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= psy882
(253 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 65.5 bits (158), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 34/74 (45%), Positives = 45/74 (60%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+ +T+ D+ FS FG I R + D+ TG S+GVA+IRF K SEA +A+ NG P
Sbjct: 98 RTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNGHKPPG 157
Query: 91 HSKPIKVLIAAKLE 104
S+PI V AA LE
Sbjct: 158 SSEPITVXFAANLE 171
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+++T+D+LR FS G ++ + ++D+ G S G ++ + +A +A+ +NG L
Sbjct: 12 QNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG--LRL 69
Query: 91 HSKPIKV 97
SK IKV
Sbjct: 70 QSKTIKV 76
>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 = 64.7 bits (156), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 34/74 (45%), Positives = 45/74 (60%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+ +T+ D+ FS FG I R + D+ TG S+GVA+IRF K SEA +A+ NG P
Sbjct: 98 RTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNGHKPPG 157
Query: 91 HSKPIKVLIAAKLE 104
S+PI V AA LE
Sbjct: 158 SSEPITVKFAANLE 171
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+++T+D+LR FS G ++ + ++D+ G S G ++ + +A +A+ +NG L
Sbjct: 12 QNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG--LRL 69
Query: 91 HSKPIKV 97
SK IKV
Sbjct: 70 QSKTIKV 76
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 57.4 bits (137), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 30/66 (45%), Positives = 42/66 (63%), Gaps = 2/66 (3%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNH 91
++TED LR F PFG I+ I+ + D TG SKG +I FS + A KA+E++NG L
Sbjct: 37 NITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELA-- 94
Query: 92 SKPIKV 97
+P+KV
Sbjct: 95 GRPMKV 100
>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 = 57.0 bits (136), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 13 SREYNDEPPHSRLFIL-CGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFS 71
S + D H +F+ ++T +D++ F+PFG I + R VKD TG+SKG ++ F
Sbjct: 6 SGQKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFF 65
Query: 72 KTSEAAKAVEEMNGEFL 88
+A A+++M G++L
Sbjct: 66 NKWDAENAIQQMGGQWL 82
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 55.5 bits (132), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/66 (43%), Positives = 42/66 (63%), Gaps = 2/66 (3%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNH 91
++TED LR F PFG I I +KD +TG SKG +I FS + A +A+E++NG L
Sbjct: 16 NITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAG- 74
Query: 92 SKPIKV 97
+P++V
Sbjct: 75 -RPMRV 79
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 55.5 bits (132), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 13 SREYNDEPPHSRLFIL-CGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFS 71
S + D H +F+ ++T +D++ F+PFG I + R VKD TG+SKG ++ F
Sbjct: 6 SGQKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFY 65
Query: 72 KTSEAAKAVEEMNGEFL 88
+A A+ M G++L
Sbjct: 66 NKLDAENAIVHMGGQWL 82
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/55 (43%), Positives = 37/55 (67%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
+D E DL++ F PFG+I I KD+ TG+SKG A+I F + +AA+A+ ++G
Sbjct: 25 EDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG 79
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 50/83 (60%), Gaps = 3/83 (3%)
Query: 20 PPHSRLFI-LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAK 78
P H +LF+ + K +EDD+R+ F FGNI+E ++ + G SKG A++++S +EA
Sbjct: 13 PSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPD-GNSKGCAFVKYSSHAEAQA 71
Query: 79 AVEEMNG-EFLPNHSKPIKVLIA 100
A+ ++G + +P S + V A
Sbjct: 72 AINALHGSQTMPGASSSLVVKFA 94
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 43/70 (61%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
K +T+ +L Q FS +G I R + D+ TG S+GV +IRF K EA +A++ +NG+
Sbjct: 98 KTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSG 157
Query: 91 HSKPIKVLIA 100
++PI V A
Sbjct: 158 ATEPITVKFA 167
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+++T+++ R F G I+ + V+D+ TG+S G ++ + +A KA+ +NG L
Sbjct: 12 QNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNG--LRL 69
Query: 91 HSKPIKV 97
+K IKV
Sbjct: 70 QTKTIKV 76
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 37/103 (35%), Positives = 54/103 (52%), Gaps = 4/103 (3%)
Query: 24 RLFIL-CGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEE 82
+LFI ++ E L+ F G I E+ +KDR T +S+G A+I F ++A A ++
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 83 MNGEFLPNHSKPIKVLIAAKLEFKEGYRGGQKISVQYTSPQSA 125
MNG+ L H K IKV A K F+ G R S + SP +
Sbjct: 68 MNGKSL--HGKAIKVEQAKKPSFQSGGRRRPPASSRNRSPSGS 108
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 28/72 (38%), Positives = 42/72 (58%), Gaps = 4/72 (5%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNHS 92
+ ++ LR+ FSPFG I + + + G SKG ++ FS EA KAV EMNG + +
Sbjct: 27 IDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEMNGRIVA--T 82
Query: 93 KPIKVLIAAKLE 104
KP+ V +A + E
Sbjct: 83 KPLYVALAQRKE 94
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 43/70 (61%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
K +++ ++ Q FS +G I R + D+ TG S+GV +IRF K EA +A++ +NG+
Sbjct: 11 KTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLG 70
Query: 91 HSKPIKVLIA 100
++PI V A
Sbjct: 71 AAEPITVKFA 80
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 43/70 (61%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
K +++ ++ Q FS +G I R + D+ TG S+GV +IRF K EA +A++ +NG+
Sbjct: 100 KTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLG 159
Query: 91 HSKPIKVLIA 100
++PI V A
Sbjct: 160 AAEPITVKFA 169
Score = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 42/67 (62%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+++T+D+ + F G+I+ + V+D+ TG+S G ++ +S ++A KA+ +NG L
Sbjct: 14 QNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNG--LKL 71
Query: 91 HSKPIKV 97
+K IKV
Sbjct: 72 QTKTIKV 78
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 42/70 (60%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+ +T+D L F +G+I + ++D+ TG +GVA++R++K EA +A+ +N
Sbjct: 99 RTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEG 158
Query: 91 HSKPIKVLIA 100
S+P+ V +A
Sbjct: 159 GSQPLSVRLA 168
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 32/55 (58%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
+D+T+ +L F G I R ++D TG S G A++ F+ ++ +A++ +NG
Sbjct: 13 QDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNG 67
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 42/70 (60%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+ +T+D L F +G+I + ++D+ TG +GVA++R++K EA +A+ +N
Sbjct: 110 RTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEG 169
Query: 91 HSKPIKVLIA 100
S+P+ V +A
Sbjct: 170 GSQPLSVRLA 179
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
+D T+ +L F G I R +D TG S G A++ F+ ++ +A++ +NG
Sbjct: 24 QDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVLNG 78
>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 = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 42/70 (60%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+ +T+D L F +G+I + ++D+ TG +GVA++R++K EA +A+ +N
Sbjct: 23 RTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEG 82
Query: 91 HSKPIKVLIA 100
S+P+ V +A
Sbjct: 83 GSQPLSVRLA 92
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 53/104 (50%), Gaps = 4/104 (3%)
Query: 10 HDRSREYNDEPPHSRLFILCGKDVTEDD--LRQGFSPFGNIQEIRCVKDRNTGESKGVAY 67
H + N EP R ++ T D+ LRQ F +G I+ ++ V DR T +S+G +
Sbjct: 29 HIPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGF 88
Query: 68 IRFSKTSEAAKAVEEMNGEFLPNHSKPIKVLIAAKLEFKEGYRG 111
++F S A +A+ +NG + N K +KV +AA + G G
Sbjct: 89 VKFQSGSSAQQAIAGLNGFNILN--KRLKVALAASGHQRPGIAG 130
>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 = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 42/71 (59%), Gaps = 2/71 (2%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNH 91
DVTE L + FSP G I IR +D T S G AY+ F + ++A +A++ MN + +
Sbjct: 26 DVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVI--K 83
Query: 92 SKPIKVLIAAK 102
KP++++ + +
Sbjct: 84 GKPVRIMWSQR 94
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
K + L FS FGNI + V D N SKG ++ F A +A+E+MNG L
Sbjct: 113 KSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKMNGMLL 168
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 44/76 (57%), Gaps = 3/76 (3%)
Query: 32 DVTEDDLRQGFSPFGNI-QEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
++ E L FS FG I Q + ++D +TG SKG A+I F+ + A+E MNG++L N
Sbjct: 16 EIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCN 75
Query: 91 HSKPIKVLIAAKLEFK 106
+PI V A K + K
Sbjct: 76 --RPITVSYAFKKDSK 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 = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 42/71 (59%), Gaps = 2/71 (2%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNH 91
DVTE L + FSP G I IR +D T S G AY+ F + ++A +A++ MN + +
Sbjct: 21 DVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVI--K 78
Query: 92 SKPIKVLIAAK 102
KP++++ + +
Sbjct: 79 GKPVRIMWSQR 89
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
K + L FS FGNI + V D N SKG ++ F A +A+E+MNG L
Sbjct: 108 KSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKMNGMLL 163
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 42/67 (62%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+++T+D+ + F G+I+ + V+D+ TG+S G ++ +S ++A KA+ +NG L
Sbjct: 14 QNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNG--LKL 71
Query: 91 HSKPIKV 97
+K IKV
Sbjct: 72 QTKTIKV 78
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 45/79 (56%), Gaps = 3/79 (3%)
Query: 24 RLFI-LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEE 82
+LF+ + GK T++D+R+ F PFG I E ++ + G SKG A+++F +EA A+
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAEAQAAINT 72
Query: 83 MNGE-FLPNHSKPIKVLIA 100
++ LP S + V A
Sbjct: 73 LHSSRTLPGASSSLVVKFA 91
>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 = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 29/45 (64%)
Query: 44 PFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
PFG I + R VKD TG+SKG ++ F +A A+++M G++L
Sbjct: 29 PFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWL 73
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 36/68 (52%), Gaps = 9/68 (13%)
Query: 27 ILCG---KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEM 83
+ CG +T+ +RQ FSPFG I EIR + KG +++RFS AA A+ +
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVSV 81
Query: 84 NGEFLPNH 91
NG + H
Sbjct: 82 NGTTIEGH 89
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNH 91
D E L Q FS +G I E+ VKDR T S+G ++ F +A A+ MNG+ +
Sbjct: 23 DTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSV--D 80
Query: 92 SKPIKVLIAAK 102
+ I+V A K
Sbjct: 81 GRQIRVDQAGK 91
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 49/88 (55%), Gaps = 3/88 (3%)
Query: 15 EYNDEPPHSRLFI-LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKT 73
E N+ +LFI + K TE+D+R FS FG I+E R ++ + G S+G A++ F+
Sbjct: 88 EKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTR 146
Query: 74 SEAAKAVEEMN-GEFLPNHSKPIKVLIA 100
+ A A++ M+ + + S P+ V A
Sbjct: 147 AMAQTAIKAMHQAQTMEGCSSPMVVKFA 174
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 3/67 (4%)
Query: 34 TEDDLRQGFSPFGNIQEIRCVKDR--NTGESKGVAYIRFSKTSEAAKAVEEM-NGEFLPN 90
+E DLR+ F +G + EI ++DR N +SKG ++ F A +A + N + LP
Sbjct: 16 SEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPG 75
Query: 91 HSKPIKV 97
PI++
Sbjct: 76 MHHPIQM 82
>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 = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+++T+D+LR FS G ++ + ++D+ G S G ++ + +A +A+ +NG L
Sbjct: 14 QNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRL-- 71
Query: 91 HSKPIKV 97
SK IKV
Sbjct: 72 QSKTIKV 78
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGE-FLP 89
+++ E DL+ F FG I E+ +KDR TG KG A++ + + A KA ++ + LP
Sbjct: 23 RNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLP 82
Query: 90 NHSKPIKV 97
++PI+V
Sbjct: 83 GMNRPIQV 90
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 49/88 (55%), Gaps = 3/88 (3%)
Query: 15 EYNDEPPHSRLFI-LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKT 73
E N+ +LFI + K TE+D+R FS FG I+E R ++ + G S+G A++ F+
Sbjct: 100 EKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTR 158
Query: 74 SEAAKAVEEMN-GEFLPNHSKPIKVLIA 100
+ A A++ M+ + + S P+ V A
Sbjct: 159 AMAQTAIKAMHQAQTMEGCSSPMVVKFA 186
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 3/67 (4%)
Query: 34 TEDDLRQGFSPFGNIQEIRCVKDR--NTGESKGVAYIRFSKTSEAAKAVEEM-NGEFLPN 90
+E DLR+ F +G + EI ++DR N +SKG ++ F A +A + N + LP
Sbjct: 28 SEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPG 87
Query: 91 HSKPIKV 97
PI++
Sbjct: 88 MHHPIQM 94
>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 = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
++ T+D+LR FS G ++ + ++D+ G S G ++ + +A +A+ +NG L
Sbjct: 29 QNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG--LRL 86
Query: 91 HSKPIKV 97
SK IKV
Sbjct: 87 QSKTIKV 93
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGE-FLP 89
+ + E DL+ F FG I E+ +KDR TG KG A++ + A KA ++ + LP
Sbjct: 25 RGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSALHEQKTLP 84
Query: 90 NHSKPIKVLIAA 101
++PI+V AA
Sbjct: 85 GMNRPIQVKPAA 96
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 46/79 (58%), Gaps = 3/79 (3%)
Query: 24 RLFI-LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEE 82
+LF+ + K +E+D+ + F PFG I E ++ + G SKG A+++FS +EA A+
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD-GSSKGCAFVKFSSHTEAQAAIHA 75
Query: 83 MNG-EFLPNHSKPIKVLIA 100
++G + +P S + V A
Sbjct: 76 LHGSQTMPGASSSLVVKFA 94
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 46/78 (58%), Gaps = 11/78 (14%)
Query: 22 HSRLFIL-CGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAV 80
++RLF+ DV E +L + F PFG ++E++ + G A++ F + AAKA+
Sbjct: 31 NTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKAI 82
Query: 81 EEMNGEFLPNHSKPIKVL 98
EE++G+ N +P++V+
Sbjct: 83 EEVHGKSFAN--QPLEVV 98
>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 = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 32/57 (56%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
++ ED +RQ F+PFG I+ I D T + KG A++ + A A+E+MN L
Sbjct: 39 ELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVML 95
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMN 84
+D+++DD++ F FG I+ +D TG+ KG +I + K + AV MN
Sbjct: 135 QDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMN 188
>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 = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 32/57 (56%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
++ ED +RQ F+PFG I+ I D T + KG A++ + A A+E+MN L
Sbjct: 24 ELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVML 80
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMN 84
+D+++DD++ F FG I+ +D TG+ KG +I + K + AV MN
Sbjct: 120 QDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMN 173
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 46/95 (48%), Gaps = 9/95 (9%)
Query: 10 HDRSREYNDEPPHSR------LFIL-CGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGES 62
+D + DEP R LF+ ++ TE+D+ F+ +G I+ I DR TG
Sbjct: 5 YDSVEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYL 64
Query: 63 KGVAYIRFSKTSEAAKAVEEMNGEFLPNHSKPIKV 97
KG + + EA A+E +NG+ L +PI V
Sbjct: 65 KGYTLVEYETYKEAQAAMEGLNGQDL--MGQPISV 97
>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 = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 46/95 (48%), Gaps = 9/95 (9%)
Query: 10 HDRSREYNDEPPHSR------LFIL-CGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGES 62
+D + DEP R LF+ ++ TE+D+ F+ +G I+ I DR TG
Sbjct: 4 YDSVEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYL 63
Query: 63 KGVAYIRFSKTSEAAKAVEEMNGEFLPNHSKPIKV 97
KG + + EA A+E +NG+ L +PI V
Sbjct: 64 KGYTLVEYETYKEAQAAMEGLNGQDL--MGQPISV 96
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 33/56 (58%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
+ D LR+ F +G + ++ +DR T ES+G A++RF +A A++ M+G L
Sbjct: 59 TSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVL 114
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
++ TE+D+ F+ +G I+ I DR TG KG + + EA A+E +NG+ L
Sbjct: 17 EEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLM- 75
Query: 91 HSKPIKV 97
+PI V
Sbjct: 76 -GQPISV 81
>pdb|2XB2|D Chain D, Crystal Structure Of The Core
Mago-Y14-Eif4aiii-Barentsz- Upf3b Assembly Shows How
The Ejc Is Bridged To The Nmd Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core
Mago-Y14-Eif4aiii-Barentsz- Upf3b Assembly Shows How
The Ejc Is Bridged To The Nmd Machinery
Length = 90
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
++ TE+D+ F+ +G I+ I DR TG KG + + EA A+E +NG+ L
Sbjct: 17 EEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDL-- 74
Query: 91 HSKPIKV 97
+PI V
Sbjct: 75 MGQPISV 81
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
++ TE+D+ F+ +G I+ I DR TG KG + + EA A+E +NG+ L
Sbjct: 17 EEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDL-- 74
Query: 91 HSKPIKV 97
+PI V
Sbjct: 75 MGQPISV 81
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
++ TE+D+ F+ +G I+ I DR TG KG + + EA A+E +NG+ L
Sbjct: 19 EEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDL-- 76
Query: 91 HSKPIKV 97
+PI V
Sbjct: 77 MGQPISV 83
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 42.7 bits (99), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/81 (32%), Positives = 47/81 (58%), Gaps = 11/81 (13%)
Query: 19 EPPHSRLFILCGK-DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAA 77
E ++RLF+ DV E +L + F PFG ++E++ + G A++ F + AA
Sbjct: 1 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAA 52
Query: 78 KAVEEMNGEFLPNHSKPIKVL 98
KA+EE++G+ N +P++V+
Sbjct: 53 KAIEEVHGKSFAN--QPLEVV 71
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 39/73 (53%), Gaps = 8/73 (10%)
Query: 30 GKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLP 89
G+D+T LR FSPFGNI ++ RN A++ + K A +AV E+NG +
Sbjct: 46 GEDMTPTLLRGAFSPFGNIIDLSMDPPRN------CAFVTYEKMESADQAVAELNGTQV- 98
Query: 90 NHSKPIKVLIAAK 102
S +KV IA K
Sbjct: 99 -ESVQLKVNIARK 110
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 39/73 (53%), Gaps = 8/73 (10%)
Query: 30 GKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLP 89
G+D+T LR FSPFGNI ++ RN A++ + K A +AV E+NG +
Sbjct: 22 GEDMTPTLLRGAFSPFGNIIDLSMDPPRN------CAFVTYEKMESADQAVAELNGTQV- 74
Query: 90 NHSKPIKVLIAAK 102
S +KV IA K
Sbjct: 75 -ESVQLKVNIARK 86
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 32/53 (60%)
Query: 36 DDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
D LR+ F +G + ++ +DR T ES+G A++RF +A A++ M+G L
Sbjct: 85 DTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVL 137
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 31/50 (62%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVE 81
D TED+LR+ F +G + +++ +KD TG S+G ++ F K S + V+
Sbjct: 14 DTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK 63
Score = 31.2 bits (69), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 39/69 (56%), Gaps = 5/69 (7%)
Query: 30 GKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEM-NGEFL 88
G DV + + FS +G I + + + D++TG+S+G ++ T ++A AV+ + +F+
Sbjct: 96 GPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFV----TYDSADAVDRVCQNKFI 151
Query: 89 PNHSKPIKV 97
+ I++
Sbjct: 152 DFKDRKIEI 160
>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 = 42.4 bits (98), Expect = 3e-04, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 40/73 (54%), Gaps = 2/73 (2%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNH 91
+V ++ LR F F + + D TG S+G ++ F+ +A A++ M G+ L +
Sbjct: 12 NVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDL--N 69
Query: 92 SKPIKVLIAAKLE 104
+P+++ AAKLE
Sbjct: 70 GRPLRINWAAKLE 82
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 7/65 (10%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEE---MNGEF-- 87
TE DL++ FS FG + ++ KD TG SKG ++RF++ K + + ++G +
Sbjct: 27 TTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQRHMIDGRWCD 86
Query: 88 --LPN 90
LPN
Sbjct: 87 CKLPN 91
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
TE DLR+ FS +G I ++ V D+ + S+G A++ F +A +A E NG
Sbjct: 24 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 76
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
TE DLR+ FS +G I ++ V D+ + S+G A++ F +A +A E NG
Sbjct: 27 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 2/77 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
++V + L F PFG+I +I+ D T + +G A++ F +AA A++ MN L
Sbjct: 22 EEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESEL-- 79
Query: 91 HSKPIKVLIAAKLEFKE 107
+ I+V +A + KE
Sbjct: 80 FGRTIRVNLAKPMRIKE 96
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
TE DLR+ FS +G I ++ V D+ + S+G A++ F +A +A E NG
Sbjct: 58 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 47/91 (51%), Gaps = 22/91 (24%)
Query: 34 TEDDLRQGFSPFG-NIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNHS 92
TEDD+R G +E+R ++++++G+S+G A++ FS +A + +E HS
Sbjct: 14 TEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEA------NQHS 67
Query: 93 KPIKVLIAAKLEFKEGYRGGQKISVQYTSPQ 123
+ +L GQK+S+ Y+ P+
Sbjct: 68 --LNIL-------------GQKVSMHYSDPK 83
>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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 2/68 (2%)
Query: 15 EYNDEPPHSRLFI-LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKT 73
E N+ +LFI K TE+D+R FS FG I+E R ++ + G S+G A++ F+
Sbjct: 88 EKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPD-GLSRGCAFVTFTTR 146
Query: 74 SEAAKAVE 81
+ A A++
Sbjct: 147 AXAQTAIK 154
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 34 TEDDLRQGFSPFGNIQEIRCVKDR--NTGESKGVAYIRFSKTSEAAKAVEEM-NGEFLPN 90
+E DLR+ F +G + EI ++DR N +SKG ++ F A +A + N + LP
Sbjct: 16 SEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNXKVLPG 75
Query: 91 HSKPIK 96
PI+
Sbjct: 76 XHHPIQ 81
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 20 PPHSRLFIL-CGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAK 78
P LFI ++ T+ DL F PFGN+ + D+ T SK ++ F A
Sbjct: 38 PEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQV 97
Query: 79 AVEEMNG 85
A++ MNG
Sbjct: 98 AIKAMNG 104
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 46/89 (51%), Gaps = 10/89 (11%)
Query: 7 INTHDRSREYND---EPPHSR------LFIL-CGKDVTEDDLRQGFSPFGNIQEIRCVKD 56
I++++R R +D EP R LF+ ++ ED++++ F +G I+ I D
Sbjct: 2 IHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLD 61
Query: 57 RNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
R TG SKG A + + +A A E +NG
Sbjct: 62 RRTGFSKGYALVEYETHKQALAAKEALNG 90
>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 = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMN 84
+D+++DD++ F FG I+ +D TG+ KG +I + K + AV N
Sbjct: 119 QDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXN 172
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMN 84
++ ED +RQ F+PFG I+ I D T + KG A++ + A A+E+ N
Sbjct: 23 ELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQXN 75
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 33/56 (58%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
+T +DL + FS +G + ++ +KD++T +SKGVA+I F A +N + L
Sbjct: 28 LTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQL 83
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
TE DLR+ FS +G I ++ V D+ + S+G A++ F +A +A E NG
Sbjct: 27 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 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 = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 49/96 (51%), Gaps = 12/96 (12%)
Query: 2 DRNYR--INTHDRSREYND---EPPHSR------LFILC-GKDVTEDDLRQGFSPFGNIQ 49
D N R I++++R R +D EP R LF+ ++ ED++++ F +G I+
Sbjct: 41 DSNTREAIHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIK 100
Query: 50 EIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
I DR TG SKG A + + +A A E +NG
Sbjct: 101 NIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNG 136
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 10/68 (14%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNHS 92
VTE+ L + FS FG ++ ++ +KD A+I F + A KA+EEMNG+ L +
Sbjct: 23 VTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEEMNGKDLEGEN 74
Query: 93 KPIKVLIA 100
I+++ A
Sbjct: 75 --IEIVFA 80
>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 = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
K + L FS FGNI + V D N SKG ++ F A +A+E+MNG L
Sbjct: 15 KSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKMNGMLL 70
>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 = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 20 PPHSRLFIL-CGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAK 78
P + LFI ++ + DL Q F PFGN+ + D+ T SK ++ + A
Sbjct: 23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQA 82
Query: 79 AVEEMNG 85
A++ MNG
Sbjct: 83 AIQSMNG 89
>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 = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 29 CGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMN 84
++V + L F PFG+I +I+ D T + +G A++ F +AA A++ MN
Sbjct: 15 LAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN 70
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
K + L FS FGNI + V D N SKG ++ F A +A+E+MNG L
Sbjct: 21 KSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKMNGMLL 76
>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 = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 31/55 (56%)
Query: 30 GKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMN 84
++V + L F PFG+I +I+ D T + +G A++ F +AA A++ MN
Sbjct: 11 AEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN 65
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 31/55 (56%)
Query: 30 GKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMN 84
++V + L F PFG+I +I+ D T + +G A++ F +AA A++ MN
Sbjct: 14 AEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN 68
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 26/44 (59%)
Query: 37 DLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAV 80
DL FS G ++++R + DRN+ SKG+AY+ F + A+
Sbjct: 41 DLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI 84
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 31/55 (56%)
Query: 30 GKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMN 84
++V + L F PFG+I +I+ D T + +G A++ F +AA A++ MN
Sbjct: 72 AEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN 126
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 34/56 (60%), Gaps = 1/56 (1%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDR-NTGESKGVAYIRFSKTSEAAKAVEEMNG 85
++VT+D + + FS +G I+ I +R + SKG AY+ F EA KA++ M+G
Sbjct: 14 RNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDG 69
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNH 91
+V ++ LR F F + + D TG S+G ++ F+ +A A++ M G+ L +
Sbjct: 98 NVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDL--N 155
Query: 92 SKPIKVLIAAK 102
+P+++ AAK
Sbjct: 156 GRPLRINWAAK 166
Score = 35.4 bits (80), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
K +TED L+Q F G I I+ + D+N ++ A++ + ++ +A A++ +NG+ + N
Sbjct: 10 KAITEDILKQYFQVGGPIANIKIMIDKNN-KNVNYAFVEYHQSHDANIALQTLNGKQIEN 68
Query: 91 HSKPIK 96
+ I
Sbjct: 69 NIVKIN 74
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 31/52 (59%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMN 84
T+ LR+ F FG+I+E + DR TG+S+G ++ + + A +A ++ N
Sbjct: 29 TTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPN 80
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
Length = 88
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 3/67 (4%)
Query: 34 TEDDLRQGFSPFGNIQEIRCVKDR--NTGESKGVAYIRFSKTSEAAKAVEEM-NGEFLPN 90
+E DLR+ F +G + EI ++DR N +SKG ++ F A +A + N + LP
Sbjct: 16 SEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPG 75
Query: 91 HSKPIKV 97
PI++
Sbjct: 76 MHHPIQM 82
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 12 RSREYNDEPPHSRLFILCGKDVTEDD-LRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRF 70
R +Y P +LFI + DD +++ + FG ++ VKD TG SKG A+ +
Sbjct: 86 RPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 145
Query: 71 SKTSEAAKAVEEMNG 85
+ +A+ +NG
Sbjct: 146 VDINVTDQAIAGLNG 160
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 12 RSREYNDEPPHSRLFILCGKDVTEDD-LRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRF 70
R +Y P +LFI + DD +++ + FG ++ VKD TG SKG A+ +
Sbjct: 84 RPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 143
Query: 71 SKTSEAAKAVEEMNG 85
+ +A+ +NG
Sbjct: 144 VDINVTDQAIAGLNG 158
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 5/73 (6%)
Query: 21 PHSRLFIL-CGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKA 79
P LF+ +D TE+ L++ F G+++ R V DR TG SKG ++ F+ +A A
Sbjct: 14 PSKTLFVKGLSEDTTEETLKESFD--GSVR-ARIVTDRETGSSKGFGFVDFNSEEDAKAA 70
Query: 80 VEEM-NGEFLPNH 91
E M +GE N
Sbjct: 71 KEAMEDGEIDGNK 83
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 4/69 (5%)
Query: 35 EDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL---PNH 91
E +L PFG + R ++D ++G S+GV + R T + + NG+F+ P
Sbjct: 39 EQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGV 97
Query: 92 SKPIKVLIA 100
S P + L+
Sbjct: 98 SAPTEPLLC 106
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 31 KDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPN 90
+D+T+ +L F G I R ++D TG S G A++ F+ ++ +A++ +NG + N
Sbjct: 13 QDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRN 72
Query: 91 HSKPIKV 97
K +KV
Sbjct: 73 --KRLKV 77
>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 = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 33/54 (61%), Gaps = 5/54 (9%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
++TED+L++ F + EIR V G+SKG+AYI F ++A K +EE G
Sbjct: 110 NITEDELKEVFE---DALEIRLVS--QDGKSKGIAYIEFKSEADAEKNLEEKQG 158
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 33/54 (61%), Gaps = 5/54 (9%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
++TED+L++ F + EIR V G+SKG+AYI F ++A K +EE G
Sbjct: 27 NITEDELKE---VFEDALEIRLVS--QDGKSKGIAYIEFKSEADAEKNLEEKQG 75
>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 = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 42/69 (60%), Gaps = 3/69 (4%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNH 91
T+++L + G ++++R V +R G+ KG+AY+ + S+A++AV +M+G + +
Sbjct: 28 SCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMKMDGMTIKEN 86
Query: 92 SKPIKVLIA 100
IKV I+
Sbjct: 87 --IIKVAIS 93
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 8/54 (14%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGE 86
VTE+ L + FS FG ++ ++ +KD A++ F A KA++EMNG+
Sbjct: 27 VTEEILEKSFSEFGKLERVKKLKD--------YAFVHFEDRGAAVKAMDEMNGK 72
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 15 EYNDEPPHSRLFI--LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSK 72
E ++ PP SRLFI L K+V+++DL + FSP+G+I +I +I+F
Sbjct: 3 EMHNIPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI--------KNAFGFIQFDN 54
Query: 73 TSEAAKAVE----EMN 84
A+E EMN
Sbjct: 55 PQSVRDAIECESQEMN 70
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 31/53 (58%), Gaps = 5/53 (9%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
VT+D+L++ F + EIR V G+SKG+AYI F ++A K EE G
Sbjct: 105 VTQDELKEVFE---DAAEIRLV--SKDGKSKGIAYIEFKTEADAEKTFEEKQG 152
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
+ TE+ L+ FS G + R V DR TG+ KG + + A A+ +NG
Sbjct: 19 EATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNG 72
>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 = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 35 EDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVE 81
E ++R F+ +G+++E++ + DR TG SKG ++ F + K VE
Sbjct: 23 ETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 68
>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 = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 28/54 (51%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
D TE+ + S G + ++ + D TG SKG A+I F +A AV +NG
Sbjct: 15 DQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNG 68
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 28/54 (51%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
D TE+ + S G + ++ + D TG SKG A+I F +A AV +NG
Sbjct: 13 DQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNG 66
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 35/63 (55%), Gaps = 5/63 (7%)
Query: 35 EDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNHSKP 94
E ++R F+ +G+++E++ + DR TG SKG ++ F + K VE + H K
Sbjct: 24 ETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ----INFHGKK 78
Query: 95 IKV 97
+K+
Sbjct: 79 LKL 81
>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 = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 28/54 (51%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
D TE+ + S G + ++ + D TG SKG A+I F +A AV +NG
Sbjct: 14 DQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNG 67
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 35/63 (55%), Gaps = 5/63 (7%)
Query: 35 EDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNHSKP 94
E ++R F+ +G+++E++ + DR TG SKG ++ F + K VE + H K
Sbjct: 23 ETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ----INFHGKK 77
Query: 95 IKV 97
+K+
Sbjct: 78 LKL 80
>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 = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 25 LFIL-CGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEM 83
LF+ D TE LR+ F +G I+ I V + +G+ +G A+I + + A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 84 NGE 86
+G+
Sbjct: 165 DGK 167
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 35.0 bits (79), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEM 83
T+ DL + P+G I + + D+ T + KG ++ F S A KAV +
Sbjct: 17 TTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
>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 = 35.0 bits (79), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 29/53 (54%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
+ +D +++ + FG ++ VKD TG SKG A+ + + +A+ +NG
Sbjct: 126 LNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNG 178
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 35.0 bits (79), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 29/53 (54%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
+ +D +++ + FG ++ VKD TG SKG A+ + + +A+ +NG
Sbjct: 13 LNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNG 65
>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 = 35.0 bits (79), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 34 TEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSK--TSEAAKAVEE 82
T DL FS G+I I + D+ +G KG AYI F++ + +AA A++E
Sbjct: 49 TAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDE 99
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 34.3 bits (77), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 35 EDDLRQGFSPFG-NIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNHS 92
E+ + + F+ G + ++ +++R TG G ++ F+ + A K + ++NG+ LP +
Sbjct: 23 ENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGAT 81
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 34.3 bits (77), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 27/51 (52%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEE 82
D ++ DL+ F+ FG + + D NTG S+G +I F + K +++
Sbjct: 22 DTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
>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 = 0.088, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 31/53 (58%), Gaps = 3/53 (5%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
+T +++ F +G I++IR NT E++G AY+ + +A AV+ ++G
Sbjct: 20 ITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNAVDHLSG 69
>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 = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
D TE LR+ F +G I+ I V + +G+ +G A+I + + A + +G
Sbjct: 113 DTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADG 166
>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 = 33.5 bits (75), Expect = 0.11, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEE----MNGEF 87
D T+ DL+ FS FG + + D TG S+G ++ F ++ K +++ +NG+
Sbjct: 10 DTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKV 69
Query: 88 L 88
+
Sbjct: 70 I 70
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1
In Complex With Ugcaugu
Length = 109
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 37 DLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
DLRQ F FG I ++ + N SKG ++ F +++A +A E+++G
Sbjct: 45 DLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSADADRAREKLHG 91
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 35/70 (50%), Gaps = 14/70 (20%)
Query: 21 PHSRLFI--LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAK 78
P SRLFI L K+V+++DL + FSP+G+I +I +I+F
Sbjct: 1 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI--------KNAFGFIQFDNPQSVRD 52
Query: 79 AVE----EMN 84
A+E EMN
Sbjct: 53 AIECESQEMN 62
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 37 DLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
DLRQ F FG I ++ + N SKG ++ F +++A +A E+++G
Sbjct: 31 DLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSADADRAREKLHG 77
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 46/101 (45%), Gaps = 18/101 (17%)
Query: 23 SRLFI-LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVE 81
RLF+ D+TE+D ++ F +G E+ +DR G +IR + A A
Sbjct: 23 CRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR------GFGFIRLESRTLAEIAKA 76
Query: 82 EMNGEFLPNHSKPIKVLIAAKLEFKEGYRGGQKISVQYTSP 122
E++G L S+P+++ A G ++V+ SP
Sbjct: 77 ELDGTIL--KSRPLRIRFATH---------GAALTVKNLSP 106
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 34/59 (57%), Gaps = 4/59 (6%)
Query: 38 LRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL---PNHSK 93
L++ FS G + ++D++ G+S+G+ + F ++ EA +A+ NG+ L P H K
Sbjct: 32 LKEVFSMAGVVVRADILEDKD-GKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVK 89
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
+T+ + PFG+++ V TG+SKG + + K AA+A ++ G+ L
Sbjct: 107 LTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPL 162
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
+T+ + PFG+++ V TG+SKG + + K AA+A ++ G+ L
Sbjct: 107 LTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPL 162
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
+T+ + PFG+++ V TG+SKG + + K AA+A ++ G+ L
Sbjct: 105 LTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPL 160
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 24/38 (63%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRF 70
T++ LR FS +G + + +KD+ T +S+G +++F
Sbjct: 28 TTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF 65
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 32/65 (49%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNHS 92
+ D LR+ F +G + ++ ++ +T +G A++RF +A A M+G L
Sbjct: 25 TSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRE 84
Query: 93 KPIKV 97
++V
Sbjct: 85 LRVQV 89
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 3/53 (5%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
+T +++ F +G I++IR NT E++G AY+ + +A A + ++G
Sbjct: 24 ITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHLSG 73
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 31.6 bits (70), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 14/68 (20%)
Query: 23 SRLFI--LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAV 80
SRLFI L K+V+++DL + FSP+G+I +I +I+F A+
Sbjct: 23 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI--------KNAFGFIQFDNPQSVRDAI 74
Query: 81 E----EMN 84
E EMN
Sbjct: 75 EXESQEMN 82
>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 = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 3/53 (5%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
+T +++ F +G I++IR NT E++G AY+ + +A A + ++G
Sbjct: 30 ITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHLSG 79
>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 = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 3/53 (5%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNG 85
+T +++ F +G I++IR NT E++G AY+ + +A A + ++G
Sbjct: 30 ITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHLSG 79
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 39/80 (48%), Gaps = 9/80 (11%)
Query: 23 SRLFI-LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVE 81
SRLF+ D+TE+++R+ F +G E+ KD KG +IR + A A
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKV 76
Query: 82 EMNGEFLPNHSKPIKVLIAA 101
E++ +P K ++V A
Sbjct: 77 ELDN--MPLRGKQLRVRFAC 94
>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 = 31.2 bits (69), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 39/80 (48%), Gaps = 9/80 (11%)
Query: 23 SRLFI-LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVE 81
SRLF+ D+TE+++R+ F +G E+ KD KG +IR + A A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKV 69
Query: 82 EMNGEFLPNHSKPIKVLIAA 101
E++ +P K ++V A
Sbjct: 70 ELDN--MPLRGKQLRVRFAC 87
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 6/61 (9%)
Query: 30 GKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLP 89
G +TE DLR F FG I+ I V+ + A+I+F+ A A E+ + +
Sbjct: 21 GDTITETDLRNHFYQFGEIRTITVVQRQQ------CAFIQFATRQAAEVAAEKSFNKLIV 74
Query: 90 N 90
N
Sbjct: 75 N 75
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 30.8 bits (68), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 14/68 (20%)
Query: 23 SRLFI--LCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAV 80
SRLFI L K+V+++DL + FSP+G+I +I +I+F A+
Sbjct: 23 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI--------KNAFGFIQFDNPQSVRDAI 74
Query: 81 E----EMN 84
E EMN
Sbjct: 75 ECESQEMN 82
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 30.8 bits (68), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNHS 92
V+E L + F G + KDR TG+ +G ++ F +A A++ M + + +
Sbjct: 27 VSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM--DMIKLYG 84
Query: 93 KPIKV 97
KPI+V
Sbjct: 85 KPIRV 89
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 30.8 bits (68), Expect = 0.72, Method: Composition-based stats.
Identities = 14/54 (25%), Positives = 27/54 (50%)
Query: 34 TEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEF 87
T++ LR+ F FG ++E ++D T S+G ++ F + K + + E
Sbjct: 13 TQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHEL 66
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 43/95 (45%), Gaps = 13/95 (13%)
Query: 18 DEPPHSRLFIL-CGKDVTEDDLRQGFSPFGNIQE--------IRCVKDRNTGESKGVAYI 68
D ++ +F+ G++VT + + F G I+ I DR TG+ KG A +
Sbjct: 3 DNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATV 62
Query: 69 RFSKTSEAAKAVEEMNG-EFLPNHSKPIKVLIAAK 102
F A A++ +G EF N PIKV A +
Sbjct: 63 SFDDPPSAKAAIDWFDGKEFSGN---PIKVSFATR 94
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 26/50 (52%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEE 82
T++ LR+ F FG ++E ++D T S+G ++ F + K + +
Sbjct: 37 TTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 29/55 (52%)
Query: 34 TEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFL 88
T + +++ FS FG + ++ + DR T + KG ++ + S + + N +F+
Sbjct: 14 TSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLDNTDFM 68
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 37/74 (50%), Gaps = 6/74 (8%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAK-----AVEEMNGE 86
D E+ L + FG+++ +R V +T SKG A+ +F T EAA+ A E G
Sbjct: 26 DSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQF-MTQEAAQKCLAAASLEAEGG 84
Query: 87 FLPNHSKPIKVLIA 100
L + +KV +A
Sbjct: 85 GLKLDGRQLKVDLA 98
>pdb|3ATG|A Chain A, Endo-1,3-Beta-Glucanase From Cellulosimicrobium Cellulans
Length = 256
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 20/35 (57%), Gaps = 3/35 (8%)
Query: 108 GYRGGQKISVQYTSPQSAAYARDKFHGFA--YPPG 140
GY GG I+ Y PQ ++A D FH FA + PG
Sbjct: 141 GYSGGSGITGMYQHPQGWSFA-DTFHTFAVDWKPG 174
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 29 CGKDVTEDDLRQGFSPFGNIQEI 51
C D+TED+LR+ FS +G++ ++
Sbjct: 13 CTGDMTEDELREFFSQYGDVMDV 35
>pdb|2HYK|A Chain A, The Crystal Structure Of An Endo-Beta-1,3-Glucanase From
Alkaliphilic Nocardiopsis Sp.Strain F96
Length = 245
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 108 GYRGGQKISVQYTSPQSAAYARDKFHGFA 136
GY GG+ ++ Y PQ ++A D FH FA
Sbjct: 145 GYFGGEPLTGSYMHPQGWSFA-DTFHTFA 172
>pdb|3IO0|A Chain A, Crystal Structure Of Etub From Clostridium Kluyveri
Length = 230
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 40/161 (24%), Positives = 62/161 (38%), Gaps = 22/161 (13%)
Query: 48 IQEIRCVKDRNTGESKGV-AYIRFSKTSEAAKAVE---EMNGEFLPNHSKPIKVLIAAKL 103
+ I +D G G+ ++ + S+A +AVE + ++L N + + A L
Sbjct: 67 VATIELPRDTKGGAGHGIFIVLKAADVSDARRAVEIALKQTDKYLGN----VYLCDAGHL 122
Query: 104 EFKEGYRGGQKISVQYTSPQSAAYARDKFHGFAYPPGIPMVV---------VPDFSYGLP 154
E + R + +P A+ H A P G+ M+V V +YG P
Sbjct: 123 EVQYTARASLIFEKAFGAPSGQAFG--IMH--AAPAGVGMIVADTALKTADVKLITYGSP 178
Query: 155 RXXXXXXXXXXXXXVV-DSKGALQSLTKALAQATSLLRSAG 194
+ DS LQSLT A S+LRS G
Sbjct: 179 TNGVLSYTNEILITISGDSGAVLQSLTAARKAGLSILRSMG 219
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 36/82 (43%), Gaps = 12/82 (14%)
Query: 29 CGKDVTEDDLRQGFSPFGNIQE--------IRCVKDRNTGESKGVAYIRFSKTSEAAKAV 80
G++VT + + F G I+ I DR TG+ KG A + F A A+
Sbjct: 21 LGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAI 80
Query: 81 EEMNG-EFLPNHSKPIKVLIAA 101
+ +G EF N PIKV A
Sbjct: 81 DWFDGKEFSGN---PIKVSFAT 99
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 26/49 (53%)
Query: 32 DVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAV 80
+ TE+ LR + +G + + ++D + S+G ++ FS +E A+
Sbjct: 38 ETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM 86
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 58 NTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNHSKPIKVLIA 100
TG SKG +++F+ E +A+ E G + SKP+++ +A
Sbjct: 46 QTGVSKGYGFVKFTDELEQKRALTECQGA-VGLGSKPVRLSVA 87
>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 = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 46/100 (46%), Gaps = 12/100 (12%)
Query: 33 VTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAVEEMNGEFLPNHS 92
TE+ + + FS G+I++I D+ + G ++ + ++A A+ +NG L +
Sbjct: 51 TTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDD-- 108
Query: 93 KPIKVLIAAKLEFKEGYRGGQKISVQYTSPQSAAYARDKF 132
+ I+ A FKEG QY +S RD++
Sbjct: 109 RIIRTDWDAG--FKEG--------RQYGRGRSGGQVRDEY 138
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 27.3 bits (59), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 9/60 (15%)
Query: 21 PHSRLFILCGKDVTEDDLRQGFSPFGNIQEIRCVKDRNTGESKGVAYIRFSKTSEAAKAV 80
PH+ CG E +LR+ F FG + E+ + D +G +I F +AV
Sbjct: 19 PHN-----CG----ETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV 69
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
0.318 0.136 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,029,250
Number of Sequences: 62578
Number of extensions: 259440
Number of successful extensions: 687
Number of sequences better than 100.0: 142
Number of HSP's better than 100.0 without gapping: 114
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 543
Number of HSP's gapped (non-prelim): 159
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)