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= psy17497
(806 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 52.8 bits (125), Expect = 7e-07, Method: Composition-based stats.
Identities = 29/78 (37%), Positives = 45/78 (57%), Gaps = 4/78 (5%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
LY+GNL+ ITE L + F GP+A+IKIM +++ + N FV + D AL
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNN----KNVNYAFVEYHQSHDANIAL 58
Query: 258 KYLNGKDVQSYEMKLGWG 275
+ LNGK +++ +K+ W
Sbjct: 59 QTLNGKQIENNIVKINWA 76
Score = 48.9 bits (115), Expect = 1e-05, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 3/81 (3%)
Query: 195 TTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGE 254
T NL++G+LN + ++ L F + S +MW D + R GFV+F ++ D +
Sbjct: 87 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMW---DMQTGSSRGYGFVSFTSQDDAQ 143
Query: 255 RALKYLNGKDVQSYEMKLGWG 275
A+ + G+D+ +++ W
Sbjct: 144 NAMDSMQGQDLNGRPLRINWA 164
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%), Gaps = 3/75 (4%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++G L+ EQ L ++F +YG ++ + ++ D E R R GFV F N D + A+
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVV---KDRETQRSRGFGFVTFENIDDAKDAM 71
Query: 258 KYLNGKDVQSYEMKL 272
+NGK V ++++
Sbjct: 72 MAMNGKSVDGRQIRV 86
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 50.4 bits (119), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 45/76 (59%), Gaps = 3/76 (3%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
LY+G+L+ ITE L IF +G + SI++M D E R + GF+ F + + ++AL
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMM---DSETGRSKGYGFITFSDSECAKKAL 85
Query: 258 KYLNGKDVQSYEMKLG 273
+ LNG ++ MK+G
Sbjct: 86 EQLNGFELAGRPMKVG 101
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 49.7 bits (117), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 43/75 (57%), Gaps = 4/75 (5%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++G LN + E+ L +FG++GP++ + ++ R+ ++ R F+ F N D + A
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRT----SKSRGFAFITFENPADAKNAA 65
Query: 258 KYLNGKDVQSYEMKL 272
K +NGK + +K+
Sbjct: 66 KDMNGKSLHGKAIKV 80
>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 = 9e-06, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 46/83 (55%), Gaps = 3/83 (3%)
Query: 191 GDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNR 250
G ++ LY+G+L+ ITE L IF +G + +I +M D + R + GF+ F +
Sbjct: 1 GSSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLM---KDSDTGRSKGYGFITFSDS 57
Query: 251 KDGERALKYLNGKDVQSYEMKLG 273
+ RAL+ LNG ++ M++G
Sbjct: 58 ECARRALEQLNGFELAGRPMRVG 80
>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 = 48.5 bits (114), Expect = 2e-05, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 3/81 (3%)
Query: 195 TTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGE 254
T NL++G+LN + ++ L F + S +MW D + R GFV+F ++ D +
Sbjct: 1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMW---DMQTGSSRGYGFVSFTSQDDAQ 57
Query: 255 RALKYLNGKDVQSYEMKLGWG 275
A+ + G+D+ +++ W
Sbjct: 58 NAMDSMQGQDLNGRPLRINWA 78
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 48.5 bits (114), Expect = 2e-05, Method: Composition-based stats.
Identities = 26/81 (32%), Positives = 44/81 (54%), Gaps = 3/81 (3%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
NL + + + E QL ++F RYGP+ S+KI+ D E + R GFV F + ++A
Sbjct: 44 NLMVNYIPTTVDEVQLRQLFERYGPIESVKIV---CDRETRQSRGYGFVKFQSGSSAQQA 100
Query: 257 LKYLNGKDVQSYEMKLGWGKS 277
+ LNG ++ + +K+ S
Sbjct: 101 IAGLNGFNILNKRLKVALAAS 121
>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 = 47.0 bits (110), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 46/84 (54%), Gaps = 9/84 (10%)
Query: 193 PCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGF--VAFMNR 250
CT LY+GNL+ TE+Q+ E+F + G + I IM +K + CGF V + +R
Sbjct: 39 SCT--LYVGNLSFYTTEEQIYELFSKSGDIKKI-IMGL----DKMKKTACGFCFVEYYSR 91
Query: 251 KDGERALKYLNGKDVQSYEMKLGW 274
D E A++Y+NG + ++ W
Sbjct: 92 ADAENAMRYINGTRLDDRIIRTDW 115
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 46.6 bits (109), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 47/89 (52%), Gaps = 7/89 (7%)
Query: 189 DSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFM 248
D G P T LY+GNL+ +TE ++++F + GP S K++ E + C FV F
Sbjct: 11 DDGQPRT--LYVGNLSRDVTEVLILQLFSQIGPCKSCKMI----TEHTSNDPYC-FVEFY 63
Query: 249 NRKDGERALKYLNGKDVQSYEMKLGWGKS 277
+D AL +NG+ + E+K+ W +
Sbjct: 64 EHRDAAAALAAMNGRKILGKEVKVNWATT 92
>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 = 46.6 bits (109), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 45/78 (57%), Gaps = 3/78 (3%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
++++G+L+P+IT + + F +G ++ +++ D + + GFV+F N+ D E A
Sbjct: 17 HVFVGDLSPEITTEDIKAAFAPFGRISDARVV---KDMATGKSKGYGFVSFFNKWDAENA 73
Query: 257 LKYLNGKDVQSYEMKLGW 274
++ + G+ + +++ W
Sbjct: 74 IQQMGGQWLGGRQIRTNW 91
>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 = 45.8 bits (107), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 3/66 (4%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNLY+ NL IT+ QL IFG+YG + I+ D+ R R FV + R++ +
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNIL---RDKLTGRPRGVAFVRYNKREEAQE 70
Query: 256 ALKYLN 261
A+ LN
Sbjct: 71 AISALN 76
>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 = 45.8 bits (107), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
+LY+G+L+P +TE L E F GP+ SI++ D R +V F D ER
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVC---RDMITRRSLGYAYVNFQQPADAER 72
Query: 256 ALKYLNGKDVQSYEMKLGWGK 276
AL +N ++ +++ W +
Sbjct: 73 ALDTMNFDVIKGKPVRIMWSQ 93
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 45/81 (55%), Gaps = 5/81 (6%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
N+++ NL+ I + L + F +G + S K++ DE ++G GFV F ++ ERA
Sbjct: 105 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVV---CDENGSKGY--GFVHFETQEAAERA 159
Query: 257 LKYLNGKDVQSYEMKLGWGKS 277
++ +NG + ++ +G KS
Sbjct: 160 IEKMNGMLLNDRKVFVGRFKS 180
>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 = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
+LY+G+L+P +TE L E F GP+ SI++ D R +V F D ER
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVC---RDMITRRSLGYAYVNFQQPADAER 67
Query: 256 ALKYLNGKDVQSYEMKLGWGK 276
AL +N ++ +++ W +
Sbjct: 68 ALDTMNFDVIKGKPVRIMWSQ 88
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 45/81 (55%), Gaps = 5/81 (6%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
N+++ NL+ I + L + F +G + S K++ DE ++G GFV F ++ ERA
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVV---CDENGSKGY--GFVHFETQEAAERA 154
Query: 257 LKYLNGKDVQSYEMKLGWGKS 277
++ +NG + ++ +G KS
Sbjct: 155 IEKMNGMLLNDRKVFVGRFKS 175
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 48/90 (53%), Gaps = 6/90 (6%)
Query: 186 GSFDSGDP-CTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGF 244
GS + DP C ++ L+ TE+ L E+F +YGP+A + I++ D++ R R F
Sbjct: 4 GSRANPDPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVY---DQQSRRSRGFAF 58
Query: 245 VAFMNRKDGERALKYLNGKDVQSYEMKLGW 274
V F N D + A + NG ++ +++ +
Sbjct: 59 VYFENVDDAKEAKERANGMELDGRRIRVDF 88
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 45.8 bits (107), Expect = 1e-04, Method: Composition-based stats.
Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 3/66 (4%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNLY+ NL IT+ QL IFG+YG + I+ D+ R R FV + R++ +
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNIL---RDKLTGRPRGVAFVRYNKREEAQE 146
Query: 256 ALKYLN 261
A+ LN
Sbjct: 147 AISALN 152
Score = 42.4 bits (98), Expect = 0.001, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 3/81 (3%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNL + L +T+++L +F GP+ + +IM D + FV F + D +R
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIM---RDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 256 ALKYLNGKDVQSYEMKLGWGK 276
A+K LNG V++ +K+ + +
Sbjct: 61 AIKVLNGITVRNKRLKVSYAR 81
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 50/95 (52%), Gaps = 12/95 (12%)
Query: 187 SFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRY----GPLASIKIMWPRSDEEKARGRNC 242
S++ G+P LYL NL+P++TE+ L+ +F R+ GP ++M R R
Sbjct: 18 SYNPGEPNKV-LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMM-------TGRMRGQ 69
Query: 243 GFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGKS 277
F+ F N++ +AL +NG + + + +GK+
Sbjct: 70 AFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKN 104
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 45/84 (53%), Gaps = 6/84 (7%)
Query: 192 DP-CTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNR 250
DP C ++ L+ TE+ L E+F +YGP+A + I++ D++ R R FV F N
Sbjct: 13 DPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVY---DQQSRRSRGFAFVYFENV 67
Query: 251 KDGERALKYLNGKDVQSYEMKLGW 274
D + A + NG ++ +++ +
Sbjct: 68 DDAKEAKERANGMELDGRRIRVDF 91
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 3/81 (3%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNL + L +T+ +L +F G + S K++ D+ GFV ++ KD ER
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIR---DKVAGHSLGYGFVNYVTAKDAER 59
Query: 256 ALKYLNGKDVQSYEMKLGWGK 276
A+ LNG +QS +K+ + +
Sbjct: 60 AINTLNGLRLQSKTIKVSYAR 80
Score = 37.0 bits (84), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
NLY+ L +T++ + ++F R+G + + +++ D+ R F+ F R + E A
Sbjct: 90 NLYISGLPRTMTQKDVEDMFSRFGRIINSRVLV---DQTTGLSRGVAFIRFDKRSEAEEA 146
Query: 257 LKYLNG 262
+ NG
Sbjct: 147 ITSFNG 152
>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 = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 3/81 (3%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNL + L +T+ +L +F G + S K++ D+ GFV ++ KD ER
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIR---DKVAGHSLGYGFVNYVTAKDAER 59
Query: 256 ALKYLNGKDVQSYEMKLGWGK 276
A+ LNG +QS +K+ + +
Sbjct: 60 AINTLNGLRLQSKTIKVSYAR 80
Score = 37.0 bits (84), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
NLY+ L +T++ + ++F R+G + + +++ D+ R F+ F R + E A
Sbjct: 90 NLYISGLPRTMTQKDVEDMFSRFGRIINSRVLV---DQTTGLSRGVAFIRFDKRSEAEEA 146
Query: 257 LKYLNG 262
+ NG
Sbjct: 147 ITSFNG 152
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 45/76 (59%), Gaps = 3/76 (3%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
++++GN+ + TE+QL +IF GP+ S ++++ D E + + GF + +++ A
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVY---DRETGKPKGYGFCEYQDQETALSA 66
Query: 257 LKYLNGKDVQSYEMKL 272
++ LNG++ +++
Sbjct: 67 MRNLNGREFSGRALRV 82
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 44/82 (53%), Gaps = 6/82 (7%)
Query: 192 DP-CTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNR 250
DP C ++ L+ TE+ L E+F +YGP+A + I++ D++ R R FV F N
Sbjct: 13 DPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVY---DQQSRRSRGFAFVYFENV 67
Query: 251 KDGERALKYLNGKDVQSYEMKL 272
D + A + NG ++ +++
Sbjct: 68 DDAKEAKERANGMELDGRRIRV 89
>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 = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 3/66 (4%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNLY+ NL IT+ QL IFG+YG + I+ D+ R R FV + R++ +
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNIL---RDKLTGRPRGVAFVRYNKREEAQE 157
Query: 256 ALKYLN 261
A+ LN
Sbjct: 158 AISALN 163
Score = 38.1 bits (87), Expect = 0.019, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNL + L T+++L +F GP+ + +I D + FV F + D +R
Sbjct: 15 TNLIVNYLPQDXTDRELYALFRAIGPINTCRI---XRDYKTGYSFGYAFVDFTSEXDSQR 71
Query: 256 ALKYLNGKDVQSYEMKLGWGK 276
A+K LNG V++ +K+ + +
Sbjct: 72 AIKVLNGITVRNKRLKVSYAR 92
>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 = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/84 (30%), Positives = 43/84 (51%), Gaps = 3/84 (3%)
Query: 193 PCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKD 252
P TNL + L +T+ +L +F G + S K++ D+ GFV ++ KD
Sbjct: 2 PGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLI---RDKVAGHSLGYGFVNYVTAKD 58
Query: 253 GERALKYLNGKDVQSYEMKLGWGK 276
ERA+ LNG +QS +K+ + +
Sbjct: 59 AERAINTLNGLRLQSKTIKVSYAR 82
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 2/75 (2%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
T +++G L +T+ +MEIF YG + I + R ++G +V F N + E+
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKG--YAYVEFENPDEAEK 62
Query: 256 ALKYLNGKDVQSYEM 270
ALK+++G + E+
Sbjct: 63 ALKHMDGGQIDGQEI 77
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 45/85 (52%), Gaps = 9/85 (10%)
Query: 187 SFDSGDPCT----TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNC 242
S SGD T NLY+ NL+ I +++L + F +G + S K+M E R +
Sbjct: 3 SGSSGDRITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMM-----EGGRSKGF 57
Query: 243 GFVAFMNRKDGERALKYLNGKDVQS 267
GFV F + ++ +A+ +NG+ V +
Sbjct: 58 GFVCFSSPEEATKAVTEMNGRIVAT 82
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 43.9 bits (102), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 37/65 (56%), Gaps = 3/65 (4%)
Query: 208 TEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERALKYLNGKDVQS 267
TE+ L E+F +YGP+A + I++ D++ R R FV F N D + A + NG ++
Sbjct: 59 TERDLREVFSKYGPIADVSIVY---DQQSRRSRGFAFVYFENVDDAKEAKERANGMELDG 115
Query: 268 YEMKL 272
+++
Sbjct: 116 RRIRV 120
>pdb|2DT6|A Chain A, Solution Structure Of The First Surp Domain Of Human
Splicing Factor Sf3a120
Length = 64
Score = 43.5 bits (101), Expect = 4e-04, Method: Composition-based stats.
Identities = 23/54 (42%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 356 LIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKMYSILQG 409
++ + FV R GP FEA I EI+NP + FL N P H YYR K+ +G
Sbjct: 6 IVDKTASFVARNGPEFEARIRQNEINNPKFNFLNPN-DPYHAYYRHKVSEFKEG 58
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 43.5 bits (101), Expect = 5e-04, Method: Composition-based stats.
Identities = 18/79 (22%), Positives = 45/79 (56%), Gaps = 3/79 (3%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
++++G+L+P+IT + + F +G ++ +++ D + + GFV+F N+ D E A
Sbjct: 17 HVFVGDLSPEITTEDIKSAFAPFGKISDARVV---KDMATGKSKGYGFVSFYNKLDAENA 73
Query: 257 LKYLNGKDVQSYEMKLGWG 275
+ ++ G+ + +++ W
Sbjct: 74 IVHMGGQWLGGRQIRTNWA 92
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 43.1 bits (100), Expect = 6e-04, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 3/81 (3%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNL + L +T+++L +F GP+ + +IM D + FV F + D +R
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIM---RDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 256 ALKYLNGKDVQSYEMKLGWGK 276
A+K LNG V++ +K+ + +
Sbjct: 61 AIKVLNGITVRNKRLKVSYAR 81
>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 = 43.1 bits (100), Expect = 6e-04, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 45/81 (55%), Gaps = 3/81 (3%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNL + L +T+++ +FG G + S K++ D+ + GFV +++ KD E+
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLV---RDKITGQSLGYGFVNYIDPKDAEK 59
Query: 256 ALKYLNGKDVQSYEMKLGWGK 276
A+ LNG +Q+ +K+ + +
Sbjct: 60 AINTLNGLRLQTKTIKVSYAR 80
Score = 43.1 bits (100), Expect = 7e-04, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 39/67 (58%), Gaps = 3/67 (4%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
NLY+ L +T+++L ++F +YG + + +I+ D+ R GF+ F R + E A
Sbjct: 90 NLYVSGLPKTMTQKELEQLFSQYGRIITSRIL---VDQVTGVSRGVGFIRFDKRIEAEEA 146
Query: 257 LKYLNGK 263
+K LNG+
Sbjct: 147 IKGLNGQ 153
>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 = 43.1 bits (100), Expect = 6e-04, Method: Composition-based stats.
Identities = 27/81 (33%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 194 CTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDG 253
CT LY+GNL+ TE+Q+ E+F + G + I + D+ K C FV + +R D
Sbjct: 19 CT--LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGL---DKMKTACGFC-FVEYYSRADA 72
Query: 254 ERALKYLNGKDVQSYEMKLGW 274
E A++Y+NG + ++ W
Sbjct: 73 ENAMRYINGTRLDDRIIRTDW 93
>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 = 43.1 bits (100), Expect = 6e-04, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 48/86 (55%), Gaps = 3/86 (3%)
Query: 192 DPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRK 251
+P + +YLG++ TE+Q++++ GP+ ++K+M+ D + R + F+ F + +
Sbjct: 1 NPPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMF---DPQTGRSKGYAFIEFRDLE 57
Query: 252 DGERALKYLNGKDVQSYEMKLGWGKS 277
A++ LNG + S +K G+ +
Sbjct: 58 SSASAVRNLNGYQLGSRFLKCGYSSN 83
>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 = 43.1 bits (100), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 195 TTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAF 247
+ +++G LN TE L E FG+YG + +KIM D R R GF++F
Sbjct: 3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIM---KDPATGRSRGFGFLSF 52
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 42.7 bits (99), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 39/67 (58%), Gaps = 3/67 (4%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
NLY+ L ++++++ ++F +YG + + +I+ D+ R GF+ F R + E A
Sbjct: 92 NLYVSGLPKTMSQKEMEQLFSQYGRIITSRILL---DQATGVSRGVGFIRFDKRIEAEEA 148
Query: 257 LKYLNGK 263
+K LNG+
Sbjct: 149 IKGLNGQ 155
Score = 39.3 bits (90), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 3/81 (3%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNL + L +T+ + +FG G + S K++ D+ + GFV + + D ++
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVR---DKITGQSLGYGFVNYSDPNDADK 61
Query: 256 ALKYLNGKDVQSYEMKLGWGK 276
A+ LNG +Q+ +K+ + +
Sbjct: 62 AINTLNGLKLQTKTIKVSYAR 82
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 42.7 bits (99), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 39/67 (58%), Gaps = 3/67 (4%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
NLY+ L ++++++ ++F +YG + + +I+ D+ R GF+ F R + E A
Sbjct: 3 NLYVSGLPKTMSQKEMEQLFSQYGRIITSRILL---DQATGVSRGVGFIRFDKRIEAEEA 59
Query: 257 LKYLNGK 263
+K LNG+
Sbjct: 60 IKGLNGQ 66
>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 = 42.4 bits (98), Expect = 0.001, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNL + L T+ +L +F G + S K++ D+ GFV ++ KD ER
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLI---RDKVAGHSLGYGFVNYVTAKDAER 76
Query: 256 ALKYLNGKDVQSYEMKLGWGK 276
A+ LNG +QS +K+ + +
Sbjct: 77 AINTLNGLRLQSKTIKVSYAR 97
>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 = 42.4 bits (98), Expect = 0.001, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 45/80 (56%), Gaps = 3/80 (3%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
+YLG++ TE+Q++++ GP+ ++K+M+ D + R + F+ F + + A+
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMF---DPQTGRSKGYAFIEFRDLESSASAV 62
Query: 258 KYLNGKDVQSYEMKLGWGKS 277
+ LNG + S +K G+ +
Sbjct: 63 RNLNGYQLGSRFLKCGYSSN 82
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 45/80 (56%), Gaps = 3/80 (3%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
+YLG++ TE+Q++++ GP+ ++K+M+ D + R + F+ F + + A+
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMF---DPQTGRSKGYAFIEFRDLESSASAV 61
Query: 258 KYLNGKDVQSYEMKLGWGKS 277
+ LNG + S +K G+ +
Sbjct: 62 RNLNGYQLGSRFLKCGYSSN 81
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 40/68 (58%), Gaps = 6/68 (8%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
LY+ NL KIT +++ +IFG+YGP+ I++ + + RG +V + + D + A
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV----GNTPETRG--TAYVVYEDIFDAKNAC 68
Query: 258 KYLNGKDV 265
+L+G +V
Sbjct: 69 DHLSGFNV 76
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 45/81 (55%), Gaps = 5/81 (6%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
N+++ NL+ I + L + F +G + S K++ DE ++G GFV F ++ ERA
Sbjct: 13 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVC---DENGSKGY--GFVHFETQEAAERA 67
Query: 257 LKYLNGKDVQSYEMKLGWGKS 277
++ +NG + ++ +G KS
Sbjct: 68 IEKMNGMLLNDRKVFVGRFKS 88
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 39.7 bits (91), Expect = 0.006, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 42/70 (60%), Gaps = 6/70 (8%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
LY+ NL KIT +++ +IFG+YGP+ I++ + + RG +V + + D + A+
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV----GNTPETRG--TAYVVYEDIFDAKNAV 64
Query: 258 KYLNGKDVQS 267
+L+G +V +
Sbjct: 65 DHLSGFNVSN 74
>pdb|1UG0|A Chain A, Solution Structure Of Surp Domain In Bab30904
Length = 88
Score = 39.3 bits (90), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 29/64 (45%)
Query: 343 VKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWK 402
+KV P +I ++ FV GP E + M NP + FL + S +YYR K
Sbjct: 17 IKVSPPEGAETRRVIEKLARFVAEGGPELEKVAMEDYKDNPAFTFLHDKNSREFLYYRRK 76
Query: 403 MYSI 406
+ I
Sbjct: 77 VAEI 80
>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 = 39.3 bits (90), Expect = 0.010, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 40/68 (58%), Gaps = 6/68 (8%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
LY+ NL KIT +++ +IFG+YGP+ I++ + + RG +V + + D + A
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV----GNTPETRG--TAYVVYEDIFDAKNAC 74
Query: 258 KYLNGKDV 265
+L+G +V
Sbjct: 75 DHLSGFNV 82
>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 = 38.5 bits (88), Expect = 0.013, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 45/81 (55%), Gaps = 5/81 (6%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
N+++ NL+ I + L + F +G + S K++ DE ++G GFV F ++ ERA
Sbjct: 7 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVV---CDENGSKGY--GFVHFETQEAAERA 61
Query: 257 LKYLNGKDVQSYEMKLGWGKS 277
++ +NG + ++ +G KS
Sbjct: 62 IEKMNGMLLNDRKVFVGRFKS 82
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 38.1 bits (87), Expect = 0.018, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 3/81 (3%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
TNL + L +T+ + +FG G + S K++ D+ + GFV + + D ++
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLV---RDKITGQSLGYGFVNYSDPNDADK 61
Query: 256 ALKYLNGKDVQSYEMKLGWGK 276
A+ LNG +Q+ +K+ + +
Sbjct: 62 AINTLNGLKLQTKTIKVSYAR 82
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 38.1 bits (87), Expect = 0.018, Method: Composition-based stats.
Identities = 24/86 (27%), Positives = 38/86 (44%), Gaps = 10/86 (11%)
Query: 192 DPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRK 251
D T LY+G L ITE L F ++G + +I ++ + + C F+ F R+
Sbjct: 9 DKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVV---------QRQQCAFIQFATRQ 59
Query: 252 DGERAL-KYLNGKDVQSYEMKLGWGK 276
E A K N V + + WG+
Sbjct: 60 AAEVAAEKSFNKLIVNGRRLNVKWGR 85
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 38.1 bits (87), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 39/66 (59%), Gaps = 3/66 (4%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
+Y+G L+ K++E L E+F + GP+ + + P+ D + + GFV F++ +D +
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHM--PK-DRVTGQHQGYGFVEFLSEEDADY 72
Query: 256 ALKYLN 261
A+K ++
Sbjct: 73 AIKIMD 78
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 37.7 bits (86), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 31/49 (63%), Gaps = 3/49 (6%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFV 245
N+Y+GNL T +Q+ E+F ++G + ++K+++ D E + + GFV
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIY---DRETKKPKGFGFV 48
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 37.4 bits (85), Expect = 0.031, Method: Composition-based stats.
Identities = 21/82 (25%), Positives = 40/82 (48%)
Query: 191 GDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNR 250
G ++ L++ NLN TE+ L +F + G + S I ++ GFV +
Sbjct: 1 GSSGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKP 60
Query: 251 KDGERALKYLNGKDVQSYEMKL 272
+ ++ALK L G V +++++
Sbjct: 61 EQAQKALKQLQGHTVDGHKLEV 82
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 37.4 bits (85), Expect = 0.032, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 4/75 (5%)
Query: 188 FDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAF 247
F + + +++GNL ++ E+ L E+F + GPL + I R + K+ GFV F
Sbjct: 9 FPAQEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKS----FGFVCF 64
Query: 248 MNRKDGERALKYLNG 262
+ + A+ LNG
Sbjct: 65 KHPESVSYAIALLNG 79
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 37.0 bits (84), Expect = 0.040, Method: Composition-based stats.
Identities = 19/73 (26%), Positives = 37/73 (50%), Gaps = 4/73 (5%)
Query: 186 GSFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFV 245
G SG +++G ++ ++ E ++ F RYG + +KI+ R+ K GFV
Sbjct: 1 GPLGSGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGY----GFV 56
Query: 246 AFMNRKDGERALK 258
+F N D ++ ++
Sbjct: 57 SFYNDVDVQKIVE 69
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 37.0 bits (84), Expect = 0.043, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 6/80 (7%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
+Y+GNL P I + + ++F +YG + I + + + G FV F + +D E A+
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDIDL------KNRRGGPPFAFVEFEDPRDAEDAV 78
Query: 258 KYLNGKDVQSYEMKLGWGKS 277
+G D Y +++ + +S
Sbjct: 79 YGRDGYDYDGYRLRVEFPRS 98
>pdb|1X4O|A Chain A, Solution Structure Of Surp Domain In Splicing Factor 4
Length = 78
Score = 36.6 bits (83), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 27/60 (45%)
Query: 344 KVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKM 403
KV P D L ++ F+ GP E + + N + FL++ S + YYR K+
Sbjct: 8 KVSPPEDEEAKNLAEKLARFIADGGPEVETIALQNNRENQAFSFLYDPNSQGYRYYRQKL 67
>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 = 36.2 bits (82), Expect = 0.079, Method: Composition-based stats.
Identities = 21/68 (30%), Positives = 39/68 (57%), Gaps = 6/68 (8%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L + NL KIT +++ +IFG+YGP+ I++ + + RG +V + + D + A
Sbjct: 21 LMIRNLPYKITAEEMYDIFGKYGPIRQIRV----GNTPETRG--TAYVVYEDIFDAKNAC 74
Query: 258 KYLNGKDV 265
+L+G +V
Sbjct: 75 DHLSGFNV 82
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 36.2 bits (82), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 37/83 (44%), Gaps = 11/83 (13%)
Query: 195 TTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGE 254
+T L++GN++P T Q+L F YGP+ I+ ++ FV +D
Sbjct: 10 STKLHVGNISPTCTNQELRAKFEEYGPVIECDIV-----------KDYAFVHMERAEDAV 58
Query: 255 RALKYLNGKDVQSYEMKLGWGKS 277
A++ L+ + Q M + S
Sbjct: 59 EAIRGLDNTEFQGKRMHVQLSTS 81
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 35.8 bits (81), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++G ++ K TE + +F +G + +I+ R + +RG C FV F R + A+
Sbjct: 98 LFIGMISKKCTENDIRVMFSSFGQIEECRIL--RGPDGLSRG--CAFVTFTTRAMAQTAI 153
Query: 258 KYLN 261
K ++
Sbjct: 154 KAMH 157
Score = 34.7 bits (78), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
+++G + +E+ L E+F +YG + I ++ RS + + + C FV F RK A
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRS-QNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 258 KYLNGKDV 265
L+ V
Sbjct: 65 NALHNMKV 72
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 35.8 bits (81), Expect = 0.098, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 45/75 (60%), Gaps = 5/75 (6%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++ N+ + + L ++FG++G + ++I++ +E ++G GFV F N D +RA
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIF---NERGSKG--FGFVTFENSADADRAR 72
Query: 258 KYLNGKDVQSYEMKL 272
+ L+G V+ ++++
Sbjct: 73 EKLHGTVVEGRKIEV 87
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 35.8 bits (81), Expect = 0.098, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 45/75 (60%), Gaps = 5/75 (6%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++ N+ + + L ++FG++G + ++I++ +E ++G GFV F N D +RA
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIF---NERGSKG--FGFVTFENSADADRAR 86
Query: 258 KYLNGKDVQSYEMKL 272
+ L+G V+ ++++
Sbjct: 87 EKLHGTVVEGRKIEV 101
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 35.8 bits (81), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++G ++ K TE + +F +G + +I+ R + +RG C FV F R + A+
Sbjct: 110 LFIGMISKKCTENDIRVMFSSFGQIEECRIL--RGPDGLSRG--CAFVTFTTRAMAQTAI 165
Query: 258 KYLN 261
K ++
Sbjct: 166 KAMH 169
Score = 34.7 bits (78), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
+++G + +E+ L E+F +YG + I ++ RS + + + C FV F RK A
Sbjct: 18 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRS-QNPPQSKGCCFVTFYTRKAALEAQ 76
Query: 258 KYLNGKDV 265
L+ V
Sbjct: 77 NALHNMKV 84
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 35.8 bits (81), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 44/90 (48%), Gaps = 11/90 (12%)
Query: 187 SFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVA 246
S SG L++ NL +TE+ L + F ++G L +K + ++ F+
Sbjct: 3 SGSSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL-----------KDYAFIH 51
Query: 247 FMNRKDGERALKYLNGKDVQSYEMKLGWGK 276
F R +A++ +NGKD++ +++ + K
Sbjct: 52 FDERDGAVKAMEEMNGKDLEGENIEIVFAK 81
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 35.8 bits (81), Expect = 0.11, Method: Composition-based stats.
Identities = 20/74 (27%), Positives = 40/74 (54%), Gaps = 4/74 (5%)
Query: 191 GDPCTTNLYLGNLNPKITEQQLMEIFGRYGP-LASIKIMWPRSDEEKARGRNCGFVAFMN 249
G ++ +++GNL+P+I E+ L + F +G L + KIM D + + F+ F +
Sbjct: 1 GSSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIM---RDPDTGNSKGYAFINFAS 57
Query: 250 RKDGERALKYLNGK 263
+ A++ +NG+
Sbjct: 58 FDASDAAIEAMNGQ 71
>pdb|4FLB|A Chain A, Cid Of Human Rprd2
Length = 132
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 50/111 (45%), Gaps = 15/111 (13%)
Query: 486 FCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILHNCGIKISNASFYRRGFES 545
+C+E+ I M+ L +A ++ YL +D++ NC K NA +R F
Sbjct: 30 WCIENKKHHSTIVYHWMKWL--RRSAYPHRLNLFYLANDVIQNC--KRKNAIIFRESFAD 85
Query: 546 RLFQIFTEMHITYVNLESRLKAEGLRTRVMQVFRAWEDWAVYPKDYLIKLQ 596
L + + +K + V ++F+ WED VYP++ ++ L+
Sbjct: 86 VLPEA-----------AALVKDPSVSKSVERIFKIWEDRNVYPEEMIVALR 125
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 35.4 bits (80), Expect = 0.13, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
+++G L+ + T++ L E FG++G + +M D R R GFV FM++ ++ L
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVM---RDPLTKRSRGFGFVTFMDQAGVDKVL 59
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 35.0 bits (79), Expect = 0.16, Method: Composition-based stats.
Identities = 22/80 (27%), Positives = 41/80 (51%), Gaps = 3/80 (3%)
Query: 193 PCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKD 252
P NL++ +L + T+ L F +G + S K+ D++ + + GFV+F N
Sbjct: 38 PEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVF---IDKQTSLSKCFGFVSFDNPDS 94
Query: 253 GERALKYLNGKDVQSYEMKL 272
+ A+K +NG V + +K+
Sbjct: 95 AQVAIKAMNGFQVGTKRLKV 114
>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 = 35.0 bits (79), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
+++G + +E+ L E+F +YG + I ++ RS + + + C FV F RK A
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRS-QNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 258 KYLNGKDV 265
L+ V
Sbjct: 65 NALHNMKV 72
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 35.0 bits (79), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 40/86 (46%), Gaps = 11/86 (12%)
Query: 191 GDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNR 250
G+ T L++ + E +L EIFG +GP+ +KI+ FV F
Sbjct: 27 GELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL-----------NGFAFVEFEEA 75
Query: 251 KDGERALKYLNGKDVQSYEMKLGWGK 276
+ +A++ ++GK + +++ + K
Sbjct: 76 ESAAKAIEEVHGKSFANQPLEVVYSK 101
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 35.0 bits (79), Expect = 0.18, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 5/73 (6%)
Query: 185 KGSFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGF 244
+GS C +++G L+ + T++ L E FG++G + +M D R R GF
Sbjct: 17 RGSHMGSSGC--KMFIGGLSWQTTQEGLREYFGQFGEVKECLVM---RDPLTKRSRGFGF 71
Query: 245 VAFMNRKDGERAL 257
V FM++ ++ L
Sbjct: 72 VTFMDQAGVDKVL 84
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 35.0 bits (79), Expect = 0.18, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 187 SFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVA 246
S G +++G ++ ++ E ++ F RYG + +KI+ R+ K GFV+
Sbjct: 1 SLPEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGY----GFVS 56
Query: 247 FMNRKDGERALK 258
F N D ++ ++
Sbjct: 57 FYNDVDVQKIVE 68
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 34.7 bits (78), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 9/78 (11%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++GNL ITE+ +F RYG + + I R R GF+ +R E A
Sbjct: 25 LFVGNLPTDITEEDFKRLFERYGEPSEVFI---------NRDRGFGFIRLESRTLAEIAK 75
Query: 258 KYLNGKDVQSYEMKLGWG 275
L+G ++S +++ +
Sbjct: 76 AELDGTILKSRPLRIRFA 93
Score = 30.0 bits (66), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L + NL+P ++ + L + F ++GP+ ++ +++ R GFV F + +AL
Sbjct: 99 LTVKNLSPVVSNELLEQAFSQFGPVEKAVVVV----DDRGRATGKGFVEFAAKPPARKAL 154
Query: 258 K 258
+
Sbjct: 155 E 155
>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 = 34.7 bits (78), Expect = 0.21, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 187 SFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVA 246
S G +++G ++ ++ E ++ F RYG + +KI+ R+ K GFV+
Sbjct: 1 SLPEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGY----GFVS 56
Query: 247 FMNRKDGERALK 258
F N D ++ ++
Sbjct: 57 FYNDVDVQKIVE 68
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 34.3 bits (77), Expect = 0.27, Method: Composition-based stats.
Identities = 19/88 (21%), Positives = 39/88 (44%), Gaps = 9/88 (10%)
Query: 189 DSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFM 248
+ P +Y G + +T+Q + + F +G + I++ +P + FV F
Sbjct: 19 NQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRV-FPE--------KGYSFVRFS 69
Query: 249 NRKDGERALKYLNGKDVQSYEMKLGWGK 276
+ A+ +NG ++ + +K WGK
Sbjct: 70 THESAAHAIVSVNGTTIEGHVVKCYWGK 97
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 34.3 bits (77), Expect = 0.27, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 3/81 (3%)
Query: 191 GDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNR 250
G ++ LY+ L P T+Q L+++ YG + S K + D+ + + GFV F +
Sbjct: 1 GSSGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAIL---DKTTNKCKGYGFVDFDSP 57
Query: 251 KDGERALKYLNGKDVQSYEMK 271
++A+ L VQ+ K
Sbjct: 58 SAAQKAVTALKASGVQAQMAK 78
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 6/76 (7%)
Query: 192 DPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRK 251
DP TNLY+ NL + EQ+L + +G + S +I+ R +RG GF + +
Sbjct: 24 DP--TNLYISNLPLSMDEQELENMLKPFGQVISTRIL--RDSSGTSRG--VGFARMESTE 77
Query: 252 DGERALKYLNGKDVQS 267
E + + NGK +++
Sbjct: 78 KCEAVIGHFNGKFIKT 93
>pdb|2ADC|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd34 Complexed With Cucucu Rna
pdb|2EVZ|A Chain A, Structure Of Rna Binding Domains 3 And 4 Of Polypyrimidine
Tract Binding Protein
Length = 229
Score = 34.3 bits (77), Expect = 0.32, Method: Composition-based stats.
Identities = 20/80 (25%), Positives = 38/80 (47%), Gaps = 9/80 (11%)
Query: 198 LYLGNLNP-KITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
L + NLNP ++T Q L +FG YG + +KI++ + + V + + A
Sbjct: 37 LLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKEN--------ALVQMADGNQAQLA 88
Query: 257 LKYLNGKDVQSYEMKLGWGK 276
+ +LNG + +++ K
Sbjct: 89 MSHLNGHKLHGKPIRITLSK 108
>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 = 33.9 bits (76), Expect = 0.37, Method: Composition-based stats.
Identities = 18/79 (22%), Positives = 44/79 (55%), Gaps = 3/79 (3%)
Query: 197 NLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
++++G+L+P+IT + F +G ++ +++ D + + GFV+F N+ D E A
Sbjct: 8 HVFVGDLSPEITTAAIAAAFAPFGRISDARVV---KDMATGKSKGYGFVSFFNKWDAENA 64
Query: 257 LKYLNGKDVQSYEMKLGWG 275
++ + G+ + +++ W
Sbjct: 65 IQQMGGQWLGGRQIRTNWA 83
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 33.9 bits (76), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 38/82 (46%), Gaps = 11/82 (13%)
Query: 195 TTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGE 254
T L++ + E +L EIFG +GP+ +KI+ FV F +
Sbjct: 4 NTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL-----------NGFAFVEFEEAESAA 52
Query: 255 RALKYLNGKDVQSYEMKLGWGK 276
+A++ ++GK + +++ + K
Sbjct: 53 KAIEEVHGKSFANQPLEVVYSK 74
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 33.9 bits (76), Expect = 0.41, Method: Composition-based stats.
Identities = 20/80 (25%), Positives = 38/80 (47%), Gaps = 9/80 (11%)
Query: 198 LYLGNLNP-KITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
L + NLNP ++T Q L +FG YG + +KI++ + + V + + A
Sbjct: 6 LLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKEN--------ALVQMADGNQAQLA 57
Query: 257 LKYLNGKDVQSYEMKLGWGK 276
+ +LNG + +++ K
Sbjct: 58 MSHLNGHKLHGKPIRITLSK 77
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 43/96 (44%), Gaps = 13/96 (13%)
Query: 187 SFDSGDPCTTN----LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNC 242
S SGD T + LY+ NL +E+ + + F P A E + R+
Sbjct: 3 SGSSGDEDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAV---------ERVKKIRDY 53
Query: 243 GFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGKSV 278
FV F NR+D A+K LNGK + +++ K V
Sbjct: 54 AFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPV 89
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 33.1 bits (74), Expect = 0.61, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 199 YLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERALK 258
++G + +E+ L E+F +YG + I ++ RS + + + C FV F RK A
Sbjct: 7 FVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRS-QNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 259 YLNGKDV 265
L+ V
Sbjct: 66 ALHNXKV 72
Score = 32.3 bits (72), Expect = 1.2, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 4/61 (6%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++G ++ K TE + F +G + +I+ R + +RG C FV F R + A+
Sbjct: 98 LFIGXISKKCTENDIRVXFSSFGQIEECRIL--RGPDGLSRG--CAFVTFTTRAXAQTAI 153
Query: 258 K 258
K
Sbjct: 154 K 154
>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 = 32.7 bits (73), Expect = 0.76, Method: Composition-based stats.
Identities = 20/85 (23%), Positives = 44/85 (51%), Gaps = 3/85 (3%)
Query: 193 PCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKD 252
P NL++ +L + +Q L+++F +G + S K+ D++ + GFV++ N
Sbjct: 23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVF---IDKQTNLSKCFGFVSYDNPVS 79
Query: 253 GERALKYLNGKDVQSYEMKLGWGKS 277
+ A++ +NG + +K+ +S
Sbjct: 80 AQAAIQSMNGFQIGMKRLKVQLKRS 104
>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 = 0.77, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 35/72 (48%), Gaps = 11/72 (15%)
Query: 190 SGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMN 249
SG L++GNL + TEQ++ +F +YG + I+ +N GFV +
Sbjct: 3 SGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII-----------KNYGFVHIED 51
Query: 250 RKDGERALKYLN 261
+ E A++ L+
Sbjct: 52 KTAAEDAIRNLH 63
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 32.7 bits (73), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 39/80 (48%), Gaps = 9/80 (11%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGER 255
+ L++GNL P ITE+++ ++F +YG + I + + GF+ R E
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI---------HKDKGFGFIRLETRTLAEI 73
Query: 256 ALKYLNGKDVQSYEMKLGWG 275
A L+ ++ ++++ +
Sbjct: 74 AKVELDNMPLRGKQLRVRFA 93
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 32.7 bits (73), Expect = 0.82, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 14/74 (18%)
Query: 193 PCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRN---CGFVAFMN 249
P +Y+GNL + +L FG YGPL S+ + RN FV F +
Sbjct: 71 PLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWV-----------ARNPPGFAFVEFED 119
Query: 250 RKDGERALKYLNGK 263
+D A++ L+G+
Sbjct: 120 PRDAADAVRELDGR 133
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 32.7 bits (73), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 11/75 (14%)
Query: 190 SGDPCTTNLYLGNLNPKITEQQLMEIFG-RYGPLASIKIMWPRSDEEKARGRNCGFVAFM 248
SG LY+GNL+P +T L ++FG R PLA ++ FV +
Sbjct: 3 SGSSGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL----------KSGYAFVDYP 52
Query: 249 NRKDGERALKYLNGK 263
++ RA++ L+GK
Sbjct: 53 DQNWAIRAIETLSGK 67
>pdb|2E60|A Chain A, Solution Structure Of The Surp1 Domain In Splicing Factor,
ArginineSERINE-Rich 8
Length = 101
Score = 32.3 bits (72), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 345 VVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFL 388
V +P + +I R FV R+G FE M+ K+ N + FL
Sbjct: 19 VELPPTAKMHAIIERTASFVCRQGAQFEIMLKAKQARNSQFDFL 62
>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 = 32.3 bits (72), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 43/88 (48%), Gaps = 15/88 (17%)
Query: 191 GDPCTT--NLYLGNLNPKITEQQL----MEIFGRYGPLASIKIMWPRSDEEKARGRNCGF 244
G TT NL++GNLNP + +L E+F + LA + D R G+
Sbjct: 7 GSESTTPFNLFIGNLNPNKSVAELKVAISELFAK-NDLAVV-------DVRTGTNRKFGY 58
Query: 245 VAFMNRKDGERALKYLNGKDVQSYEMKL 272
V F + +D E+AL+ L G V E+KL
Sbjct: 59 VDFESAEDLEKALE-LTGLKVFGNEIKL 85
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 32.3 bits (72), Expect = 1.0, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 14/74 (18%)
Query: 193 PCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRN---CGFVAFMN 249
P +Y+GNL + +L FG YGPL S+ + RN FV F +
Sbjct: 71 PLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWV-----------ARNPPGFAFVEFED 119
Query: 250 RKDGERALKYLNGK 263
+D A++ L+G+
Sbjct: 120 PRDAADAVRDLDGR 133
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 202 NLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERALKYLN 261
NL+ E L E+F P SI ++ D+ + + F++F R+D RA+ ++
Sbjct: 22 NLSEDTRETDLQELFR---PFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVS 78
Query: 262 GKDVQSYEMKLGWGK 276
G + + W K
Sbjct: 79 GFGYDHLILNVEWAK 93
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 21/87 (24%), Positives = 35/87 (40%), Gaps = 9/87 (10%)
Query: 190 SGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMN 249
S P T Y+GN+ TE L+ +F +G + K +P + C F+ +
Sbjct: 22 SAPPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFK-HYPE--------KGCCFIKYDT 72
Query: 250 RKDGERALKYLNGKDVQSYEMKLGWGK 276
+ + L Q ++ GWGK
Sbjct: 73 HEQAAVCIVALANFPFQGRNLRTGWGK 99
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 11/78 (14%)
Query: 195 TTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGE 254
T +++GN++ T Q+L +F R G + ++ ++ FV D +
Sbjct: 9 TWKIFVGNVSAACTSQELRSLFERRGRVIECDVV-----------KDYAFVHMEKEADAK 57
Query: 255 RALKYLNGKDVQSYEMKL 272
A+ LNGK+V+ + +
Sbjct: 58 AAIAQLNGKEVKGKRINV 75
>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 = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 22/32 (68%)
Query: 196 TNLYLGNLNPKITEQQLMEIFGRYGPLASIKI 227
+ L++GNL P ITE+++ ++F +YG + I
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI 47
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 37/69 (53%), Gaps = 3/69 (4%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++ NL+ +E+ L ++F YGPL+ ++ +P D + + FV FM + +A
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLS--ELHYP-IDSLTKKPKGFAFVTFMFPEHAVKAY 67
Query: 258 KYLNGKDVQ 266
++G+ Q
Sbjct: 68 AEVDGQVFQ 76
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 8/75 (10%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
+Y+GNL + +L F YGPL ++ I R+ A FV F + +D E A+
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIA--RNPPGFA------FVEFEDPRDAEDAV 54
Query: 258 KYLNGKDVQSYEMKL 272
+ L+GK + +++
Sbjct: 55 RGLDGKVICGSRVRV 69
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 8/67 (11%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGF--VAFMNRKDGER 255
L + NL+ +++ + E+F +G L + + RS GR+ G V F + D +
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRS------GRSLGTADVHFERKADALK 84
Query: 256 ALKYLNG 262
A+K NG
Sbjct: 85 AMKQYNG 91
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 39/75 (52%), Gaps = 7/75 (9%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L L NL+ TE+ L E+F + + I P++ K++G F+ F + +D + AL
Sbjct: 18 LVLSNLSYSATEETLQEVFEK-----ATFIKVPQNQNGKSKGY--AFIEFASFEDAKEAL 70
Query: 258 KYLNGKDVQSYEMKL 272
N ++++ ++L
Sbjct: 71 NSCNKREIEGRAIRL 85
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 240 RNCGFVAFMNRKDGERALKYLNGKDVQSYEMKL 272
RNC FV + + ++A+ LNG V+S ++K+
Sbjct: 49 RNCAFVTYEKMESADQAVAELNGTQVESVQLKV 81
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFM 248
+++G L P I E ++ F R+GPL + WP E K+ G+ AF+
Sbjct: 11 VFVGGLPPDIDEDEITASFRRFGPLV---VDWPHKAESKSYFPPKGY-AFL 57
>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 = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/80 (21%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 194 CTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDG 253
+ +Y+G++ ++ E + + F +GP+ SI + W D + + FV + +
Sbjct: 27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSW---DSVTMKHKGFAFVEYEVPEAA 83
Query: 254 ERALKYLNGKDVQSYEMKLG 273
+ AL+ +N + +K+G
Sbjct: 84 QLALEQMNSVMLGGRNIKVG 103
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 3/67 (4%)
Query: 192 DPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRK 251
D T +++G L T+ L + F +G + ++ +D + + R GFV +R
Sbjct: 14 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVI---TDRQTGKSRGYGFVTMADRA 70
Query: 252 DGERALK 258
ERA K
Sbjct: 71 AAERACK 77
>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 = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 38/76 (50%), Gaps = 3/76 (3%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
+Y+G++ ++ E + + F +GP+ SI + W D + + FV + + + AL
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSW---DSVTMKHKGFAFVEYEVPEAAQLAL 72
Query: 258 KYLNGKDVQSYEMKLG 273
+ +N + +K+G
Sbjct: 73 EQMNSVMLGGRNIKVG 88
>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 = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 22/37 (59%)
Query: 240 RNCGFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGK 276
RNC FV + + ++A+ LNG V+S ++K+ +
Sbjct: 73 RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIAR 109
>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 = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 198 LYLGNLNPKITEQQLM-EIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERA 256
+ + NL+ ++ ++ L+ E F +G + I I P +E + C F F N+ ERA
Sbjct: 213 IXIRNLSTELLDENLLRESFEGFGSIEKINI--PAGQKEHSFNNCCAFXVFENKDSAERA 270
Query: 257 LK 258
L+
Sbjct: 271 LQ 272
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAF 247
L++G L+ + TE+ L + ++G L +M D R R GFV F
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVM---RDPASKRSRGFGFVTF 76
>pdb|3EGN|A Chain A, C-Terminal Rna Recognition Motif Of The U11U12 65K PROTEIN
Length = 143
Score = 30.8 bits (68), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 46/93 (49%), Gaps = 3/93 (3%)
Query: 187 SFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLAS--IKIMWPRSDEEKARGRNCGF 244
S++ G+P +Y+ NL + E+ L IFGRY +S +IM+ ++ R + F
Sbjct: 38 SYEPGEP-NCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAF 96
Query: 245 VAFMNRKDGERALKYLNGKDVQSYEMKLGWGKS 277
+ N K +ALK NG + M + + +S
Sbjct: 97 IGLPNEKAAAKALKEANGYVLFGKPMVVQFARS 129
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 40/80 (50%), Gaps = 13/80 (16%)
Query: 197 NLYLGNLNPKITEQQL----MEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKD 252
NL++GNLNP + +L E+F + LA + D R G+V F + +D
Sbjct: 19 NLFIGNLNPNKSVAELKVAISELFAK-NDLAVV-------DVRTGTNRKFGYVDFESAED 70
Query: 253 GERALKYLNGKDVQSYEMKL 272
E+AL+ L G V E+KL
Sbjct: 71 LEKALE-LTGLKVFGNEIKL 89
>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 = 30.8 bits (68), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/77 (20%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++ ++ + TE+ + + F YG + +I + D + V + K+ + A+
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHL---NLDRRTGYLKGYTLVEYETYKEAQAAM 82
Query: 258 KYLNGKDVQSYEMKLGW 274
+ LNG+D+ + + W
Sbjct: 83 EGLNGQDLMGQPISVDW 99
>pdb|1WE5|A Chain A, Crystal Structure Of Alpha-Xylosidase From Escherichia
Coli
pdb|1WE5|B Chain B, Crystal Structure Of Alpha-Xylosidase From Escherichia
Coli
pdb|1WE5|C Chain C, Crystal Structure Of Alpha-Xylosidase From Escherichia
Coli
pdb|1WE5|D Chain D, Crystal Structure Of Alpha-Xylosidase From Escherichia
Coli
pdb|1WE5|E Chain E, Crystal Structure Of Alpha-Xylosidase From Escherichia
Coli
pdb|1WE5|F Chain F, Crystal Structure Of Alpha-Xylosidase From Escherichia
Coli
Length = 772
Score = 30.8 bits (68), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 389 FENQSPAHIYYRWKMYSIL 407
FEN +PAH+Y RW + +L
Sbjct: 515 FENTAPAHVYKRWCAFGLL 533
>pdb|1XSI|A Chain A, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSI|B Chain B, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSI|C Chain C, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSI|D Chain D, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSI|E Chain E, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSI|F Chain F, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSJ|A Chain A, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSJ|B Chain B, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSJ|C Chain C, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSJ|D Chain D, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSJ|E Chain E, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSJ|F Chain F, Structure Of A Family 31 Alpha Glycosidase
pdb|1XSK|A Chain A, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
Intermediate
pdb|1XSK|B Chain B, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
Intermediate
pdb|1XSK|C Chain C, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
Intermediate
pdb|1XSK|D Chain D, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
Intermediate
pdb|1XSK|E Chain E, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
Intermediate
pdb|1XSK|F Chain F, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
Intermediate
Length = 778
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 389 FENQSPAHIYYRWKMYSIL 407
FEN +PAH+Y RW + +L
Sbjct: 515 FENTAPAHVYKRWCAFGLL 533
>pdb|2F2H|A Chain A, Structure Of The Yici Thiosugar Michaelis Complex
pdb|2F2H|B Chain B, Structure Of The Yici Thiosugar Michaelis Complex
pdb|2F2H|C Chain C, Structure Of The Yici Thiosugar Michaelis Complex
pdb|2F2H|D Chain D, Structure Of The Yici Thiosugar Michaelis Complex
pdb|2F2H|E Chain E, Structure Of The Yici Thiosugar Michaelis Complex
pdb|2F2H|F Chain F, Structure Of The Yici Thiosugar Michaelis Complex
Length = 773
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 389 FENQSPAHIYYRWKMYSIL 407
FEN +PAH+Y RW + +L
Sbjct: 515 FENTAPAHVYKRWCAFGLL 533
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 30.4 bits (67), Expect = 4.1, Method: Composition-based stats.
Identities = 16/65 (24%), Positives = 36/65 (55%), Gaps = 4/65 (6%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++G LN + +E+ ++ +F +G + ++ R + ++G C FV F + + + A+
Sbjct: 18 LFVGMLNKQQSEEDVLRLFQPFGVIDECTVL--RGPDGSSKG--CAFVKFSSHTEAQAAI 73
Query: 258 KYLNG 262
L+G
Sbjct: 74 HALHG 78
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 30.0 bits (66), Expect = 4.7, Method: Composition-based stats.
Identities = 16/77 (20%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++ ++ + TE+ + + F YG + +I + D + V + K+ + A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHL---NLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 258 KYLNGKDVQSYEMKLGW 274
+ LNG+D+ + + W
Sbjct: 67 EGLNGQDLMGQPISVDW 83
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 30.0 bits (66), Expect = 5.6, Method: Composition-based stats.
Identities = 16/77 (20%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++ ++ + TE+ + + F YG + +I + D + V + K+ + A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHL---NLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 258 KYLNGKDVQSYEMKLGW 274
+ LNG+D+ + + W
Sbjct: 67 EGLNGQDLMGQPISVDW 83
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 30.0 bits (66), Expect = 5.8, Method: Composition-based stats.
Identities = 16/77 (20%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++ ++ + TE+ + + F YG + +I + D + V + K+ + A+
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHL---NLDRRTGYLKGYTLVEYETYKEAQAAM 68
Query: 258 KYLNGKDVQSYEMKLGW 274
+ LNG+D+ + + W
Sbjct: 69 EGLNGQDLMGQPISVDW 85
>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 = 29.6 bits (65), Expect = 6.1, Method: Composition-based stats.
Identities = 16/77 (20%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERAL 257
L++ ++ + TE+ + + F YG + +I + D + V + K+ + A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHL---NLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 258 KYLNGKDVQSYEMKLGW 274
+ LNG+D+ + + W
Sbjct: 67 EGLNGQDLMGQPISVDW 83
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 29.6 bits (65), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 8/67 (11%)
Query: 198 LYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGF--VAFMNRKDGER 255
L + NL+ +++ + E+F +G L + + RS GR+ G V F R D +
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRS------GRSLGTADVHFERRADALK 91
Query: 256 ALKYLNG 262
A+K G
Sbjct: 92 AMKQYKG 98
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 18/85 (21%)
Query: 188 FDSGDPCT--------TNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARG 239
FDSG C L + NL+ +++ + E+F +G L + + RS G
Sbjct: 22 FDSG--CGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRS------G 73
Query: 240 RNCGF--VAFMNRKDGERALKYLNG 262
R+ G V F R D +A+K G
Sbjct: 74 RSLGTADVHFERRADALKAMKQYKG 98
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 19/83 (22%), Positives = 36/83 (43%), Gaps = 5/83 (6%)
Query: 190 SGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMN 249
SG +++ NL T + L + F G +++ E + + CG V F +
Sbjct: 3 SGSSGACQIFVRNLPFDFTWKMLKDKFNECG-----HVLYADIKMENGKSKGCGVVKFES 57
Query: 250 RKDGERALKYLNGKDVQSYEMKL 272
+ ERA + +NG + E+ +
Sbjct: 58 PEVAERACRMMNGMKLSGREIDV 80
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
0.312 0.130 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,492,262
Number of Sequences: 62578
Number of extensions: 929969
Number of successful extensions: 1783
Number of sequences better than 100.0: 140
Number of HSP's better than 100.0 without gapping: 64
Number of HSP's successfully gapped in prelim test: 76
Number of HSP's that attempted gapping in prelim test: 1656
Number of HSP's gapped (non-prelim): 168
length of query: 806
length of database: 14,973,337
effective HSP length: 107
effective length of query: 699
effective length of database: 8,277,491
effective search space: 5785966209
effective search space used: 5785966209
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)