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= 022742
(293 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 123 bits (308), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 55/88 (62%), Positives = 71/88 (80%)
Query: 206 RRRNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKED 265
RR +D ++RVTNLSEDTRE DL ELFRPFG++SR+Y+A D+ TG S+GF F++F +ED
Sbjct: 10 RRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRRED 69
Query: 266 AQRAINKLNGYGYDNLILRVEWATPRTN 293
A RAI ++G+GYD+LIL VEWA P TN
Sbjct: 70 AARAIAGVSGFGYDHLILNVEWAKPSTN 97
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 34/85 (40%), Positives = 50/85 (58%)
Query: 209 NDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQR 268
+DE + V LS DT E L ++F +G +S V V D++T SRGFGFV F N +DA+
Sbjct: 10 SDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKD 69
Query: 269 AINKLNGYGYDNLILRVEWATPRTN 293
A+ +NG D +RV+ A ++
Sbjct: 70 AMMAMNGKSVDGRQIRVDQAGKSSD 94
>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 = 62.4 bits (150), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 33/91 (36%), Positives = 50/91 (54%), Gaps = 2/91 (2%)
Query: 201 TGTDMRRRNDENS--VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFV 258
+G+ ++++ N V V +LS + D+ F PFG +S V D TG S+G+GFV
Sbjct: 3 SGSSGQKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFV 62
Query: 259 NFVNKEDAQRAINKLNGYGYDNLILRVEWAT 289
+F NK DA+ AI ++ G +R WAT
Sbjct: 63 SFFNKWDAENAIQQMGGQWLGGRQIRTNWAT 93
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 61.2 bits (147), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 33/91 (36%), Positives = 49/91 (53%), Gaps = 2/91 (2%)
Query: 201 TGTDMRRRNDENS--VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFV 258
+G+ ++++ N V V +LS + D+ F PFG +S V D TG S+G+GFV
Sbjct: 3 SGSSGQKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFV 62
Query: 259 NFVNKEDAQRAINKLNGYGYDNLILRVEWAT 289
+F NK DA+ AI + G +R WAT
Sbjct: 63 SFYNKLDAENAIVHMGGQWLGGRQIRTNWAT 93
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 57.8 bits (138), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 30/75 (40%), Positives = 43/75 (57%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V L +D + +L LFR G ++ + D KTG S G+ FV+F ++ D+QRAI LNG
Sbjct: 8 VNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNG 67
Query: 276 YGYDNLILRVEWATP 290
N L+V +A P
Sbjct: 68 ITVRNKRLKVSYARP 82
>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 = 57.8 bits (138), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 46/83 (55%)
Query: 208 RNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQ 267
R ++ V L +D + +L LFR G ++ + D KTG S G+ FV+F ++ D+Q
Sbjct: 11 RASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQ 70
Query: 268 RAINKLNGYGYDNLILRVEWATP 290
RAI LNG N L+V +A P
Sbjct: 71 RAIKVLNGITVRNKRLKVSYARP 93
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 57.8 bits (138), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 30/75 (40%), Positives = 43/75 (57%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V L +D + +L LFR G ++ + D KTG S G+ FV+F ++ D+QRAI LNG
Sbjct: 8 VNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNG 67
Query: 276 YGYDNLILRVEWATP 290
N L+V +A P
Sbjct: 68 ITVRNKRLKVSYARP 82
>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 = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 40/61 (65%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
+ +L ++ + DLL++F PFG V V +D++T +S+ FGFV++ N AQ AI +NG
Sbjct: 30 IYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNG 89
Query: 276 Y 276
+
Sbjct: 90 F 90
>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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 43/77 (55%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V L ++ + +L LF G V + D+ G S G+GFVN+V +DA+RAIN LNG
Sbjct: 7 VNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG 66
Query: 276 YGYDNLILRVEWATPRT 292
+ ++V +A P +
Sbjct: 67 LRLQSKTIKVSYARPSS 83
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 34/61 (55%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
++ L + D+ ++F FG + V VDQ TG+SRG F+ F + +A+ AI NG
Sbjct: 93 ISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
Query: 276 Y 276
+
Sbjct: 153 H 153
>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 = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 44/77 (57%)
Query: 212 NSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
S++V NL+ T L +F +G V VY+ D+ T SRGF FV F +K DA+ A++
Sbjct: 48 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMD 107
Query: 272 KLNGYGYDNLILRVEWA 288
++G D LRV+ A
Sbjct: 108 AMDGAVLDGRELRVQMA 124
>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 = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 42/75 (56%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V L ++ + +L LF G V + D+ G S G+GFVN+V +DA+RAIN LNG
Sbjct: 9 VNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG 68
Query: 276 YGYDNLILRVEWATP 290
+ ++V +A P
Sbjct: 69 LRLQSKTIKVSYARP 83
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 43/77 (55%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V L ++ + +L LF G V + D+ G S G+GFVN+V +DA+RAIN LNG
Sbjct: 7 VNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG 66
Query: 276 YGYDNLILRVEWATPRT 292
+ ++V +A P +
Sbjct: 67 LRLQSKTIKVSYARPSS 83
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 34/61 (55%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
++ L + D+ ++F FG + V VDQ TG+SRG F+ F + +A+ AI NG
Sbjct: 93 ISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
Query: 276 Y 276
+
Sbjct: 153 H 153
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 47/80 (58%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ V +L + E L +F PFG + + + +D +TG S+G+GF+ F + E A++A+ +L
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 274 NGYGYDNLILRVEWATPRTN 293
NG+ ++V T RT+
Sbjct: 89 NGFELAGRPMKVGHVTERTD 108
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 54.3 bits (129), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 43/74 (58%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ + +L ++ + DL F PFG V V +D++T +S+ FGFV+F N + AQ AI +
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 274 NGYGYDNLILRVEW 287
NG+ L+V+
Sbjct: 103 NGFQVGTKRLKVQL 116
>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 = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 42/75 (56%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V L ++ + +L LF G V + D+ G S G+GFVN+V +DA+RAIN LNG
Sbjct: 24 VNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG 83
Query: 276 YGYDNLILRVEWATP 290
+ ++V +A P
Sbjct: 84 LRLQSKTIKVSYARP 98
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 44/76 (57%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
S++V NL+ T L +F +G V VY+ D+ T SRGF FV F +K DA+ A++
Sbjct: 72 SLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDA 131
Query: 273 LNGYGYDNLILRVEWA 288
++G D LRV+ A
Sbjct: 132 MDGAVLDGRELRVQMA 147
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 44/76 (57%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V LS T E DL E+F +G ++ V + DQ++ SRGF FV F N +DA+ A + NG
Sbjct: 51 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 110
Query: 276 YGYDNLILRVEWATPR 291
D +RV+++ +
Sbjct: 111 MELDGRRIRVDFSITK 126
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 41/76 (53%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
V V +LS + + F PFG +S V D TG S+G+GFV+F NK DA+ AI ++
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 274 NGYGYDNLILRVEWAT 289
G +R WAT
Sbjct: 69 GGQWLGGRQIRTNWAT 84
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 44/76 (57%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V LS T E DL E+F +G ++ V + DQ++ SRGF FV F N +DA+ A + NG
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Query: 276 YGYDNLILRVEWATPR 291
D +RV+++ +
Sbjct: 80 MELDGRRIRVDFSITK 95
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 45/76 (59%), Gaps = 3/76 (3%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V LSEDT E L E F G+V R + D++TG S+GFGFV+F ++EDA+ A +
Sbjct: 20 VKGLSEDTTEETLKESFD--GSV-RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMED 76
Query: 276 YGYDNLILRVEWATPR 291
D + ++WA P+
Sbjct: 77 GEIDGNKVTLDWAKPK 92
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 40/70 (57%)
Query: 205 MRRRNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKE 264
+ RN + +V V L E EP L ELF G V ++ D+ TG +G+GFV F+++E
Sbjct: 9 ISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEE 68
Query: 265 DAQRAINKLN 274
DA AI ++
Sbjct: 69 DADYAIKIMD 78
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 43/73 (58%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V LS T E DL E+F +G ++ V + DQ++ SRGF FV F N +DA+ A + NG
Sbjct: 17 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 76
Query: 276 YGYDNLILRVEWA 288
D +RV+++
Sbjct: 77 MELDGRRIRVDFS 89
>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 = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 43/77 (55%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V L ++ + + LF G + + D+ TG S G+GFVN+++ +DA++AIN LNG
Sbjct: 7 VNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNG 66
Query: 276 YGYDNLILRVEWATPRT 292
++V +A P +
Sbjct: 67 LRLQTKTIKVSYARPSS 83
Score = 47.8 bits (112), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 38/63 (60%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
++ V+ L + + +L +LF +G + + VDQ TG+SRG GF+ F + +A+ AI
Sbjct: 90 NLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKG 149
Query: 273 LNG 275
LNG
Sbjct: 150 LNG 152
>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 = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V NL + EL RPFG++ R ++ ++TG S+G+GF ++ K+ A RA + L G
Sbjct: 98 VANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 157
Query: 276 YGYDNLILRVEW 287
L V W
Sbjct: 158 KPLGPRTLYVHW 169
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V NL + EL RPFG++ R ++ ++TG S+G+GF ++ K+ A RA + L G
Sbjct: 100 VANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 159
Query: 276 YGYDNLILRVEW 287
L V W
Sbjct: 160 KPLGPRTLYVHW 171
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V NL + EL RPFG++ R ++ ++TG S+G+GF ++ K+ A RA + L G
Sbjct: 100 VANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 159
Query: 276 YGYDNLILRVEW 287
L V W
Sbjct: 160 KPLGPRTLYVHW 171
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 52.0 bits (123), Expect = 3e-07, Method: Composition-based stats.
Identities = 27/76 (35%), Positives = 43/76 (56%), Gaps = 4/76 (5%)
Query: 218 NLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNGYG 277
N++ED L +F PFG + + + D TG S+G+GF+ F + E A+RA+ +LNG+
Sbjct: 16 NITEDM----LRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFE 71
Query: 278 YDNLILRVEWATPRTN 293
+RV T R +
Sbjct: 72 LAGRPMRVGHVTERLD 87
>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 = 51.2 bits (121), Expect = 6e-07, Method: Composition-based stats.
Identities = 25/73 (34%), Positives = 43/73 (58%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V +L+ + + L F+ F + +V D +TG SRG+GFV+F +++DAQ A++ + G
Sbjct: 6 VGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQG 65
Query: 276 YGYDNLILRVEWA 288
+ LR+ WA
Sbjct: 66 QDLNGRPLRINWA 78
>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 = 50.8 bits (120), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 43/75 (57%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
++ V NLS T E + ELF G + ++ + +D+ + GF FV + ++ DA+ A+
Sbjct: 41 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRY 100
Query: 273 LNGYGYDNLILRVEW 287
+NG D+ I+R +W
Sbjct: 101 INGTRLDDRIIRTDW 115
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 40/70 (57%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V LS T E DL E+F +G ++ V + DQ++ SRGF FV F N +DA+ A + NG
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Query: 276 YGYDNLILRV 285
D +RV
Sbjct: 80 MELDGRRIRV 89
>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 = 1e-06, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 44/79 (55%), Gaps = 2/79 (2%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ V+N+ R+PDL ++F FG + V + +++ S+GFGFV F N DA RA KL
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKL 89
Query: 274 NGYGYDNLILRVEWATPRT 292
+G + + V AT R
Sbjct: 90 HGTVVEGRKIEVNNATARV 108
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 44/79 (55%), Gaps = 2/79 (2%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ V+N+ R+PDL ++F FG + V + +++ S+GFGFV F N DA RA KL
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKL 75
Query: 274 NGYGYDNLILRVEWATPRT 292
+G + + V AT R
Sbjct: 76 HGTVVEGRKIEVNNATARV 94
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 40/77 (51%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V L ++ + + LF G + + D+ TG S G+GFVN+ + DA +AIN LNG
Sbjct: 9 VNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNG 68
Query: 276 YGYDNLILRVEWATPRT 292
++V +A P +
Sbjct: 69 LKLQTKTIKVSYARPSS 85
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 38/63 (60%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
++ V+ L + + ++ +LF +G + + +DQ TG+SRG GF+ F + +A+ AI
Sbjct: 92 NLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKG 151
Query: 273 LNG 275
LNG
Sbjct: 152 LNG 154
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 47/80 (58%)
Query: 209 NDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQR 268
+D ++ V +L+ + + L F+ F + +V D +TG SRG+GFV+F +++DAQ
Sbjct: 85 DDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQN 144
Query: 269 AINKLNGYGYDNLILRVEWA 288
A++ + G + LR+ WA
Sbjct: 145 AMDSMQGQDLNGRPLRINWA 164
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ V NL + E L + F+ G ++ + + +D K + + FV + DA A+ L
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMID-KNNKNVNYAFVEYHQSHDANIALQTL 61
Query: 274 NGYGYDNLILRVEWA 288
NG +N I+++ WA
Sbjct: 62 NGKQIENNIVKINWA 76
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 49.3 bits (116), Expect = 3e-06, Method: Composition-based stats.
Identities = 25/84 (29%), Positives = 44/84 (52%)
Query: 209 NDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQR 268
+ + ++ V L ++ + + LF G + + D+ TG S G+GFVN+ + DA +
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADK 61
Query: 269 AINKLNGYGYDNLILRVEWATPRT 292
AIN LNG ++V +A P +
Sbjct: 62 AINTLNGLKLQTKTIKVSYARPSS 85
>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 = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
++ V NLS T E + ELF G + ++ + +D K + GF FV + ++ DA+ A+
Sbjct: 20 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLD-KMKTACGFCFVEYYSRADAENAMRY 78
Query: 273 LNGYGYDNLILRVEW 287
+NG D+ I+R +W
Sbjct: 79 INGTRLDDRIIRTDW 93
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 41/77 (53%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
++ V + E L +LF +G + V + D++T SRG+GFV F + AQ+AI
Sbjct: 44 NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAG 103
Query: 273 LNGYGYDNLILRVEWAT 289
LNG+ N L+V A
Sbjct: 104 LNGFNILNKRLKVALAA 120
>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 = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 41/73 (56%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
VT++ E+ +E ++ E F +G + +++ +D++TG S+G+ V + + A A LNG
Sbjct: 77 VTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNG 136
Query: 276 YGYDNLILRVEWA 288
++V+W
Sbjct: 137 AEIMGQTIQVDWC 149
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 41/73 (56%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
VT++ E+ +E ++ E F +G + +++ +D++TG S+G+ V + + A A LNG
Sbjct: 31 VTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNG 90
Query: 276 YGYDNLILRVEWA 288
++V+W
Sbjct: 91 AEIMGQTIQVDWC 103
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 39/70 (55%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V NLS + E DL +LF +G +S ++ +D T +GF FV F+ E A +A +++G
Sbjct: 13 VRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDG 72
Query: 276 YGYDNLILRV 285
+ +L V
Sbjct: 73 QVFQGRMLHV 82
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 40/76 (52%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
+++V NL+ T L +F +G V VY+ + T RGF FV F ++ DAQ A
Sbjct: 15 TLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAA 74
Query: 273 LNGYGYDNLILRVEWA 288
++G D LRV+ A
Sbjct: 75 MDGAELDGRELRVQVA 90
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 50/97 (51%), Gaps = 8/97 (8%)
Query: 197 GAERTGTDMRRRNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQK-TGISRGF 255
G+ + + ++ + + V N+ + ++ ELF FG + V + TG RGF
Sbjct: 1 GSSGSSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGF 60
Query: 256 GFVNFVNKEDAQRAINKL----NGYGYDNLILRVEWA 288
GFV+F+ K+DA++A N L + YG L +EWA
Sbjct: 61 GFVDFITKQDAKKAFNALCHSTHLYGRR---LVLEWA 94
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 38/63 (60%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
++ V+ L + + ++ +LF +G + + +DQ TG+SRG GF+ F + +A+ AI
Sbjct: 3 NLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKG 62
Query: 273 LNG 275
LNG
Sbjct: 63 LNG 65
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 39/74 (52%)
Query: 212 NSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
N + V ++ +D + D+ +F FG + +A D TG +G+GF+ + + +Q A++
Sbjct: 126 NRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVS 185
Query: 272 KLNGYGYDNLILRV 285
+N + LRV
Sbjct: 186 SMNLFDLGGQYLRV 199
Score = 35.4 bits (80), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
V V ++ + E + + F PFG + + ++ D T +GF FV + E AQ A+ ++
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 274 N 274
N
Sbjct: 91 N 91
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 41/76 (53%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
VT + E+ E D+ + F +G + +++ +D++TG +G+ V + ++AQ A+ LNG
Sbjct: 28 VTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNG 87
Query: 276 YGYDNLILRVEWATPR 291
+ V+W R
Sbjct: 88 QDLMGQPISVDWCFVR 103
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 39/77 (50%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ V L+E+ + L F PFG ++ + + +D +T RGF FV F EDA AI+ +
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 274 NGYGYDNLILRVEWATP 290
N +RV A P
Sbjct: 75 NESELFGRTIRVNLAKP 91
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 39/74 (52%)
Query: 212 NSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
N + V ++ +D + D+ +F FG + +A D TG +G+GF+ + + +Q A++
Sbjct: 111 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 170
Query: 272 KLNGYGYDNLILRV 285
+N + LRV
Sbjct: 171 SMNLFDLGGQYLRV 184
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
V V ++ + E + + F PFG + + ++ D T +GF FV + E AQ A+ ++
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 274 N 274
N
Sbjct: 76 N 76
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 41/81 (50%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
SV V N+ + E L ++F G V + D++TG +G+GF + ++E A A+
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 273 LNGYGYDNLILRVEWATPRTN 293
LNG + LRV+ A N
Sbjct: 70 LNGREFSGRALRVDNAASEKN 90
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/57 (43%), Positives = 30/57 (52%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
V L T E DL E F FG V V V D KTG S+GFGFV F E + +++
Sbjct: 20 VLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ 76
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 45.1 bits (105), Expect = 4e-05, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 41/76 (53%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
VT + E+ E D+ + F +G + +++ +D++TG +G+ V + ++AQ A+ LNG
Sbjct: 12 VTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNG 71
Query: 276 YGYDNLILRVEWATPR 291
+ V+W R
Sbjct: 72 QDLMGQPISVDWCFVR 87
>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 = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 40/73 (54%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
VT + E+ E D+ + F +G + +++ +D++TG +G+ V + ++AQ A+ LNG
Sbjct: 27 VTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNG 86
Query: 276 YGYDNLILRVEWA 288
+ V+W
Sbjct: 87 QDLMGQPISVDWC 99
>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 = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 41/76 (53%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
VT + E+ E D+ + F +G + +++ +D++TG +G+ V + ++AQ A+ LNG
Sbjct: 12 VTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNG 71
Query: 276 YGYDNLILRVEWATPR 291
+ V+W R
Sbjct: 72 QDLMGQPISVDWCFVR 87
>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 = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 41/76 (53%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
VT + E+ E D+ + F +G + +++ +D++TG +G+ V + ++AQ A+ LNG
Sbjct: 14 VTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNG 73
Query: 276 YGYDNLILRVEWATPR 291
+ V+W R
Sbjct: 74 QDLMGQPISVDWCFVR 89
>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 = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 38/74 (51%)
Query: 212 NSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
N + V ++ +D + D+ +F FG + +A D TG +G+GF+ + + +Q A++
Sbjct: 110 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 169
Query: 272 KLNGYGYDNLILRV 285
N + LRV
Sbjct: 170 SXNLFDLGGQYLRV 183
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 30/61 (49%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
V V ++ + E + + F PFG + + + D T +GF FV + E AQ A+ +
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 274 N 274
N
Sbjct: 75 N 75
>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 = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 207 RRNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDA 266
R++ ++ + NL + L + F FG + V D+ S+G+GFV+F +E A
Sbjct: 99 RKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAA 156
Query: 267 QRAINKLNG 275
+RAI K+NG
Sbjct: 157 ERAIEKMNG 165
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 38/76 (50%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
S+ V +L D E L E F P G + + V D T S G+ +VNF DA+RA++
Sbjct: 17 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 76
Query: 273 LNGYGYDNLILRVEWA 288
+N +R+ W+
Sbjct: 77 MNFDVIKGKPVRIMWS 92
>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 = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 40/73 (54%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
VT + E+ E D+ + F +G + +++ +D++TG +G+ V + ++AQ A+ LNG
Sbjct: 12 VTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNG 71
Query: 276 YGYDNLILRVEWA 288
+ V+W
Sbjct: 72 QDLMGQPISVDWC 84
>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 = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 207 RRNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDA 266
R++ ++ + NL + L + F FG + V D+ S+G+GFV+F +E A
Sbjct: 94 RKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAA 151
Query: 267 QRAINKLNG 275
+RAI K+NG
Sbjct: 152 ERAIEKMNG 160
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 38/76 (50%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
S+ V +L D E L E F P G + + V D T S G+ +VNF DA+RA++
Sbjct: 12 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 71
Query: 273 LNGYGYDNLILRVEWA 288
+N +R+ W+
Sbjct: 72 MNFDVIKGKPVRIMWS 87
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 44.3 bits (103), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 31/87 (35%), Positives = 46/87 (52%), Gaps = 11/87 (12%)
Query: 209 NDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRG---FGFVNFVNKED 265
N++ + V NL D R D+ ++F +GA+ +D K RG F FV F + D
Sbjct: 20 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIR----DIDLKN--RRGGPPFAFVEFEDPRD 73
Query: 266 AQRAINKLNGYGYDNLILRVEWATPRT 292
A+ A+ +GY YD LRVE+ PR+
Sbjct: 74 AEDAVYGRDGYDYDGYRLRVEF--PRS 98
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 44.3 bits (103), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 34/61 (55%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ V L+E+ + L F PFG ++ + + +D +T RGF FV F EDA AI+ +
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 274 N 274
N
Sbjct: 126 N 126
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
+ L+ +T E L +F G +S V + D +T SRGF F+ F N DA+ A +NG
Sbjct: 12 IGGLNRETNEKMLKAVFGKHGPISEVLLIKD-RTSKSRGFAFITFENPADAKNAAKDMNG 70
Query: 276 YGYDNLILRVEWA 288
++VE A
Sbjct: 71 KSLHGKAIKVEQA 83
>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 = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
++ + NL + L + F FG + V D+ S+G+GFV+F +E A+RAI K
Sbjct: 7 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEK 64
Query: 273 LNG 275
+NG
Sbjct: 65 MNG 67
>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 = 43.5 bits (101), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/59 (37%), Positives = 33/59 (55%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLN 274
V L+E+ + L F PFG ++ + + +D +T RGF FV F EDA AI+ +N
Sbjct: 7 VGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN 65
>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 = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 22/59 (37%), Positives = 33/59 (55%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLN 274
V L+E+ + L F PFG ++ + + +D +T RGF FV F EDA AI+ +N
Sbjct: 12 VGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN 70
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 36/60 (60%), Gaps = 2/60 (3%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V NL + + L + F PFG ++ V ++ G S+GFGFV F + E+A +A+ ++NG
Sbjct: 20 VKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEMNG 77
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 22/59 (37%), Positives = 33/59 (55%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLN 274
V L+E+ + L F PFG ++ + + +D +T RGF FV F EDA AI+ +N
Sbjct: 10 VGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN 68
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 207 RRNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDA 266
R++ ++ + NL + L + F FG + V D+ S+G+GFV+F +E A
Sbjct: 7 RKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAA 64
Query: 267 QRAINKLNG 275
+RAI K+NG
Sbjct: 65 ERAIEKMNG 73
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V L++ E D+L LF+PFG + V + G S+G FV F + +AQ AI+ L+G
Sbjct: 20 VGMLNKQQSEEDVLRLFQPFGVIDECTV-LRGPDGSSKGCAFVKFSSHTEAQAAIHALHG 78
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 41/82 (50%), Gaps = 5/82 (6%)
Query: 212 NSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
N + V + + E +L E F+ FG V+ V + D + RGFGF+ F ED Q
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITF---EDEQSVDQ 67
Query: 272 KLNGYGYDNLILRVEW--ATPR 291
+N + +D + +VE A PR
Sbjct: 68 AVNMHFHDIMGKKVEVKRAEPR 89
>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 = 42.4 bits (98), Expect = 3e-04, Method: Composition-based stats.
Identities = 26/64 (40%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN---- 271
+ LS DT + DL + F FG V + +D TG SRGFGFV F E + ++
Sbjct: 4 IGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEH 63
Query: 272 KLNG 275
KLNG
Sbjct: 64 KLNG 67
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 40/67 (59%), Gaps = 2/67 (2%)
Query: 212 NSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI- 270
N+V V + E ++ F +G+V V + D +TG+S+G+GFV+F N D Q+ +
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVE 68
Query: 271 NKLNGYG 277
+++N +G
Sbjct: 69 SQINFHG 75
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 208 RNDENSVR--VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKED 265
+N+E++ + V LS DT + DL + F FG V + D TG SRGFGF+ F +
Sbjct: 6 KNEEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAAS 65
Query: 266 AQRAINK 272
++ +++
Sbjct: 66 VEKVLDQ 72
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 37/75 (49%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ + NLS E DL+ LF F + TG RG F+ F NKE A +A++ +
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLV 87
Query: 274 NGYGYDNLILRVEWA 288
NGY IL +E+
Sbjct: 88 NGYKLYGKILVIEFG 102
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 42.0 bits (97), Expect = 4e-04, Method: Composition-based stats.
Identities = 24/70 (34%), Positives = 39/70 (55%), Gaps = 3/70 (4%)
Query: 211 ENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQ--- 267
+++V V+NL DL +F +G V +V + D+ T S+G F+ F++K+ AQ
Sbjct: 16 KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCT 75
Query: 268 RAINKLNGYG 277
RAIN +G
Sbjct: 76 RAINNKQLFG 85
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQ-KTGI--SRGFGFVNFVNKEDAQRAINK 272
+ NL+ T E L +F GA+ ++ + K G+ S GFGFV + E AQ+A+ +
Sbjct: 10 IKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQ 69
Query: 273 LNGYGYDNLILRV 285
L G+ D L V
Sbjct: 70 LQGHTVDGHKLEV 82
>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 = 41.6 bits (96), Expect = 6e-04, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 40/67 (59%), Gaps = 2/67 (2%)
Query: 212 NSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI- 270
N+V V + E ++ F +G+V V + D +TG+S+G+GFV+F N D Q+ +
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVE 68
Query: 271 NKLNGYG 277
+++N +G
Sbjct: 69 SQINFHG 75
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 41.2 bits (95), Expect = 6e-04, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 40/67 (59%), Gaps = 2/67 (2%)
Query: 212 NSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI- 270
N+V V + E ++ F +G+V V + D +TG+S+G+GFV+F N D Q+ +
Sbjct: 11 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVE 69
Query: 271 NKLNGYG 277
+++N +G
Sbjct: 70 SQINFHG 76
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 38/83 (45%), Gaps = 1/83 (1%)
Query: 193 GMRAGAERTGTDMRRRNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGIS 252
G++A + ++ D ++ ++NL E +L + +PFG V + D +G S
Sbjct: 7 GLKASGVQAQMAKQQEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTS 65
Query: 253 RGFGFVNFVNKEDAQRAINKLNG 275
RG GF + E + I NG
Sbjct: 66 RGVGFARMESTEKCEAVIGHFNG 88
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 41.2 bits (95), Expect = 7e-04, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 34/62 (54%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
+ L T + DL++L +P+G + +D+ T +G+GFV+F + AQ+A+ L
Sbjct: 10 IRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKA 69
Query: 276 YG 277
G
Sbjct: 70 SG 71
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 211 ENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI 270
E S+ V +L+ D + L E F R V +TG+S+G+GFV F ++ + +RA+
Sbjct: 9 EYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRAL 68
Query: 271 NKLNG-YGYDNLILRVEWATPRTN 293
+ G G + +R+ A P+ +
Sbjct: 69 TECQGAVGLGSKPVRLSVAIPKAS 92
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ V L T + L + F FG + V D++TG SRG+GFV ++ A+RA
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP 79
Query: 274 N 274
N
Sbjct: 80 N 80
>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 = 41.2 bits (95), Expect = 8e-04, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 40/76 (52%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
V + ++ D E +L+L G V + + D +TG S+G+ F+ F + E + A+ L
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 274 NGYGYDNLILRVEWAT 289
NGY + L+ +++
Sbjct: 66 NGYQLGSRFLKCGYSS 81
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 40.8 bits (94), Expect = 8e-04, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 40/76 (52%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
V + ++ D E +L+L G V + + D +TG S+G+ F+ F + E + A+ L
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 274 NGYGYDNLILRVEWAT 289
NGY + L+ +++
Sbjct: 65 NGYQLGSRFLKCGYSS 80
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 6/83 (7%)
Query: 210 DENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQ-KTGISRGFGFVNFVNKEDAQR 268
+ ++ ++NLS E L E+F ++ V Q + G S+G+ F+ F + EDA+
Sbjct: 14 ESKTLVLSNLSYSATEETLQEVFE-----KATFIKVPQNQNGKSKGYAFIEFASFEDAKE 68
Query: 269 AINKLNGYGYDNLILRVEWATPR 291
A+N N + +R+E PR
Sbjct: 69 ALNSCNKREIEGRAIRLELQGPR 91
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 41/91 (45%), Gaps = 12/91 (13%)
Query: 202 GTDMRRRND----ENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGF 257
G+ M R + + V D +E +L E+F PFG + V I GF F
Sbjct: 18 GSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEV--------KILNGFAF 69
Query: 258 VNFVNKEDAQRAINKLNGYGYDNLILRVEWA 288
V F E A +AI +++G + N L V ++
Sbjct: 70 VEFEEAESAAKAIEEVHGKSFANQPLEVVYS 100
>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 = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 40/76 (52%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
V + ++ D E +L+L G V + + D +TG S+G+ F+ F + E + A+ L
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 274 NGYGYDNLILRVEWAT 289
NGY + L+ +++
Sbjct: 67 NGYQLGSRFLKCGYSS 82
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 39/79 (49%), Gaps = 1/79 (1%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
++ V NL + ELF FG V V + D++T +GFGFV + +E AI K
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVE-MQEESVSEAIAK 61
Query: 273 LNGYGYDNLILRVEWATPR 291
L+ + +RV A P+
Sbjct: 62 LDNTDFMGRTIRVTEANPK 80
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 6/85 (7%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
+V + NLS D+ E L E+ + FG + V V + T S+G F F+ +E AQ+ +
Sbjct: 17 TVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAA 76
Query: 273 LN------GYGYDNLILRVEWATPR 291
+ G D L+V+ A R
Sbjct: 77 ASLEAEGGGLKLDGRQLKVDLAVTR 101
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 21/57 (36%), Positives = 30/57 (52%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
V LS DT E + E F FG V + + +D KT RGF F+ F +E ++ + K
Sbjct: 4 VGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI--- 270
+ V + EDT E L + F +G + + + D+ +G RGF FV F + + + +
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 167
Query: 271 -NKLNGY 276
+ +NG+
Sbjct: 168 YHTVNGH 174
Score = 34.7 bits (78), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
+ LS +T + L F +G ++ V D T SRGFGFV + E+ A+N
Sbjct: 19 IGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 74
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI--- 270
+ V + EDT E L + F +G + + + D+ +G RGF FV F + + + +
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 166
Query: 271 -NKLNGY 276
+ +NG+
Sbjct: 167 YHTVNGH 173
Score = 35.0 bits (79), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
+ LS +T + L F +G ++ V D T SRGFGFV + E+ A+N
Sbjct: 18 IGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI--- 270
+ V + EDT E L + F +G + + + D+ +G RGF FV F + + + +
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 165
Query: 271 -NKLNGY 276
+ +NG+
Sbjct: 166 YHTVNGH 172
Score = 34.7 bits (78), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
+ LS +T + L F +G ++ V D T SRGFGFV + E+ A+N
Sbjct: 17 IGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 72
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 21/57 (36%), Positives = 30/57 (52%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
V LS DT E + E F FG V + + +D KT RGF F+ F +E ++ + K
Sbjct: 6 VGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 38/74 (51%)
Query: 201 TGTDMRRRNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNF 260
+G+ + +D + + + + E DL LF FG + + V D+ TG+ +G F+ +
Sbjct: 3 SGSSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTY 62
Query: 261 VNKEDAQRAINKLN 274
+E A +A + L+
Sbjct: 63 CERESALKAQSALH 76
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI--- 270
+ V + EDT E L + F +G + + + D+ +G RGF FV F + + + +
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 166
Query: 271 -NKLNGY 276
+ +NG+
Sbjct: 167 YHTVNGH 173
Score = 34.7 bits (78), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
+ LS +T + L F +G ++ V D T SRGFGFV + E+ A+N
Sbjct: 18 IGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI--- 270
+ V + EDT E L + F +G + + + D+ +G RGF FV F + + + +
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 164
Query: 271 -NKLNGY 276
+ +NG+
Sbjct: 165 YHTVNGH 171
Score = 34.7 bits (78), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
+ LS +T + L F +G ++ V D T SRGFGFV + E+ A+N
Sbjct: 16 IGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 71
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI--- 270
+ V + EDT E L + F +G + + + D+ +G RGF FV F + + + +
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 159
Query: 271 -NKLNGY 276
+ +NG+
Sbjct: 160 YHTVNGH 166
Score = 34.7 bits (78), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
+ LS +T + L F +G ++ V D T SRGFGFV + E+ A+N
Sbjct: 11 IGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 25/65 (38%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 211 ENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI 270
+ +V V NL RE L ELF G +++V + D++ G + FGFV F + E AI
Sbjct: 16 DRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESVSYAI 74
Query: 271 NKLNG 275
LNG
Sbjct: 75 ALLNG 79
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V+NL + D+ ELF FG + + V D ++G S G V+F K DA +A+ + NG
Sbjct: 33 VSNLDFGVSDADIQELFAEFGTLKKAAVHYD-RSGRSLGTADVHFERKADALKAMKQYNG 91
Query: 276 YGYDNLILRVEWAT 289
D + ++ T
Sbjct: 92 VPLDGRPMNIQLVT 105
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 8/67 (11%)
Query: 222 DTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNGYGYDNL 281
D +E +L E+F PFG + V I GF FV F E A +AI +++G + N
Sbjct: 15 DVQESELNEIFGPFGPMKEV--------KILNGFAFVEFEEAESAAKAIEEVHGKSFANQ 66
Query: 282 ILRVEWA 288
L V ++
Sbjct: 67 PLEVVYS 73
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 37/74 (50%), Gaps = 6/74 (8%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V NL D E D LF +G S V++ D RGFGF+ ++ A+ A +L+G
Sbjct: 27 VGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRLESRTLAEIAKAELDG 80
Query: 276 YGYDNLILRVEWAT 289
+ LR+ +AT
Sbjct: 81 TILKSRPLRIRFAT 94
Score = 32.3 bits (72), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 8/84 (9%)
Query: 196 AGAERTGTDMRRR-------NDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQK 248
A AE GT ++ R ++ V NLS L + F FG V + V VD +
Sbjct: 74 AKAELDGTILKSRPLRIRFATHGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDR 133
Query: 249 TGISRGFGFVNFVNKEDAQRAINK 272
G + G GFV F K A++A+ +
Sbjct: 134 -GRATGKGFVEFAAKPPARKALER 156
>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 = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 28/45 (62%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNF 260
+ L+ DT E +L E F +G V+ + + D TG SRGFGF++F
Sbjct: 8 IGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSF 52
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 1/78 (1%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ V + D R + E F +G + + +D+ TG SRGFGFV + + DA + +
Sbjct: 90 IFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTY-DSADAVDRVCQN 148
Query: 274 NGYGYDNLILRVEWATPR 291
+ + + ++ A PR
Sbjct: 149 KFIDFKDRKIEIKRAEPR 166
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 1/67 (1%)
Query: 208 RNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQ 267
R ++ + V L + + D+ ++F PFG + V + G S+G FV F +AQ
Sbjct: 9 RGEDRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTV-LRGPDGTSKGCAFVKFQTHAEAQ 67
Query: 268 RAINKLN 274
AIN L+
Sbjct: 68 AAINTLH 74
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 28/57 (49%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
+ LS T + L E F FG V V D T SRGFGFV F+++ + + +
Sbjct: 30 IGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 36.6 bits (83), Expect = 0.017, Method: Composition-based stats.
Identities = 22/78 (28%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 212 NSVRVTNLSEDTREPDLLELFRPFGAVSRV-YVAVDQKTGISRGFGFVNFVNKEDAQRAI 270
+ + + NL + E L + F FG + + + D TG S+G+ F+NF + + + AI
Sbjct: 6 SGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAI 65
Query: 271 NKLNGYGYDNLILRVEWA 288
+NG N + V +A
Sbjct: 66 EAMNGQYLCNRPITVSYA 83
>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 = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V+NL + D+ ELF FG + + V D ++G S G V+F K DA +A + NG
Sbjct: 34 VSNLDFGVSDADIQELFAEFGTLKKAAVHYD-RSGRSLGTADVHFERKADALKAXKQYNG 92
Query: 276 YGYD 279
D
Sbjct: 93 VPLD 96
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 36.2 bits (82), Expect = 0.022, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 27/55 (49%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI 270
+ LS T + L E F FG V V D T SRGFGFV F+++ + +
Sbjct: 5 IGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL 59
>pdb|2CPI|A Chain A, Solution Structure Of The Rna Recognition Motif Of Cnot4
Length = 111
Score = 36.2 bits (82), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 41/91 (45%), Gaps = 6/91 (6%)
Query: 207 RRNDENSVRVTNLSEDTREPDLL---ELFRPFGAVSRVYVAVDQKTGISRG---FGFVNF 260
R +N V V LS+ +P++L E F FG + +V + S+G +V +
Sbjct: 11 RVVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTY 70
Query: 261 VNKEDAQRAINKLNGYGYDNLILRVEWATPR 291
+ EDA RAI +N D L+ T +
Sbjct: 71 IRSEDALRAIQCVNNVVVDGRTLKASLGTTK 101
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 36.2 bits (82), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 34/68 (50%)
Query: 207 RRNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDA 266
+ +D + V + E DL LF FG + + V D+ TG+ +G F+ + ++ A
Sbjct: 11 KDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSA 70
Query: 267 QRAINKLN 274
+A + L+
Sbjct: 71 LKAQSALH 78
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 1/78 (1%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V+NL + D+ ELF FG + + V D ++G S G V+F + DA +A+ + G
Sbjct: 93 VSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADALKAMKQYKG 151
Query: 276 YGYDNLILRVEWATPRTN 293
D + ++ + +
Sbjct: 152 VPLDGRPMDIQLVASQID 169
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 38/79 (48%), Gaps = 1/79 (1%)
Query: 197 GAERTGTDMRRRNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFG 256
G+ + +R+ + V L++ E D+ LF FG + + + G S+G
Sbjct: 1 GSSGSSGCLRQPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTI-LRGPDGNSKGCA 59
Query: 257 FVNFVNKEDAQRAINKLNG 275
FV + + +AQ AIN L+G
Sbjct: 60 FVKYSSHAEAQAAINALHG 78
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 35.0 bits (79), Expect = 0.046, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 27/53 (50%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQR 268
V LS +T D+ F FG V + D+ T RGFGFV F +++ ++
Sbjct: 4 VGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEK 56
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 35.0 bits (79), Expect = 0.051, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 30/60 (50%)
Query: 230 ELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNGYGYDNLILRVEWAT 289
EL FG + + D TG+S+G+ F +V+ +AI LNG + L V+ A+
Sbjct: 20 ELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS 79
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 34.7 bits (78), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 1/78 (1%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V+NL + D+ ELF FG + + V D ++G S G V+F + DA +A+ + G
Sbjct: 40 VSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADALKAMKQYKG 98
Query: 276 YGYDNLILRVEWATPRTN 293
D + ++ + +
Sbjct: 99 VPLDGRPMDIQLVASQID 116
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 34.7 bits (78), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 1/78 (1%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V+NL + D+ ELF FG + + V D ++G S G V+F + DA +A+ + G
Sbjct: 40 VSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADALKAMKQYKG 98
Query: 276 YGYDNLILRVEWATPRTN 293
D + ++ + +
Sbjct: 99 VPLDGRPMDIQLVASQID 116
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 34.7 bits (78), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 6/61 (9%)
Query: 228 LLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNGYGYDNLILRVEW 287
+ + F PFG + + V + +G+ FV F E A AI +NG + +++ W
Sbjct: 42 MRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYW 95
Query: 288 A 288
Sbjct: 96 G 96
>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 = 34.7 bits (78), Expect = 0.068, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 32/61 (52%)
Query: 210 DENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRA 269
D S+ V N+ +L F G+V+RV + D+ +G +GF ++ F +KE + +
Sbjct: 4 DARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTS 63
Query: 270 I 270
+
Sbjct: 64 L 64
>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 = 34.3 bits (77), Expect = 0.083, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 32/61 (52%)
Query: 210 DENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRA 269
D S+ V N+ +L F G+V+RV + D+ +G +GF ++ F +KE + +
Sbjct: 5 DARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTS 64
Query: 270 I 270
+
Sbjct: 65 L 65
>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 = 34.3 bits (77), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 30/60 (50%)
Query: 230 ELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNGYGYDNLILRVEWAT 289
EL FG + + D TG+S+G+ F +V+ +AI LNG + L V+ A+
Sbjct: 133 ELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS 192
>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 = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 30/60 (50%)
Query: 230 ELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNGYGYDNLILRVEWAT 289
EL FG + + D TG+S+G+ F +V+ +AI LNG + L V+ A+
Sbjct: 115 ELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS 174
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 253 RGFGFVNFVNKEDAQRAINKLNGYGYDNLILRVEWATP 290
R + FV+F N+EDA A+ LNG D + V A P
Sbjct: 51 RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKP 88
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 30/60 (50%)
Query: 230 ELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNGYGYDNLILRVEWAT 289
EL FG + + D TG+S+G+ F +V+ +AI LNG + L V+ A+
Sbjct: 113 ELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS 172
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 225 EPDLLELFRPFGAVSRVYVAVD--QKTGISRGFGFVNFVNKEDAQRAINKLN 274
E DL ELF +GAV + V D Q S+G FV F ++ A A N L+
Sbjct: 29 EKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALH 80
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 225 EPDLLELFRPFGAVSRVYVAVD--QKTGISRGFGFVNFVNKEDAQRAINKLN 274
E DL ELF +GAV + V D Q S+G FV F ++ A A N L+
Sbjct: 17 EKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALH 68
>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 = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 225 EPDLLELFRPFGAVSRVYVAVD--QKTGISRGFGFVNFVNKEDAQRAINKLN 274
E DL ELF +GAV + V D Q S+G FV F ++ A A N L+
Sbjct: 17 EKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALH 68
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 212 NSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAIN 271
++V V NL L E+F G V R + ++ K G SRG G V F +A +AI+
Sbjct: 16 STVFVANLDYKVGWKKLKEVFSMAGVVVRADI-LEDKDGKSRGIGTVTFEQSIEAVQAIS 74
Query: 272 KLNG 275
NG
Sbjct: 75 MFNG 78
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 2/76 (2%)
Query: 194 MRAGAERTGTDMRRRNDENSVRVTNLSEDTREPDLLELFRPFGAVSR--VYVAVDQKTGI 251
+ + A G++ N +++ + NL+ + +L P+ +S V V D++T +
Sbjct: 6 LASQALSQGSEPSSENANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQL 65
Query: 252 SRGFGFVNFVNKEDAQ 267
+RGF F+ E AQ
Sbjct: 66 NRGFAFIQLSTIEAAQ 81
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 32.3 bits (72), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 2/77 (2%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
++ V NLS D E +L+LF G + + + + + FV F DA A+
Sbjct: 17 TLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTS--NDPYCFVEFYEHRDAAAALAA 74
Query: 273 LNGYGYDNLILRVEWAT 289
+NG ++V WAT
Sbjct: 75 MNGRKILGKEVKVNWAT 91
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 2/86 (2%)
Query: 187 GTYVPPGMRAGAERTGTDMRRRNDEN--SVRVTNLSEDTREPDLLELFRPFGAVSRVYVA 244
G+ GM E + ++R E + + LS +T E L + +G ++ V
Sbjct: 1 GSSGSSGMEKTLETVPLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVM 60
Query: 245 VDQKTGISRGFGFVNFVNKEDAQRAI 270
D + SRGFGFV F + + A+
Sbjct: 61 RDPASKRSRGFGFVTFSSMAEVDAAM 86
>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 = 32.0 bits (71), Expect = 0.47, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 26/52 (50%)
Query: 228 LLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNGYGYD 279
L LF G V + +D+ TG ++GF FV + DA++ I +G D
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLD 80
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 31.6 bits (70), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 6/79 (7%)
Query: 213 SVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINK 272
+ + N+ E DL+ LF+ FG + +D K +G F+ + E A I
Sbjct: 29 TAYIGNIPHFATEADLIPLFQNFGFI------LDFKHYPEKGCCFIKYDTHEQAAVCIVA 82
Query: 273 LNGYGYDNLILRVEWATPR 291
L + + LR W R
Sbjct: 83 LANFPFQGRNLRTGWGKER 101
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 31.6 bits (70), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 21/45 (46%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNF 260
V L T + L F +G V + D+ T SRGFGFV F
Sbjct: 21 VGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF 65
>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 = 31.6 bits (70), Expect = 0.54, Method: Composition-based stats.
Identities = 21/52 (40%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 225 EPDLLELFRPFGAVSRVYVAVD--QKTGISRGFGFVNFVNKEDAQRAINKLN 274
E DL ELF +GAV + V D Q S+G FV F ++ A A N L+
Sbjct: 17 EKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALH 68
>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 = 31.6 bits (70), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 228 LLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
L LF G V + +D+ TG ++GF FV + DA++ I +G
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHG 76
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 31.2 bits (69), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 225 EPDLLELF--RPFGAVSRVYVAV----DQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
EP + E F R F + ++V ++ TGI G+ FV F + A++ ++K+NG
Sbjct: 18 EPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKING 74
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 31.2 bits (69), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
V V NL + + +L F +G + V+VA + GF FV F + DA A+ +L
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPP-----GFAFVEFEDPRDAADAVREL 130
Query: 274 NGYGYDNLILRVE 286
+G +RVE
Sbjct: 131 DGRTLCGCRVRVE 143
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 25/39 (64%), Gaps = 5/39 (12%)
Query: 237 AVSRVYV-----AVDQKTGISRGFGFVNFVNKEDAQRAI 270
A+S ++ VD +TG +R FG+V+F + ED ++A+
Sbjct: 37 AISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL 75
>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 = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 25/39 (64%), Gaps = 5/39 (12%)
Query: 237 AVSRVYV-----AVDQKTGISRGFGFVNFVNKEDAQRAI 270
A+S ++ VD +TG +R FG+V+F + ED ++A+
Sbjct: 33 AISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL 71
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 30.8 bits (68), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 5/76 (6%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
V V NL + +L F +G + V++A + GF FV F + DA+ A+ L
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPP-----GFAFVEFEDPRDAEDAVRGL 57
Query: 274 NGYGYDNLILRVEWAT 289
+G +RVE +T
Sbjct: 58 DGKVICGSRVRVELST 73
>pdb|2KH9|A Chain A, Solution Structure Of Yeast Prp24-Rrm2 Bound To A Fragment
Of U6 Rna
Length = 92
Score = 30.8 bits (68), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 37/80 (46%)
Query: 211 ENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI 270
E ++ +TN + ++ +L + V+ + SR F +++ +KEDA+ +
Sbjct: 3 ECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCV 62
Query: 271 NKLNGYGYDNLILRVEWATP 290
KLNG + L + + P
Sbjct: 63 EKLNGLKIEGYTLVTKVSNP 82
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
V V NL + + +L F +G + V+VA + GF FV F + DA A+ L
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPP-----GFAFVEFEDPRDAADAVRDL 130
Query: 274 NGYGYDNLILRVE 286
+G +RVE
Sbjct: 131 DGRTLCGCRVRVE 143
>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 = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 252 SRGFGFVNFVNKEDAQRAINKLNGYGYDNLILRVEWATP 290
SR F +++ +KEDA+ + KLNG + L + + P
Sbjct: 158 SRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP 196
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ V NL D L + F G V +Y + + G S+G G V F + E A+RA +
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHV--LYADIKMENGKSKGCGVVKFESPEVAERACRMM 65
Query: 274 NG 275
NG
Sbjct: 66 NG 67
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 20/26 (76%)
Query: 245 VDQKTGISRGFGFVNFVNKEDAQRAI 270
VD + G++R FG+V+F + ED ++A+
Sbjct: 40 VDVRIGMTRKFGYVDFESAEDLEKAL 65
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 33/78 (42%), Gaps = 5/78 (6%)
Query: 202 GTDMRRRNDENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFV 261
G D ++ D ++ NL + +L E+F + V K G S+G ++ F
Sbjct: 84 GKDSKKERDARTLLAKNLPYKVTQDELKEVFEDAAEIRLV-----SKDGKSKGIAYIEFK 138
Query: 262 NKEDAQRAINKLNGYGYD 279
+ DA++ + G D
Sbjct: 139 TEADAEKTFEEKQGTEID 156
>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
Length = 161
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 37/80 (46%)
Query: 211 ENSVRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAI 270
E ++ +TN + ++ +L + V+ + SR F +++ +KEDA+ +
Sbjct: 80 ECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCV 139
Query: 271 NKLNGYGYDNLILRVEWATP 290
KLNG + L + + P
Sbjct: 140 EKLNGLKIEGYTLVTKVSNP 159
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 30.0 bits (66), Expect = 1.6, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 212 NSVRVTNLSEDTREPDLLELFRPFGAVSR-VYVAVDQKTGISRGFGFVNFVNKEDAQR 268
N V + L + E D+ + G +R V + ++ +G SRGF FV F + +DA R
Sbjct: 2 NIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATR 59
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/96 (21%), Positives = 45/96 (46%), Gaps = 8/96 (8%)
Query: 206 RRRNDENSVRVTNLSEDTREPDLLELFRPFGAVS--------RVYVAVDQKTGISRGFGF 257
+ +D N++ V L E+ + + F+ G + + + D++TG +G
Sbjct: 2 QDNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEAT 61
Query: 258 VNFVNKEDAQRAINKLNGYGYDNLILRVEWATPRTN 293
V+F + A+ AI+ +G + ++V +AT R +
Sbjct: 62 VSFDDPPSAKAAIDWFDGKEFSGNPIKVSFATRRAD 97
>pdb|3CGG|A Chain A, Crystal Structure Of Tehb-Like Sam-Dependent
Methyltransferase (Np_600671.1) From Corynebacterium
Glutamicum Atcc 13032 Kitasato At 2.00 A Resolution
pdb|3CGG|B Chain B, Crystal Structure Of Tehb-Like Sam-Dependent
Methyltransferase (Np_600671.1) From Corynebacterium
Glutamicum Atcc 13032 Kitasato At 2.00 A Resolution
Length = 195
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 219 LSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFV 261
L+ED REP L + R GA R + G RG+ F +F+
Sbjct: 121 LAEDGREPALANIHRALGADGRAVIGF----GAGRGWVFGDFL 159
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 28.5 bits (62), Expect = 4.4, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V NL D L + F G V +Y + + G S+G G V F + E A+RA +NG
Sbjct: 13 VRNLPFDFTWKMLKDKFNECGHV--LYADIKMENGKSKGCGVVKFESPEVAERACRMMNG 70
>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 = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 41/88 (46%), Gaps = 8/88 (9%)
Query: 210 DENSVRVTNLSEDTREPDLLELFRPFGAVS--------RVYVAVDQKTGISRGFGFVNFV 261
D N++ V L E+ + + F+ G + + + D++TG +G V+F
Sbjct: 12 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFD 71
Query: 262 NKEDAQRAINKLNGYGYDNLILRVEWAT 289
+ A+ AI+ +G + ++V +AT
Sbjct: 72 DPPSAKAAIDWFDGKEFSGNPIKVSFAT 99
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 37/74 (50%), Gaps = 3/74 (4%)
Query: 214 VRVTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKL 273
+ + NL ++ ++F +G + ++ V T +RG +V + + DA+ A++ L
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNAVDHL 67
Query: 274 NGYGYDNLILRVEW 287
+G+ N L V +
Sbjct: 68 SGFNVSNRYLVVLY 81
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 27.7 bits (60), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 8/60 (13%)
Query: 216 VTNLSEDTREPDLLELFRPFGAVSRVYVAVDQKTGISRGFGFVNFVNKEDAQRAINKLNG 275
V NL+ E L + F FG + RV D + FV+F ++ A +A++++NG
Sbjct: 20 VRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVHFEDRGAAVKAMDEMNG 71
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 0.134 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,228,409
Number of Sequences: 62578
Number of extensions: 305910
Number of successful extensions: 807
Number of sequences better than 100.0: 151
Number of HSP's better than 100.0 without gapping: 119
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 650
Number of HSP's gapped (non-prelim): 178
length of query: 293
length of database: 14,973,337
effective HSP length: 98
effective length of query: 195
effective length of database: 8,840,693
effective search space: 1723935135
effective search space used: 1723935135
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)