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= 031755
(153 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 71.2 bits (173), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 32/81 (39%), Positives = 55/81 (67%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
++ V L F T+E +L++ FS +G+++EV +VKD T++S+G+ F+ + + DDA A+ +
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 105 MDHKNLDGRLIYVDIAKPGKD 125
M+ K++DGR I VD A D
Sbjct: 74 MNGKSVDGRQIRVDQAGKSSD 94
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 63.2 bits (152), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 32/80 (40%), Positives = 50/80 (62%)
Query: 41 PLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
P S + V NLPF+ + L + FS +G+V +V ++KD+ T+KSKG AFI + +D A
Sbjct: 14 PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQN 73
Query: 101 ALESMDHKNLDGRLIYVDIA 120
++++K L GR+I IA
Sbjct: 74 CTRAINNKQLFGRVIKASIA 93
>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 = 62.8 bits (151), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 51/79 (64%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V NL + T TL++ F +G V +V + +D TK+S+G+AF+++ + DA A+++M
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 106 DHKNLDGRLIYVDIAKPGK 124
D LDGR + V +A+ G+
Sbjct: 110 DGAVLDGRELRVQMARYGR 128
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 61.6 bits (148), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 51/79 (64%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V NL + T TL++ F +G V +V + +D TK+S+G+AF+++ + DA A+++M
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 106 DHKNLDGRLIYVDIAKPGK 124
D LDGR + V +A+ G+
Sbjct: 133 DGAVLDGRELRVQMARYGR 151
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 60.5 bits (145), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 47/73 (64%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
R+ VRNL +T+ E L+K FSA+G ++E+ D +TKK KG+AF+ + + A+ A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 105 MDHKNLDGRLIYV 117
+D + GR+++V
Sbjct: 70 VDGQVFQGRMLHV 82
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 60.1 bits (144), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 37/95 (38%), Positives = 51/95 (53%), Gaps = 12/95 (12%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ VRNL T E L+K FS FG++ VK +KD YAFI + +D A+ A+E M
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEEM 65
Query: 106 DHKNLDGRLIYVDIAKP----GKDRFGGYPRTSGP 136
+ K+L+G I + AKP K+R SGP
Sbjct: 66 NGKDLEGENIEIVFAKPPDQKRKERKAQRQAASGP 100
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 44/81 (54%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V N+P+ E L+ FS G V +LV D T K KGY F +Y Q+ AL A+ ++
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 106 DHKNLDGRLIYVDIAKPGKDR 126
+ + GR + VD A K++
Sbjct: 71 NGREFSGRALRVDNAASEKNK 91
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/88 (36%), Positives = 50/88 (56%), Gaps = 8/88 (9%)
Query: 41 PLASR--------IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQY 92
PL SR + V L T E L++ FS +G +A+V +V D+ +++S+G+AF+ +
Sbjct: 2 PLGSRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYF 61
Query: 93 TSQDDALLALESMDHKNLDGRLIYVDIA 120
+ DDA A E + LDGR I VD +
Sbjct: 62 ENVDDAKEAKERANGMELDGRRIRVDFS 89
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 57.0 bits (136), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 46/75 (61%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V L T E L++ FS +G +A+V +V D+ +++S+G+AF+ + + DDA A E
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 106 DHKNLDGRLIYVDIA 120
+ LDGR I VD +
Sbjct: 78 NGMELDGRRIRVDFS 92
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 56.6 bits (135), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 46/75 (61%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V L T E L++ FS +G +A+V +V D+ +++S+G+AF+ + + DDA A E
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 108
Query: 106 DHKNLDGRLIYVDIA 120
+ LDGR I VD +
Sbjct: 109 NGMELDGRRIRVDFS 123
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 55.8 bits (133), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 44/77 (57%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
I V NL T E LQ+ F FG ++ + L KD+ T +SKG+AFI + ++DA A+ +
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV 77
Query: 106 DHKNLDGRLIYVDIAKP 122
D ++ V+ AKP
Sbjct: 78 SGFGYDHLILNVEWAKP 94
>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 = 55.8 bits (133), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 43/76 (56%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V + + T E L++EF +G + + +V + + K +GYAFI+Y + D A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 106 DHKNLDGRLIYVDIAK 121
D K +DGR + VD+ +
Sbjct: 165 DGKKIDGRRVLVDVER 180
>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 = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 43/76 (56%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V + + T E L++EF +G + + +V + + K +GYAFI+Y + D A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 106 DHKNLDGRLIYVDIAK 121
D K +DGR + VD+ +
Sbjct: 165 DGKKIDGRRVLVDVER 180
>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 = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 45/76 (59%)
Query: 42 LASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLA 101
+ SR+ V ++ + E T+++ F+ FG + + + D +T K KG+AF++Y + A LA
Sbjct: 27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLA 86
Query: 102 LESMDHKNLDGRLIYV 117
LE M+ L GR I V
Sbjct: 87 LEQMNSVMLGGRNIKV 102
Score = 43.5 bits (101), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 40/77 (51%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+RI V ++ + ++ F AFG++ L +D T K KGY FI+Y + A+
Sbjct: 126 NRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVS 185
Query: 104 SMDHKNLDGRLIYVDIA 120
SM+ +L G+ + V A
Sbjct: 186 SMNLFDLGGQYLRVGKA 202
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 44/72 (61%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V L T E L++ FS +G +A+V +V D+ +++S+G+AF+ + + DDA A E
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 106 DHKNLDGRLIYV 117
+ LDGR I V
Sbjct: 78 NGMELDGRRIRV 89
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 47/79 (59%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V NL + T +L++ F +G V +V + ++ TK +G+AF+++ + DA A +M
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 106 DHKNLDGRLIYVDIAKPGK 124
D LDGR + V +A+ G+
Sbjct: 76 DGAELDGRELRVQVARYGR 94
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 54.3 bits (129), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 48/77 (62%), Gaps = 10/77 (12%)
Query: 48 VRNLPFTTHEHTLQKEFSAF--GEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
VRNL +T E ++KEF+ G V VK ++D YAF+ +++++DA+ A++++
Sbjct: 20 VRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRD--------YAFVHFSNREDAVEAMKAL 71
Query: 106 DHKNLDGRLIYVDIAKP 122
+ K LDG I V +AKP
Sbjct: 72 NGKVLDGSPIEVTLAKP 88
>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 = 53.9 bits (128), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 44/82 (53%)
Query: 41 PLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
P + ++V LP + L+ FS+ GEV KL++D++ S GY F+ Y + DA
Sbjct: 2 PGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAER 61
Query: 101 ALESMDHKNLDGRLIYVDIAKP 122
A+ +++ L + I V A+P
Sbjct: 62 AINTLNGLRLQSKTIKVSYARP 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 = 53.5 bits (127), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 47/87 (54%), Gaps = 3/87 (3%)
Query: 41 PLAS-RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDAL 99
PL S I ++NL + L FSAFG + K+V DE SKGY F+ + +Q+ A
Sbjct: 2 PLGSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAE 59
Query: 100 LALESMDHKNLDGRLIYVDIAKPGKDR 126
A+E M+ L+ R ++V K K+R
Sbjct: 60 RAIEKMNGMLLNDRKVFVGRFKSRKER 86
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 53.5 bits (127), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 48/97 (49%), Gaps = 7/97 (7%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ ++V LP + L+ FS+ GEV KL++D++ S GY F+ Y + DA A+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 104 SMDHKNLDGRLIYVDIAKPGKDR-------FGGYPRT 133
+++ L + I V A+P + G PRT
Sbjct: 63 TLNGLRLQSKTIKVSYARPSSEVIKDANLYISGLPRT 99
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 36/64 (56%), Gaps = 1/64 (1%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ + LP T + ++ FS FG + +++ D+ T S+G AFI++ + +A A+ S
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 106 D-HK 108
+ HK
Sbjct: 151 NGHK 154
>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 = 53.5 bits (127), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 48/97 (49%), Gaps = 7/97 (7%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ ++V LP + L+ FS+ GEV KL++D++ S GY F+ Y + DA A+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 104 SMDHKNLDGRLIYVDIAKPGKDR-------FGGYPRT 133
+++ L + I V A+P + G PRT
Sbjct: 63 TLNGLRLQSKTIKVSYARPSSEVIKDANLYISGLPRT 99
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 36/64 (56%), Gaps = 1/64 (1%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ + LP T + ++ FS FG + +++ D+ T S+G AFI++ + +A A+ S
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 106 D-HK 108
+ HK
Sbjct: 151 NGHK 154
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 53.5 bits (127), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 42/77 (54%), Gaps = 3/77 (3%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V+ L T E TL++ F ++V D T SKG+ F+ + S++DA A E+M
Sbjct: 18 LFVKGLSEDTTEETLKESFDG---SVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 106 DHKNLDGRLIYVDIAKP 122
+ +DG + +D AKP
Sbjct: 75 EDGEIDGNKVTLDWAKP 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 = 53.1 bits (126), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 44/76 (57%)
Query: 42 LASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLA 101
+ R+ V ++ + E T+++ F+ FG + + + D +T K KG+AF++Y + A LA
Sbjct: 12 IMCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLA 71
Query: 102 LESMDHKNLDGRLIYV 117
LE M+ L GR I V
Sbjct: 72 LEQMNSVMLGGRNIKV 87
Score = 43.1 bits (100), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 39/74 (52%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+RI V ++ + ++ F AFG++ L +D T K KGY FI+Y + A+
Sbjct: 111 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 170
Query: 104 SMDHKNLDGRLIYV 117
SM+ +L G+ + V
Sbjct: 171 SMNLFDLGGQYLRV 184
>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 = 53.1 bits (126), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 44/83 (53%)
Query: 40 YPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDAL 99
Y + ++V LP + L+ FS+ GEV KL++D++ S GY F+ Y + DA
Sbjct: 16 YFQGTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAE 75
Query: 100 LALESMDHKNLDGRLIYVDIAKP 122
A+ +++ L + I V A+P
Sbjct: 76 RAINTLNGLRLQSKTIKVSYARP 98
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 52.4 bits (124), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 34/94 (36%), Positives = 52/94 (55%), Gaps = 4/94 (4%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
++ + L T+E L+ F G ++EV L+KD T KS+G+AFI + + DA A +
Sbjct: 8 GKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAK 66
Query: 104 SMDHKNLDGRLIYVDIAKPGKDRFGGYPRTSGPP 137
M+ K+L G+ I V+ AK + GG R PP
Sbjct: 67 DMNGKSLHGKAIKVEQAKKPSFQSGGRRR---PP 97
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 52.4 bits (124), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 46/83 (55%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+MV +P T E L++ F +G + VK+V D T++S+GY F+++ S A A+ +
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 106 DHKNLDGRLIYVDIAKPGKDRFG 128
+ N+ + + V +A G R G
Sbjct: 105 NGFNILNKRLKVALAASGHQRPG 127
>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 = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 44/81 (54%), Gaps = 2/81 (2%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
I ++NL + L FSAFG + K+V DE SKGY F+ + +Q+ A A+E M
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 163
Query: 106 DHKNLDGRLIYVDIAKPGKDR 126
+ L+ R ++V K K+R
Sbjct: 164 NGMLLNDRKVFVGRFKSRKER 184
Score = 47.4 bits (111), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 50/86 (58%), Gaps = 1/86 (1%)
Query: 32 NLRASLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQ 91
++ S +YP+AS + V +L E L ++FS G + +++ +D IT++S GYA++
Sbjct: 5 SMNPSAPSYPMAS-LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVN 63
Query: 92 YTSQDDALLALESMDHKNLDGRLIYV 117
+ DA AL++M+ + G+ + +
Sbjct: 64 FQQPADAERALDTMNFDVIKGKPVRI 89
>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 = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 44/81 (54%), Gaps = 2/81 (2%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
I ++NL + L FSAFG + K+V DE SKGY F+ + +Q+ A A+E M
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 158
Query: 106 DHKNLDGRLIYVDIAKPGKDR 126
+ L+ R ++V K K+R
Sbjct: 159 NGMLLNDRKVFVGRFKSRKER 179
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 48/82 (58%), Gaps = 1/82 (1%)
Query: 36 SLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQ 95
S +YP+AS + V +L E L ++FS G + +++ +D IT++S GYA++ +
Sbjct: 4 SAPSYPMAS-LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQP 62
Query: 96 DDALLALESMDHKNLDGRLIYV 117
DA AL++M+ + G+ + +
Sbjct: 63 ADAERALDTMNFDVIKGKPVRI 84
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 51.2 bits (121), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 44/81 (54%), Gaps = 2/81 (2%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
I ++NL + L FSAFG + K+V DE SKGY F+ + +Q+ A A+E M
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 71
Query: 106 DHKNLDGRLIYVDIAKPGKDR 126
+ L+ R ++V K K+R
Sbjct: 72 NGMLLNDRKVFVGRFKSRKER 92
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 48/86 (55%), Gaps = 1/86 (1%)
Query: 38 SNYPLASRIM-VRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQD 96
S R++ V L + L F FG++ ++++ D T+K +G+AF+++ +
Sbjct: 6 SGMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 65
Query: 97 DALLALESMDHKNLDGRLIYVDIAKP 122
DA A+++M+ L GR I V++AKP
Sbjct: 66 DAAAAIDNMNESELFGRTIRVNLAKP 91
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 44/79 (55%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ ++V LP + + F + G++ KLV+D+IT +S GY F+ Y+ +DA A+
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 104 SMDHKNLDGRLIYVDIAKP 122
+++ L + I V A+P
Sbjct: 65 TLNGLKLQTKTIKVSYARP 83
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 44/79 (55%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ ++V LP + + F + G++ KLV+D+IT +S GY F+ Y+ +DA A+
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 104 SMDHKNLDGRLIYVDIAKP 122
+++ L + I V A+P
Sbjct: 65 TLNGLKLQTKTIKVSYARP 83
Score = 36.2 bits (82), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/105 (23%), Positives = 52/105 (49%), Gaps = 5/105 (4%)
Query: 9 VSYPQPMFANSLTNRENPC-FRTFNLRASLSNYPLAS----RIMVRNLPFTTHEHTLQKE 63
V+Y P A+ N N +T ++ S + AS + V LP T + +++
Sbjct: 51 VNYSDPNDADKAINTLNGLKLQTKTIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQL 110
Query: 64 FSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHK 108
FS +G + +++ D+ T S+G FI++ + +A A++ ++ +
Sbjct: 111 FSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQ 155
>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 = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 42/79 (53%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ ++V LP + + F + GE+ KLV+D+IT +S GY F+ Y DA A+
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62
Query: 104 SMDHKNLDGRLIYVDIAKP 122
+++ L + I V A+P
Sbjct: 63 TLNGLRLQTKTIKVSYARP 81
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 38/67 (56%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V LP T + L++ FS +G + +++ D++T S+G FI++ + +A A++ +
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 106 DHKNLDG 112
+ + G
Sbjct: 151 NGQKPSG 157
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEI-TKKSKGYAFIQYTSQDDALLAL 102
S+I+VRN+PF ++ +++ FS FGE+ V+L K T +G+ F+ + ++ DA A
Sbjct: 16 SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
Query: 103 ESMDHK-NLDGRLIYVDIA 120
++ H +L GR + ++ A
Sbjct: 76 NALCHSTHLYGRRLVLEWA 94
>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 = 50.4 bits (119), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 42 LASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLA 101
+ R+ V ++ + E T+++ F+ FG + + D +T K KG+AF++Y + A LA
Sbjct: 11 IXCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLA 70
Query: 102 LESMDHKNLDGRLIYV 117
LE + L GR I V
Sbjct: 71 LEQXNSVXLGGRNIKV 86
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 39/77 (50%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+RI V ++ + ++ F AFG++ L +D T K KGY FI+Y + A+
Sbjct: 110 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 169
Query: 104 SMDHKNLDGRLIYVDIA 120
S + +L G+ + V A
Sbjct: 170 SXNLFDLGGQYLRVGKA 186
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 50.4 bits (119), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
++ V L ++T + TL+ FS +GEV + ++KD+ T +S+G+ F+++ + L
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLA 76
Query: 104 SMDHKNLDGRLI 115
S H LDGR I
Sbjct: 77 SRPH-TLDGRNI 87
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 50.1 bits (118), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 44/77 (57%), Gaps = 4/77 (5%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+++ NL ++ E TLQ+ F E A V KSKGYAFI++ S +DA AL S
Sbjct: 18 LVLSNLSYSATEETLQEVF----EKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 106 DHKNLDGRLIYVDIAKP 122
+ + ++GR I +++ P
Sbjct: 74 NKREIEGRAIRLELQGP 90
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 49.7 bits (117), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEV-KLVKDEITKKSKGYAFIQYTSQDDALLA 101
+S I + NL E L FSAFG + + K+++D T SKGYAFI + S D + A
Sbjct: 5 SSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAA 64
Query: 102 LESMDHKNLDGRLIYVDIA 120
+E+M+ + L R I V A
Sbjct: 65 IEAMNGQYLCNRPITVSYA 83
>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 = 8e-07, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V +L ++ F+ FG +++ ++VKD T KSKGY F+ + ++ DA A++ M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 106 DHKNLDGRLIYVDIA 120
+ L GR I + A
Sbjct: 78 GGQWLGGRQIRTNWA 92
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 49.3 bits (116), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 42/75 (56%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
+S + V +L F E L+ F FG++ + L+KD T +SKGY FI ++ + A AL
Sbjct: 5 SSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRAL 64
Query: 103 ESMDHKNLDGRLIYV 117
E ++ L GR + V
Sbjct: 65 EQLNGFELAGRPMRV 79
>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 = 49.3 bits (116), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 42/75 (56%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V +L + TL+ F F ++ D T S+GY F+ +TSQDDA A++SM
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 106 DHKNLDGRLIYVDIA 120
++L+GR + ++ A
Sbjct: 64 QGQDLNGRPLRINWA 78
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
I V NL ++ +++ FS FG+V VKL+ D TKK KG+ F++ ++ A+ +
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVE-MQEESVSEAIAKL 62
Query: 106 DHKNLDGRLIYVDIAKPGK 124
D+ + GR I V A P K
Sbjct: 63 DNTDFMGRTIRVTEANPKK 81
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 48/89 (53%), Gaps = 6/89 (6%)
Query: 38 SNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDD 97
S+ + +RNL F + E L + FG++ V++V T+ SKG AF Q+ +Q+
Sbjct: 10 SDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEA 69
Query: 98 A--LLALESMDHKN----LDGRLIYVDIA 120
A LA S++ + LDGR + VD+A
Sbjct: 70 AQKCLAAASLEAEGGGLKLDGRQLKVDLA 98
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 40/73 (54%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
R+ V +L F E L+ F FG + ++L+ D T +SKGY FI ++ + A ALE
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 105 MDHKNLDGRLIYV 117
++ L GR + V
Sbjct: 88 LNGFELAGRPMKV 100
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
+ V +L + TL+ F F ++ D T S+GY F+ +TSQDDA A++S
Sbjct: 89 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 148
Query: 105 MDHKNLDGRLIYVDIA 120
M ++L+GR + ++ A
Sbjct: 149 MQGQDLNGRPLRINWA 164
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V NL E L++ F G +A +K++ D+ K+ YAF++Y DA +AL+++
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQTL 61
Query: 106 DHKNLDGRLIYVDIA 120
+ K ++ ++ ++ A
Sbjct: 62 NGKQIENNIVKINWA 76
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 47/84 (55%), Gaps = 4/84 (4%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQD--DALL 100
++ + L + T + L++ F FGEV E +++D +TK+S+G+ F+ + Q D +L
Sbjct: 25 GCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL 84
Query: 101 A--LESMDHKNLDGRLIYVDIAKP 122
A +D K +D ++ + A+P
Sbjct: 85 AQSRHELDSKTIDPKVAFPRRAQP 108
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V +L ++ F+ FG++++ ++VKD T KSKGY F+ + ++ DA A+ M
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 106 DHKNLDGRLIYVDIA 120
+ L GR I + A
Sbjct: 78 GGQWLGGRQIRTNWA 92
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 47.4 bits (111), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
++I V LP+ T + +L+K F FG++ E ++ D T KS+GY F+ + A A +
Sbjct: 18 TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACK 77
Query: 104 SMDHKNLDGRLIYVDIAKPG 123
+ +DGR V++A G
Sbjct: 78 D-PNPIIDGRKANVNLAYLG 96
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 47.0 bits (110), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 42/71 (59%), Gaps = 2/71 (2%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
S ++V LP+ T E L++ FS FGEV V++ KD T SKG+ F+++T + + +
Sbjct: 15 TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVM 74
Query: 103 ESMDHKNLDGR 113
S H +DGR
Sbjct: 75 -SQRH-MIDGR 83
>pdb|3MDF|A Chain A, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
pdb|3MDF|B Chain B, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
Length = 85
Score = 46.6 bits (109), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 44/76 (57%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V L + L F FG++ ++++ D T+K +G+AF+++ +DA A+++M
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 106 DHKNLDGRLIYVDIAK 121
+ L GR I V++AK
Sbjct: 70 NESELFGRTIRVNLAK 85
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 46.6 bits (109), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 44/76 (57%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V L + L F FG++ ++++ D T+K +G+AF+++ +DA A+++M
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 106 DHKNLDGRLIYVDIAK 121
+ L GR I V++AK
Sbjct: 68 NESELFGRTIRVNLAK 83
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 45/76 (59%), Gaps = 2/76 (2%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
R+ V N+PF + L++ F FG++ +V+++ +E + SKG+ F+ + + DA A E
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNE--RGSKGFGFVTFENSADADRAREK 74
Query: 105 MDHKNLDGRLIYVDIA 120
+ ++GR I V+ A
Sbjct: 75 LHGTVVEGRKIEVNNA 90
>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 = 46.2 bits (108), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 34/54 (62%)
Query: 67 FGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLDGRLIYVDIA 120
FG +++ ++VKD T KSKGY F+ + ++ DA A++ M + L GR I + A
Sbjct: 30 FGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA 83
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 45.8 bits (107), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 45/76 (59%), Gaps = 2/76 (2%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
R+ V N+PF + L++ F FG++ +V+++ +E + SKG+ F+ + + DA A E
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNE--RGSKGFGFVTFENSADADRAREK 88
Query: 105 MDHKNLDGRLIYVDIA 120
+ ++GR I V+ A
Sbjct: 89 LHGTVVEGRKIEVNNA 104
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 43/75 (57%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V L + L F FG++ ++++ D T+K +G+AF+++ +DA A+++M
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 106 DHKNLDGRLIYVDIA 120
+ L GR I V++A
Sbjct: 126 NESELFGRTIRVNLA 140
>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 = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 42/73 (57%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V NL F T E + + FS G++ ++ + D++ K + G+ F++Y S+ DA A+ +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 106 DHKNLDGRLIYVD 118
+ LD R+I D
Sbjct: 102 NGTRLDDRIIRTD 114
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 40/73 (54%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V ++ E +Q++F +GE+ + L D T SKGYA ++Y + AL A E++
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 106 DHKNLDGRLIYVD 118
+ + G+ I VD
Sbjct: 89 NGAEIMGQTIQVD 101
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 44/77 (57%), Gaps = 8/77 (10%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ VRNL T E L+K FS FG++ VK +KD YAF+ + + A+ A++ M
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVHFEDRGAAVKAMDEM 69
Query: 106 DHKNLDGRLIYVDIAKP 122
+ K ++G I + +AKP
Sbjct: 70 NGKEIEGEEIEIVLAKP 86
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 43/75 (57%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V L + L F FG++ ++++ D T+K +G+AF+++ +DA A+++M
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 106 DHKNLDGRLIYVDIA 120
+ L GR I V++A
Sbjct: 65 NESELFGRTIRVNLA 79
>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 = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 40/73 (54%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V ++ E +Q++F +GE+ + L D T SKGYA ++Y + AL A E++
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 106 DHKNLDGRLIYVD 118
+ + G+ I VD
Sbjct: 135 NGAEIMGQTIQVD 147
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 44/76 (57%), Gaps = 4/76 (5%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQD--DALLA- 101
++ + L + T + L++ F FGEV E +++D +TK+S+G+ F+ + Q D +LA
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 102 -LESMDHKNLDGRLIY 116
+D K +D ++ +
Sbjct: 62 SRHELDSKTIDPKVAF 77
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
++ + L F T + +L+ F +G + + +++D TK+S+G+ F+ Y + ++ A+ +
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 105 MDHKNLDGRLI 115
HK +DGR++
Sbjct: 76 RPHK-VDGRVV 85
Score = 35.8 bits (81), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 29/52 (55%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQD 96
+I V + T EH L+ F +G++ ++++ D + K +G+AF+ + D
Sbjct: 107 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 158
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
A ++ V +P E L+ F FG + E+ ++KD +T KG AF+ Y ++D AL A
Sbjct: 15 AIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQ 74
Query: 103 ESM-DHKNLDG 112
++ + K L G
Sbjct: 75 SALHEQKTLPG 85
>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 = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
++ + L F T + +L+ F +G + + +++D TK+S+G+ F+ Y + ++ A+ +
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 105 MDHKNLDGRLI 115
HK +DGR++
Sbjct: 74 RPHK-VDGRVV 83
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 29/52 (55%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQD 96
+I V + T EH L+ F +G++ ++++ D + K +G+AF+ + D
Sbjct: 105 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 156
>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 = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
++ + L F T + +L+ F +G + + +++D TK+S+G+ F+ Y + ++ A+ +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 105 MDHKNLDGRLI 115
HK +DGR++
Sbjct: 75 RPHK-VDGRVV 84
Score = 35.4 bits (80), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 29/52 (55%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQD 96
+I V + T EH L+ F +G++ ++++ D + K +G+AF+ + D
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 157
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
++ + L F T + +L+ F +G + + +++D TK+S+G+ F+ Y + ++ A+ +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 105 MDHKNLDGRLI 115
HK +DGR++
Sbjct: 75 RPHK-VDGRVV 84
Score = 35.4 bits (80), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 29/54 (53%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQD 96
+I V + T EH L+ F +G++ ++++ D + K +G+AF+ + D
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 157
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
++ + L F T + +L+ F +G + + +++D TK+S+G+ F+ Y + ++ A+ +
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 105 MDHKNLDGRLI 115
HK +DGR++
Sbjct: 73 RPHK-VDGRVV 82
Score = 35.4 bits (80), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 29/54 (53%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQD 96
+I V + T EH L+ F +G++ ++++ D + K +G+AF+ + D
Sbjct: 102 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 155
>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 = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
++ + L F T + +L+ F +G + + +++D TK+S+G+ F+ Y + ++ A+ +
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 105 MDHKNLDGRLI 115
HK +DGR++
Sbjct: 68 RPHK-VDGRVV 77
Score = 35.4 bits (80), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 29/52 (55%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQD 96
+I V + T EH L+ F +G++ ++++ D + K +G+AF+ + D
Sbjct: 99 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHD 150
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 43.5 bits (101), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 44/71 (61%), Gaps = 1/71 (1%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
++ + L F T E +L+ + +G++ + +++D +K+S+G+ F+ ++S + A+ +
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Query: 105 MDHKNLDGRLI 115
H ++DGR++
Sbjct: 89 RPH-SIDGRVV 98
>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 = 43.5 bits (101), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 46/89 (51%), Gaps = 2/89 (2%)
Query: 37 LSNYPLASR--IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTS 94
L N P AS ++V LP + L F A G + ++ +D T S GYAF+ +TS
Sbjct: 6 LMNDPRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTS 65
Query: 95 QDDALLALESMDHKNLDGRLIYVDIAKPG 123
+ D+ A++ ++ + + + V A+PG
Sbjct: 66 EXDSQRAIKVLNGITVRNKRLKVSYARPG 94
Score = 43.1 bits (100), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 39/64 (60%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ + V NLP T + L F +G + + +++D++T + +G AF++Y +++A A+
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 160
Query: 104 SMDH 107
++++
Sbjct: 161 ALNN 164
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 43.1 bits (100), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 39/64 (60%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ + V NLP T + L F +G + + +++D++T + +G AF++Y +++A A+
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 149
Query: 104 SMDH 107
++++
Sbjct: 150 ALNN 153
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 44/82 (53%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ ++V LP + L F A G + ++++D T S GYAF+ +TS+ D+ A++
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 104 SMDHKNLDGRLIYVDIAKPGKD 125
++ + + + V A+PG +
Sbjct: 64 VLNGITVRNKRLKVSYARPGGE 85
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 43.1 bits (100), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 39 NYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDA 98
N A + V L + T + L+ F+ FGEV + + D T +S+G+ FI +
Sbjct: 7 NEEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASV 66
Query: 99 LLALESMDHKNLDGRLI 115
L+ +H+ LDGR+I
Sbjct: 67 EKVLDQKEHR-LDGRVI 82
>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 = 43.1 bits (100), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 41/89 (46%)
Query: 36 SLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQ 95
S+ P + + V NLP + + ++ FG + LV E T +SKGY F +Y +
Sbjct: 86 SVQLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKK 145
Query: 96 DDALLALESMDHKNLDGRLIYVDIAKPGK 124
D A A + K L R +YV G+
Sbjct: 146 DSAARAKSDLLGKPLGPRTLYVHWTDAGQ 174
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 44/82 (53%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ ++V LP + L F A G + ++++D T S GYAF+ +TS+ D+ A++
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 104 SMDHKNLDGRLIYVDIAKPGKD 125
++ + + + V A+PG +
Sbjct: 64 VLNGITVRNKRLKVSYARPGGE 85
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 41/89 (46%)
Query: 36 SLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQ 95
S+ P + + V NLP + + ++ FG + LV E T +SKGY F +Y +
Sbjct: 88 SVQLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKK 147
Query: 96 DDALLALESMDHKNLDGRLIYVDIAKPGK 124
D A A + K L R +YV G+
Sbjct: 148 DSAARAKSDLLGKPLGPRTLYVHWTDAGQ 176
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 41/89 (46%)
Query: 36 SLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQ 95
S+ P + + V NLP + + ++ FG + LV E T +SKGY F +Y +
Sbjct: 88 SVQLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKK 147
Query: 96 DDALLALESMDHKNLDGRLIYVDIAKPGK 124
D A A + K L R +YV G+
Sbjct: 148 DSAARAKSDLLGKPLGPRTLYVHWTDAGQ 176
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 42.7 bits (99), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 39/64 (60%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ + V NLP T + L F +G + + +++D++T + +G AF++Y +++A A+
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 73
Query: 104 SMDH 107
++++
Sbjct: 74 ALNN 77
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 48/82 (58%), Gaps = 6/82 (7%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVA--EVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
I++RN+ T ++ S + +A ++L+KD+ T++++G+AF+Q +S DA L+
Sbjct: 12 IILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQ 71
Query: 104 SMDHKN----LDGRLIYVDIAK 121
+ + +DG+ I VD AK
Sbjct: 72 ILQSLHPPLKIDGKTIGVDFAK 93
>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 = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 39/70 (55%), Gaps = 1/70 (1%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ + L + T + L+ FS FGEV + L D IT +S+G+ F+ + + ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 106 DHKNLDGRLI 115
+HK L+G++I
Sbjct: 62 EHK-LNGKVI 70
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 48/84 (57%), Gaps = 2/84 (2%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V+NL + L+K FS FG + K++ + +SKG+ F+ ++S ++A A+ M
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 106 DHKNLDGRLIYVDIAKPGKDRFGG 129
+ + + + +YV +A+ ++R G
Sbjct: 76 NGRIVATKPLYVALAQRKEERQSG 99
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKK---SKGYAFIQYTSQDDAL 99
+S + ++NL F+T E TL+ FS G + + K + S G+ F++Y + A
Sbjct: 5 SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQ 64
Query: 100 LALESMDHKNLDGRLIYVDIA 120
AL+ + +DG + V I+
Sbjct: 65 KALKQLQGHTVDGHKLEVRIS 85
>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 = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 3/68 (4%)
Query: 41 PLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTS---QDD 97
P A ++ + LP ++ +++ ++FG + LVKD T SKGYAF +Y D
Sbjct: 94 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 153
Query: 98 ALLALESM 105
A+ L M
Sbjct: 154 AIAGLNGM 161
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 43/85 (50%), Gaps = 5/85 (5%)
Query: 41 PLASR-----IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQ 95
P++ R + V L E L + F G V + KD +T + +GY F+++ S+
Sbjct: 8 PISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSE 67
Query: 96 DDALLALESMDHKNLDGRLIYVDIA 120
+DA A++ MD L G+ I V+ A
Sbjct: 68 EDADYAIKIMDMIKLYGKPIRVNKA 92
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/101 (30%), Positives = 47/101 (46%), Gaps = 15/101 (14%)
Query: 20 LTNRENPCFRTFNLRASLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDE 79
L N P +TF R SR+ V NLP E ++K F +G+ EV + KD
Sbjct: 8 LKNFRKPGEKTFTQR---------SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD- 57
Query: 80 ITKKSKGYAFIQYTSQDDALLALESMDHKNLDGRLIYVDIA 120
KG+ FI+ ++ A +A +D+ L G+ + V A
Sbjct: 58 -----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFA 93
Score = 31.6 bits (70), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 40/80 (50%), Gaps = 3/80 (3%)
Query: 24 ENPCFRTFNLRASLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKK 83
+N R LR + + ++ + VRNLP L++ FS FG+V ++ D+ +
Sbjct: 79 DNMPLRGKQLRVRFACH--SASLTVRNLPQYVSNELLEEAFSVFGQVERAVVIVDDRGRP 136
Query: 84 SKGYAFIQYTSQDDALLALE 103
S G ++++ + A AL+
Sbjct: 137 S-GKGIVEFSGKPAARKALD 155
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 3/68 (4%)
Query: 41 PLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTS---QDD 97
P A ++ + LP ++ +++ ++FG + LVKD T SKGYAF +Y D
Sbjct: 92 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 151
Query: 98 ALLALESM 105
A+ L M
Sbjct: 152 AIAGLNGM 159
>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 = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
++ + LPF+ + L++ A G V +++LV + K KG A+++Y ++ A A+
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMK 77
Query: 105 MDHKNLDGRLIYVDIAKPG 123
MD + +I V I+ G
Sbjct: 78 MDGMTIKENIIKVAISNSG 96
>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 = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ V NL F T E + + FS G++ ++ + D++ K + G+ F++Y S+ DA A+ +
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM-KTACGFCFVEYYSRADAENAMRYI 79
Query: 106 DHKNLDGRLIYVD 118
+ LD R+I D
Sbjct: 80 NGTRLDDRIIRTD 92
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 47/88 (53%), Gaps = 10/88 (11%)
Query: 42 LASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLA 101
LA+RI R+L + FSA G+V +V+++ D +++SKG A++++ LA
Sbjct: 33 LAARIRPRDL---------EDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLA 83
Query: 102 LESMDHKNLDGRLIYVDIAKPGKDRFGG 129
+ + + L G I V ++ K+R G
Sbjct: 84 I-GLTGQRLLGVPIIVQASQAEKNRLSG 110
>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 = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 47/79 (59%), Gaps = 2/79 (2%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFG-EVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
+M+R LP E ++ + + G + EV+L++++ + +S+G+AF++++ DA +E+
Sbjct: 4 VMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEA 63
Query: 105 MDHK-NLDGRLIYVDIAKP 122
H N+ G+ + + + P
Sbjct: 64 NQHSLNILGQKVSMHYSDP 82
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
A ++ + +P E L+ F FG++ E+ ++KD T KG AF+ Y ++ AL A
Sbjct: 13 AIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQ 72
Query: 103 ESM-DHKNLDG 112
++ + K L G
Sbjct: 73 SALHEQKTLPG 83
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 8/84 (9%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
+I V N+ L+ F G V E +VKD YAF+ + DA A+
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIAQ 62
Query: 105 MDHKNLDGRLIYVDIAKPGKDRFG 128
++ K + G+ I V+++ G+ + G
Sbjct: 63 LNGKEVKGKRINVELSTKGQKKSG 86
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 40/73 (54%), Gaps = 5/73 (6%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
A ++ +NLP+ + L++ F + AE++LV + KSKG A+I++ ++ DA
Sbjct: 93 ARTLLAKNLPYKVTQDELKE---VFEDAAEIRLVSKD--GKSKGIAYIEFKTEADAEKTF 147
Query: 103 ESMDHKNLDGRLI 115
E +DGR I
Sbjct: 148 EEKQGTEIDGRSI 160
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 57 EHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLDGRLIY 116
E + +F+ +GE+ + L D T KGY ++Y + +A A+E ++ ++L G+ I
Sbjct: 23 EEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPIS 82
Query: 117 VD 118
VD
Sbjct: 83 VD 84
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 57 EHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLDGRLIY 116
E + +F+ +GE+ + L D T KGY ++Y + +A A+E ++ ++L G+ I
Sbjct: 21 EEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPIS 80
Query: 117 VD 118
VD
Sbjct: 81 VD 82
>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 = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 41/72 (56%), Gaps = 3/72 (4%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQY---TSQDDAL 99
+ ++ + L + T E L++ F +G V ++K++KD T +S+G+ F+ + +S D+ +
Sbjct: 3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVV 62
Query: 100 LALESMDHKNLD 111
+D K +D
Sbjct: 63 KTQHILDGKVID 74
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 47/92 (51%), Gaps = 13/92 (14%)
Query: 24 ENPCFRTFNLRASLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKK 83
E+PC + +RA A ++ +NL F E L++ F + E++LV + K
Sbjct: 5 EDPC-TSKKVRA-------ARTLLAKNLSFNITEDELKE---VFEDALEIRLVSQD--GK 51
Query: 84 SKGYAFIQYTSQDDALLALESMDHKNLDGRLI 115
SKG A+I++ S+ DA LE +DGR +
Sbjct: 52 SKGIAYIEFKSEADAEKNLEEKQGAEIDGRSV 83
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 40/79 (50%), Gaps = 6/79 (7%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEV--AEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
A +I VRNLPF L+ +F+ G V A++K+ KSKG +++ S + A
Sbjct: 8 ACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME----NGKSKGCGVVKFESPEVAER 63
Query: 101 ALESMDHKNLDGRLIYVDI 119
A M+ L GR I V I
Sbjct: 64 ACRMMNGMKLSGREIDVRI 82
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 57 EHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLDGRLIY 116
E + +F+ +GE+ + L D T KGY ++Y + +A A+E ++ ++L G+ I
Sbjct: 37 EEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPIS 96
Query: 117 VD 118
VD
Sbjct: 97 VD 98
>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 = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTS---QDDAL 99
A ++ + LP ++ +++ ++FG + LVKD T SKGYAF +Y D A+
Sbjct: 114 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173
Query: 100 LALESM 105
L M
Sbjct: 174 AGLNGM 179
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 57 EHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLDGRLIY 116
E + +F+ +GE+ + L D T KGY ++Y + +A A+E ++ ++L G+ I
Sbjct: 21 EEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPIS 80
Query: 117 VD 118
VD
Sbjct: 81 VD 82
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 50/107 (46%), Gaps = 16/107 (14%)
Query: 26 PCFRTFNLRASLSNY------PLASR---------IMVRNLPFTTHEHTLQKEFSAFGEV 70
PC +T + + + Y PL++ + V N+ + + L+ FS+ G +
Sbjct: 4 PCMQTTHSKMTAGAYTEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSI 63
Query: 71 AEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLDGRLIYV 117
+ ++ D+ + KGYA+I++ ++ A+ +MD GR I V
Sbjct: 64 NRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKV 109
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 40/78 (51%), Gaps = 8/78 (10%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
++++ V N+ T L+ +F +G V E +VKD YAF+ +DA+ A+
Sbjct: 10 STKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAI 61
Query: 103 ESMDHKNLDGRLIYVDIA 120
+D+ G+ ++V ++
Sbjct: 62 RGLDNTEFQGKRMHVQLS 79
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
Length = 99
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 40/77 (51%), Gaps = 6/77 (7%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
SR+ V NLP E ++K F +G+ EV + KD KG+ FI+ ++ A +A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKV 69
Query: 104 SMDHKNLDGRLIYVDIA 120
+D+ L G+ + V A
Sbjct: 70 ELDNMPLRGKQLRVRFA 86
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTS---QDDAL 99
A ++ + LP ++ +++ ++FG + LVKD T SKGYAF +Y D A+
Sbjct: 1 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60
Query: 100 LALESM 105
L M
Sbjct: 61 AGLNGM 66
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 39.3 bits (90), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 40/79 (50%), Gaps = 6/79 (7%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEV--AEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
+S I VRNLPF L+ +F+ G V A++K+ KSKG +++ S + A
Sbjct: 5 SSGIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME----NGKSKGCGVVKFESPEVAER 60
Query: 101 ALESMDHKNLDGRLIYVDI 119
A M+ L GR I V I
Sbjct: 61 ACRMMNGMKLSGREIDVRI 79
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 39.3 bits (90), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 57 EHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLDGRLIY 116
E + +F+ +GE+ + L D T KGY ++Y + +A A+E ++ ++L G+ I
Sbjct: 21 EEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPIS 80
Query: 117 VD 118
VD
Sbjct: 81 VD 82
>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 = 39.3 bits (90), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 39/73 (53%), Gaps = 5/73 (6%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
A ++ +NL F E L++ F + E++LV + KSKG A+I++ S+ DA L
Sbjct: 99 ARTLLAKNLSFNITEDELKE---VFEDALEIRLVSQD--GKSKGIAYIEFKSEADAEKNL 153
Query: 103 ESMDHKNLDGRLI 115
E +DGR +
Sbjct: 154 EEKQGAEIDGRSV 166
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 57 EHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLDGRLIY 116
E + +F+ +GE+ + L D T KGY ++Y + +A A+E ++ ++L G+ I
Sbjct: 36 EEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPIS 95
Query: 117 VD 118
VD
Sbjct: 96 VD 97
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 2/74 (2%)
Query: 48 VRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDH 107
V NLPF T + + F + V+LV+D+ T K KG+ ++++ D AL + D
Sbjct: 20 VGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDG 77
Query: 108 KNLDGRLIYVDIAK 121
L R + VDIA+
Sbjct: 78 ALLGDRSLRVDIAE 91
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 41/79 (51%), Gaps = 1/79 (1%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
++I V +P E L++ F FG V EV ++ D ++ +G+ FI + + A+
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV- 69
Query: 104 SMDHKNLDGRLIYVDIAKP 122
+M ++ G+ + V A+P
Sbjct: 70 NMHFHDIMGKKVEVKRAEP 88
>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 = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 39/75 (52%)
Query: 41 PLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
P + + + ++P+ E + S G V +K++ D T +SKGYAFI++ + +
Sbjct: 2 PPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSAS 61
Query: 101 ALESMDHKNLDGRLI 115
A+ +++ L R +
Sbjct: 62 AVRNLNGYQLGSRFL 76
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 42/77 (54%), Gaps = 12/77 (15%)
Query: 60 LQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLDGRLIYVDI 119
+++ FS FG++ E+++ + KGY+F+++++ + A A+ S++ ++G ++
Sbjct: 42 MRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYW 95
Query: 120 AKPGKDRFGGYPRTSGP 136
K D TSGP
Sbjct: 96 GKESPD------MTSGP 106
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 37/82 (45%), Gaps = 8/82 (9%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+R+ V L T L +EF FG + + VK + +A+IQY S D A A
Sbjct: 18 TRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGD------SFAYIQYESLDAAQAACA 71
Query: 104 SMDHKNLDG--RLIYVDIAKPG 123
M L G R + VD AK G
Sbjct: 72 KMRGFPLGGPDRRLRVDFAKSG 93
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 6/91 (6%)
Query: 33 LRASLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQY 92
L+ Y R+ V NLP E ++ F +GE +EV + +D +G+ FI+
Sbjct: 12 LKPGEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRL 65
Query: 93 TSQDDALLALESMDHKNLDGRLIYVDIAKPG 123
S+ A +A +D L R + + A G
Sbjct: 66 ESRTLAEIAKAELDGTILKSRPLRIRFATHG 96
Score = 29.3 bits (64), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 33 LRASLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQY 92
LR + + A + V+NL L++ FS FG V + +V D+ ++ G F+++
Sbjct: 88 LRIRFATHGAA--LTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDD-RGRATGKGFVEF 144
Query: 93 TSQDDALLALESMDHKNLDGRLIYVDIAKP 122
++ A ALE DG + +P
Sbjct: 145 AAKPPARKALERCG----DGAFLLTTTPRP 170
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 31/65 (47%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
+I V L T E +++ F FGEV ++L D T K +G+ FI + ++ +
Sbjct: 1 VKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 60
Query: 103 ESMDH 107
E H
Sbjct: 61 EKKYH 65
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 8/78 (10%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+R+ VR P E L + F FG + EVK++ G+AF+++ + A A+E
Sbjct: 5 TRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKAIE 56
Query: 104 SMDHKNLDGRLIYVDIAK 121
+ K+ + + V +K
Sbjct: 57 EVHGKSFANQPLEVVYSK 74
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 43/93 (46%), Gaps = 12/93 (12%)
Query: 35 ASLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTS 94
LSN +R+ VR P E L + F FG + EVK++ G+AF+++
Sbjct: 27 GELSN----TRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEE 74
Query: 95 QDDALLALESMDHKNLDGRLIYVDIAKPGKDRF 127
+ A A+E + K+ + + V +K R+
Sbjct: 75 AESAAKAIEEVHGKSFANQPLEVVYSKLPAKRY 107
>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 = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ + ++P+ E + S G V +K++ D T +SKGYAFI++ + + A+ ++
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 106 DHKNLDGRLI 115
+ L R +
Sbjct: 66 NGYQLGSRFL 75
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 39/81 (48%)
Query: 41 PLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
P + + +LP + L F FG V K+ D+ T SK + F+ + + D A +
Sbjct: 38 PEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQV 97
Query: 101 ALESMDHKNLDGRLIYVDIAK 121
A+++M+ + + + V + K
Sbjct: 98 AIKAMNGFQVGTKRLKVQLKK 118
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 42/70 (60%), Gaps = 5/70 (7%)
Query: 47 MVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKK-SKGYAFIQYTSQDDALLALESM 105
+ RN+ T +H ++ FS +G++ + + + + SKGYA++++ + D+A AL+ M
Sbjct: 12 LTRNV---TKDHIMEI-FSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHM 67
Query: 106 DHKNLDGRLI 115
D +DG+ I
Sbjct: 68 DGGQIDGQEI 77
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 44 SRIM-VRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
SR++ + ++P+ E + S G V +K++ D T +SKGYAFI++ + + A+
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61
Query: 103 ESMDHKNLDGRLI 115
+++ L R +
Sbjct: 62 RNLNGYQLGSRFL 74
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 48/84 (57%), Gaps = 5/84 (5%)
Query: 46 IMVRNL-PFTTHEHTLQKEFS-AFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDA-LLAL 102
I++RNL P +T + L A + V+++KD+ T+ ++G+AFIQ ++ + A LL +
Sbjct: 26 IILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTIEAAQLLQI 85
Query: 103 ESMDHK--NLDGRLIYVDIAKPGK 124
H +DG+ I V+ AK K
Sbjct: 86 LQALHPPLTIDGKTINVEFAKGSK 109
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 30/62 (48%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
I V L T E +++ F FGEV ++L D T K +G+ FI + ++ +E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 106 DH 107
H
Sbjct: 62 YH 63
>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 = 36.2 bits (82), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 40/85 (47%)
Query: 41 PLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
P + + + +LP + L + F FG V K+ D+ T SK + F+ Y + A
Sbjct: 23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQA 82
Query: 101 ALESMDHKNLDGRLIYVDIAKPGKD 125
A++SM+ + + + V + + D
Sbjct: 83 AIQSMNGFQIGMKRLKVQLKRSKND 107
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 36.2 bits (82), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 47/89 (52%), Gaps = 10/89 (11%)
Query: 42 LASRIMVRNL-PFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
+ SR+ + NL + ++ FS +G++ + KG+AF+QY ++ +A
Sbjct: 14 MNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV--------HKGFAFVQYVNERNARA 65
Query: 101 ALESMDHKNLDGRLIYVDI-AKPGKDRFG 128
A+ D + + G+++ +++ A+P +R G
Sbjct: 66 AVAGEDGRMIAGQVLDINLAAEPKVNRSG 94
>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 = 35.8 bits (81), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
A I V N+ + L+ F G V V ++ D+ + KG+A+I+++ ++ +L
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65
Query: 103 ESMDHKNLDGRLIYV 117
++D GR I V
Sbjct: 66 -ALDESLFRGRQIKV 79
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 35.8 bits (81), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 46/89 (51%), Gaps = 10/89 (11%)
Query: 42 LASRIMVRNLPFT-THEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
+ SR+ + NL + ++ FS +G VA + KGYAF+QY+++ A
Sbjct: 26 INSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--------HKGYAFVQYSNERHARA 77
Query: 101 ALESMDHKNLDGRLIYVDIA-KPGKDRFG 128
A+ + + L G+ + +++A +P DR G
Sbjct: 78 AVLGENGRVLAGQTLDINMAGEPKPDRSG 106
>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 = 35.8 bits (81), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 30/55 (54%)
Query: 57 EHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLD 111
+ L FS G+V ++ DE T K+KG+ F++ S +DA ++S K LD
Sbjct: 26 KKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLD 80
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 35.8 bits (81), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
++++V NL F + +Q+ F+ FG + + + D + +S G A + + + DAL A+
Sbjct: 88 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAM 146
Query: 103 ESMDHKNLDGRLIYVDI 119
+ LDGR + + +
Sbjct: 147 KQYKGVPLDGRPMDIQL 163
>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 = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
A I V N+ + L+ F G V V ++ D+ + KG+A+I+++ ++ +L
Sbjct: 5 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 64
Query: 103 ESMDHKNLDGRLIYV 117
++D GR I V
Sbjct: 65 -ALDESLFRGRQIKV 78
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 35.4 bits (80), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 41/84 (48%), Gaps = 5/84 (5%)
Query: 41 PLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
PL ++ V NL ++ L++ F +G + V + + G+AF+++ DA
Sbjct: 71 PLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVW-----VARNPPGFAFVEFEDPRDAAD 125
Query: 101 ALESMDHKNLDGRLIYVDIAKPGK 124
A+ +D + L G + V+++ K
Sbjct: 126 AVRELDGRTLCGCRVRVELSNGEK 149
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 35.4 bits (80), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 41/84 (48%), Gaps = 5/84 (5%)
Query: 41 PLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
PL ++ V NL ++ L++ F +G + V + + G+AF+++ DA
Sbjct: 71 PLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVW-----VARNPPGFAFVEFEDPRDAAD 125
Query: 101 ALESMDHKNLDGRLIYVDIAKPGK 124
A+ +D + L G + V+++ K
Sbjct: 126 AVRDLDGRTLCGCRVRVELSNGEK 149
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 35.4 bits (80), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 37/65 (56%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ + V LP T + +++ FS +G + +++ D+ T S+G FI++ + +A A++
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 104 SMDHK 108
++ +
Sbjct: 62 GLNGQ 66
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 45/85 (52%), Gaps = 4/85 (4%)
Query: 34 RASLSNYPLASRI-MVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQY 92
RA++ P +RI M+RNLP+ T ++ + FG+ ++ ++ T +++G A++ Y
Sbjct: 8 RANIRLPPEVNRILMIRNLPYKI---TAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVY 64
Query: 93 TSQDDALLALESMDHKNLDGRLIYV 117
DA A + + N+ R + V
Sbjct: 65 EDIFDAKNACDHLSGFNVCNRYLVV 89
>pdb|1WG5|A Chain A, Solution Structure Of The First Rrm Domain In
Heterogeneous Nuclear Ribonucleoprotein H
Length = 104
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 7/91 (7%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ +R LPF + + + FS V + + +S G AF+Q+ SQ+ A AL+
Sbjct: 18 VRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-- 75
Query: 106 DHKNLDGRLIYVDIAKPGKDRFGGYPRTSGP 136
HK G Y++I K + RTSGP
Sbjct: 76 KHKERIGHR-YIEIFKSSRAEV----RTSGP 101
>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 = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 30/55 (54%)
Query: 57 EHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLD 111
+ L FS G+V ++ DE T K+KG+ F++ S +DA ++S K LD
Sbjct: 26 KKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLD 80
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 35.0 bits (79), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 48/103 (46%), Gaps = 15/103 (14%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
++ V NL + L++ FS +G + V I + G+AF+++ DA A+
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTV-----WIARNPPGFAFVEFEDPRDAEDAVRG 56
Query: 105 MDHKNLDGRLIYVDIAKPGKDRFGGYPRTS---GPPKQQPLSE 144
+D K + G + V+++ G PR S PP ++ L E
Sbjct: 57 LDGKVICGSRVRVELST-------GMPRRSRFDRPPARRKLLE 92
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 35.0 bits (79), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 8/96 (8%)
Query: 42 LASRIMVRNLPFTTHEHTLQKEFSAFGE-VAEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
+A+ + + +L E+ + + F+ GE V VK++++ +T GY F+++ A
Sbjct: 8 MAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEK 67
Query: 101 ALESMDHKNLDGRLIYVDIAKPGKDRFGGYPRTSGP 136
L ++ K L G A P K Y SGP
Sbjct: 68 CLHKINGKPLPG-------ATPAKRFKLNYATYSGP 96
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 34.7 bits (78), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
+++V NL F + +Q+ F+ FG + + + D + +S G A + + + DAL A++
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQ 88
Query: 105 MDHKNLDGRLIYVDIA 120
+ LDGR + + +
Sbjct: 89 YNGVPLDGRPMNIQLV 104
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 34.7 bits (78), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 45/85 (52%), Gaps = 4/85 (4%)
Query: 34 RASLSNYPLASRIM-VRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQY 92
RA++ P +RI+ +RNLP+ T ++ + FG+ ++ ++ T +++G A++ Y
Sbjct: 2 RANIRLPPEVNRILYIRNLPYKI---TAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVY 58
Query: 93 TSQDDALLALESMDHKNLDGRLIYV 117
DA A + + N+ R + V
Sbjct: 59 EDIFDAKNACDHLSGFNVCNRYLVV 83
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 34.3 bits (77), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
++++V NL F + +Q+ F+ FG + + + D + +S G A + + + DAL A+
Sbjct: 35 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAM 93
Query: 103 ESMDHKNLDGR 113
+ LDGR
Sbjct: 94 KQYKGVPLDGR 104
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 34.3 bits (77), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 43 ASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
++++V NL F + +Q+ F+ FG + + + D + +S G A + + + DAL A+
Sbjct: 35 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAM 93
Query: 103 ESMDHKNLDGR 113
+ LDGR
Sbjct: 94 KQYKGVPLDGR 104
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 34.3 bits (77), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
+ V + E ++ F+ +G V EVK++ D T SKGY F+ + + D +ES
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES 70
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 33.9 bits (76), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 45/85 (52%), Gaps = 4/85 (4%)
Query: 34 RASLSNYPLASRIM-VRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQY 92
RA++ P +RI+ +RNLP+ T ++ + FG+ ++ ++ T +++G A++ Y
Sbjct: 8 RANIRLPPEVNRILYIRNLPYKI---TAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVY 64
Query: 93 TSQDDALLALESMDHKNLDGRLIYV 117
DA A + + N+ R + V
Sbjct: 65 EDIFDAKNACDHLSGFNVCNRYLVV 89
>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 = 33.9 bits (76), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 42 LASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLA 101
+ + + V + E ++ F+ +G V EVK++ D T SKGY F+ + + D
Sbjct: 8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKI 66
Query: 102 LES 104
+ES
Sbjct: 67 VES 69
>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 = 33.9 bits (76), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
+ V + E ++ F+ +G V EVK++ D T SKGY F+ + + D +ES
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES 69
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 33.9 bits (76), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 42/78 (53%), Gaps = 4/78 (5%)
Query: 41 PLASRIM-VRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDAL 99
P +RI+ +RNLP+ T ++ + FG+ ++ ++ T +++G A++ Y DA
Sbjct: 5 PEVNRILYIRNLPYKI---TAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAK 61
Query: 100 LALESMDHKNLDGRLIYV 117
A++ + N+ R + V
Sbjct: 62 NAVDHLSGFNVSNRYLVV 79
>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 = 33.5 bits (75), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
+++V NL F + +Q+ F+ FG + + + D + +S G A + + + DAL A +
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAXKQ 89
Query: 105 MDHKNLDGR 113
+ LDGR
Sbjct: 90 YNGVPLDGR 98
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 33.5 bits (75), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 44 SRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEI-TKKSKGYAFIQYTSQDDALLA 101
+ + + NLP + E L+ FG+V ++++D T + G+A ++ T + +A++
Sbjct: 26 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIG 84
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 33.5 bits (75), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 38/83 (45%), Gaps = 9/83 (10%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKG---YAFIQYTSQDDALLA 101
RI V NLP ++ F +G + ++ L K +G +AF+++ DA A
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL------KNRRGGPPFAFVEFEDPRDAEDA 77
Query: 102 LESMDHKNLDGRLIYVDIAKPGK 124
+ D + DG + V+ + G+
Sbjct: 78 VYGRDGYDYDGYRLRVEFPRSGR 100
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 32.7 bits (73), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 8/77 (10%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
++ + NLP E ++ F +G+V E ++K+ Y F+ + A A+ +
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--------YGFVHIEDKTAAEDAIRN 61
Query: 105 MDHKNLDGRLIYVDIAK 121
+ H L G I V+ +K
Sbjct: 62 LHHYKLHGVNINVEASK 78
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 32.7 bits (73), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 41 PLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALL 100
P ++ V L E +++ F AFG + E +++ SKG AF++Y+S +A
Sbjct: 13 PSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGP-DGNSKGCAFVKYSSHAEAQA 71
Query: 101 ALESM 105
A+ ++
Sbjct: 72 AINAL 76
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 32.0 bits (71), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 27/51 (52%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQD 96
I V L T ++ F FG+V + L+ D+ T + +G+ F+ + S+D
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESED 52
>pdb|1WHX|A Chain A, Solution Structure Of The Second Rna Binding Domain From
Hypothetical Protein Bab23448
Length = 111
Score = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 8/96 (8%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
I+ +NLP T +Q+ FS FG + V L + IT A +++ +A A +
Sbjct: 13 ILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGIT------AIVEFLEPLEARKAFRHL 66
Query: 106 DHKNLDGRLIYVDIAKPGKDRFGGYPRTSGPPKQQP 141
+ +Y++ A G FG P+ +QP
Sbjct: 67 AYSKFHHVPLYLEWAPIG--VFGAAPQKKDSQHEQP 100
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 40/84 (47%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
+ ++NL E L F+ F E + +T + +G AFI + +++ A AL +
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLV 87
Query: 106 DHKNLDGRLIYVDIAKPGKDRFGG 129
+ L G+++ ++ K K R G
Sbjct: 88 NGYKLYGKILVIEFGKNKKQRSSG 111
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 31.2 bits (69), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 39/79 (49%), Gaps = 14/79 (17%)
Query: 42 LASRIMVRNLP------FTTHEHTLQKEFSAFGEVAEVKLVKD---EITKKSKGYAFIQY 92
+ S I+V N+P ++ + K FS FG K+ D E K+KGY F++Y
Sbjct: 14 IDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFG-----KITNDFYPEEDGKTKGYIFLEY 68
Query: 93 TSQDDALLALESMDHKNLD 111
S A+ A+++ D LD
Sbjct: 69 ASPAHAVDAVKNADGYKLD 87
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 30.8 bits (68), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 14/77 (18%)
Query: 44 SRIMVRNLP------FTTHEHTLQKEFSAFGEVAEVKLVKD---EITKKSKGYAFIQYTS 94
S I+V N+P ++ + K FS FG K+ D E K+KGY F++Y S
Sbjct: 2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFG-----KITNDFYPEEDGKTKGYIFLEYAS 56
Query: 95 QDDALLALESMDHKNLD 111
A+ A+++ D LD
Sbjct: 57 PAHAVDAVKNADGYKLD 73
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 30.4 bits (67), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 32/49 (65%), Gaps = 1/49 (2%)
Query: 57 EHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
E+ ++ FS+FG++ E ++++ S+G AF+ +T++ A A+++M
Sbjct: 121 ENDIRVMFSSFGQIEECRILRGP-DGLSRGCAFVTFTTRAMAQTAIKAM 168
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 30.4 bits (67), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 32/49 (65%), Gaps = 1/49 (2%)
Query: 57 EHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESM 105
E+ ++ FS+FG++ E ++++ S+G AF+ +T++ A A+++M
Sbjct: 109 ENDIRVMFSSFGQIEECRILRGP-DGLSRGCAFVTFTTRAMAQTAIKAM 156
>pdb|3S8S|A Chain A, Crystal Structure Of The Rrm Domain Of Human Setd1a
Length = 110
Score = 30.0 bits (66), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 34/64 (53%)
Query: 67 FGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMDHKNLDGRLIYVDIAKPGKDR 126
+GEV EV+++ T+K G A + +TS A ++++ ++ G +I+ + G+ R
Sbjct: 30 YGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDIKGQQR 89
Query: 127 FGGY 130
Y
Sbjct: 90 MKYY 93
>pdb|2CPI|A Chain A, Solution Structure Of The Rna Recognition Motif Of Cnot4
Length = 111
Score = 30.0 bits (66), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 9/76 (11%)
Query: 64 FSAFGEVAEVKLVKDEITKKSKG---YAFIQYTSQDDALLALESMDHKNLDGRLIYVDIA 120
F FG++ +V + S+G A++ Y +DAL A++ +++ +DGR + A
Sbjct: 39 FGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLK---A 95
Query: 121 KPGKDRFGGYPRTSGP 136
G ++ Y SGP
Sbjct: 96 SLGTTKYCSY---SGP 108
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 30.0 bits (66), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 7/52 (13%)
Query: 86 GYAFIQYTSQDDALLALESMDHK-NLDGRLIYVDIAKPGKDRFGGYPRTSGP 136
GYAF+ Y Q+ A+ A+E++ K L G+++ VD + K R+SGP
Sbjct: 45 GYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKK------LRSSGP 90
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 29.3 bits (64), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFG--EVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ V + + T + L + + G +V E+K ++ +SKGYA + S++ LE
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 104 SMDHKNLDGRLIYV 117
+ K L+G + V
Sbjct: 118 LLPGKVLNGEKVDV 131
>pdb|2DB1|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein F Homolog
Length = 118
Score = 29.3 bits (64), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 15/98 (15%)
Query: 46 IMVRNLPFTTHEHTLQK---EFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLAL 102
+ +R LP++ +Q + + VA V + ++S G AF++ S+DD LAL
Sbjct: 20 VKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQS-GEAFVELESEDDVKLAL 78
Query: 103 ----ESMDHKNLDGRLIYVDIAKPGKDRFGGYPRTSGP 136
ESM H+ Y+++ K + + SGP
Sbjct: 79 KKDRESMGHR-------YIEVFKSHRTEMDWVLKHSGP 109
>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 = 29.3 bits (64), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 31/48 (64%), Gaps = 1/48 (2%)
Query: 57 EHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALES 104
E+ ++ FS+FG++ E ++++ S+G AF+ +T++ A A+++
Sbjct: 109 ENDIRVXFSSFGQIEECRILRGP-DGLSRGCAFVTFTTRAXAQTAIKA 155
>pdb|2LXU|A Chain A, Solution Nmr Structure Of The Eukaryotic Rna Recognition
Motif, Rrm1, From The Heterogeneous Nuclear
Ribonucleoprotein H From Homo Sapiens, Northeast
Structural Genomics Consortium (Nesg) Target Hr8614a
Length = 108
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 45/97 (46%), Gaps = 13/97 (13%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSK--GYAFIQYTSQDDALLAL- 102
+ VR LP++ +Q+ FS + ++ T++ + G AF++ S+D+ LAL
Sbjct: 10 VKVRGLPWSCSADEVQRFFSDCKIQNGAQGIRFIYTREGRPSGEAFVELESEDEVKLALK 69
Query: 103 ---ESMDHKNLDGRLIYVDIAKPGKDRFGGYPRTSGP 136
E+M H+ YV++ K + +GP
Sbjct: 70 KDRETMGHR-------YVEVFKSNNVEMDWVLKHTGP 99
>pdb|4I6I|A Chain A, Crystal Structure Of Rabbit Ryanodine Receptor 1 (residues
1-559) Disease Mutant R45c
Length = 559
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 91 QYTSQDDALLALESMDHKNLDGRLIYVDIAK-----PGKDRFGGYPRTSGPP 137
Q DDAL ++ R+I+ G D F G PR SGPP
Sbjct: 380 QEGHMDDALFLTRCQQEESQAARMIHSTAGLYNQFIKGLDSFSGKPRGSGPP 431
>pdb|2XOA|A Chain A, Crystal Structure Of The N-Terminal Three Domains Of The
Skeletal Muscle Ryanodine Receptor (Ryr1)
Length = 559
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 91 QYTSQDDALLALESMDHKNLDGRLIYVDIAK-----PGKDRFGGYPRTSGPP 137
Q DDAL ++ R+I+ G D F G PR SGPP
Sbjct: 380 QEGHMDDALFLTRCQQEESQAARMIHSTAGLYNQFIKGLDSFSGKPRGSGPP 431
>pdb|4I3N|A Chain A, Crystal Structure Of Rabbit Ryanodine Receptor 1 (residues
1-536) Disease Mutant D61n
Length = 536
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 91 QYTSQDDALLALESMDHKNLDGRLIYVDIAK-----PGKDRFGGYPRTSGPP 137
Q DDAL ++ R+I+ G D F G PR SGPP
Sbjct: 380 QEGHMDDALFLTRCQQEESQAARMIHSTAGLYNQFIKGLDSFSGKPRGSGPP 431
>pdb|4I7I|A Chain A, Crystal Structure Of Rabbit Ryanodine Receptor 1 (residues
1-536) Disease Mutant L14r
Length = 536
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 91 QYTSQDDALLALESMDHKNLDGRLIYVDIAK-----PGKDRFGGYPRTSGPP 137
Q DDAL ++ R+I+ G D F G PR SGPP
Sbjct: 380 QEGHMDDALFLTRCQQEESQAARMIHSTAGLYNQFIKGLDSFSGKPRGSGPP 431
>pdb|4I1E|A Chain A, Crystal Structure Of Rabbit Ryanodine Receptor 1 (residues
1-536) Disease Mutant G249r
Length = 536
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 91 QYTSQDDALLALESMDHKNLDGRLIYVDIAK-----PGKDRFGGYPRTSGPP 137
Q DDAL ++ R+I+ G D F G PR SGPP
Sbjct: 380 QEGHMDDALFLTRCQQEESQAARMIHSTAGLYNQFIKGLDSFSGKPRGSGPP 431
>pdb|4I8M|A Chain A, Crystal Structure Of Rabbit Ryanodine Receptor 1 (residues
1-536) Disease Mutant V219i
Length = 536
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 91 QYTSQDDALLALESMDHKNLDGRLIYVDIAK-----PGKDRFGGYPRTSGPP 137
Q DDAL ++ R+I+ G D F G PR SGPP
Sbjct: 380 QEGHMDDALFLTRCQQEESQAARMIHSTAGLYNQFIKGLDSFSGKPRGSGPP 431
>pdb|4I0Y|A Chain A, Crystal Structure Of Rabbit Ryanodine Receptor 1 (residues
1-536) Disease Mutant C36r
Length = 536
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 91 QYTSQDDALLALESMDHKNLDGRLIYVDIAK-----PGKDRFGGYPRTSGPP 137
Q DDAL ++ R+I+ G D F G PR SGPP
Sbjct: 380 QEGHMDDALFLTRCQQEESQAARMIHSTAGLYNQFIKGLDSFSGKPRGSGPP 431
>pdb|4I96|A Chain A, Crystal Structure Of The N-terminal Two Domains Of The
Skeletal Muscle Ryanodine Receptor (rabbit Ryr1)
Residues 217-536
Length = 320
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 91 QYTSQDDALLALESMDHKNLDGRLIYVDIAK-----PGKDRFGGYPRTSGPP 137
Q DDAL ++ R+I+ G D F G PR SGPP
Sbjct: 164 QEGHMDDALFLTRCQQEESQAARMIHSTAGLYNQFIKGLDSFSGKPRGSGPP 215
>pdb|1X4F|A Chain A, Solution Structure Of The Second Rrm Domain In Matrin 3
Length = 112
Score = 27.3 bits (59), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 44/91 (48%), Gaps = 9/91 (9%)
Query: 42 LASRIMVRNLPFTTHEHTLQKEFSAFGEVAE-VKLVKDEITKKSKGYAFIQYTSQDDALL 100
L I + NLP + + SA ++AE +K+ I + K AFI+ +++DA+
Sbjct: 24 LGRVIHLSNLPHSGYSD------SAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMA 77
Query: 101 ALESMDHKNL--DGRLIYVDIAKPGKDRFGG 129
++ K L GR + VD+++ K G
Sbjct: 78 MVDHCLKKALWFQGRCVKVDLSEKYKKLVSG 108
>pdb|2PH5|A Chain A, Crystal Structure Of The Homospermidine Synthase Hss From
Legionella Pneumophila In Complex With Nad, Northeast
Structural Genomics Target Lgr54
Length = 480
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 8/59 (13%)
Query: 96 DDALLALESMDHKNLDGRLIYVDIAKPGKDRFGGYPRTSGPPKQ--QPLSEQDEVADCW 152
D+ ++ E +DH+ + +DIAKP + GGY P K + E+ +++D W
Sbjct: 412 DEGIVEPEEVDHQYI------IDIAKPYLGKVGGYYTDWTPLKNRGELYPEEVDLSDPW 464
>pdb|2KH9|A Chain A, Solution Structure Of Yeast Prp24-Rrm2 Bound To A Fragment
Of U6 Rna
Length = 92
Score = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 10/39 (25%), Positives = 23/39 (58%)
Query: 84 SKGYAFIQYTSQDDALLALESMDHKNLDGRLIYVDIAKP 122
S+ +A+I TS++DA +E ++ ++G + ++ P
Sbjct: 44 SRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP 82
>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 = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 10/39 (25%), Positives = 23/39 (58%)
Query: 84 SKGYAFIQYTSQDDALLALESMDHKNLDGRLIYVDIAKP 122
S+ +A+I TS++DA +E ++ ++G + ++ P
Sbjct: 158 SRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP 196
>pdb|2HGM|A Chain A, Nmr Structure Of The Second Qrrm Domain Of Human Hnrnp F
pdb|2KG0|A Chain A, Structure Of The Second Qrrm Domain Of Hnrnp F In Complex
With A Agggau G-Tract Rna
Length = 126
Score = 26.9 bits (58), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 16/76 (21%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFGEVAEVKLVKDEIT------KKSKGYAFIQYTSQDDAL 99
+ +R LPF + + + FS +++V + IT K G AF+Q+ SQ+ A
Sbjct: 45 VRLRGLPFGCTKEEIVQFFSG------LEIVPNGITLPVDPEGKITGEAFVQFASQELAE 98
Query: 100 LAL----ESMDHKNLD 111
AL E + H+ ++
Sbjct: 99 KALGKHKERIGHRYIE 114
>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
Length = 161
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 10/39 (25%), Positives = 23/39 (58%)
Query: 84 SKGYAFIQYTSQDDALLALESMDHKNLDGRLIYVDIAKP 122
S+ +A+I TS++DA +E ++ ++G + ++ P
Sbjct: 121 SRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP 159
>pdb|2HGL|A Chain A, Nmr Structure Of The First Qrrm Domain Of Human Hnrnp F
pdb|2KFY|A Chain A, Nmr Structure Of The First Qrrm Of Hnrnp F In Complex With
Agggau G- Tract Rna
Length = 136
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 11/58 (18%)
Query: 83 KSKGYAFIQYTSQDDALLAL----ESMDHKNLDGRLIYVDIAKPGKDRFGGYPRTSGP 136
+ G AF++ S+DD +AL ESM H+ Y+++ K + + SGP
Sbjct: 86 RQSGEAFVELGSEDDVKMALKKDRESMGHR-------YIEVFKSHRTEMDWVLKHSGP 136
>pdb|4I2S|A Chain A, Crystal Structure Of Rabbit Ryanodine Receptor 1 (residues
1-536) Disease Mutant I404m
Length = 536
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 91 QYTSQDDALLALESMDHKNLDGRLIYVDIAK-----PGKDRFGGYPRTSGPP 137
Q DDAL ++ R+++ G D F G PR SGPP
Sbjct: 380 QEGHMDDALFLTRCQQEESQAARMMHSTAGLYNQFIKGLDSFSGKPRGSGPP 431
>pdb|2DIS|A Chain A, Solution Structure Of The Rrm Domain Of Unnamed Protein
Product
Length = 109
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 39/85 (45%), Gaps = 4/85 (4%)
Query: 45 RIMVRNLPFTTHEHTLQKEFSAFGE-VAEVKLVKDEITK-KSKGYAFIQYTSQDDALLAL 102
R+ + +P + +E + E V +V + K K++G+AF++Y S A +A
Sbjct: 10 RLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMAR 69
Query: 103 ESM--DHKNLDGRLIYVDIAKPGKD 125
+ L G I VD A+P D
Sbjct: 70 RKLMPGRIQLWGHQIAVDWAEPEID 94
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 4/64 (6%)
Query: 74 KLVKDEITKKSKGYAFIQYTSQDDALLAL-ESMDHKNLDGRLIYVDIAKPGKDRFGGYPR 132
K+V D+ T SKGY F+++T + + AL E L + + + +A P R P
Sbjct: 41 KVVLDQ-TGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSVAIPKASRV--KPV 97
Query: 133 TSGP 136
SGP
Sbjct: 98 ESGP 101
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 26.6 bits (57), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 14/70 (20%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFG--EVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ + NL + T + L + + G ++ E+K ++ +SKG+A + S+ + ++
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 130
Query: 104 SMDHKNLDGR 113
+ + L G+
Sbjct: 131 LLPKRELHGQ 140
>pdb|3DPJ|A Chain A, The Crystal Structure Of A Tetr Transcription Regulator
From Silicibacter Pomeroyi Dss
pdb|3DPJ|B Chain B, The Crystal Structure Of A Tetr Transcription Regulator
From Silicibacter Pomeroyi Dss
pdb|3DPJ|C Chain C, The Crystal Structure Of A Tetr Transcription Regulator
From Silicibacter Pomeroyi Dss
pdb|3DPJ|D Chain D, The Crystal Structure Of A Tetr Transcription Regulator
From Silicibacter Pomeroyi Dss
pdb|3DPJ|E Chain E, The Crystal Structure Of A Tetr Transcription Regulator
From Silicibacter Pomeroyi Dss
pdb|3DPJ|F Chain F, The Crystal Structure Of A Tetr Transcription Regulator
From Silicibacter Pomeroyi Dss
pdb|3DPJ|G Chain G, The Crystal Structure Of A Tetr Transcription Regulator
From Silicibacter Pomeroyi Dss
pdb|3DPJ|H Chain H, The Crystal Structure Of A Tetr Transcription Regulator
From Silicibacter Pomeroyi Dss
Length = 194
Score = 26.6 bits (57), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 50 NLPFTTHEHTLQKEFSAFGEVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALESMD-HK 108
N FT LQ++F+ G E + + +S+G A + + D+ L E D H+
Sbjct: 125 NGLFTLFRDWLQRQFAEAGCTTEAPALAXHLLARSQGAATLAQSFHDEGFLRSEVADXHR 184
Query: 109 NLDGRL 114
LD L
Sbjct: 185 WLDNTL 190
>pdb|3CIN|A Chain A, Crystal Structure Of A Myo-Inositol-1-Phosphate
Synthase-Related Protein (Tm_1419) From Thermotoga
Maritima Msb8 At 1.70 A Resolution
Length = 394
Score = 26.6 bits (57), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 43/94 (45%), Gaps = 10/94 (10%)
Query: 17 ANSLTNRENPCFRTFNLRASLSNYPLASRIMVRNLPFTTHEHTLQKEFSAFGEVAEVKLV 76
+SLT+ +P R S+ N P+ + + ++ TL KE++ +L
Sbjct: 86 VDSLTS--DPEIRKGVHLGSVRNLPIEAEGLEDSMTLKEAVDTLVKEWT--------ELD 135
Query: 77 KDEITKKSKGYAFIQYTSQDDALLALESMDHKNL 110
D I AF+ + +++D L A+E+ D + L
Sbjct: 136 PDVIVNTCTTEAFVPFGNKEDLLKAIENNDKERL 169
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 26.2 bits (56), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/70 (20%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 46 IMVRNLPFTTHEHTLQKEFSAFG--EVAEVKLVKDEITKKSKGYAFIQYTSQDDALLALE 103
+ + NL + T + L + + G ++ E+K ++ +SKG+A + S+ + ++
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
Query: 104 SMDHKNLDGR 113
+ + L G+
Sbjct: 64 LLPKRELHGQ 73
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
0.317 0.132 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,515,670
Number of Sequences: 62578
Number of extensions: 161209
Number of successful extensions: 585
Number of sequences better than 100.0: 196
Number of HSP's better than 100.0 without gapping: 148
Number of HSP's successfully gapped in prelim test: 48
Number of HSP's that attempted gapping in prelim test: 388
Number of HSP's gapped (non-prelim): 223
length of query: 153
length of database: 14,973,337
effective HSP length: 90
effective length of query: 63
effective length of database: 9,341,317
effective search space: 588502971
effective search space used: 588502971
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)