPDSAHKLFIG 120
Query: 222 NLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVE 281
L L +++ L + ++ + TG S+G+ F + A+ +NG++
Sbjct: 121 GLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQ 180
Query: 282 VEGRPLRLNMAN 293
+ + L + A+
Sbjct: 181 LGDKKLLVQRAS 192
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 9/92 (9%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +L++G LP + + E+ G + + +V D T S+G+ F + +AI
Sbjct: 114 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173
Query: 172 RLFDGSQIGGRTVKVNFPEVPRGGERAAMGPK 203
+G Q+G + + V +RA++G K
Sbjct: 174 AGLNGMQLGDKKLLV---------QRASVGAK 196
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+++VG LPY T +SL + F G + A ++ DR T +SRG+GFVTM A+ A +
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 174 FDGSQIGGRTVKVNF 188
+ I GR VN
Sbjct: 79 PN-PIIDGRKANVNL 92
Score = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 43/82 (52%), Gaps = 1/82 (1%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
KI+ G L + T LR F+G + A VI +R TG+SRG+GFVT + A
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 277 MNGVEVEGRPLRLNMANERAPP 298
N + ++GR +N+A A P
Sbjct: 79 PNPI-IDGRKANVNLAYLGAKP 99
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 53.1 bits (126), Expect = 2e-07, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 42/73 (57%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+YV NLP+S+T++ L +F++ G V I+ D+ T +S+G F+ + A+ R
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 175 DGSQIGGRTVKVN 187
+ Q+ GR +K +
Sbjct: 79 NNKQLFGRVIKAS 91
Score = 36.2 bits (82), Expect = 0.022, Method: Composition-based stats.
Identities = 19/79 (24%), Positives = 40/79 (50%)
Query: 214 SPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSA 273
S +Y NL + LT+ L F ++ ++ ++ T +S+G F+ F + Q+
Sbjct: 15 SKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNC 74
Query: 274 LDAMNGVEVEGRPLRLNMA 292
A+N ++ GR ++ ++A
Sbjct: 75 TRAINNKQLFGRVIKASIA 93
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 44/74 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+Y+G++PY T + ++ + G V + ++++D T RS+G+ F+ +E + A+R
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 175 DGSQIGGRTVKVNF 188
+G Q+G R +K +
Sbjct: 65 NGYQLGSRFLKCGY 78
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 40/72 (55%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y G++ + T + + D +++ K++F+ TGRS+G+ F+ F E SA+ +
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 278 NGVEVEGRPLRL 289
NG ++ R L+
Sbjct: 65 NGYQLGSRFLKC 76
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 46/75 (61%), Gaps = 2/75 (2%)
Query: 116 YVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLFD 175
YVGNLP++ + +F + ++ S +V D+ TD+ +GF +V V+ KEA+ +D
Sbjct: 19 YVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYD 76
Query: 176 GSQIGGRTVKVNFPE 190
G+ +G R+++V+ E
Sbjct: 77 GALLGDRSLRVDIAE 91
>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 = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 44/74 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+Y+G++PY T + ++ + G V + ++++D T RS+G+ F+ +E + A+R
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 175 DGSQIGGRTVKVNF 188
+G Q+G R +K +
Sbjct: 66 NGYQLGSRFLKCGY 79
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 40/72 (55%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y G++ + T + + D +++ K++F+ TGRS+G+ F+ F E SA+ +
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 278 NGVEVEGRPLRL 289
NG ++ R L+
Sbjct: 66 NGYQLGSRFLKC 77
>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 = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 44/74 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP + T L +F+ G V SA+++ D+V S G+GFV + ++A+ AI
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 175 DGSQIGGRTVKVNF 188
+G ++ +T+KV++
Sbjct: 82 NGLRLQSKTIKVSY 95
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 40/65 (61%)
Query: 228 TSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPL 287
T LR F + SAK+I ++ G S G+GFV + TA+D + A++ +NG+ ++ + +
Sbjct: 32 TQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTI 91
Query: 288 RLNMA 292
+++ A
Sbjct: 92 KVSYA 96
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 47/79 (59%), Gaps = 4/79 (5%)
Query: 215 PHK-IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSA 273
P K ++ L T + L+++F G + A+++ +R TG S+GFGFV F + ED ++A
Sbjct: 14 PSKTLFVKGLSEDTTEETLKESFDGS---VRARIVTDRETGSSKGFGFVDFNSEEDAKAA 70
Query: 274 LDAMNGVEVEGRPLRLNMA 292
+AM E++G + L+ A
Sbjct: 71 KEAMEDGEIDGNKVTLDWA 89
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 39/74 (52%), Gaps = 3/74 (4%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V L T +L E F G+V A IV DR T S+GFGFV S E+AK A
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSV-RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 175 DGSQIGGRTVKVNF 188
+ +I G V +++
Sbjct: 75 EDGEIDGNKVTLDW 88
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 45/187 (24%), Positives = 89/187 (47%), Gaps = 30/187 (16%)
Query: 112 AARLYVGNLPYSMTS----SSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEA 167
A L+VGNL ++ ++ + +++VFA+ V D +R FG+V S E+
Sbjct: 7 AFNLFVGNLNFNKSAPELKTGISDVFAKNDLA-----VVDVRIGMTRKFGYVDFESAEDL 61
Query: 168 KEAIRLFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGL 227
++A+ L G ++ G +K+ E P+G + K +++ + A NL + +
Sbjct: 62 EKALEL-TGLKVFGNEIKL---EKPKGKD----SKKERDA--------RTLLAKNLPYKV 105
Query: 228 TSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPL 287
T L++ F+ +A++ G+S+G ++ F+T D + + G E++GR +
Sbjct: 106 TQDELKEVFED-----AAEIRLVSKDGKSKGIAYIEFKTEADAEKTFEEKQGTEIDGRSI 160
Query: 288 RLNMANE 294
L E
Sbjct: 161 SLYYTGE 167
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 5/83 (6%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A L NLPY +T L EVF +A AEI +S+G ++ + +A++
Sbjct: 93 ARTLLAKNLPYKVTQDELKEVFEDA-----AEIRLVSKDGKSKGIAYIEFKTEADAEKTF 147
Query: 172 RLFDGSQIGGRTVKVNFPEVPRG 194
G++I GR++ + + P+G
Sbjct: 148 EEKQGTEIDGRSISLYYTGEPKG 170
>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 = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 34/57 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
LYV NLP ++T L +F + G++ I+ D++T R RG FV EEA+EAI
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 72
Score = 44.3 bits (103), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 40/79 (50%), Gaps = 2/79 (2%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y NL +T L F ++ ++ ++ TGR RG FV + E+ Q A+ A+
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 278 NGVEVEG--RPLRLNMANE 294
N V EG +PL + +A E
Sbjct: 76 NNVIPEGGSQPLSVRLAEE 94
>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 = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 45/185 (24%), Positives = 88/185 (47%), Gaps = 30/185 (16%)
Query: 115 LYVGNLPYSMTSSSL----AEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEA 170
L++GNL + + + L +E+FA+ V D T +R FG+V S E+ ++A
Sbjct: 16 LFIGNLNPNKSVAELKVAISELFAKNDLA-----VVDVRTGTNRKFGYVDFESAEDLEKA 70
Query: 171 IRLFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQ 230
+ L G ++ G +K+ E P+G + V + + A NL + +T
Sbjct: 71 LEL-TGLKVFGNEIKL---EKPKGRDSKK------------VRAARTLLAKNLSFNITED 114
Query: 231 GLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLN 290
L++ F+ L +++ + G+S+G ++ F++ D + L+ G E++GR + L
Sbjct: 115 ELKEVFEDA---LEIRLVSQ--DGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLY 169
Query: 291 MANER 295
E+
Sbjct: 170 YTGEK 174
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 49/94 (52%), Gaps = 8/94 (8%)
Query: 214 SPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAK---VIFERYTGRSRGFGFVTFETAEDL 270
+P ++ GNL + L+ A L AK + + TG +R FG+V FE+AEDL
Sbjct: 12 TPFNLFIGNLNPNKSVAELKVAISE----LFAKNDLAVVDVRTGTNRKFGYVDFESAEDL 67
Query: 271 QSALDAMNGVEVEGRPLRLNMANERAPPVLPAAK 304
+ AL+ + G++V G ++L R + AA+
Sbjct: 68 EKALE-LTGLKVFGNEIKLEKPKGRDSKKVRAAR 100
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 41/75 (54%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y G L + + L AF + ++ + T + RGF FV FE AED +A+D M
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 278 NGVEVEGRPLRLNMA 292
N E+ GR +R+N+A
Sbjct: 126 NESELFGRTIRVNLA 140
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVG L + L F G + +I D T++ RGF FV E+A AI
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 175 DGSQIGGRTVKVNF 188
+ S++ GRT++VN
Sbjct: 126 NESELFGRTIRVNL 139
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 45/83 (54%), Gaps = 1/83 (1%)
Query: 212 VDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQ 271
D P K++ G L + L+ F G+ G +S ++ + T +SRGF F+TFE D +
Sbjct: 4 ADHPGKLFIGGLNRETNEKMLKAVF-GKHGPISEVLLIKDRTSKSRGFAFITFENPADAK 62
Query: 272 SALDAMNGVEVEGRPLRLNMANE 294
+A MNG + G+ +++ A +
Sbjct: 63 NAAKDMNGKSLHGKAIKVEQAKK 85
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 45/87 (51%), Gaps = 4/87 (4%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L++G L L VF + G ++ ++ DR T +SRGF F+T + +AK A +
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 174 FDGSQIGGRTVKVNFPEVP---RGGER 197
+G + G+ +KV + P GG R
Sbjct: 68 MNGKSLHGKAIKVEQAKKPSFQSGGRR 94
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 51.6 bits (122), Expect = 6e-07, Method: Composition-based stats.
Identities = 24/74 (32%), Positives = 42/74 (56%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT +F G + S ++V D++T +S G+GFV +A +AI
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 175 DGSQIGGRTVKVNF 188
+G ++ +T+KV++
Sbjct: 67 NGLKLQTKTIKVSY 80
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 19/81 (23%), Positives = 43/81 (53%)
Query: 212 VDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQ 271
+DS + L +T + F + S K++ ++ TG+S G+GFV + D
Sbjct: 1 MDSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDAD 60
Query: 272 SALDAMNGVEVEGRPLRLNMA 292
A++ +NG++++ + ++++ A
Sbjct: 61 KAINTLNGLKLQTKTIKVSYA 81
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 43/83 (51%)
Query: 210 GFVDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAED 269
G + +Y G L + + L AF + ++ + T + RGF FV FE AED
Sbjct: 7 GMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAED 66
Query: 270 LQSALDAMNGVEVEGRPLRLNMA 292
+A+D MN E+ GR +R+N+A
Sbjct: 67 AAAAIDNMNESELFGRTIRVNLA 89
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVG L + L F G + +I D T++ RGF FV E+A AI
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 175 DGSQIGGRTVKVNF 188
+ S++ GRT++VN
Sbjct: 75 NESELFGRTIRVNL 88
>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 = 50.8 bits (120), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 43/187 (22%), Positives = 82/187 (43%), Gaps = 23/187 (12%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAE-----AGTVASAEIVYDRVTDRSRGFGFVTMGSVEE 166
A RLYVGN+P+ +T ++ + F T A V ++ + F F+ SV+E
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 65
Query: 167 AKEAIRLFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWG 226
+A+ FDG G+++K+ P + YQ + HK++ G L
Sbjct: 66 TTQAMA-FDGIIFQGQSLKIRRP----------------HDYQP-LPGAHKLFIGGLPNY 107
Query: 227 LTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRP 286
L +++ L + ++ + TG S+G+ F + A+ +NG+++ +
Sbjct: 108 LNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKK 167
Query: 287 LRLNMAN 293
L + A+
Sbjct: 168 LLVQRAS 174
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 48/97 (49%), Gaps = 8/97 (8%)
Query: 214 SPHKIYAGNLGWGLTSQGLRDAFQGQP---GLLSA--KVIFERYTGRSRGFGFVTFETAE 268
S ++Y GN+ +G+T + + D F Q GL A + + + F F+ F + +
Sbjct: 5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 64
Query: 269 DLQSALDAMNGVEVEGRPLRLNMANERAPPVLPAAKE 305
+ A+ A +G+ +G+ L++ ++ P LP A +
Sbjct: 65 ETTQAM-AFDGIIFQGQSLKIRRPHDYQP--LPGAHK 98
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 40/66 (60%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LYV LP +M+ + ++F++ G + ++ I+ D+ T SRG GF+ EA+EAI+
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 173 LFDGSQ 178
+G +
Sbjct: 62 GLNGQK 67
Score = 36.2 bits (82), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y L ++ + + F +++++++ ++ TG SRG GF+ F+ + + A+ +
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 278 NGVEVEG--RPLRLNMAN 293
NG + G P+ + AN
Sbjct: 64 NGQKPLGAAEPITVKFAN 81
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/84 (35%), Positives = 46/84 (54%), Gaps = 4/84 (4%)
Query: 214 SPHKIYAGNLGWGLTSQGLRDAFQGQPG-LLSAKVIFERYTGRSRGFGFVTFETAEDLQS 272
+P +++ N+ + LR F GQ G +L ++IF S+GFGFVTFE + D
Sbjct: 14 TPKRLHVSNIPFRFRDPDLRQMF-GQFGKILDVEIIFNERG--SKGFGFVTFENSADADR 70
Query: 273 ALDAMNGVEVEGRPLRLNMANERA 296
A + ++G VEGR + +N A R
Sbjct: 71 AREKLHGTVVEGRKIEVNNATARV 94
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RL+V N+P+ L ++F + G + EI+++ S+GFGFVT + +A A
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 74
Query: 174 FDGSQIGGRTVKVN 187
G+ + GR ++VN
Sbjct: 75 LHGTVVEGRKIEVN 88
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 43/187 (22%), Positives = 82/187 (43%), Gaps = 23/187 (12%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAE-----AGTVASAEIVYDRVTDRSRGFGFVTMGSVEE 166
A RLYVGN+P+ +T ++ + F T A V ++ + F F+ SV+E
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 167 AKEAIRLFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWG 226
+A+ FDG G+++K+ P + YQ + HK++ G L
Sbjct: 64 TTQAMA-FDGIIFQGQSLKIRRP----------------HDYQP-LPGAHKLFIGGLPNY 105
Query: 227 LTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRP 286
L +++ L + ++ + TG S+G+ F + A+ +NG+++ +
Sbjct: 106 LNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKK 165
Query: 287 LRLNMAN 293
L + A+
Sbjct: 166 LLVQRAS 172
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 48/97 (49%), Gaps = 8/97 (8%)
Query: 214 SPHKIYAGNLGWGLTSQGLRDAFQGQP---GLLSA--KVIFERYTGRSRGFGFVTFETAE 268
S ++Y GN+ +G+T + + D F Q GL A + + + F F+ F + +
Sbjct: 3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62
Query: 269 DLQSALDAMNGVEVEGRPLRLNMANERAPPVLPAAKE 305
+ A+ A +G+ +G+ L++ ++ P LP A +
Sbjct: 63 ETTQAM-AFDGIIFQGQSLKIRRPHDYQP--LPGAHK 96
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 46/82 (56%), Gaps = 3/82 (3%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
++V NL Y + L EVF+ AG V A+I+ D+ +SRG G VT EA +AI +F
Sbjct: 18 VFVANLDYKVGWKKLKEVFSMAGVVVRADILEDK-DGKSRGIGTVTFEQSIEAVQAISMF 76
Query: 175 DGSQIGGRTVKVNFPE--VPRG 194
+G + R + V E +P+G
Sbjct: 77 NGQLLFDRPMHVKMDERALPKG 98
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 43/81 (53%), Gaps = 2/81 (2%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
++ NL + + + L++ F G++ I E G+SRG G VTFE + + A+
Sbjct: 18 VFVANLDYKVGWKKLKEVFS-MAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMF 76
Query: 278 NGVEVEGRPLRLNMANERAPP 298
NG + RP+ + M +ERA P
Sbjct: 77 NGQLLFDRPMHVKM-DERALP 96
>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 = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 49/91 (53%), Gaps = 3/91 (3%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A L++ +LP L ++F G V SA++ D+ T+ S+ FGFV+ + A+ AI
Sbjct: 25 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAI 84
Query: 172 RLFDGSQIGGRTVKVNFPEVPRGGERAAMGP 202
+ +G QIG + +KV ++ R + GP
Sbjct: 85 QSMNGFQIGMKRLKV---QLKRSKNDSKSGP 112
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 34/54 (62%)
Query: 242 LLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMANER 295
++SAKV ++ T S+ FGFV+++ Q+A+ +MNG ++ + L++ + +
Sbjct: 52 VVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSK 105
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 45/83 (54%), Gaps = 4/83 (4%)
Query: 215 PHKIYAGNLGWGLTSQGLRDAFQGQPG-LLSAKVIFERYTGRSRGFGFVTFETAEDLQSA 273
P +++ N+ + LR F GQ G +L ++IF S+GFGFVTFE + D A
Sbjct: 29 PKRLHVSNIPFRFRDPDLRQMF-GQFGKILDVEIIFNERG--SKGFGFVTFENSADADRA 85
Query: 274 LDAMNGVEVEGRPLRLNMANERA 296
+ ++G VEGR + +N A R
Sbjct: 86 REKLHGTVVEGRKIEVNNATARV 108
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RL+V N+P+ L ++F + G + EI+++ S+GFGFVT + +A A
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 88
Query: 174 FDGSQIGGRTVKVN 187
G+ + GR ++VN
Sbjct: 89 LHGTVVEGRKIEVN 102
>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 = 50.1 bits (118), Expect = 2e-06, Method: Composition-based stats.
Identities = 28/79 (35%), Positives = 42/79 (53%)
Query: 214 SPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSA 273
S +Y G L + + L AF + ++ + T + RGF FV FE AED +A
Sbjct: 1 SKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 60
Query: 274 LDAMNGVEVEGRPLRLNMA 292
+D MN E+ GR +R+N+A
Sbjct: 61 IDNMNESELFGRTIRVNLA 79
Score = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 26/74 (35%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVG L + L F G + +I D T++ RGF FV E+A AI
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 175 DGSQIGGRTVKVNF 188
+ S++ GRT++VN
Sbjct: 65 NESELFGRTIRVNL 78
>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 = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 41/75 (54%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y G L + + L AF + ++ + T + RGF FV FE AED +A+D M
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 278 NGVEVEGRPLRLNMA 292
N E+ GR +R+N+A
Sbjct: 70 NESELFGRTIRVNLA 84
Score = 47.0 bits (110), Expect = 1e-05, Method: Composition-based stats.
Identities = 26/74 (35%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVG L + L F G + +I D T++ RGF FV E+A AI
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 175 DGSQIGGRTVKVNF 188
+ S++ GRT++VN
Sbjct: 70 NESELFGRTIRVNL 83
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 41/75 (54%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y G L + + L AF + ++ + T + RGF FV FE AED +A+D M
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 278 NGVEVEGRPLRLNMA 292
N E+ GR +R+N+A
Sbjct: 68 NESELFGRTIRVNLA 82
Score = 47.0 bits (110), Expect = 2e-05, Method: Composition-based stats.
Identities = 26/74 (35%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVG L + L F G + +I D T++ RGF FV E+A AI
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 175 DGSQIGGRTVKVNF 188
+ S++ GRT++VN
Sbjct: 68 NESELFGRTIRVNL 81
>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 = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 61/119 (51%), Gaps = 9/119 (7%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVGNL + T + E+F+++G + + D++ + GF FV S +A+ A+R
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 175 DGSQIGGRTVKVNFPEVPRGGE---RAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQ 230
+G+++ R ++ ++ + G R G ++++ Y+ D AG G+G +Q
Sbjct: 102 NGTRLDDRIIRTDWDAGFKEGRQYGRGRSGGQVRDEYRQDYD------AGRGGYGKLAQ 154
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 46/169 (27%), Positives = 71/169 (42%), Gaps = 16/169 (9%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD--RSRGFGFVTMGSVEEAKE 169
A +++VG +P + + L E+F + G V ++ DR + +S+G FVT + + A E
Sbjct: 15 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 74
Query: 170 AIRLFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTS 229
A Q +KV +P M P D K++ G + T
Sbjct: 75 A-------QNALHNMKV----LPGMHHPIQMKPADSEKNNAVED--RKLFIGMISKKCTE 121
Query: 230 QGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMN 278
+R F G + I G SRG FVTF T Q+A+ AM+
Sbjct: 122 NDIRVMFSSF-GQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMH 169
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 47.8 bits (112), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 12/81 (14%)
Query: 222 NLGWGLTSQGLRDAFQGQPGLLSAKVIF----ERYTGRSRGFGFVTFETAEDLQSALDAM 277
NL + T + L++ F+ K F + G+S+G+ F+ F + ED + AL++
Sbjct: 22 NLSYSATEETLQEVFE--------KATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 278 NGVEVEGRPLRLNMANERAPP 298
N E+EGR +RL + R P
Sbjct: 74 NKREIEGRAIRLELQGPRGSP 94
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 43/80 (53%), Gaps = 5/80 (6%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L + NL YS T +L EVF +A + V +S+G+ F+ S E+AKEA+
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 175 DGSQIGGRTVKVNFPEVPRG 194
+ +I GR +++ + PRG
Sbjct: 74 NKREIEGRAIRLEL-QGPRG 92
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 47.8 bits (112), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 46/169 (27%), Positives = 71/169 (42%), Gaps = 16/169 (9%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD--RSRGFGFVTMGSVEEAKE 169
A +++VG +P + + L E+F + G V ++ DR + +S+G FVT + + A E
Sbjct: 3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 62
Query: 170 AIRLFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTS 229
A Q +KV +P M P D K++ G + T
Sbjct: 63 A-------QNALHNMKV----LPGMHHPIQMKPADSEKNNAVED--RKLFIGMISKKCTE 109
Query: 230 QGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMN 278
+R F G + I G SRG FVTF T Q+A+ AM+
Sbjct: 110 NDIRVMF-SSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMH 157
>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 = 47.8 bits (112), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 30/91 (32%), Positives = 46/91 (50%), Gaps = 5/91 (5%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
I+ NL + ++ L D F +LS KV+ + S+G+GFV FET E + A++ M
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 65
Query: 278 NGVEVEGRPL---RLNMANERAPPVLPAAKE 305
NG+ + R + R ER + AKE
Sbjct: 66 NGMLLNDRKVFVGRFKSRKEREAELGARAKE 96
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 2/72 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+++ NL S+ + +L + F+ G + S ++V D + S+G+GFV + E A+ AI
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 65
Query: 175 DGSQIGGRTVKV 186
+G + R V V
Sbjct: 66 NGMLLNDRKVFV 77
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 40/72 (55%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V +P ++ L ++F G + S +IV DR T +SRG+GFV S A++AI
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 175 DGSQIGGRTVKV 186
+G I + +KV
Sbjct: 105 NGFNILNKRLKV 116
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 36/61 (59%)
Query: 232 LRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNM 291
LR F+ + S K++ +R T +SRG+GFV F++ Q A+ +NG + + L++ +
Sbjct: 59 LRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVAL 118
Query: 292 A 292
A
Sbjct: 119 A 119
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 31/88 (35%), Positives = 43/88 (48%), Gaps = 3/88 (3%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V NL Y + SL VF + G V I + T RGF FV +A++A
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 175 DGSQIGGRTVKVNFPEVPRGGERAAMGP 202
DG+++ GR ++V +V R G R GP
Sbjct: 76 DGAELDGRELRV---QVARYGRRDLSGP 100
Score = 44.3 bits (103), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 39/81 (48%)
Query: 212 VDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQ 271
VD + NL + + LR F+ + + E +T RGF FV F D Q
Sbjct: 10 VDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQ 69
Query: 272 SALDAMNGVEVEGRPLRLNMA 292
A AM+G E++GR LR+ +A
Sbjct: 70 DAEAAMDGAELDGRELRVQVA 90
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 46.6 bits (109), Expect = 2e-05, Method: Composition-based stats.
Identities = 30/91 (32%), Positives = 46/91 (50%), Gaps = 9/91 (9%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +++V NLP+ T L + F E G V A+I + +S+G G V S E A+ A
Sbjct: 8 ACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERAC 65
Query: 172 RLFDGSQIGGRTVKVNFPEVPRGGERAAMGP 202
R+ +G ++ GR + V +R A GP
Sbjct: 66 RMMNGMKLSGREIDVRI-------DRNASGP 89
Score = 41.6 bits (96), Expect = 6e-04, Method: Composition-based stats.
Identities = 25/82 (30%), Positives = 43/82 (52%), Gaps = 2/82 (2%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
+I+ NL + T + L+D F +L A + E G+S+G G V FE+ E + A
Sbjct: 10 QIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACRM 67
Query: 277 MNGVEVEGRPLRLNMANERAPP 298
MNG+++ GR + + + + P
Sbjct: 68 MNGMKLSGREIDVRIDRNASGP 89
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 42/169 (24%), Positives = 70/169 (41%), Gaps = 16/169 (9%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD--RSRGFGFVTMGSVEEAKE 169
A + +VG +P + + L E+F + G V ++ DR + +S+G FVT + + A E
Sbjct: 3 AIKXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 62
Query: 170 AIRLFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTS 229
A ++ +P G + K +S + K++ G + T
Sbjct: 63 AQNALHNXKV-----------LP--GXHHPIQXKPADSEKNNAVEDRKLFIGXISKKCTE 109
Query: 230 QGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMN 278
+R F G + I G SRG FVTF T Q+A+ A +
Sbjct: 110 NDIRVXFSSF-GQIEECRILRGPDGLSRGCAFVTFTTRAXAQTAIKAXH 157
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 44/163 (26%), Positives = 66/163 (40%), Gaps = 30/163 (18%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
RL+VGNLP +T +F G + I +R RGFGF+ + S A+ A
Sbjct: 23 CRLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEIAKA 76
Query: 173 LFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGL 232
DG+ + R +++ F A G L NL ++++ L
Sbjct: 77 ELDGTILKSRPLRIRF---------ATHGAAL--------------TVKNLSPVVSNELL 113
Query: 233 RDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALD 275
AF Q G + V+ GR+ G GFV F + AL+
Sbjct: 114 EQAF-SQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALE 155
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 39/79 (49%), Gaps = 10/79 (12%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQ--GQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL 274
+++ GNL +T + + F+ G+P E + R RGFGF+ E+ + A
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPS--------EVFINRDRGFGFIRLESRTLAEIAK 75
Query: 275 DAMNGVEVEGRPLRLNMAN 293
++G ++ RPLR+ A
Sbjct: 76 AELDGTILKSRPLRIRFAT 94
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVT 160
++++G L + T L E F + G V ++ D +T RSRGFGFVT
Sbjct: 25 GCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVT 73
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/49 (48%), Positives = 31/49 (63%), Gaps = 2/49 (4%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPG-LLSAKVIFERYTGRSRGFGFVTF 264
K++ G L W T +GLR+ F GQ G + V+ + T RSRGFGFVTF
Sbjct: 27 KMFIGGLSWQTTQEGLREYF-GQFGEVKECLVMRDPLTKRSRGFGFVTF 74
>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 = 45.4 bits (106), Expect = 4e-05, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 32/58 (55%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALD 275
++ G L W T + L+D F ++ + + TGRSRGFGFV F+ +E + +D
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD 59
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 29/57 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+++G L + T L + F++ G V + D +T RSRGFGFV E + +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVM 58
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 27/89 (30%), Positives = 46/89 (51%), Gaps = 4/89 (4%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+++VG +P++ + L E F + G V ++YD R RGFGF+T + +A+ +
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 174 FDGSQIGGRTVKVNFPEVPRGGERAAMGP 202
I G+ V+V E PR + + GP
Sbjct: 72 -HFHDIMGKKVEVKRAE-PR--DSKSSGP 96
Score = 35.4 bits (80), Expect = 0.045, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 1/80 (1%)
Query: 216 HKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALD 275
+KI+ G + LR+ F+ + +I++ R RGFGF+TFE + + A++
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN 70
Query: 276 AMNGVEVEGRPLRLNMANER 295
M+ ++ G+ + + A R
Sbjct: 71 -MHFHDIMGKKVEVKRAEPR 89
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 37/73 (50%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RL+V NL Y+ + L ++F+ G ++ D +T + +GF FVT E A +A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 174 FDGSQIGGRTVKV 186
DG GR + V
Sbjct: 70 VDGQVFQGRMLHV 82
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 31/73 (42%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
+++ NL + + + L F L + T + +GF FVTF E A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 277 MNGVEVEGRPLRL 289
++G +GR L +
Sbjct: 70 VDGQVFQGRMLHV 82
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 45/183 (24%), Positives = 74/183 (40%), Gaps = 20/183 (10%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A L V NLP S+T E+ G++ +VY T +S+G+GF + A A
Sbjct: 96 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKS 155
Query: 173 LFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGL 232
G +G RT+ V++ + + P L +S VD L G
Sbjct: 156 DLLGKPLGPRTLYVHWTDA------GQLTPALLHSRCLCVD--------RLPPGFNDV-- 199
Query: 233 RDAFQGQPGLLSAKVIFERYTGRS---RGFGFVTFETAEDLQSALDAMNGVEVEGRPLRL 289
DA + + + G+ +GF + +ETAE + A +G+ + G LR+
Sbjct: 200 -DALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRV 258
Query: 290 NMA 292
+
Sbjct: 259 SFC 261
>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 = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 48/75 (64%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
++VG+L +T++++A FA G ++ A +V D T +S+G+GFV+ + +A+ AI+
Sbjct: 8 HVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ 67
Query: 174 FDGSQIGGRTVKVNF 188
G +GGR ++ N+
Sbjct: 68 MGGQWLGGRQIRTNW 82
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 33/54 (61%)
Query: 242 LLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMANER 295
+ A+V+ + TG+S+G+GFV+F D ++A+ M G + GR +R N A +
Sbjct: 33 ISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATRK 86
>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 = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 45/183 (24%), Positives = 74/183 (40%), Gaps = 20/183 (10%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A L V NLP S+T E+ G++ +VY T +S+G+GF + A A
Sbjct: 94 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKS 153
Query: 173 LFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGL 232
G +G RT+ V++ + + P L +S VD L G
Sbjct: 154 DLLGKPLGPRTLYVHWTDA------GQLTPALLHSRCLCVD--------RLPPGFNDV-- 197
Query: 233 RDAFQGQPGLLSAKVIFERYTGRS---RGFGFVTFETAEDLQSALDAMNGVEVEGRPLRL 289
DA + + + G+ +GF + +ETAE + A +G+ + G LR+
Sbjct: 198 -DALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRV 256
Query: 290 NMA 292
+
Sbjct: 257 SFC 259
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 45/183 (24%), Positives = 74/183 (40%), Gaps = 20/183 (10%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A L V NLP S+T E+ G++ +VY T +S+G+GF + A A
Sbjct: 96 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKS 155
Query: 173 LFDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQGFVDSPHKIYAGNLGWGLTSQGL 232
G +G RT+ V++ + + P L +S VD L G
Sbjct: 156 DLLGKPLGPRTLYVHWTDA------GQLTPALLHSRCLCVD--------RLPPGFNDV-- 199
Query: 233 RDAFQGQPGLLSAKVIFERYTGRS---RGFGFVTFETAEDLQSALDAMNGVEVEGRPLRL 289
DA + + + G+ +GF + +ETAE + A +G+ + G LR+
Sbjct: 200 -DALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRV 258
Query: 290 NMA 292
+
Sbjct: 259 SFC 261
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 44.3 bits (103), Expect = 9e-05, Method: Composition-based stats.
Identities = 29/88 (32%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
++V NLP+ T L + F E G V A+I + +S+G G V S E A+ A R+
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACRMM 65
Query: 175 DGSQIGGRTVKVNFPEVPRGGERAAMGP 202
+G ++ GR + V +R A GP
Sbjct: 66 NGMKLSGREIDVRI-------DRNASGP 86
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 2/81 (2%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
I+ NL + T + L+D F +L A + E G+S+G G V FE+ E + A M
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACRMM 65
Query: 278 NGVEVEGRPLRLNMANERAPP 298
NG+++ GR + + + + P
Sbjct: 66 NGMKLSGREIDVRIDRNASGP 86
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 30/47 (63%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFV 159
+L+VG L +S T +L F++ G V I+ D+ T++SRGFGFV
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFV 63
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 8/89 (8%)
Query: 213 DSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQS 272
D K++ G L W T + LR F ++ ++ ++ T +SRGFGFV F+ +
Sbjct: 14 DEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCV-- 71
Query: 273 ALDAMNGVEVEGRPLRLNMANERAPPVLP 301
G + RP L+ N P P
Sbjct: 72 ------GTVLASRPHTLDGRNIDPKPCTP 94
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L++G L + T SL + + G + ++ D + RSRGFGFVT S+ E A+
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Query: 174 FDGSQIGGRTVK 185
S I GR V+
Sbjct: 89 RPHS-IDGRVVE 99
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 35/61 (57%)
Query: 216 HKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALD 275
K++ G L + T + LR+ ++ L V+ + + RSRGFGFVTF + ++ +A+
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA 87
Query: 276 A 276
A
Sbjct: 88 A 88
>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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 34/73 (46%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + Y T S L F G + +VY + + + RG+ F+ + A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 175 DGSQIGGRTVKVN 187
DG +I GR V V+
Sbjct: 165 DGKKIDGRRVLVD 177
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 15/68 (22%), Positives = 35/68 (51%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
++ + + T LR F+ + +++ + +G+ RG+ F+ +E D+ SA
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 278 NGVEVEGR 285
+G +++GR
Sbjct: 165 DGKKIDGR 172
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 8/77 (10%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+ +L+VGN+ + T+ L F E G V +IV D + FV M E+A EAI
Sbjct: 10 STKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAI 61
Query: 172 RLFDGSQIGGRTVKVNF 188
R D ++ G+ + V
Sbjct: 62 RGLDNTEFQGKRMHVQL 78
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 28/47 (59%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVT 160
++++G L + T L E F + G V ++ D +T RSRGFGFVT
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVT 48
Score = 42.0 bits (97), Expect = 4e-04, Method: Composition-based stats.
Identities = 24/49 (48%), Positives = 31/49 (63%), Gaps = 2/49 (4%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPG-LLSAKVIFERYTGRSRGFGFVTF 264
K++ G L W T +GLR+ F GQ G + V+ + T RSRGFGFVTF
Sbjct: 2 KMFIGGLSWQTTQEGLREYF-GQFGEVKECLVMRDPLTKRSRGFGFVTF 49
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 23/97 (23%), Positives = 50/97 (51%), Gaps = 5/97 (5%)
Query: 202 PKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGF 261
P Q S +G++ ++ + T + + D F + + + +R TG +G+
Sbjct: 15 PGPQRSVEGWI-----LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTL 69
Query: 262 VTFETAEDLQSALDAMNGVEVEGRPLRLNMANERAPP 298
V +ET ++ Q+A++ +NG ++ G+P+ ++ R PP
Sbjct: 70 VEYETYKEAQAAMEGLNGQDLMGQPISVDWCFVRGPP 106
Score = 33.9 bits (76), Expect = 0.12, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 175 DGSQIGGRTVKVNF 188
+G + G+ + V++
Sbjct: 86 NGQDLMGQPISVDW 99
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
++VGNL + L E+F +AG + I DR + + FGFV E AI L
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDR-EGKPKSFGFVCFKHPESVSYAIALL 77
Query: 175 DGSQIGGRTVKVNFP 189
+G ++ GR + V+ P
Sbjct: 78 NGIRLYGRPINVSGP 92
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 213 DSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQS 272
++ ++ GNL + + L + F Q G L+ I + G+ + FGFV F+ E +
Sbjct: 14 EADRTVFVGNLEARVREEILYELFL-QAGPLTKVTICKDREGKPKSFGFVCFKHPESVSY 72
Query: 273 ALDAMNGVEVEGRPLRLN 290
A+ +NG+ + GRP+ ++
Sbjct: 73 AIALLNGIRLYGRPINVS 90
>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 = 43.5 bits (101), Expect = 1e-04, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 32/59 (54%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALD 275
K + G L W + + L+D F ++ + + TGRSRGFGF+ F+ A ++ LD
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLD 71
Score = 37.7 bits (86), Expect = 0.009, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 25/48 (52%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFV 159
A + +VG L + + L + F + G V I D T RSRGFGF+
Sbjct: 11 AGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFI 58
>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 = 43.5 bits (101), Expect = 1e-04, Method: Composition-based stats.
Identities = 19/71 (26%), Positives = 40/71 (56%)
Query: 228 TSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPL 287
T + + D F + + + +R TG +G+ V +ET ++ Q+A++ +NG ++ G+P+
Sbjct: 20 TEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 79
Query: 288 RLNMANERAPP 298
++ R PP
Sbjct: 80 SVDWCFVRGPP 90
Score = 34.3 bits (77), Expect = 0.10, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 175 DGSQIGGRTVKVNF 188
+G + G+ + V++
Sbjct: 70 NGQDLMGQPISVDW 83
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L V NL + ++ + + E+FAE GT+ A + YDR + RS G V +A +A++
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQ 88
Query: 174 FDGSQIGGRTVKVNF 188
++G + GR + +
Sbjct: 89 YNGVPLDGRPMNIQL 103
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
K+ NL +G++ +++ F L A V ++R +GRS G V FE D A+
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQ 88
Query: 277 MNGVEVEGRPLRLNM 291
NGV ++GRP+ + +
Sbjct: 89 YNGVPLDGRPMNIQL 103
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 1/77 (1%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A+L V NL + ++ + + E+FAE GT+ A + YDR + RS G V +A +A+
Sbjct: 88 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAM 146
Query: 172 RLFDGSQIGGRTVKVNF 188
+ + G + GR + +
Sbjct: 147 KQYKGVPLDGRPMDIQL 163
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 1/80 (1%)
Query: 212 VDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQ 271
V++ K+ NL +G++ +++ F L A V ++R +GRS G V FE D
Sbjct: 85 VETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADAL 143
Query: 272 SALDAMNGVEVEGRPLRLNM 291
A+ GV ++GRP+ + +
Sbjct: 144 KAMKQYKGVPLDGRPMDIQL 163
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 29/49 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGS 163
++VG L + T + F + G V A +++D+ T+R RGFGFVT S
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFES 50
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 20/53 (37%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDL 270
I+ G L T + ++ F+ + A ++F++ T R RGFGFVTFE+ ED+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFES-EDI 53
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 44/83 (53%), Gaps = 1/83 (1%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
IY GN+ +G T++ L F G + ++ ++++G +GF ++ F E ++++L A+
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 66
Query: 278 NGVEVEGRPLRLNMANERAPPVL 300
+ GR +++ P +L
Sbjct: 67 DESLFRGRQIKVIPKRTNRPGIL 89
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +YVGN+ Y T+ L F G+V I+ D+ + +GF ++ E + ++
Sbjct: 5 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 64
Query: 172 RLFDGSQIGGRTVKV 186
L D S GR +KV
Sbjct: 65 AL-DESLFRGRQIKV 78
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 42.7 bits (99), Expect = 2e-04, Method: Composition-based stats.
Identities = 24/68 (35%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
I+ NL + ++ L D F +LS KV+ + S+G+GFV FET E + A++ M
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 71
Query: 278 NGVEVEGR 285
NG+ + R
Sbjct: 72 NGMLLNDR 79
Score = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 2/72 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+++ NL S+ + +L + F+ G + S ++V D + S+G+GFV + E A+ AI
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 71
Query: 175 DGSQIGGRTVKV 186
+G + R V V
Sbjct: 72 NGMLLNDRKVFV 83
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LY+ NLP SM L + G V S I+ D + SRG GF M S E+ + I F
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEAVIGHF 86
Query: 175 DG 176
+G
Sbjct: 87 NG 88
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 215 PHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL 274
P +Y NL + Q L + + ++S +++ + +G SRG GF E+ E ++ +
Sbjct: 25 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEAVI 83
Query: 275 DAMNGVEVEGRP 286
NG ++ P
Sbjct: 84 GHFNGKFIKTPP 95
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 34/73 (46%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + Y T S L F G + +VY + + + RG+ F+ + A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 175 DGSQIGGRTVKVN 187
DG +I GR V V+
Sbjct: 165 DGKKIDGRRVLVD 177
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/68 (22%), Positives = 35/68 (51%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
++ + + T LR F+ + +++ + +G+ RG+ F+ +E D+ SA
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 278 NGVEVEGR 285
+G +++GR
Sbjct: 165 DGKKIDGR 172
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 3/79 (3%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD---RSRGFGFVTMGSVEEAKEAI 171
L++ NL +S T +L VF++ G + S I + S GFGFV E+A++A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 172 RLFDGSQIGGRTVKVNFPE 190
+ G + G ++V E
Sbjct: 68 KQLQGHTVDGHKLEVRISE 86
Score = 35.0 bits (79), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 37/84 (44%), Gaps = 3/84 (3%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTG---RSRGFGFVTFETAEDLQSAL 274
++ NL + T + L+ F + S + ++ S GFGFV ++ E Q AL
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 275 DAMNGVEVEGRPLRLNMANERAPP 298
+ G V+G L + ++ P
Sbjct: 68 KQLQGHTVDGHKLEVRISERATKP 91
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 1/77 (1%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A+L V NL + ++ + + E+FAE GT+ A + YDR + RS G V +A +A+
Sbjct: 35 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAM 93
Query: 172 RLFDGSQIGGRTVKVNF 188
+ + G + GR + +
Sbjct: 94 KQYKGVPLDGRPMDIQL 110
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 1/80 (1%)
Query: 212 VDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQ 271
V++ K+ NL +G++ +++ F L A V ++R +GRS G V FE D
Sbjct: 32 VETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADAL 90
Query: 272 SALDAMNGVEVEGRPLRLNM 291
A+ GV ++GRP+ + +
Sbjct: 91 KAMKQYKGVPLDGRPMDIQL 110
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 42/76 (55%), Gaps = 1/76 (1%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A+L V NL + ++ + + E+FAE GT+ A + YDR + RS G V +A +A++
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMK 94
Query: 173 LFDGSQIGGRTVKVNF 188
+ G + GR + +
Sbjct: 95 QYKGVPLDGRPMDIQL 110
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 1/80 (1%)
Query: 212 VDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQ 271
V++ K+ NL +G++ +++ F L A V ++R +GRS G V FE D
Sbjct: 32 VETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADAL 90
Query: 272 SALDAMNGVEVEGRPLRLNM 291
A+ GV ++GRP+ + +
Sbjct: 91 KAMKQYKGVPLDGRPMDIQL 110
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 42.4 bits (98), Expect = 3e-04, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 33/52 (63%)
Query: 128 SLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLFDGSQI 179
+L +F++AG V + E D T +++GF FV GS+ +AK+ I+ F G ++
Sbjct: 28 ALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRL 79
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 42.0 bits (97), Expect = 4e-04, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 33/52 (63%)
Query: 128 SLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLFDGSQI 179
+L +F++AG V + E D T +++GF FV GS+ +AK+ I+ F G ++
Sbjct: 28 ALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRL 79
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 42.0 bits (97), Expect = 4e-04, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 43/74 (58%), Gaps = 1/74 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVGNL + T + E+F+++G + + D++ + GF FV S +A+ A+R
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKT-ACGFCFVEYYSRADAENAMRYI 79
Query: 175 DGSQIGGRTVKVNF 188
+G+++ R ++ ++
Sbjct: 80 NGTRLDDRIIRTDW 93
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 7/84 (8%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRG--FGFVTMGSVEEAKEA 170
R+YVGNLP + + + +VF + G + ++ +R G F FV +A++A
Sbjct: 23 CRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL-----KNRRGGPPFAFVEFEDPRDAEDA 77
Query: 171 IRLFDGSQIGGRTVKVNFPEVPRG 194
+ DG G ++V FP RG
Sbjct: 78 VYGRDGYDYDGYRLRVEFPRSGRG 101
>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 = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L V NL + ++ + + E+FAE GT+ A + YDR + RS G V +A +A +
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAXKQ 89
Query: 174 FDGSQIGGRTVKVNF 188
++G + GR +
Sbjct: 90 YNGVPLDGRPXNIQL 104
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
K+ NL +G++ +++ F L A V ++R +GRS G V FE D A
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAXKQ 89
Query: 277 MNGVEVEGRPLRLNM 291
NGV ++GRP + +
Sbjct: 90 YNGVPLDGRPXNIQL 104
>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 = 41.2 bits (95), Expect = 7e-04, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +YVGN+ Y T+ L F G+V I+ D+ + +GF ++ E + ++
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65
Query: 172 RLFDGSQIGGRTVKV 186
L D S GR +KV
Sbjct: 66 AL-DESLFRGRQIKV 79
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
IY GN+ +G T++ L F G + ++ ++++G +GF ++ F E ++++L A+
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 67
Query: 278 NGVEVEGRPLRL 289
+ GR +++
Sbjct: 68 DESLFRGRQIKV 79
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 41/78 (52%), Gaps = 8/78 (10%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
KI+ GN+ TSQ LR F+ + ++ V+ + + FV E D ++A+
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVV--------KDYAFVHMEKEADAKAAIAQ 62
Query: 277 MNGVEVEGRPLRLNMANE 294
+NG EV+G+ + + ++ +
Sbjct: 63 LNGKEVKGKRINVELSTK 80
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 22/96 (22%), Positives = 49/96 (51%), Gaps = 5/96 (5%)
Query: 202 PKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGF 261
P Q S +G++ ++ + T + + D F + + + +R TG +G+
Sbjct: 1 PGPQRSVEGWI-----LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTL 55
Query: 262 VTFETAEDLQSALDAMNGVEVEGRPLRLNMANERAP 297
V +ET ++ Q+A++ +NG ++ G+P+ ++ R P
Sbjct: 56 VEYETYKEAQAAMEGLNGQDLMGQPISVDWCFVRGP 91
Score = 34.3 bits (77), Expect = 0.10, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 175 DGSQIGGRTVKVNF 188
+G + G+ + V++
Sbjct: 72 NGQDLMGQPISVDW 85
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 18/70 (25%), Positives = 39/70 (55%)
Query: 228 TSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPL 287
T + + D F + + + +R TG +G+ V +ET ++ Q+A++ +NG ++ G+P+
Sbjct: 20 TEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 79
Query: 288 RLNMANERAP 297
++ R P
Sbjct: 80 SVDWCFVRGP 89
Score = 34.3 bits (77), Expect = 0.085, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 175 DGSQIGGRTVKVNF 188
+G + G+ + V++
Sbjct: 70 NGQDLMGQPISVDW 83
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLL-SAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
I+ GNL + + L D F +L + K++ + TG S+G+ F+ F + + +A++A
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 277 MNGVEVEGRPLRLNMANER 295
MNG + RP+ ++ A ++
Sbjct: 68 MNGQYLCNRPITVSYAFKK 86
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 42/84 (50%), Gaps = 6/84 (7%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAG-----TVASAEIVYDRVTDRSRGFGFVTMGSVEE 166
A RLYVGN+P+ +T ++ + F T A V ++ + F F+ SV+E
Sbjct: 1 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 60
Query: 167 AKEAIRLFDGSQIGGRTVKVNFPE 190
+A+ FDG G+++K+ P
Sbjct: 61 TTQAM-AFDGIIFQGQSLKIRRPH 83
Score = 35.0 bits (79), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 43/86 (50%), Gaps = 6/86 (6%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQP---GLLSA--KVIFERYTGRSRGFGFVTFETAEDLQ 271
++Y GN+ +G+T + + D F Q GL A + + + F F+ F + ++
Sbjct: 3 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 62
Query: 272 SALDAMNGVEVEGRPLRLNMANERAP 297
A+ A +G+ +G+ L++ ++ P
Sbjct: 63 QAM-AFDGIIFQGQSLKIRRPHDYQP 87
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 43/72 (59%), Gaps = 1/72 (1%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDR-SRGFGFVTMGSVEEAKEAIR 172
++++G L ++T + E+F+ G + ++ +R+ S+G+ +V + +EA++A++
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
Query: 173 LFDGSQIGGRTV 184
DG QI G+ +
Sbjct: 66 HMDGGQIDGQEI 77
Score = 33.1 bits (74), Expect = 0.19, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 215 PHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFER-YTGRSRGFGFVTFETAEDLQSA 273
P K++ G L +T + + F + + ER + S+G+ +V FE ++ + A
Sbjct: 4 PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKA 63
Query: 274 LDAMNGVEVEGRPL 287
L M+G +++G+ +
Sbjct: 64 LKHMDGGQIDGQEI 77
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 6/79 (7%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y GN+ +G T+Q L F + ++ ++++G +G+ ++ F + +A+ AM
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AM 97
Query: 278 NGVEVEGR-----PLRLNM 291
+ GR P R NM
Sbjct: 98 DETVFRGRTIKVLPKRTNM 116
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+YVGN+ Y T+ L F+ G++ I+ D+ + +G+ ++ A+ +
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAM- 97
Query: 175 DGSQIGGRTVKV 186
D + GRT+KV
Sbjct: 98 DETVFRGRTIKV 109
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 6/77 (7%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y G + GLT Q +R F ++ +V E+ G+ FV F T E A+ ++
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK------GYSFVRFSTHESAAHAIVSV 81
Query: 278 NGVEVEGRPLRLNMANE 294
NG +EG ++ E
Sbjct: 82 NGTTIEGHVVKCYWGKE 98
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 9/92 (9%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +L++G LP + + E+ G + + +V D T S+G+ F + +AI
Sbjct: 1 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60
Query: 172 RLFDGSQIGGRTVKVNFPEVPRGGERAAMGPK 203
+G Q+G + + V +RA++G K
Sbjct: 61 AGLNGMQLGDKKLLV---------QRASVGAK 83
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large
Subunit
Length = 87
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 6/83 (7%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAG-----TVASAEIVYDRVTDRSRGFGFVTMGSVEE 166
A RLYVGN+P+ +T ++ + F T A V ++ + F F+ SV+E
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 65
Query: 167 AKEAIRLFDGSQIGGRTVKVNFP 189
+A+ FDG G+++K+ P
Sbjct: 66 TTQAMA-FDGIIFQGQSLKIRRP 87
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 43/85 (50%), Gaps = 6/85 (7%)
Query: 210 GFVDSPHKIYAGNLGWGLTSQGLRDAFQGQP---GLLSA--KVIFERYTGRSRGFGFVTF 264
G + S ++Y GN+ +G+T + + D F Q GL A + + + F F+ F
Sbjct: 1 GPLGSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEF 60
Query: 265 ETAEDLQSALDAMNGVEVEGRPLRL 289
+ ++ A+ A +G+ +G+ L++
Sbjct: 61 RSVDETTQAM-AFDGIIFQGQSLKI 84
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L++ LP+S T L E+ GTV +V +R + +G +V + +A +A+
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRA-GKPKGLAYVEYENESQASQAVMK 77
Query: 174 FDGSQIGGRTVKV 186
DG I +KV
Sbjct: 78 MDGMTIKENIIKV 90
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LY+ NL +T L +FA I + +T R RG F+T + E A +A+ L
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLV 87
Query: 175 DGSQIGGRTVKVNF 188
+G ++ G+ + + F
Sbjct: 88 NGYKLYGKILVIEF 101
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 1/82 (1%)
Query: 215 PHKI-YAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSA 273
P+K+ Y NL +T + L F + F TGR RG F+TF E A
Sbjct: 24 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQA 83
Query: 274 LDAMNGVEVEGRPLRLNMANER 295
L +NG ++ G+ L + +
Sbjct: 84 LHLVNGYKLYGKILVIEFGKNK 105
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 37/65 (56%)
Query: 228 TSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPL 287
T + + D F + + + +R TG +G+ V +ET ++ Q+A++ +NG ++ G+P+
Sbjct: 20 TEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 79
Query: 288 RLNMA 292
++
Sbjct: 80 SVDWC 84
Score = 35.0 bits (79), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 175 DGSQIGGRTVKVNF 188
+G + G+ + V++
Sbjct: 70 NGQDLMGQPISVDW 83
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 8/79 (10%)
Query: 214 SPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAK---VIFERYTGRSRGFGFVTFETAEDL 270
+P ++ GNL + L+ A L AK + + TG +R FG+V FE+AEDL
Sbjct: 16 TPFNLFIGNLNPNKSVAELKVAISE----LFAKNDLAVVDVRTGTNRKFGYVDFESAEDL 71
Query: 271 QSALDAMNGVEVEGRPLRL 289
+ AL+ + G++V G ++L
Sbjct: 72 EKALE-LTGLKVFGNEIKL 89
>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 = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 37/65 (56%)
Query: 228 TSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPL 287
T + + D F + + + +R TG +G+ V +ET ++ Q+A++ +NG ++ G+P+
Sbjct: 35 TEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 94
Query: 288 RLNMA 292
++
Sbjct: 95 SVDWC 99
Score = 35.4 bits (80), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 37/74 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 175 DGSQIGGRTVKVNF 188
+G + G+ + V++
Sbjct: 85 NGQDLMGQPISVDW 98
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LY+ NLPY +T+ + ++F + G + + T +RG +V + +AK A+
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNAVDHL 67
Query: 175 DGSQIGGRTVKV 186
G + R + V
Sbjct: 68 SGFNVSNRYLVV 79
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 3/70 (4%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y NL + +T++ + D F G+ G + + T +RG +V +E D ++A+D +
Sbjct: 11 LYIRNLPYKITAEEMYDIF-GKYGPIRQIRVGN--TPETRGTAYVVYEDIFDAKNAVDHL 67
Query: 278 NGVEVEGRPL 287
+G V R L
Sbjct: 68 SGFNVSNRYL 77
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 36/76 (47%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LY+ L T L ++ G + S + + D+ T++ +G+GFV S A++A+
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 175 DGSQIGGRTVKVNFPE 190
S + + K + P
Sbjct: 68 KASGVQAQMAKQSGPS 83
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 5/80 (6%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAM 277
+Y L G T Q L Q ++S K I ++ T + +G+GFV F++ Q A+ A+
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 278 NGVEVEGRPLRLNMANERAP 297
V+ + MA + P
Sbjct: 68 KASGVQAQ-----MAKQSGP 82
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
+RL+VGNLP +T + ++F + G I D +GFGF+ + + A+ A
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKV 76
Query: 173 LFDGSQIGGRTVKVNF 188
D + G+ ++V F
Sbjct: 77 ELDNMPLRGKQLRVRF 92
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 40/82 (48%), Gaps = 10/82 (12%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQ--GQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL 274
+++ GNL +T + +R F+ G+ G E + + +GFGF+ ET + A
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGKAG--------EVFIHKDKGFGFIRLETRTLAEIAK 75
Query: 275 DAMNGVEVEGRPLRLNMANERA 296
++ + + G+ LR+ A A
Sbjct: 76 VELDNMPLRGKQLRVRFACHSA 97
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSR--GFGFVTMGSVEEAKE 169
+A L V NLP +++ L E F+ G V A ++ D DR R G G V A++
Sbjct: 96 SASLTVRNLPQYVSNELLEEAFSVFGQVERAVVIVD---DRGRPSGKGIVEFSGKPAARK 152
Query: 170 AI-RLFDGS 177
A+ R +GS
Sbjct: 153 ALDRCSEGS 161
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 43/84 (51%), Gaps = 5/84 (5%)
Query: 212 VDSPHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQ 271
V + + A NL + +T L++ F+ L +++ + G+S+G ++ F++ D +
Sbjct: 13 VRAARTLLAKNLSFNITEDELKEVFEDA---LEIRLVSQ--DGKSKGIAYIEFKSEADAE 67
Query: 272 SALDAMNGVEVEGRPLRLNMANER 295
L+ G E++GR + L E+
Sbjct: 68 KNLEEKQGAEIDGRSVSLYYTGEK 91
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 44/87 (50%), Gaps = 7/87 (8%)
Query: 112 AAR-LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEA 170
AAR L NL +++T L EVF +A EI +S+G ++ S +A++
Sbjct: 15 AARTLLAKNLSFNITEDELKEVFEDA-----LEIRLVSQDGKSKGIAYIEFKSEADAEKN 69
Query: 171 IRLFDGSQIGGRTVKVNFPEVPRGGER 197
+ G++I GR+V + + +GG R
Sbjct: 70 LEEKQGAEIDGRSVSLYYT-GEKGGTR 95
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 39/74 (52%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V ++ + E F + G + + + DR T S+G+ V + ++A A
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 175 DGSQIGGRTVKVNF 188
+G++I G+T++V++
Sbjct: 89 NGAEIMGQTIQVDW 102
Score = 36.2 bits (82), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 30/49 (61%)
Query: 249 FERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMANERAP 297
+R TG S+G+ V +ET + +A +A+NG E+ G+ ++++ + P
Sbjct: 60 LDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFVKGP 108
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 45/92 (48%), Gaps = 14/92 (15%)
Query: 216 HKIYAGNLGWGLTSQGLRDAFQ-----------GQPGLLSAKVIFERYTGRSRGFGFVTF 264
+ I+ LG +T + + D F+ GQP + + +R TG+ +G V+F
Sbjct: 8 NTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMI---NLYTDRETGKLKGEATVSF 64
Query: 265 ETAEDLQSALDAMNGVEVEGRPLRLNMANERA 296
+ ++A+D +G E G P++++ A RA
Sbjct: 65 DDPPSAKAAIDWFDGKEFSGNPIKVSFATRRA 96
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 8/82 (9%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAE--------IVYDRVTDRSRGFGFVTMGSVEE 166
++V L ++T S+A+ F + G + + + + DR T + +G V+
Sbjct: 10 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 69
Query: 167 AKEAIRLFDGSQIGGRTVKVNF 188
AK AI FDG + G +KV+F
Sbjct: 70 AKAAIDWFDGKEFSGNPIKVSF 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 = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 38/83 (45%), Gaps = 3/83 (3%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LY+ NLPY +T+ + ++F + G + + T +RG +V + +AK A
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 77
Query: 175 DGSQIGGRTVKVNFPEVPRGGER 197
G + R + V + R ++
Sbjct: 78 SGFNVCNRYLVVLYYNANRAFQK 100
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 37.4 bits (85), Expect = 0.010, Method: Composition-based stats.
Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 11/89 (12%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L++GNLP T + +F + G V +I+ + +GFV + A++AIR
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRN 61
Query: 174 FDGSQIGGRTVKVNFPEVPRGGERAAMGP 202
++ G + V E + +A+ GP
Sbjct: 62 LHHYKLHGVNINV---EASKNKSKASSGP 87
>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 = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
+RL+VGNLP +T + ++F + G I D +GFGF+ + + A+ A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKV 69
Query: 173 LFDGSQIGGRTVKVNF 188
D + G+ ++V F
Sbjct: 70 ELDNMPLRGKQLRVRF 85
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 40/82 (48%), Gaps = 10/82 (12%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQ--GQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL 274
+++ GNL +T + +R F+ G+ G E + + +GFGF+ ET + A
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAG--------EVFIHKDKGFGFIRLETRTLAEIAK 68
Query: 275 DAMNGVEVEGRPLRLNMANERA 296
++ + + G+ LR+ A A
Sbjct: 69 VELDNMPLRGKQLRVRFACHSA 90
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 2/70 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVY--DRVTDRSRGFGFVTMGSVEEAKEAIR 172
LY+GNL + T L E G EI + +R +S+GF V +GS +K+ +
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
Query: 173 LFDGSQIGGR 182
L ++ G+
Sbjct: 64 LLPKRELHGQ 73
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 218 IYAGNLGWGLTSQGLRDAFQ--GQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALD 275
+Y GNL W T + L +A G +L K R G+S+GF V + + +D
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
Query: 276 AMNGVEVEGR 285
+ E+ G+
Sbjct: 64 LLPKRELHGQ 73
>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 = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 39/74 (52%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V ++ + E F + G + + + DR T S+G+ V + ++A A
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 175 DGSQIGGRTVKVNF 188
+G++I G+T++V++
Sbjct: 135 NGAEIMGQTIQVDW 148
Score = 35.4 bits (80), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 35/59 (59%)
Query: 249 FERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMANERAPPVLPAAKETK 307
+R TG S+G+ V +ET + +A +A+NG E+ G+ ++++ + P + +++ +
Sbjct: 106 LDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFVKGPKRVKKSEKRR 164
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 36.6 bits (83), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 31/59 (52%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEA 170
A +L+VG +P + L +F E G + ++ DR+T +G F+T + + A +A
Sbjct: 15 AIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKA 73
>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 = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD--RSRGFGFVTMGSVEEAKE 169
A +++VG +P + + L E+F + G V ++ DR + +S+G FVT + + A E
Sbjct: 3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 62
Query: 170 A 170
A
Sbjct: 63 A 63
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 35.8 bits (81), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 2/71 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVY--DRVTDRSRGFGFVTMGSVEEAKEAIR 172
LY+GNL + T L E G EI + +R +S+GF V +GS +K+ +
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 130
Query: 173 LFDGSQIGGRT 183
L ++ G+
Sbjct: 131 LLPKRELHGQN 141
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 218 IYAGNLGWGLTSQGLRDAFQ--GQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALD 275
+Y GNL W T + L +A G +L K R G+S+GF V + + +D
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 130
Query: 276 AMNGVEVEGR 285
+ E+ G+
Sbjct: 131 LLPKRELHGQ 140
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 35.4 bits (80), Expect = 0.038, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 8/82 (9%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAE--------IVYDRVTDRSRGFGFVTMGSVEE 166
++V L ++T S+A+ F + G + + + + DR T + +G V+
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 167 AKEAIRLFDGSQIGGRTVKVNF 188
AK AI FDG + G +KV+F
Sbjct: 76 AKAAIDWFDGKEFSGNPIKVSF 97
Score = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 42/86 (48%), Gaps = 14/86 (16%)
Query: 218 IYAGNLGWGLTSQGLRDAFQ-----------GQPGLLSAKVIFERYTGRSRGFGFVTFET 266
I+ LG +T + + D F+ GQP + + +R TG+ +G V+F+
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMI---NLYTDRETGKLKGEATVSFDD 72
Query: 267 AEDLQSALDAMNGVEVEGRPLRLNMA 292
++A+D +G E G P++++ A
Sbjct: 73 PPSAKAAIDWFDGKEFSGNPIKVSFA 98
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 35.4 bits (80), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 31/59 (52%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A + V NL + L E+F G+++ + D+ T +S+GF F++ E+A AI
Sbjct: 16 ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 250 ERYTGRSRGFGFVTFETAEDLQSALDAMNG 279
++ TG+S+GF F++F ED A+ ++G
Sbjct: 50 DKTTGQSKGFAFISFHRREDAARAIAGVSG 79
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 35.0 bits (79), Expect = 0.052, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 40/78 (51%), Gaps = 3/78 (3%)
Query: 215 PHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL 274
P+ ++ G + + +R F + K+I +R TG S+G+GFV+F D+Q +
Sbjct: 9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 67
Query: 275 DAMNGVEVEGRPLRLNMA 292
++ + G+ L+L A
Sbjct: 68 ESQ--INFHGKKLKLGPA 83
Score = 33.1 bits (74), Expect = 0.21, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVT 160
++VG + M + + FA G+V +I+ DR T S+G+GFV+
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVS 56
>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 = 35.0 bits (79), Expect = 0.053, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 40/78 (51%), Gaps = 3/78 (3%)
Query: 215 PHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL 274
P+ ++ G + + +R F + K+I +R TG S+G+GFV+F D+Q +
Sbjct: 9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 67
Query: 275 DAMNGVEVEGRPLRLNMA 292
++ + G+ L+L A
Sbjct: 68 ESQ--INFHGKKLKLGPA 83
Score = 33.1 bits (74), Expect = 0.21, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVT 160
++VG + M + + FA G+V +I+ DR T S+G+GFV+
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVS 56
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 35.0 bits (79), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+A L++ N+P S++ L +F+ G V + + R + MGSVEEA +A+
Sbjct: 120 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK----DRKMALIQMGSVEEAVQAL 175
Query: 172 RLFDGSQIG-GRTVKVNF 188
+G ++V+F
Sbjct: 176 IDLHNHDLGENHHLRVSF 193
>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 = 35.0 bits (79), Expect = 0.060, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 27/56 (48%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKE 169
+++VG L + E F G V S E+ D T++ RGF F+T E K+
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKK 58
Score = 31.6 bits (70), Expect = 0.61, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 31/59 (52%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALD 275
KI+ G L + +R+ F G + S ++ + T + RGF F+TF+ E ++ ++
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 35.0 bits (79), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 240 PGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNG-VEVEGRPLRLNMANERAPP 298
P KV+ ++ TG S+G+GFV F + + AL G V + +P+RL++A +A
Sbjct: 35 PSCRGGKVVLDQ-TGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSVAIPKASR 93
Query: 299 VLPA 302
V P
Sbjct: 94 VKPV 97
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 34.7 bits (78), Expect = 0.064, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 40/78 (51%), Gaps = 3/78 (3%)
Query: 215 PHKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSAL 274
P+ ++ G + + +R F + K+I +R TG S+G+GFV+F D+Q +
Sbjct: 10 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 68
Query: 275 DAMNGVEVEGRPLRLNMA 292
++ + G+ L+L A
Sbjct: 69 ESQ--INFHGKKLKLGPA 84
Score = 33.1 bits (74), Expect = 0.24, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVT 160
++VG + M + + FA G+V +I+ DR T S+G+GFV+
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVS 57
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 34.7 bits (78), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 9/82 (10%)
Query: 113 ARLYVGNLPYSMTSSSLAE-VFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+R+++GNL ++ S E +F++ G VA + +G+ FV + A+ A+
Sbjct: 28 SRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--------HKGYAFVQYSNERHARAAV 79
Query: 172 RLFDGSQIGGRTVKVNFPEVPR 193
+G + G+T+ +N P+
Sbjct: 80 LGENGRVLAGQTLDINMAGEPK 101
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 37/87 (42%), Gaps = 19/87 (21%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGR------SRGFGFVTFETAEDL 270
+++ GNL L + + IF +Y GR +G+ FV +
Sbjct: 29 RVFIGNLNTALVKKS------------DVETIFSKY-GRVAGCSVHKGYAFVQYSNERHA 75
Query: 271 QSALDAMNGVEVEGRPLRLNMANERAP 297
++A+ NG + G+ L +NMA E P
Sbjct: 76 RAAVLGENGRVLAGQTLDINMAGEPKP 102
>pdb|2ADC|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd34 Complexed With Cucucu Rna
pdb|2EVZ|A Chain A, Structure Of Rna Binding Domains 3 And 4 Of Polypyrimidine
Tract Binding Protein
Length = 229
Score = 34.7 bits (78), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+A L++ N+P S++ L +F+ G V + + R + MGSVEEA +A+
Sbjct: 151 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK----DRKMALIQMGSVEEAVQAL 206
Query: 172 RLFDGSQIG-GRTVKVNF 188
+G ++V+F
Sbjct: 207 IDLHNHDLGENHHLRVSF 224
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 34.7 bits (78), Expect = 0.078, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LY+ NLPY +T+ + ++F + G + + T +RG +V + +AK A
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 71
Query: 175 DGSQIGGRTVKV 186
G + R + V
Sbjct: 72 SGFNVCNRYLVV 83
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 34.3 bits (77), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 253 TGRSRGFGFVTFETAEDLQSALDAM-NGVEVEGRPLRLNMAN 293
TG RGFGFV F T +D + A +A+ + + GR L L A+
Sbjct: 54 TGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWAD 95
Score = 31.6 bits (70), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 40/80 (50%), Gaps = 2/80 (2%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRV-TDRSRGFGFVTMGSVEEAKEAI 171
+++ V N+P+ + E+F+ G + + + T RGFGFV + ++AK+A
Sbjct: 16 SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
Query: 172 R-LFDGSQIGGRTVKVNFPE 190
L + + GR + + + +
Sbjct: 76 NALCHSTHLYGRRLVLEWAD 95
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 34.3 bits (77), Expect = 0.099, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 24/51 (47%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVE 165
L V LP+ T L E F+ G V ++ D T S+GFGFV E
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYE 68
Score = 32.7 bits (73), Expect = 0.29, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 24/46 (52%)
Query: 223 LGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAE 268
L W T Q L++ F +L +V + TG S+GFGFV F E
Sbjct: 23 LPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYE 68
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 3/72 (4%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L + NLPY +T+ + ++F + G + + T +RG +V + +AK A
Sbjct: 21 LMIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 77
Query: 175 DGSQIGGRTVKV 186
G + R + V
Sbjct: 78 SGFNVCNRYLVV 89
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
++YVGNL L F+ G + + I + GF FV +A++A+R
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRG 56
Query: 174 FDGSQIGGRTVKVNF 188
DG I G V+V
Sbjct: 57 LDGKVICGSRVRVEL 71
Score = 32.3 bits (72), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
K+Y GNLG G L AF L + + GF FV FE D + A+
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWI-----ARNPPGFAFVEFEDPRDAEDAVRG 56
Query: 277 MNGVEVEGRPLRLNMAN 293
++G + G +R+ ++
Sbjct: 57 LDGKVICGSRVRVELST 73
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 33.9 bits (76), Expect = 0.11, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 26/55 (47%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKE 169
++VG L + E F G V S E+ D T++ RGF F+T E K+
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKK 56
Score = 29.6 bits (65), Expect = 2.2, Method: Composition-based stats.
Identities = 15/58 (25%), Positives = 30/58 (51%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALD 275
I+ G L + +R+ F G + S ++ + T + RGF F+TF+ E ++ ++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 59
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 33.9 bits (76), Expect = 0.12, Method: Composition-based stats.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVGNL +T + ++F++ G S +++ + ++ + FV +A A+
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVEFYEHRDAAAALAAM 75
Query: 175 DGSQIGGRTVKVNFPEVP 192
+G +I G+ VKVN+ P
Sbjct: 76 NGRKILGKEVKVNWATTP 93
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 257 RGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMANERAPPVLPAA 303
R FVT+E E A+ +NG +VE L++N+A R P+L AA
Sbjct: 73 RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIA--RKQPMLDAA 117
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 124 MTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLFDGSQIGGRT 183
MT + L F+ G + D D R FVT +E A +A+ +G+Q+
Sbjct: 49 MTPTLLRGAFSPFGNI------IDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQ 102
Query: 184 VKVNF 188
+KVN
Sbjct: 103 LKVNI 107
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 34/79 (43%), Gaps = 8/79 (10%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RL+V P + S L E+F G + +I+ GF FV E A +AI
Sbjct: 33 RLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKAIEE 84
Query: 174 FDGSQIGGRTVKVNFPEVP 192
G + ++V + ++P
Sbjct: 85 VHGKSFANQPLEVVYSKLP 103
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 258 GFGFVTFETAEDLQSALDAMNGVEVEGRPLRL 289
GF FV FE AE A++ ++G +PL +
Sbjct: 66 GFAFVEFEEAESAAKAIEEVHGKSFANQPLEV 97
>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 = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 7/92 (7%)
Query: 202 PKLQNSYQGFVDSPHKIYAGNLGWGLTSQGLRDAFQ--GQPGLLSAKVIFERYTGRSRGF 259
P + +Y G + +Y G+ W T Q L + G ++ K R G+S+G+
Sbjct: 42 PAILYTYSGLRNRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGY 101
Query: 260 GFVTFETAEDLQSALD-----AMNGVEVEGRP 286
V + + L+ +NG +V+ RP
Sbjct: 102 AEVVVASENSVHKLLELLPGKVLNGEKVDVRP 133
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 8/76 (10%)
Query: 218 IYAGNLGWGLTSQGLRDAFQG-QPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
+Y NL + + + F +PG + ER + R + FV F ED A+ A
Sbjct: 18 LYVRNLMLSTSEEMIEKEFNNIKPGAV------ERVK-KIRDYAFVHFSNREDAVEAMKA 70
Query: 277 MNGVEVEGRPLRLNMA 292
+NG ++G P+ + +A
Sbjct: 71 LNGKVLDGSPIEVTLA 86
>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 = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 56/109 (51%), Gaps = 11/109 (10%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGL-LSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
++ N T + +RD Q + LS ++ R+ SR F ++ + ED + ++
Sbjct: 120 LWXTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNT-SRRFAYIDVTSKEDARYCVEK 178
Query: 277 MNGVEVEGRPLRLNMANERAPPVLPAAKETKTEN-SIDGSEL-LSSIST 323
+NG+++EG L ++N P K +T++ +++G E+ + ++ST
Sbjct: 179 LNGLKIEGYTLVTKVSN-------PLEKSKRTDSATLEGREIXIRNLST 220
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 41/87 (47%), Gaps = 12/87 (13%)
Query: 113 ARLYVGNLPYSMTSSSLAE-VFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+R+++GNL + S E +F++ G + + +GF FV + A+ A+
Sbjct: 16 SRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV--------HKGFAFVQYVNERNARAAV 67
Query: 172 RLFDGSQIGGRTVKVNF---PEVPRGG 195
DG I G+ + +N P+V R G
Sbjct: 68 AGEDGRMIAGQVLDINLAAEPKVNRSG 94
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 5/74 (6%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
++YVGNL + + L F G + S + + GF FV +A +A+R
Sbjct: 74 CKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVR 128
Query: 173 LFDGSQIGGRTVKV 186
DG + G V+V
Sbjct: 129 ELDGRTLCGCRVRV 142
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 5/74 (6%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
++YVGNL + + L F G + S + + GF FV +A +A+R
Sbjct: 74 CKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVR 128
Query: 173 LFDGSQIGGRTVKV 186
DG + G V+V
Sbjct: 129 DLDGRTLCGCRVRV 142
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 32.7 bits (73), Expect = 0.27, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 40/80 (50%), Gaps = 3/80 (3%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTF---ETAEDLQSA 273
K++ G + L + L+ F+ + V+ +R+TG +G F+T+ E+A QSA
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 274 LDAMNGVEVEGRPLRLNMAN 293
L + RP+++ A+
Sbjct: 75 LHEQKTLPGMNRPIQVKPAD 94
>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
Length = 161
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 218 IYAGNLGWGLTSQGLRDAFQGQPGL-LSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
++ N T + +RD Q + LS ++ R+ SR F ++ + ED + ++
Sbjct: 83 LWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRF-NTSRRFAYIDVTSKEDARYCVEK 141
Query: 277 MNGVEVEGRPLRLNMAN 293
+NG+++EG L ++N
Sbjct: 142 LNGLKIEGYTLVTKVSN 158
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 257 RGFGFVTFETAEDLQSALDAMNGVEVEGRPLRLNMANERAPPVL 300
R FVT+E E A+ +NG +VE L++N+A R P+L
Sbjct: 49 RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIA--RKQPML 90
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 145 VYDRVTDRSRGFGFVTMGSVEEAKEAIRLFDGSQIGGRTVKVNF 188
+ D D R FVT +E A +A+ +G+Q+ +KVN
Sbjct: 40 IIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNI 83
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 32.3 bits (72), Expect = 0.36, Method: Composition-based stats.
Identities = 18/73 (24%), Positives = 39/73 (53%), Gaps = 5/73 (6%)
Query: 121 PYSMTSSSLAEVFAEAG-TVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLFDG--- 176
P+++ S + + A V + ++ D+ T ++RGF FV + S +A + +++
Sbjct: 19 PHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHP 78
Query: 177 -SQIGGRTVKVNF 188
+I G+T+ V+F
Sbjct: 79 PLKIDGKTIGVDF 91
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 31.6 bits (70), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 33/63 (52%), Gaps = 3/63 (4%)
Query: 217 KIYAGNLGWGLTSQGLRDAFQGQP-GLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALD 275
K++ G LG T + +R F+ P G + + G S+G FV F+T + Q+A++
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFE--PFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAAIN 71
Query: 276 AMN 278
++
Sbjct: 72 TLH 74
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 39/81 (48%), Gaps = 20/81 (24%)
Query: 121 PYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLFDGSQ-- 178
PY++ SSS + ++ D+ T +RGF F+ + ++ EA + +++
Sbjct: 46 PYAVLSSS------------NVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPP 92
Query: 179 --IGGRTVKVNFPEVPRGGER 197
I G+T+ V F +G +R
Sbjct: 93 LTIDGKTINVEF---AKGSKR 110
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 8/73 (10%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RL+V P + S L E+F G + +I+ GF FV E A +AI
Sbjct: 6 RLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKAIEE 57
Query: 174 FDGSQIGGRTVKV 186
G + ++V
Sbjct: 58 VHGKSFANQPLEV 70
>pdb|2E5J|A Chain A, Solution Structure Of Rna Binding Domain In
Methenyltetrahydrofolate Synthetase Domain Containing
Length = 97
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 35/78 (44%), Gaps = 7/78 (8%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRS-RGFGFVTMGSVEEAKEA 170
AA +YVGNLP S L E G+V R+T + R F+ A++A
Sbjct: 19 AADVYVGNLPRDARVSDLKRALRELGSVPL------RLTWQGPRRRAFLHYPDSAAAQQA 72
Query: 171 IRLFDGSQIGGRTVKVNF 188
+ G ++G T++V
Sbjct: 73 VSCLQGLRLGTDTLRVAL 90
>pdb|2E5G|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 21
Length = 94
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 39/96 (40%), Gaps = 22/96 (22%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRG-FGFVTMGSVEEAKEAIRL 173
++V P + S+ L+E F G VAS V D+ +G F V MG V
Sbjct: 11 VFVSGFPRGVDSAQLSEYFLAFGPVASV------VMDKDKGVFAIVEMGDV--------- 55
Query: 174 FDGSQIGGRTVKVNFPEVPRGGERAAMGPKLQNSYQ 209
G R ++ + GG R + P+ Q +Q
Sbjct: 56 ------GAREAVLSQSQHSLGGHRLRVRPREQKEFQ 85
>pdb|2DIS|A Chain A, Solution Structure Of The Rrm Domain Of Unnamed Protein
Product
Length = 109
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 36/82 (43%), Gaps = 4/82 (4%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD--RSRGFGFVTMGSVEEAKEA 170
RL++G +P + E A+ IVY D ++RGF FV S A A
Sbjct: 9 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMA 68
Query: 171 IR-LFDGS-QIGGRTVKVNFPE 190
R L G Q+ G + V++ E
Sbjct: 69 RRKLMPGRIQLWGHQIAVDWAE 90
>pdb|2KH9|A Chain A, Solution Structure Of Yeast Prp24-Rrm2 Bound To A Fragment
Of U6 Rna
Length = 92
Score = 29.3 bits (64), Expect = 3.2, Method: Composition-based stats.
Identities = 19/77 (24%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 218 IYAGNLGWGLTSQGLRDAFQG-QPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDA 276
++ N T + +RD Q LS ++ R+ SR F ++ + ED + ++
Sbjct: 6 LWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFN-TSRRFAYIDVTSKEDARYCVEK 64
Query: 277 MNGVEVEGRPLRLNMAN 293
+NG+++EG L ++N
Sbjct: 65 LNGLKIEGYTLVTKVSN 81
>pdb|1FB5|A Chain A, Low Resolution Structure Of Ovine Ornithine
Transcarbmoylase In The Unliganded State
Length = 320
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 19/29 (65%)
Query: 158 FVTMGSVEEAKEAIRLFDGSQIGGRTVKV 186
+++MG EE K+ ++ F G Q+ +T KV
Sbjct: 231 WISMGREEEKKKRLQAFQGYQVNSKTAKV 259
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD-RSRGFGFVTMGSVEEAKEAIR 172
+L+VG L + + +F G + I+ R D S+G FV S EA+ AI
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTIL--RGPDGNSKGCAFVKYSSHAEAQAAIN 74
Query: 173 LFDGSQ 178
GSQ
Sbjct: 75 ALHGSQ 80
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 28.9 bits (63), Expect = 4.0, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 4/60 (6%)
Query: 242 LLSAKVIFERYTGRSRGFGFVTFETAEDLQSALDAMNGVEVEG----RPLRLNMANERAP 297
++S K+I R TG G+ FV F + L +NG + G + +LN A P
Sbjct: 37 VMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRFKLNYATYSGP 96
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 39/76 (51%), Gaps = 7/76 (9%)
Query: 216 HKIYAGNLGWGLTSQGLRDAFQGQPGLLSAKVIFERYTGRSRGFGFVTFETAEDLQSALD 275
+K+Y GNL +T+ LR F + L+ +V+ + G+ FV + A++
Sbjct: 9 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLK------SGYAFVDYPDQNWAIRAIE 62
Query: 276 AMNG-VEVEGRPLRLN 290
++G VE+ G+ + ++
Sbjct: 63 TLSGKVELHGKIMEVD 78
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD-RSRGFGFVTMGSVEEAKEAIR 172
+L+VG L + + +F G + ++ R D S+G FV S EA+ AI
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVL--RGPDGSSKGCAFVKFSSHTEAQAAIH 74
Query: 173 LFDGSQ 178
GSQ
Sbjct: 75 ALHGSQ 80
>pdb|1X4C|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 2
Length = 108
Score = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 36/86 (41%), Gaps = 14/86 (16%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
R+ V LP S + L + EAG V A++ D G G V E+ A+R
Sbjct: 17 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-------GTGVVEFVRKEDMTYAVRK 69
Query: 174 FDGSQI---GGRT----VKVNFPEVP 192
D ++ G T VKV+ P P
Sbjct: 70 LDNTKFRSHEGETAYIRVKVDGPRSP 95
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.316 0.133 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,240,720
Number of Sequences: 62578
Number of extensions: 266841
Number of successful extensions: 1117
Number of sequences better than 100.0: 181
Number of HSP's better than 100.0 without gapping: 148
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 738
Number of HSP's gapped (non-prelim): 341
length of query: 323
length of database: 14,973,337
effective HSP length: 99
effective length of query: 224
effective length of database: 8,778,115
effective search space: 1966297760
effective search space used: 1966297760
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)