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= 036035
(190 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 60.1 bits (144), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 28/65 (43%), Positives = 42/65 (64%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
LR FE+YG V DVY+P++ YT E RGF FV+F DA +A ++ +++ GRE+++
Sbjct: 87 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQM 146
Query: 62 AEENR 66
A R
Sbjct: 147 ARYGR 151
>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 = 59.7 bits (143), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 28/65 (43%), Positives = 42/65 (64%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
LR FE+YG V DVY+P++ YT E RGF FV+F DA +A ++ +++ GRE+++
Sbjct: 64 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQM 123
Query: 62 AEENR 66
A R
Sbjct: 124 ARYGR 128
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 56.2 bits (134), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 42/67 (62%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
LR FE+YG V DVY+P+ +T PRGF FV+F DA +A+ ++ + + GRE+++
Sbjct: 29 SLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQ 88
Query: 61 FAEENRK 67
A R+
Sbjct: 89 VARYGRR 95
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 37/61 (60%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
L AF +G + D+ +P +Y T + RGF FV+F AEDAA A +N S + GR I++
Sbjct: 80 LHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL 139
Query: 62 A 62
A
Sbjct: 140 A 140
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 27/65 (41%), Positives = 39/65 (60%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
L AF +G + D+ +P +Y T + RGF FV+F AEDAA A +N S + GR I++
Sbjct: 29 LHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL 88
Query: 62 AEENR 66
A+ R
Sbjct: 89 AKPMR 93
>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 = 53.1 bits (126), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 38/62 (61%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
L AF +G + D+ +P +Y T + RGF FV+F AEDAA A +N S + GR I++
Sbjct: 24 LHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL 83
Query: 62 AE 63
A+
Sbjct: 84 AK 85
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 53.1 bits (126), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 38/62 (61%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
L AF +G + D+ +P +Y T + RGF FV+F AEDAA A +N S + GR I++
Sbjct: 22 LHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL 81
Query: 62 AE 63
A+
Sbjct: 82 AK 83
>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 = 53.1 bits (126), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 37/61 (60%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
L AF +G + D+ +P +Y T + RGF FV+F AEDAA A +N S + GR I++
Sbjct: 19 LHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL 78
Query: 62 A 62
A
Sbjct: 79 A 79
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 38/66 (57%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
+LR F +YGP+ DV + + + RGF FV F +DA EAK+R N + GR I++
Sbjct: 31 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 90
Query: 61 FAEENR 66
F+ R
Sbjct: 91 FSITKR 96
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 50.8 bits (120), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 38/66 (57%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
+LR F +YGP+ DV + + + RGF FV F +DA EAK+R N + GR I++
Sbjct: 28 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 87
Query: 61 FAEENR 66
F+ R
Sbjct: 88 FSITKR 93
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 50.8 bits (120), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 38/66 (57%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
+LR F +YGP+ DV + + + RGF FV F +DA EAK+R N + GR I++
Sbjct: 62 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 121
Query: 61 FAEENR 66
F+ R
Sbjct: 122 FSITKR 127
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 35/59 (59%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+LR F +YGP+ DV + + + RGF FV F +DA EAK+R N + GR I++
Sbjct: 31 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV 89
>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 = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
+++ AF +G + D + K+ TG+ +G+GFV F DA A Q++ +GGR+I+
Sbjct: 31 DIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTN 90
Query: 61 FAEENRKTPQEMRT 74
+A RK P T
Sbjct: 91 WA--TRKPPAPKST 102
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 38/69 (55%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
+LR FERYGP++ V + + T + RG+GFVKF+ A +A LN I + +K+
Sbjct: 58 QLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVA 117
Query: 61 FAEENRKTP 69
A + P
Sbjct: 118 LAASGHQRP 126
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 38/71 (53%), Gaps = 3/71 (4%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
L F +YG + +V + K+ T RGFGFV F +DA +A +N + GR+I++
Sbjct: 29 LEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQ 88
Query: 62 A---EENRKTP 69
A +NR P
Sbjct: 89 AGKSSDNRSGP 99
>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 = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 36/58 (62%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+R AF +GP+K + + + T + +GF FV++ E A A +++N ++GGR IK+
Sbjct: 30 IRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 87
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 37/59 (62%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+++ FE +G +K L ++ TG+ +G+GF+++ A+ + +A +N +GG+ +++
Sbjct: 126 DIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRV 184
>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 = 47.0 bits (110), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 36/58 (62%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+R AF +GP+K + + + T + +GF FV++ E A A +++N ++GGR IK+
Sbjct: 45 IRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 102
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 37/59 (62%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+++ FE +G +K L ++ TG+ +G+GF+++ A+ + +A +N +GG+ +++
Sbjct: 141 DIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRV 199
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
+++ AF +G + D + K+ TG+ +G+GFV F DA A + +GGR+I+
Sbjct: 31 DIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHMGGQWLGGRQIRTN 90
Query: 61 FAEENRKTP 69
+A RK P
Sbjct: 91 WA--TRKPP 97
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 34/60 (56%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
+L F YGP+ +++ P + T +P+GF FV F + E A +A ++ + GR + ++
Sbjct: 24 DLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVL 83
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 37/66 (56%), Gaps = 2/66 (3%)
Query: 1 ELRVAFERYGPVKDVYLPKNYY-TGEPRGFGFVKFRYAEDAAEAKQRLNHSL-IGGREIK 58
E+R F +G +K V LPK TG RGFGFV F +DA +A L HS + GR +
Sbjct: 31 EIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLV 90
Query: 59 IVFAEE 64
+ +A+
Sbjct: 91 LEWADS 96
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
L+ F ++GP+ +V L K+ T + RGF F+ F DA A + +N + G+ IK+
Sbjct: 24 LKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKV 80
>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 = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 33/58 (56%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+R AF +GP+K + + T + +GF FV++ E A A ++ N +GGR IK+
Sbjct: 29 IRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQXNSVXLGGRNIKV 86
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 36/59 (61%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+++ FE +G +K L ++ TG+ +G+GF+++ A+ + +A N +GG+ +++
Sbjct: 125 DIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRV 183
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 38/62 (61%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65
F + GPV + ++PK+ TG+ +G+GFV+F EDA A + ++ + G+ I++ A +
Sbjct: 36 FLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASAH 95
Query: 66 RK 67
K
Sbjct: 96 NK 97
>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 = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 32/54 (59%)
Query: 9 YGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62
+G + D + K+ TG+ +G+GFV F DA A Q++ +GGR+I+ +A
Sbjct: 30 FGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA 83
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 36/63 (57%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
LR FE +G + ++ L K+ TG +G+GF+ F +E A A ++LN + GR +++
Sbjct: 22 LRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGH 81
Query: 62 AEE 64
E
Sbjct: 82 VTE 84
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 35/59 (59%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+LR FE YGP+K +++ + +G+PRG+ F+++ + D A + + I GR + +
Sbjct: 118 KLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLV 176
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 35/58 (60%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
LR FE +G ++ + L + TG +G+GF+ F +E A +A ++LN + GR +K+
Sbjct: 43 LRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKV 100
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 35/59 (59%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+LR FE YGP+K +++ + +G+PRG+ F+++ + D A + + I GR + +
Sbjct: 118 KLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLV 176
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 5/59 (8%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
EL AF YGP++ V++ +N P GF FV+F DAA+A + L+ + G +++
Sbjct: 89 ELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRV 142
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI- 59
+L+ F GPV L + TG+P+G+GF +++ E A A + LN GR +++
Sbjct: 24 QLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVD 83
Query: 60 -VFAEENRKTPQEMRTSA 76
+E+N++ + + T A
Sbjct: 84 NAASEKNKEELKSLGTGA 101
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 5/59 (8%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
EL AF YGP++ V++ +N P GF FV+F DAA+A + L+ + G +++
Sbjct: 89 ELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRDLDGRTLCGCRVRV 142
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 26/43 (60%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEA 43
+L+ F +G + +YL K+ TG+ +GF F+ F EDAA A
Sbjct: 31 DLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARA 73
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor
9g8
Length = 101
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 5/59 (8%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
EL AF YGP++ V++ +N P GF FV+F DA +A + L+ +I G +++
Sbjct: 16 ELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRV 69
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 42/76 (55%), Gaps = 7/76 (9%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
+LR F ++G + DV + N +GFGFV F + DA A+++L+ +++ GR+I++
Sbjct: 31 DLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKLHGTVVEGRKIEV- 87
Query: 61 FAEENRKTPQEMRTSA 76
N T + M S
Sbjct: 88 ----NNATARVMTNSG 99
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 37/59 (62%), Gaps = 2/59 (3%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+LR F ++G + DV + N +GFGFV F + DA A+++L+ +++ GR+I++
Sbjct: 45 DLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKLHGTVVEGRKIEV 101
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The
Second Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLI--GGREIK 58
+L F +YG + + ++ TG PRG FV++ E+A EA LN+ + G + +
Sbjct: 29 QLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLS 88
Query: 59 IVFAEENRK 67
+ AEE+ K
Sbjct: 89 VRLAEEHGK 97
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLI--GGREIK 58
+L F +YG + + ++ TG PRG FV++ E+A EA LN+ + G + +
Sbjct: 116 QLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLS 175
Query: 59 IVFAEENRK 67
+ AEE+ K
Sbjct: 176 VRLAEEHGK 184
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
ELR F G V+ L ++ G G+GFV + A+DA A LN + + IK+
Sbjct: 18 ELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVS 77
Query: 61 FA 62
+A
Sbjct: 78 YA 79
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs
Of Human Antigen R
Length = 177
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
ELR F G V+ L ++ G G+GFV + A+DA A LN + + IK+
Sbjct: 18 ELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVS 77
Query: 61 FA 62
+A
Sbjct: 78 YA 79
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
ELR F G V+ L ++ G G+GFV + A+DA A LN + + IK+
Sbjct: 20 ELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVS 79
Query: 61 FA 62
+A
Sbjct: 80 YA 81
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
ELR F G V+ L ++ G G+GFV + A+DA A LN + + IK+
Sbjct: 35 ELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVS 94
Query: 61 FA 62
+A
Sbjct: 95 YA 96
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 26/52 (50%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53
LR F +YG V D + K+ T + RGFGFVKF+ H+L G
Sbjct: 33 LRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRPHTLDG 84
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 35/59 (59%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
E++ F YG +K+++L + TG +G+ V++ + A AK+ LN + I G+ I++
Sbjct: 88 EIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQV 146
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
EL F G V V + + ++G P+GF +++F E + L+ SL GR+IK++
Sbjct: 21 ELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKE-SVRTSLALDESLFRGRQIKVI 79
Query: 61 FAEENR 66
NR
Sbjct: 80 PKRTNR 85
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of
Hypothetical Polyadenylate-Binding Protein (Pabpn1)
From Homo Sapiens At 1.95 A Resolution
Length = 89
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
EL F G V V + + ++G P+GF +++F E + L+ SL GR+IK++
Sbjct: 22 ELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKE-SVRTSLALDESLFRGRQIKVI 80
Query: 61 FAEENR 66
NR
Sbjct: 81 PKRTNR 86
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 35/59 (59%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
E++ F YG +K+++L + TG +G+ V++ + A AK+ LN + I G+ I++
Sbjct: 42 EIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQV 100
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53
+L+ F ++G V D L + TG RGFGFV F+ +E + + H L G
Sbjct: 15 DLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNG 67
>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 = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 39/65 (60%), Gaps = 2/65 (3%)
Query: 1 ELRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSL-IGGREIK 58
++R + +G ++V L +N +G+ RGF FV+F + +DA + HSL I G+++
Sbjct: 17 DIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVS 76
Query: 59 IVFAE 63
+ +++
Sbjct: 77 MHYSD 81
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 8/68 (11%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
ELR FE YGPV + + K+Y FV AEDA EA + L+++ G+ + +
Sbjct: 26 ELRAKFEEYGPVIECDIVKDY--------AFVHMERAEDAVEAIRGLDNTEFQGKRMHVQ 77
Query: 61 FAEENRKT 68
+ +T
Sbjct: 78 LSTSRLRT 85
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 36/62 (58%), Gaps = 6/62 (9%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
E+R FE+YG +V++ K+ +GFGF++ A AK L++ + G+++++
Sbjct: 38 EMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVR 91
Query: 61 FA 62
FA
Sbjct: 92 FA 93
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSL 51
+L F +YG + + ++ TG PRG FV++ E+A EA LN+ +
Sbjct: 105 QLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVI 155
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 37/59 (62%), Gaps = 1/59 (1%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+++ F ++G V +V L + T +P+GFGFV+ + E +EA +L+++ GR I++
Sbjct: 17 QVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQ-EESVSEAIAKLDNTDFMGRTIRV 74
>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 = 35.8 bits (81), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
LR AF+ + ++ + TG RG+GFV F +DA A + + GR ++I +
Sbjct: 18 LRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINW 77
Query: 62 A 62
A
Sbjct: 78 A 78
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition
Motif Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition
Motif Of Nono
Length = 99
Score = 35.8 bits (81), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 36/62 (58%), Gaps = 6/62 (9%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
E+R FE+YG +V++ K+ +GFGF++ A AK L++ + G+++++
Sbjct: 31 EMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVR 84
Query: 61 FA 62
FA
Sbjct: 85 FA 86
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 35.8 bits (81), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 31/62 (50%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
E + F G ++ L ++ TG+ G+GFV + DA +A LN + + IK+
Sbjct: 20 EFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKVS 79
Query: 61 FA 62
+A
Sbjct: 80 YA 81
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 35.8 bits (81), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 6/76 (7%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
ELR F+++G V +V + + PRGFGF+ F + +A H ++G +
Sbjct: 26 ELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHDIMGKK----- 80
Query: 61 FAEENRKTPQEMRTSA 76
E R P++ ++S
Sbjct: 81 -VEVKRAEPRDSKSSG 95
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%)
Query: 23 TGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62
TG +GFGFV F EDA AK+ + I G ++ + +A
Sbjct: 50 TGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWA 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 = 35.0 bits (79), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 32/62 (51%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
E R F G ++ L ++ TG+ G+GFV + +DA +A LN + + IK+
Sbjct: 18 EFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVS 77
Query: 61 FA 62
+A
Sbjct: 78 YA 79
Score = 31.2 bits (69), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLN 48
EL F +YG + + + TG RG GF++F +A EA + LN
Sbjct: 104 ELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLN 151
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
LR AF+ + ++ + TG RG+GFV F +DA A + + GR ++I +
Sbjct: 104 LRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINW 163
Query: 62 A 62
A
Sbjct: 164 A 164
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With
The Au-Rich Element
Length = 174
Score = 35.0 bits (79), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 31/62 (50%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
E + F G ++ L ++ TG+ G+GFV + DA +A LN + + IK+
Sbjct: 20 EFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKVS 79
Query: 61 FA 62
+A
Sbjct: 80 YA 81
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLN 48
E+ F +YG + + + TG RG GF++F +A EA + LN
Sbjct: 106 EMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLN 153
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 34.7 bits (78), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 32/57 (56%), Gaps = 6/57 (10%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62
FERYG +V++ ++ RGFGF++ A AK L+ +++ R ++I FA
Sbjct: 43 FERYGEPSEVFINRD------RGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFA 93
>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 = 34.7 bits (78), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53
LR F +YG V D+ + K+ TG RGFGF+ F E + H L G
Sbjct: 20 LREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEV-VKTQHILDG 70
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 4/42 (9%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRL 47
F ++G + D L + TG+ RGFGFV + D+A+A R+
Sbjct: 108 FSQWGTIIDAQLMLDKDTGQSRGFGFVTY----DSADAVDRV 145
>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 = 34.7 bits (78), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%)
Query: 10 GPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65
GPV ++ + + TG +G+ F++FR E +A A + LN +G R +K ++ +
Sbjct: 29 GPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSNS 84
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 34.7 bits (78), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%)
Query: 10 GPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65
GPV ++ + + TG +G+ F++FR E +A A + LN +G R +K ++ +
Sbjct: 27 GPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSNS 82
>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 = 34.7 bits (78), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%)
Query: 10 GPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65
GPV ++ + + TG +G+ F++FR E +A A + LN +G R +K ++ +
Sbjct: 28 GPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSNS 83
>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 = 34.3 bits (77), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 27/53 (50%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53
+L+ F ++G V D + + TG RGFGF+ F+ A + + H L G
Sbjct: 27 DLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLDG 79
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 34.3 bits (77), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
F + GP+ V + K+ G+P+ FGFV F++ E + A LN + GR I +
Sbjct: 37 FLQAGPLTKVTICKDR-EGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINV 89
>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 = 34.3 bits (77), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 35/66 (53%)
Query: 9 YGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRKT 68
+G ++ +L + TG+ +G+GF ++ + AA AK L +G R + + + + + T
Sbjct: 117 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLT 176
Query: 69 PQEMRT 74
P + +
Sbjct: 177 PALLHS 182
Score = 30.0 bits (66), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 24/39 (61%)
Query: 24 GEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62
G+ +GF +++ AE A EA+Q+ + +GG +++ F
Sbjct: 221 GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC 259
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 33.9 bits (76), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 35/66 (53%)
Query: 9 YGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRKT 68
+G ++ +L + TG+ +G+GF ++ + AA AK L +G R + + + + + T
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLT 178
Query: 69 PQEMRT 74
P + +
Sbjct: 179 PALLHS 184
Score = 30.4 bits (67), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 24/39 (61%)
Query: 24 GEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62
G+ +GF +++ AE A EA+Q+ + +GG +++ F
Sbjct: 223 GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC 261
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 33.9 bits (76), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 35/66 (53%)
Query: 9 YGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRKT 68
+G ++ +L + TG+ +G+GF ++ + AA AK L +G R + + + + + T
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLT 178
Query: 69 PQEMRT 74
P + +
Sbjct: 179 PALLHS 184
Score = 30.0 bits (66), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 24/39 (61%)
Query: 24 GEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62
G+ +GF +++ AE A EA+Q+ + +GG +++ F
Sbjct: 223 GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC 261
>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 = 33.9 bits (76), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 26/52 (50%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53
LR FE++G + D + ++ T RGFGFV + E+ A H + G
Sbjct: 30 LRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 81
Score = 30.4 bits (67), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF 34
LR FE+YG ++ + + + +G+ RGF FV F
Sbjct: 121 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
>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 = 33.9 bits (76), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 26/52 (50%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53
LR FE++G + D + ++ T RGFGFV + E+ A H + G
Sbjct: 29 LRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 80
Score = 30.4 bits (67), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF 34
LR FE+YG ++ + + + +G+ RGF FV F
Sbjct: 120 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 152
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 33.9 bits (76), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 26/52 (50%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53
LR FE++G + D + ++ T RGFGFV + E+ A H + G
Sbjct: 31 LRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 82
Score = 30.4 bits (67), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF 34
LR FE+YG ++ + + + +G+ RGF FV F
Sbjct: 122 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 154
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 33.5 bits (75), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 26/52 (50%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53
LR FE++G + D + ++ T RGFGFV + E+ A H + G
Sbjct: 30 LRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 81
Score = 30.0 bits (66), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF 34
LR FE+YG ++ + + + +G+ RGF FV F
Sbjct: 121 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 33.5 bits (75), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 26/52 (50%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53
LR FE++G + D + ++ T RGFGFV + E+ A H + G
Sbjct: 28 LRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 79
Score = 30.0 bits (66), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF 34
LR FE+YG ++ + + + +G+ RGF FV F
Sbjct: 119 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 151
>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 = 33.5 bits (75), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 26/52 (50%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53
LR FE++G + D + ++ T RGFGFV + E+ A H + G
Sbjct: 23 LRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 74
Score = 30.4 bits (67), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF 34
LR FE+YG ++ + + + +G+ RGF FV F
Sbjct: 114 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 146
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 33.5 bits (75), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGR 55
+L+ F +G V V + K+ TG +GFGFV R+ E + K +I GR
Sbjct: 31 DLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFV--RFTEYETQVKVMSQRHMIDGR 83
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 33.1 bits (74), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
LR AF +G + + G +GFGFV F E+A +A +N ++ + + +
Sbjct: 32 LRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVAL 89
Query: 62 AE 63
A+
Sbjct: 90 AQ 91
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 33.1 bits (74), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 30/63 (47%), Gaps = 7/63 (11%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
ELR F +YG V DV++PK + R F FV F A+D +I G + I
Sbjct: 21 ELREFFSQYGDVMDVFIPKPF-----RAFAFVTF--ADDQIAQSLCGEDLIIKGISVHIS 73
Query: 61 FAE 63
AE
Sbjct: 74 NAE 76
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 35/62 (56%), Gaps = 5/62 (8%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF--RYAEDAAEAKQRLNHSLIGGREIK 58
+L F G + + + + ++G P+G+ +++F R + DAA A ++ ++ GR IK
Sbjct: 52 DLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVA---MDETVFRGRTIK 108
Query: 59 IV 60
++
Sbjct: 109 VL 110
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAE 42
FE++G V D L + T RGFGFV F +ED E
Sbjct: 20 FEQFGKVDDAMLMFDKTTNRHRGFGFVTFE-SEDIVE 55
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 31/58 (53%), Gaps = 6/58 (10%)
Query: 12 VKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSL-----IGGREIKIVFAEE 64
V ++ L K+ T + RGF FV+ A DA++ Q L SL I G+ I + FA+
Sbjct: 38 VNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQIL-QSLHPPLKIDGKTIGVDFAKS 94
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 32.0 bits (71), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 4/58 (6%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
L+ FE+ +K +P+N G+ +G+ F++F EDA EA N I GR I++
Sbjct: 32 LQEVFEKATFIK---VPQNQ-NGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRL 85
>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 = 31.2 bits (69), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
F YG +K+++L + TG +G+ V++ ++A A + LN + G+ I +
Sbjct: 43 FAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISV 96
>pdb|2DIT|A Chain A, Solution Structure Of The Rrm_1 Domain Of Hiv Tat
Specific Factor 1 Variant
Length = 112
Score = 31.2 bits (69), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 4/57 (7%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREI 57
+LRV ++G ++ + L + P G V FR E+A Q L+ GGR+I
Sbjct: 42 DLRVECSKFGQIRKLLL----FDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGRQI 94
>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 = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
F YG +K+++L + TG +G+ V++ ++A A + LN + G+ I +
Sbjct: 44 FAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISV 97
>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 = 31.2 bits (69), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 1/34 (2%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF 34
E+R F RYG VK+V + + TG +G+GFV F
Sbjct: 25 EIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 57
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 30.8 bits (68), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 1/34 (2%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF 34
E+R F RYG VK+V + + TG +G+GFV F
Sbjct: 26 EIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 58
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 26/52 (50%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53
LR +E++G + D + ++ + RGFGFV F + A HS+ G
Sbjct: 44 LRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDG 95
>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 = 30.8 bits (68), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 1/34 (2%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF 34
E+R F RYG VK+V + + TG +G+GFV F
Sbjct: 25 EIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 57
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 30.8 bits (68), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 30/63 (47%), Gaps = 7/63 (11%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
EL+ F +YG V DV++PK + R F FV F A+D +I G + I
Sbjct: 27 ELQQFFCQYGEVVDVFIPKPF-----RAFAFVTF--ADDKVAQSLCGEDLIIKGISVHIS 79
Query: 61 FAE 63
AE
Sbjct: 80 NAE 82
>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 = 30.4 bits (67), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
F YG +K+++L + TG +G+ V++ ++A A + LN + G+ I +
Sbjct: 28 FAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISV 81
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 30.4 bits (67), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
F YG +K+++L + TG +G+ V++ ++A A + LN + G+ I +
Sbjct: 28 FAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISV 81
>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 = 30.4 bits (67), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
F YG +K+++L + TG +G+ V++ ++A A + LN + G+ I +
Sbjct: 28 FAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISV 81
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 30.4 bits (67), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 8/65 (12%)
Query: 2 LRVAFERYGPVKDV-YLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
+R F +G + ++ P+ +G+ FV+F E AA A +N + I G +K
Sbjct: 42 MRQTFSPFGQIMEIRVFPE-------KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCY 94
Query: 61 FAEEN 65
+ +E+
Sbjct: 95 WGKES 99
>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 = 30.4 bits (67), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
F YG +K+++L + TG +G+ V++ ++A A + LN + G+ I +
Sbjct: 30 FAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISV 83
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 30.0 bits (66), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 8/62 (12%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
EL F +GP+K+V + GF FV+F AE AA+A + ++ + +++V
Sbjct: 47 ELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKAIEEVHGKSFANQPLEVV 98
Query: 61 FA 62
++
Sbjct: 99 YS 100
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 30.0 bits (66), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 8/62 (12%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
EL F +GP+K+V + GF FV+F AE AA+A + ++ + +++V
Sbjct: 20 ELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVV 71
Query: 61 FA 62
++
Sbjct: 72 YS 73
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 30.0 bits (66), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
EL + +G VKD+ L N G+P+G +V++ A++A +++ I IK+
Sbjct: 33 ELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVA 91
Query: 61 FA 62
+
Sbjct: 92 IS 93
>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 = 29.6 bits (65), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 30/63 (47%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61
LR +FE +G ++ + +P +D+AE + N SL+G REI +
Sbjct: 228 LRESFEGFGSIEKINIPAGQKEHSFNNCCAFXVFENKDSAERALQXNRSLLGNREISVSL 287
Query: 62 AEE 64
A++
Sbjct: 288 ADK 290
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60
LR FE +G +++ + + TG+ RG+GFV AAE + + +I GR+ +
Sbjct: 33 SLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMA-DRAAAERACKDPNPIIDGRKANVN 91
Query: 61 FAEENRKTPQEMRT 74
A K P+ ++T
Sbjct: 92 LAYLGAK-PRSLQT 104
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 28/48 (58%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLN 48
+L+ FE +G + ++ + K+ +TG +G F+ + E A +A+ L+
Sbjct: 29 DLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALH 76
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 8/59 (13%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
E+R FE+YG V + + KNY GFV A +A + L+H + G I +
Sbjct: 24 EIRSLFEQYGKVLECDIIKNY--------GFVHIEDKTAAEDAIRNLHHYKLHGVNINV 74
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHS 50
LR F ++G VK+ + ++ T RGFGFV F D A + L S
Sbjct: 17 LREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFM---DQAGVDKVLAQS 62
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLN 48
E+ F +YG + + + TG RG GF++F +A EA + LN
Sbjct: 17 EMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLN 64
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF 34
LR F ++G VK+ + ++ T RGFGFV F
Sbjct: 42 LREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 74
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGE---PRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIK 58
L+ F + G +K + K GFGFV+++ E A +A ++L + G +++
Sbjct: 22 LKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLE 81
Query: 59 IVFAEENRK 67
+ +E K
Sbjct: 82 VRISERATK 90
>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 = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
EL+VA D+ + + TG R FG+V F AED +A + L + G EIK+
Sbjct: 29 ELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKL 85
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 6 FERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62
F + GP K + + + +P + FV+F DAA A +N I G+E+K+ +A
Sbjct: 36 FSQIGPCKSCKMITEHTSNDP--YCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWA 90
>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 = 2.3, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
L+ F G V +Y G+ +G G VKF E A A + +N + GREI +
Sbjct: 25 LKDKFNECGHV--LYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDV 80
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
EL+VA D+ + + TG R FG+V F AED +A + L + G EIK+
Sbjct: 33 ELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKL 89
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain
In Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
L+ F G V +Y G+ +G G VKF E A A + +N + GREI +
Sbjct: 22 LKDKFNECGHV--LYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDV 77
>pdb|1O4W|A Chain A, Crystal Structure Of A Pin (Pilt N-Terminus) Domain
Containing Protein (Af0591) From Archaeoglobus Fulgidus
At 1.90 A Resolution
Length = 147
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 22/48 (45%)
Query: 15 VYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62
VYL K G+ R FGF +F ++L SL G ++ FA
Sbjct: 36 VYLNKADVVGQLREFGFSRFLITASVKRELEKLEXSLRGKEKVAARFA 83
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 27.3 bits (59), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 6 FERYGPVKDVYLP-KNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREI 57
F YG +K + +P + + +G+ +V+F ++A +A + ++ I G+EI
Sbjct: 25 FSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEI 77
>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 = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 27 RGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+G+GFV F E A A +++N L+ R++ +
Sbjct: 143 KGYGFVHFETQEAAERAIEKMNGMLLNDRKVFV 175
>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 = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 27 RGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59
+G+GFV F E A A +++N L+ R++ +
Sbjct: 138 KGYGFVHFETQEAAERAIEKMNGMLLNDRKVFV 170
>pdb|2CQP|A Chain A, Solution Structure Of The Rna Binding Domain Of
Rna-Binding Protein 12
Length = 98
Score = 26.9 bits (58), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 24 GEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63
G P G V F ++A A LN IG R++K+V
Sbjct: 54 GMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGS 93
>pdb|4FDY|A Chain A, Crystal Structure Of A Similar To Lipoprotein, NlpP60
FAMILY (Sav0400) From Staphylococcus Aureus Subsp.
Aureus Mu50 At 2.23 A Resolution
pdb|4FDY|B Chain B, Crystal Structure Of A Similar To Lipoprotein, NlpP60
FAMILY (Sav0400) From Staphylococcus Aureus Subsp.
Aureus Mu50 At 2.23 A Resolution
Length = 313
Score = 26.6 bits (57), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 15 VYLPKN--YYTGEPRGFGFVKFRYAEDAAEAKQRLNH 49
+YL N Y+ G+P G+G + RY +D +R+ H
Sbjct: 276 IYLEGNRFYHAGDPIGYGDLSSRYWQDHLIGARRVIH 312
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 0.136 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,553,368
Number of Sequences: 62578
Number of extensions: 103020
Number of successful extensions: 302
Number of sequences better than 100.0: 128
Number of HSP's better than 100.0 without gapping: 107
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 168
Number of HSP's gapped (non-prelim): 146
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
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: 48 (23.1 bits)