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= 040633
(167 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 47/78 (60%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
++ +++ LP S+T + + FS++G+VV+V I+ +K +++ G AF+ F K+SA
Sbjct: 16 KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCT 75
Query: 134 ENMNGKFFYGRFILVKIA 151
+N K +GR I IA
Sbjct: 76 RAINNKQLFGRVIKASIA 93
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 53.1 bits (126), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 37/65 (56%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
+T + + LP++MT+ K F G++ K+V +K++ Q LG FV +S AD A+
Sbjct: 4 KTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
Query: 134 ENMNG 138
+NG
Sbjct: 64 NTLNG 68
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 41/64 (64%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T +++ LP ++T+ ++ F ++G +VQ I+ +KL+ +P G AFV ++++E A A+
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 149
Query: 135 NMNG 138
+N
Sbjct: 150 ALNN 153
Score = 33.1 bits (74), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 32/64 (50%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T + + LP+ MT+ + F G + +I+ + + G AFV F+ + + A++
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 135 NMNG 138
+NG
Sbjct: 64 VLNG 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 = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 41/64 (64%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T +++ LP ++T+ ++ F ++G +VQ I+ +KL+ +P G AFV ++++E A A+
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 160
Query: 135 NMNG 138
+N
Sbjct: 161 ALNN 164
Score = 30.0 bits (66), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 30/64 (46%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T + + LP+ T+ + F G + +I + + G AFV F+ + + A++
Sbjct: 15 TNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIK 74
Query: 135 NMNG 138
+NG
Sbjct: 75 VLNG 78
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 37/65 (56%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
+T + + LP++MT+ K F G++ K+V +K++ Q LG FV +S AD A+
Sbjct: 4 KTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
Query: 134 ENMNG 138
+NG
Sbjct: 64 NTLNG 68
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 42/63 (66%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ GLP++M++ +++ FSQ+G ++ +I+ ++ + G F+ F ++ A+ A++ +
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 137 NGK 139
NG+
Sbjct: 153 NGQ 155
>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 = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 49/80 (61%), Gaps = 2/80 (2%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T +++ LP ++T+ ++ F ++G +VQ I+ +KL+ +P G AFV ++++E A A+
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 73
Query: 135 NMNGKFFYG--RFILVKIAE 152
+N G + + V++AE
Sbjct: 74 ALNNVIPEGGSQPLSVRLAE 93
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 44/75 (58%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ +P TE ++K FS+ G VV ++V ++ + +P G F + +E+A A+ N+
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 137 NGKFFYGRFILVKIA 151
NG+ F GR + V A
Sbjct: 71 NGREFSGRALRVDNA 85
>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 = 50.4 bits (119), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 42/78 (53%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
RT + + LP++MT+ ++ FS GEV K++ +K++ LG FV + + A+ A+
Sbjct: 4 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 63
Query: 134 ENMNGKFFYGRFILVKIA 151
+NG + I V A
Sbjct: 64 NTLNGLRLQSKTIKVSYA 81
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 50.1 bits (118), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 42/78 (53%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
RT + + LP++MT+ ++ FS GEV K++ +K++ LG FV + + A+ A+
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 134 ENMNGKFFYGRFILVKIA 151
+NG + I V A
Sbjct: 62 NTLNGLRLQSKTIKVSYA 79
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 39/62 (62%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
++I GLP +MT+ V+ FS+FG ++ +++ ++ + G AF+ F ++ A+ A+ +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 137 NG 138
NG
Sbjct: 151 NG 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 = 50.1 bits (118), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 42/78 (53%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
RT + + LP++MT+ ++ FS GEV K++ +K++ LG FV + + A+ A+
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 134 ENMNGKFFYGRFILVKIA 151
+NG + I V A
Sbjct: 62 NTLNGLRLQSKTIKVSYA 79
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 39/63 (61%)
Query: 76 GIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
++I GLP +MT+ V+ FS+FG ++ +++ ++ + G AF+ F ++ A+ A+ +
Sbjct: 90 NLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITS 149
Query: 136 MNG 138
NG
Sbjct: 150 FNG 152
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 49.7 bits (117), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ GL E + + + AF FG++ ++I + +++ G AFV F E A A++NM
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 137 NGKFFYGRFILVKIA 151
N +GR I V +A
Sbjct: 126 NESELFGRTIRVNLA 140
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ GL E + + + AF FG++ ++I + +++ G AFV F E A A++NM
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 137 NGKFFYGRFILVKIA 151
N +GR I V +A
Sbjct: 75 NESELFGRTIRVNLA 89
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ GL E + + + AF FG++ ++I + +++ G AFV F E A A++NM
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 137 NGKFFYGRFILVKIA 151
N +GR I V +A
Sbjct: 68 NESELFGRTIRVNLA 82
>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 = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ GL E + + + AF FG++ ++I + +++ G AFV F E A A++NM
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 137 NGKFFYGRFILVKIA 151
N +GR I V +A
Sbjct: 70 NESELFGRTIRVNLA 84
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 46/87 (52%), Gaps = 1/87 (1%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQV-KIVTEKLSKQPLGSAFVWFSRKESADLAV 133
+GIFI L + E + FS FG ++Q KI+ + + G AF+ F+ +++D A+
Sbjct: 6 SGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAI 65
Query: 134 ENMNGKFFYGRFILVKIAETGLSKNRG 160
E MNG++ R I V A SK G
Sbjct: 66 EAMNGQYLCNRPITVSYAFKKDSKGSG 92
>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 = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ GL E + + + AF FG++ ++I + +++ G AFV F E A A++NM
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 137 NGKFFYGRFILVKIA 151
N +GR I V +A
Sbjct: 65 NESELFGRTIRVNLA 79
>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 = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 43/63 (68%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ GLP++MT+ +++ FSQ+G ++ +I+ ++++ G F+ F ++ A+ A++ +
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 137 NGK 139
NG+
Sbjct: 151 NGQ 153
Score = 46.6 bits (109), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 37/65 (56%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
+T + + LP++MT+ + F GE+ K+V +K++ Q LG FV + + A+ A+
Sbjct: 2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61
Query: 134 ENMNG 138
+NG
Sbjct: 62 NTLNG 66
>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 = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 8/75 (10%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
IFIK L +S+ + FS FG ++ K+V ++ + G FV F +E+A+ A+E M
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKM 163
Query: 137 NG------KFFYGRF 145
NG K F GRF
Sbjct: 164 NGMLLNDRKVFVGRF 178
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 36/61 (59%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ L +TE + + FS G ++ +++ + ++++ LG A+V F + A+ A++ M
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 77
Query: 137 N 137
N
Sbjct: 78 N 78
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 48/84 (57%), Gaps = 1/84 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
IF+ G+P + E +++ F +FG V +V ++ + ++P G F+ F ++S D AV NM
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV-NM 71
Query: 137 NGKFFYGRFILVKIAETGLSKNRG 160
+ G+ + VK AE SK+ G
Sbjct: 72 HFHDIMGKKVEVKRAEPRDSKSSG 95
>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 = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 41/76 (53%), Gaps = 8/76 (10%)
Query: 76 GIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
IFIK L +S+ + FS FG ++ K+V ++ + G FV F +E+A+ A+E
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEK 157
Query: 136 MNG------KFFYGRF 145
MNG K F GRF
Sbjct: 158 MNGMLLNDRKVFVGRF 173
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 38/68 (55%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ L +TE + + FS G ++ +++ + ++++ LG A+V F + A+ A++ M
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 137 NGKFFYGR 144
N G+
Sbjct: 73 NFDVIKGK 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 = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 8/75 (10%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
IFIK L +S+ + FS FG ++ K+V ++ + G FV F +E+A+ A+E M
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYG--FVHFETQEAAERAIEKM 65
Query: 137 NG------KFFYGRF 145
NG K F GRF
Sbjct: 66 NGMLLNDRKVFVGRF 80
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 8/75 (10%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
IFIK L +S+ + FS FG ++ K+V ++ + G FV F +E+A+ A+E M
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKM 71
Query: 137 NG------KFFYGRF 145
NG K F GRF
Sbjct: 72 NGMLLNDRKVFVGRF 86
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%), Gaps = 2/76 (2%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++K L + + + R++KAFS FG + K++ E + G FV FS E A AV M
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFG--FVCFSSPEEATKAVTEM 75
Query: 137 NGKFFYGRFILVKIAE 152
NG+ + + V +A+
Sbjct: 76 NGRIVATKPLYVALAQ 91
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 46.2 bits (108), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 43/73 (58%), Gaps = 1/73 (1%)
Query: 76 GIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
I++ L S T +VK+ FSQFG+V VK++ ++ +K+P G FV ++ES A+
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEM-QEESVSEAIAK 61
Query: 136 MNGKFFYGRFILV 148
++ F GR I V
Sbjct: 62 LDNTDFMGRTIRV 74
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+FI GL E +K F + G + +V ++ ++ SK G AF+ F A A ++M
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKS-RGFAFITFENPADAKNAAKDM 68
Query: 137 NGKFFYGRFILVKIAETGLSKNRGRR 162
NGK +G+ I V+ A+ ++ GRR
Sbjct: 69 NGKSLHGKAIKVEQAKKPSFQSGGRR 94
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 76 GIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
G+F GL TE +++ FS++G + V IV ++ S++ G AFV+F + A A E
Sbjct: 16 GVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKER 73
Query: 136 MNGKFFYGRFILVKIAET 153
NG GR I V + T
Sbjct: 74 ANGMELDGRRIRVDFSIT 91
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 76 GIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
G+F GL TE +++ FS++G + V IV ++ S++ G AFV+F + A A E
Sbjct: 19 GVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKER 76
Query: 136 MNGKFFYGRFILVKIAET 153
NG GR I V + T
Sbjct: 77 ANGMELDGRRIRVDFSIT 94
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 49/88 (55%), Gaps = 8/88 (9%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F++ L ++TE ++KAFSQFG++ +VK + + AF+ F ++ A A+E M
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEEM 65
Query: 137 NGKFFYGRFILVKIAETGLSKNRGRRTR 164
NGK G I + A+ K + R+ +
Sbjct: 66 NGKDLEGENIEIVFAKPPDQKRKERKAQ 93
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 76 GIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
G+F GL TE +++ FS++G + V IV ++ S++ G AFV+F + A A E
Sbjct: 50 GVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKER 107
Query: 136 MNGKFFYGRFILVKIAET 153
NG GR I V + T
Sbjct: 108 ANGMELDGRRIRVDFSIT 125
>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 = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 36/64 (56%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T + + LP++ T+ ++ FS GEV K++ +K++ LG FV + + A+ A+
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 79
Query: 135 NMNG 138
+NG
Sbjct: 80 TLNG 83
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 42/63 (66%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ GLP++M++ +++ FSQ+G ++ +I+ ++ + G F+ F ++ A+ A++ +
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 137 NGK 139
NG+
Sbjct: 64 NGQ 66
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 42/79 (53%), Gaps = 2/79 (2%)
Query: 76 GIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
G+F GL TE +++ FS++G + V IV ++ S++ G AFV+F + A A E
Sbjct: 19 GVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKER 76
Query: 136 MNGKFFYGRFILVKIAETG 154
NG GR I V +G
Sbjct: 77 ANGMELDGRRIRVSGPSSG 95
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 41/72 (56%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F++ L + +E ++K FS +G + ++ + L+K+P G AFV F E A A +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 137 NGKFFYGRFILV 148
+G+ F GR + V
Sbjct: 71 DGQVFQGRMLHV 82
>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 = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 37/64 (57%)
Query: 91 VKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENMNGKFFYGRFILVKI 150
+++ F ++G V V I ++ +K+ G AFV F K A+ A++ M+G GR + V++
Sbjct: 64 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQM 123
Query: 151 AETG 154
A G
Sbjct: 124 ARYG 127
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ GL E +++ FS++G++ +V +V ++ +++ G FV F + A A+ M
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 137 NGKFFYGRFILVKIA 151
NGK GR I V A
Sbjct: 75 NGKSVDGRQIRVDQA 89
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 43/78 (55%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+ + +P ++ E ++++ F ++G + VKIV ++ ++Q G FV F SA A+ +
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 137 NGKFFYGRFILVKIAETG 154
NG + + V +A +G
Sbjct: 105 NGFNILNKRLKVALAASG 122
>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 = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ L +T +K AF+ FG + ++V + + + G FV F K A+ A++ M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 137 NGKFFYGRFILVKIA 151
G++ GR I A
Sbjct: 78 GGQWLGGRQIRTNWA 92
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 42/80 (52%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T + + L + +++ F ++G V V I ++ +K+ G AFV F K A+ A++
Sbjct: 71 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMD 130
Query: 135 NMNGKFFYGRFILVKIAETG 154
M+G GR + V++A G
Sbjct: 131 AMDGAVLDGRELRVQMARYG 150
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 43/80 (53%), Gaps = 1/80 (1%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T IF+ GLP T+ ++K F FG++ + ++T++ + + G FV + + +A+ A +
Sbjct: 18 TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACK 77
Query: 135 NMNGKFFYGRFILVKIAETG 154
+ N GR V +A G
Sbjct: 78 DPN-PIIDGRKANVNLAYLG 96
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 39/75 (52%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ L +T +K AF+ FG++ ++V + + + G FV F K A+ A+ +M
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 137 NGKFFYGRFILVKIA 151
G++ GR I A
Sbjct: 78 GGQWLGGRQIRTNWA 92
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 6/70 (8%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
++ G+ +T+ +++ FS FG+++++++ EK G +FV FS ESA A+ ++
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK------GYSFVRFSTHESAAHAIVSV 81
Query: 137 NGKFFYGRFI 146
NG G +
Sbjct: 82 NGTTIEGHVV 91
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 40/74 (54%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ + TE ++++ F +G + ++ +V K S +P G AF+ + + A ++
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 137 NGKFFYGRFILVKI 150
+GK GR +LV +
Sbjct: 165 DGKKIDGRRVLVDV 178
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+FI LP+ T+ + F FG V+ K+ +K + FV F +SA +A++ M
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 137 NG 138
NG
Sbjct: 103 NG 104
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 40/74 (54%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ + TE ++++ F +G + ++ +V K S +P G AF+ + + A ++
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 137 NGKFFYGRFILVKI 150
+GK GR +LV +
Sbjct: 165 DGKKIDGRRVLVDV 178
>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 = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 1/80 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+FI GLP S T+ +++ G V +++VT + K P G A+V + + A AV M
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGK-PKGLAYVEYENESQASQAVMKM 78
Query: 137 NGKFFYGRFILVKIAETGLS 156
+G I V I+ +G S
Sbjct: 79 DGMTIKENIIKVAISNSGPS 98
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 33/64 (51%)
Query: 91 VKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENMNGKFFYGRFILVKI 150
+++ F ++G V V I E +K P G AFV F + A A M+G GR + V++
Sbjct: 30 LRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQV 89
Query: 151 AETG 154
A G
Sbjct: 90 ARYG 93
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 33/57 (57%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
IF+ G+ E E ++ F Q+G++ ++I+T++ S + G AFV F +S D V
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 156
Score = 29.6 bits (65), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
+FI GL T+ ++ F Q+G + ++ + +K+ G FV ++ E D A+
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 65
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 33/57 (57%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
IF+ G+ E E ++ F Q+G++ ++I+T++ S + G AFV F +S D V
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Score = 29.6 bits (65), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
+FI GL T+ ++ F Q+G + ++ + +K+ G FV ++ E D A+
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 72
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 33/57 (57%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
IF+ G+ E E ++ F Q+G++ ++I+T++ S + G AFV F +S D V
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 161
Score = 29.6 bits (65), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
+FI GL T+ ++ F Q+G + ++ + +K+ G FV ++ E D A+
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 70
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 33/57 (57%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
IF+ G+ E E ++ F Q+G++ ++I+T++ S + G AFV F +S D V
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 164
Score = 29.3 bits (64), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
+FI GL T+ ++ F Q+G + ++ + +K+ G FV ++ E D A+
Sbjct: 17 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 73
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 33/57 (57%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
IF+ G+ E E ++ F Q+G++ ++I+T++ S + G AFV F +S D V
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 162
Score = 29.3 bits (64), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
+FI GL T+ ++ F Q+G + ++ + +K+ G FV ++ E D A+
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 71
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 33/57 (57%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
IF+ G+ E E ++ F Q+G++ ++I+T++ S + G AFV F +S D V
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Score = 29.3 bits (64), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
+FI GL T+ ++ F Q+G + ++ + +K+ G FV ++ E D A+
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 72
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FSQFG+++ + +V+ L + G AFV F SA A
Sbjct: 11 IYINNLNEKIKKDELKKSLYAIFSQFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 67
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ +M G FY + + ++ A+T
Sbjct: 68 LRSMQGFPFYDKPMRIQYAKTD 89
>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 = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 39/72 (54%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ + + E +++AF+ FG + + + + ++ + G AFV + E+A LA+E M
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 137 NGKFFYGRFILV 148
N GR I V
Sbjct: 76 NSVMLGGRNIKV 87
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/77 (20%), Positives = 39/77 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
I++ + + +++ +K F FG++ + + + + G F+ + + +S+ AV +M
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 172
Query: 137 NGKFFYGRFILVKIAET 153
N G+++ V A T
Sbjct: 173 NLFDLGGQYLRVGKAVT 189
>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 = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 39/72 (54%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ + + E +++AF+ FG + + + + ++ + G AFV + E+A LA+E M
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 137 NGKFFYGRFILV 148
N GR I V
Sbjct: 91 NSVMLGGRNIKV 102
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/77 (20%), Positives = 39/77 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
I++ + + +++ +K F FG++ + + + + G F+ + + +S+ AV +M
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 187
Query: 137 NGKFFYGRFILVKIAET 153
N G+++ V A T
Sbjct: 188 NLFDLGGQYLRVGKAVT 204
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 46/81 (56%), Gaps = 7/81 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FSQFG+++ + +V+ L + G AFV F SA A
Sbjct: 12 IYINNLNEKIKKDELKKSLYAIFSQFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 68
Query: 133 VENMNGKFFYGRFILVKIAET 153
+ +M G FY + + ++ A+T
Sbjct: 69 LRSMQGFPFYDKPMRIQYAKT 89
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 36/64 (56%), Gaps = 1/64 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGE-VVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
+++ L M E + +AF+ GE V+ VKI+ +L+ P G FV F+ +A+ +
Sbjct: 12 LWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71
Query: 136 MNGK 139
+NGK
Sbjct: 72 INGK 75
>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 = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 37/70 (52%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ +P TE ++ S G V+ +K++ + + + G AF+ F ES+ AV N+
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 137 NGKFFYGRFI 146
NG RF+
Sbjct: 67 NGYQLGSRFL 76
>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 = 39.7 bits (91), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 35/67 (52%), Gaps = 4/67 (5%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN- 135
+FI GL T+ +K FS+FGEVV + + ++ + G FV F ES D ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 136 ---MNGK 139
+NGK
Sbjct: 62 EHKLNGK 68
>pdb|1OIA|A Chain A, U1a Rnp Domain 1-95
pdb|1OIA|B Chain B, U1a Rnp Domain 1-95
Length = 95
Score = 39.7 bits (91), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FSQFG+++ + +V+ L + G AFV F SA A
Sbjct: 12 IYINNLNEKIKKDELKKSLYAIFSQFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 68
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ +M G FY + + ++ A+T
Sbjct: 69 LRSMQGFPFYDKPMRIQYAKTD 90
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 37/70 (52%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ +P TE ++ S G V+ +K++ + + + G AF+ F ES+ AV N+
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 137 NGKFFYGRFI 146
NG RF+
Sbjct: 66 NGYQLGSRFL 75
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 37/70 (52%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ +P TE ++ S G V+ +K++ + + + G AF+ F ES+ AV N+
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 137 NGKFFYGRFI 146
NG RF+
Sbjct: 65 NGYQLGSRFL 74
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 35/67 (52%), Gaps = 8/67 (11%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T +F++ P + E + + F FG + +VKI+ G AFV F ESA A+E
Sbjct: 32 TRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKAIE 83
Query: 135 NMNGKFF 141
++GK F
Sbjct: 84 EVHGKSF 90
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 6/55 (10%)
Query: 84 ESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENMNG 138
E MT ++ AFS FG ++ + + P AFV + + ESAD AV +NG
Sbjct: 47 EDMTPTLLRGAFSPFGNIIDLSM------DPPRNCAFVTYEKMESADQAVAELNG 95
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
I + L E E +++ F FG + ++ + +K + Q G AF+ F R+E A A+ +
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV 77
Query: 137 NGKFFYGRFIL 147
+G F Y IL
Sbjct: 78 SG-FGYDHLIL 87
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 6/68 (8%)
Query: 84 ESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENMNGKFFYG 143
E MT ++ AFS FG ++ + + P AFV + + ESAD AV +NG
Sbjct: 23 EDMTPTLLRGAFSPFGNIIDLSM------DPPRNCAFVTYEKMESADQAVAELNGTQVES 76
Query: 144 RFILVKIA 151
+ V IA
Sbjct: 77 VQLKVNIA 84
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 8/68 (11%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
T +F++ P + E + + F FG + +VKI+ G AFV F ESA A+
Sbjct: 4 NTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKAI 55
Query: 134 ENMNGKFF 141
E ++GK F
Sbjct: 56 EEVHGKSF 63
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 37/76 (48%), Gaps = 2/76 (2%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
+GIF++ LP T +K F++ G V+ I E + + G V F E A+ A
Sbjct: 6 SGIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACR 63
Query: 135 NMNGKFFYGRFILVKI 150
MNG GR I V+I
Sbjct: 64 MMNGMKLSGREIDVRI 79
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 4/85 (4%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIV-TEKLSKQPLGSAFVWFSRKESADLAVEN 135
+ + +P + +++ F QFG+++ V+I+ E+ SK G FV F AD A E
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSK---GFGFVTFENSADADRAREK 74
Query: 136 MNGKFFYGRFILVKIAETGLSKNRG 160
++G GR I V A + N G
Sbjct: 75 LHGTVVEGRKIEVNNATARVMTNSG 99
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+FI GLP + + +VK+ + FG + +V + + G AF + D A+ +
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 137 NGKFFYGRFILVKIAETG 154
NG + +LV+ A G
Sbjct: 64 NGMQLGDKKLLVQRASVG 81
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 43/76 (56%), Gaps = 7/76 (9%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T +++ GL +++TE ++ F QFGE+ + +V Q AF+ F+ +++A++A E
Sbjct: 13 TTLYVGGLGDTITETDLRNHFYQFGEIRTITVV------QRQQCAFIQFATRQAAEVAAE 66
Query: 135 -NMNGKFFYGRFILVK 149
+ N GR + VK
Sbjct: 67 KSFNKLIVNGRRLNVK 82
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 47/90 (52%), Gaps = 10/90 (11%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ L +G +++AFS +G + V I ++ P G AFV F A+ AV +
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWI-----ARNPPGFAFVEFEDPRDAEDAVRGL 57
Query: 137 NGKFFYGRFILVKIAETGLSKNRGRRTRYK 166
+GK G + V+++ TG+ RR+R+
Sbjct: 58 DGKVICGSRVRVELS-TGMP----RRSRFD 82
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 39/84 (46%), Gaps = 2/84 (2%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ L +TE + + FSQ G K++TE S P FV F A A+ M
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPY--CFVEFYEHRDAAAALAAM 75
Query: 137 NGKFFYGRFILVKIAETGLSKNRG 160
NG+ G+ + V A T S+ G
Sbjct: 76 NGRKILGKEVKVNWATTPSSQKSG 99
>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 = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+FI GLP + + +VK+ + FG + +V + + G AF + D A+ +
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 176
Query: 137 NGKFFYGRFILVKIAETG 154
NG + +LV+ A G
Sbjct: 177 NGMQLGDKKLLVQRASVG 194
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 9 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 65
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ +M G FY + + ++ A+T
Sbjct: 66 LRSMQGFPFYDKPMRIQYAKTD 87
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ L +++TE +K+ F G + +KI+ +K +K + AFV + + A++A++ +
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKN-VNYAFVEYHQSHDANIALQTL 61
Query: 137 NGK 139
NGK
Sbjct: 62 NGK 64
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 28/47 (59%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWF 123
+F+ GL S T+ ++ FSQ+GEVV I+ +K + Q G FV F
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF 65
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 67
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ +M G FY + + ++ A+T
Sbjct: 68 LRSMQGFPFYDKPMRIQYAKTD 89
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 7 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 63
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ +M G FY + + ++ A+T
Sbjct: 64 LRSMQGFPFYDKPMRIQYAKTD 85
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 38/70 (54%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
+G+++ L ++TE ++ F FG++ + ++ + + + G F+ FS E A A+E
Sbjct: 6 SGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65
Query: 135 NMNGKFFYGR 144
+NG GR
Sbjct: 66 QLNGFELAGR 75
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 68
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ +M G FY + + ++ A+T
Sbjct: 69 LRSMQGFPFYDKPMRIQYAKTD 90
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 6 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 62
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ +M G FY + + ++ A+T
Sbjct: 63 LRSMQGFPFYDKPMRIQYAKTD 84
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 67
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ +M G FY + + ++ A+T
Sbjct: 68 LRSMQGFPFYDKPMRIQYAKTD 89
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 68
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ +M G FY + + ++ A+T
Sbjct: 69 LRSMQGFPFYDKPMRIQYAKTD 90
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 8 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 64
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ +M G FY + + ++ A+T
Sbjct: 65 LRSMQGFPFYDKPMRIQYAKTD 86
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 3/75 (4%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+KGL E TE +K++F V+ +IVT++ + G FV F+ +E A A E M
Sbjct: 18 LFVKGLSEDTTEETLKESFDG---SVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 137 NGKFFYGRFILVKIA 151
G + + A
Sbjct: 75 EDGEIDGNKVTLDWA 89
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKMR--GQAFVIFKEVSSATNA 67
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ +M G FY + + ++ A+T
Sbjct: 68 LRSMQGFPFYDKPMRIQYAKTD 89
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ G+ E TE + F+++GE+ + + ++ + G V + + A A+E +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 137 NGKFFYGRFILVK 149
NG+ G+ I V
Sbjct: 72 NGQDLMGQPISVD 84
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ G+ E TE + F+++GE+ + + ++ + G V + + A A+E +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 137 NGKFFYGRFILVK 149
NG+ G+ I V
Sbjct: 86 NGQDLMGQPISVD 98
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ G+ E TE + F+++GE+ + + ++ + G V + + A A+E +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 137 NGKFFYGRFILVK 149
NG+ G+ I V
Sbjct: 70 NGQDLMGQPISVD 82
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ G+ E TE + F+++GE+ + + ++ + G V + + A A+E +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 137 NGKFFYGRFILVK 149
NG+ G+ I V
Sbjct: 70 NGQDLMGQPISVD 82
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 32/53 (60%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESA 129
+FI +P ++ E +K F +FG++ ++ ++ ++ + G AF+ + +ESA
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESA 68
>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 = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ G+ E TE + F+++GE+ + + ++ + G V + + A A+E +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 137 NGKFFYGRFILVK 149
NG+ G+ I V
Sbjct: 85 NGQDLMGQPISVD 97
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIV-TEKLSKQPLGSAFVWFSRKESADLAVEN 135
+ + +P + +++ F QFG+++ V+I+ E+ SK G FV F AD A E
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSK---GFGFVTFENSADADRAREK 88
Query: 136 MNGKFFYGRFILVKIA 151
++G GR I V A
Sbjct: 89 LHGTVVEGRKIEVNNA 104
>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 = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ G+ E TE + F+++GE+ + + ++ + G V + + A A+E +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 137 NGKFFYGRFILVK 149
NG+ G+ I V
Sbjct: 70 NGQDLMGQPISVD 82
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 36/68 (52%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ L ++TE ++ F FG + ++++ + + + G F+ FS E A A+E +
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 137 NGKFFYGR 144
NG GR
Sbjct: 89 NGFELAGR 96
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 43/95 (45%), Gaps = 8/95 (8%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEV--------VQVKIVTEKLSKQPLGSAFVWFSR 125
+ I+++GL +S+T + F Q G V + I +K + +P G A V +
Sbjct: 15 NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 74
Query: 126 KESADLAVENMNGKFFYGRFILVKIAETGLSKNRG 160
+A AVE +GK F G + V +A N G
Sbjct: 75 PPTAKAAVEWFDGKDFQGSKLKVSLARKKPPMNSG 109
>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 = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 36/75 (48%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+FI GLP + + +VK+ + FG + +V + + G AF + D A+ +
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 158
Query: 137 NGKFFYGRFILVKIA 151
NG + +LV+ A
Sbjct: 159 NGMQLGDKKLLVQRA 173
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 36.2 bits (82), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 36/75 (48%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+FI GLP + + +VK+ + FG + +V + + G AF + D A+ +
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 156
Query: 137 NGKFFYGRFILVKIA 151
NG + +LV+ A
Sbjct: 157 NGMQLGDKKLLVQRA 171
>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 = 36.2 bits (82), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 37/72 (51%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ + + E +++AF+ FG + + + ++ + G AFV + E+A LA+E
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 137 NGKFFYGRFILV 148
N GR I V
Sbjct: 75 NSVXLGGRNIKV 86
>pdb|1A9N|B Chain B, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
pdb|1A9N|D Chain D, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
Length = 96
Score = 36.2 bits (82), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 48/91 (52%), Gaps = 10/91 (10%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I + + + + +K++ FSQFG VV IV K K G AFV F S+ A
Sbjct: 9 IYINNMNDKIKKEELKRSLYALFSQFGHVVD--IVALKTMKMR-GQAFVIFKELGSSTNA 65
Query: 133 VENMNGKFFYGRFILVKIAETG---LSKNRG 160
+ + G FYG+ + ++ A+T +SK RG
Sbjct: 66 LRQLQGFPFYGKPMRIQYAKTDSDIISKMRG 96
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 36.2 bits (82), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 39/63 (61%), Gaps = 8/63 (12%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F++ L ++TE ++K+FS+FG++ +VK + + AFV F + +A A++ M
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVHFEDRGAAVKAMDEM 69
Query: 137 NGK 139
NGK
Sbjct: 70 NGK 72
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 35/74 (47%), Gaps = 2/74 (2%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
IF++ LP T +K F++ G V+ I E + + G V F E A+ A M
Sbjct: 11 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACRMM 68
Query: 137 NGKFFYGRFILVKI 150
NG GR I V+I
Sbjct: 69 NGMKLSGREIDVRI 82
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical
Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens
At 1.95 A Resolution
Length = 89
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
I++ + T ++ F G V +V I+ +K S P G A++ FS KES ++ +
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA-L 67
Query: 137 NGKFFYGRFILV 148
+ F GR I V
Sbjct: 68 DESLFRGRQIKV 79
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 40/81 (49%), Gaps = 3/81 (3%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPL---GSAFVWFSRKESADL 131
+G+FIK L S TE +K FS+ G + I +K L G FV + + E A
Sbjct: 6 SGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQK 65
Query: 132 AVENMNGKFFYGRFILVKIAE 152
A++ + G G + V+I+E
Sbjct: 66 ALKQLQGHTVDGHKLEVRISE 86
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 8/77 (10%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+FI LP TE ++ F Q+G+V++ I+ FV K +A+ A+ N+
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDIIKNY--------GFVHIEDKTAAEDAIRNL 62
Query: 137 NGKFFYGRFILVKIAET 153
+ +G I V+ ++
Sbjct: 63 HHYKLHGVNINVEASKN 79
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
I++ + T ++ F G V +V I+ +K S P G A++ FS KES ++ +
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA-L 66
Query: 137 NGKFFYGRFILV 148
+ F GR I V
Sbjct: 67 DESLFRGRQIKV 78
>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 = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+FI LP+ + + + F FG VV K+ +K + FV + SA A+++M
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 137 NG 138
NG
Sbjct: 88 NG 89
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 35.0 bits (79), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 1/67 (1%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T ++I LP SM E ++ FG+V+ +I+ + S G F E + +
Sbjct: 26 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEAVIG 84
Query: 135 NMNGKFF 141
+ NGKF
Sbjct: 85 HFNGKFI 91
>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 = 0.018, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESAD 130
+FI GL T+ +++ F QFGEV + ++ + L+K+ G FV F + D
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVD 81
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 35.0 bits (79), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 45/87 (51%), Gaps = 4/87 (4%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
+ + + GLP TE +K+ FS FGEV+ V++ + + G FV F+ E+ V+
Sbjct: 16 SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYET---QVK 72
Query: 135 NMNGK-FFYGRFILVKIAETGLSKNRG 160
M+ + GR+ K+ + S++ G
Sbjct: 73 VMSQRHMIDGRWCDCKLPNSKQSQDSG 99
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 35.0 bits (79), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESAD 130
+FI GL T+ +++ F QFGEV + ++ + L+K+ G FV F + D
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVD 56
>pdb|1CX0|A Chain A, Hepatitis Delta Virus Ribozyme
Length = 95
Score = 35.0 bits (79), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 44/82 (53%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 9 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKXR--GQAFVIFKEVSSATNA 65
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ + G FY + ++ A+T
Sbjct: 66 LRSXQGFPFYDKPXRIQYAKTD 87
>pdb|1DRZ|A Chain A, U1a Spliceosomal ProteinHEPATITIS DELTA VIRUS GENOMIC
Ribozyme Complex
Length = 97
Score = 34.7 bits (78), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 44/82 (53%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKXR--GQAFVIFKEVSSATNA 67
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ + G FY + ++ A+T
Sbjct: 68 LRSXQGFPFYDKPXRIQYAKTD 89
>pdb|3CUL|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUL|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3EGZ|A Chain A, Crystal Structure Of An In Vitro Evolved Tetracycline
Aptamer And Artificial Riboswitch
Length = 98
Score = 34.7 bits (78), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 44/82 (53%), Gaps = 7/82 (8%)
Query: 77 IFIKGLPESMTEGRVKKA----FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
I+I L E + + +KK+ FS+FG+++ + +V+ L + G AFV F SA A
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI-LVSRSLKXR--GQAFVIFKEVSSATNA 68
Query: 133 VENMNGKFFYGRFILVKIAETG 154
+ + G FY + ++ A+T
Sbjct: 69 LRSXQGFPFYDKPXRIQYAKTD 90
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 34.7 bits (78), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 13/53 (24%), Positives = 31/53 (58%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESA 129
+F+ +P + E +K F +FG + ++ ++ ++L+ G AF+ + ++SA
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSA 70
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 34.3 bits (77), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 36/78 (46%), Gaps = 1/78 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ L + E + + F Q G + +V I ++ K P FV F ES A+ +
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDREGK-PKSFGFVCFKHPESVSYAIALL 77
Query: 137 NGKFFYGRFILVKIAETG 154
NG YGR I V +G
Sbjct: 78 NGIRLYGRPINVSGPSSG 95
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 34.3 bits (77), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 38/65 (58%), Gaps = 3/65 (4%)
Query: 95 FSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENMNGKFFYGRFILVKIAETG 154
FS G+V V+I++++ S++ G A+V F +S LA+ + G+ G I+V+ ++
Sbjct: 46 FSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQA- 103
Query: 155 LSKNR 159
KNR
Sbjct: 104 -EKNR 107
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 34.3 bits (77), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 43/81 (53%), Gaps = 8/81 (9%)
Query: 77 IFIKGLPESMTEGRVKKAFSQF----GEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
+++K L +TE + F++F G +Q +++T ++ G AF+ F KE A A
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMR----GQAFITFPNKEIAWQA 83
Query: 133 VENMNGKFFYGRFILVKIAET 153
+ +NG YG+ ++++ +
Sbjct: 84 LHLVNGYKLYGKILVIEFGKN 104
>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 = 33.9 bits (76), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 6/82 (7%)
Query: 74 RTG-IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
+TG IF+ G+ + ++ FSQ+G ++ +++ +K + Q G FV + ++ D
Sbjct: 86 KTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRV 145
Query: 133 VENMNGKF--FYGRFILVKIAE 152
+N KF F R I +K AE
Sbjct: 146 CQN---KFIDFKDRKIEIKRAE 164
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 33.9 bits (76), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 32/64 (50%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T + + LP+ MT+ + F G + +I+ + + G AFV F+ + + A++
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 135 NMNG 138
+NG
Sbjct: 64 VLNG 67
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 33.9 bits (76), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 32/62 (51%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
+G++I+GL T+ + K +G++V K + +K + + G FV F +A AV
Sbjct: 6 SGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVT 65
Query: 135 NM 136
+
Sbjct: 66 AL 67
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 33.1 bits (74), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 39/83 (46%), Gaps = 6/83 (7%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
R +F+ LP +TE K+ F ++GE +V I ++ G F+ + A++A
Sbjct: 22 RCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR------GFGFIRLESRTLAEIAK 75
Query: 134 ENMNGKFFYGRFILVKIAETGLS 156
++G R + ++ A G +
Sbjct: 76 AELDGTILKSRPLRIRFATHGAA 98
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 34/67 (50%), Gaps = 2/67 (2%)
Query: 76 GIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
+ +K L ++ +++AFSQFG V + +V + + G FV F+ K A A+E
Sbjct: 98 ALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRA-TGKGFVEFAAKPPARKALER 156
Query: 136 M-NGKFF 141
+G F
Sbjct: 157 CGDGAFL 163
>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 = 33.1 bits (74), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 45/98 (45%), Gaps = 18/98 (18%)
Query: 83 PESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENMNGKFFY 142
PE +T + F +G+V +VKI+ K +A V + A LA+ ++NG +
Sbjct: 44 PERVTPQSLFILFGVYGDVQRVKILFNKKE-----NALVQMADGNQAQLAMSHLNGHKLH 98
Query: 143 GRFILVKIA-------------ETGLSKNRGRRTRYKF 167
G+ I + ++ + GL+K+ G ++F
Sbjct: 99 GKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRF 136
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 32.7 bits (73), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 39/83 (46%), Gaps = 8/83 (9%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEV--------VQVKIVTEKLSKQPLGSAFVWFSRKES 128
IF++GL E++T V F Q G + + + T++ + + G A V F S
Sbjct: 10 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 69
Query: 129 ADLAVENMNGKFFYGRFILVKIA 151
A A++ +GK F G I V A
Sbjct: 70 AKAAIDWFDGKEFSGNPIKVSFA 92
>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 = 32.7 bits (73), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 39/83 (46%), Gaps = 8/83 (9%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEV--------VQVKIVTEKLSKQPLGSAFVWFSRKES 128
IF++GL E++T V F Q G + + + T++ + + G A V F S
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 129 ADLAVENMNGKFFYGRFILVKIA 151
A A++ +GK F G I V A
Sbjct: 76 AKAAIDWFDGKEFSGNPIKVSFA 98
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 32.7 bits (73), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLA 132
IF+ GL + T VK F QFG+V ++ +K + + G FV F ES D+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTF---ESEDIV 54
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 32.7 bits (73), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQ-PLGSAFVWFSRKESADLAV 133
T + I L ++T+ + + FS +G++ + + E++ G A+V F + A+ A+
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKAL 64
Query: 134 ENMNGKFFYGRFI 146
++M+G G+ I
Sbjct: 65 KHMDGGQIDGQEI 77
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 32.7 bits (73), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 45/98 (45%), Gaps = 18/98 (18%)
Query: 83 PESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENMNGKFFY 142
PE +T + F +G+V +VKI+ K +A V + A LA+ ++NG +
Sbjct: 13 PERVTPQSLFILFGVYGDVQRVKILFNKKE-----NALVQMADGNQAQLAMSHLNGHKLH 67
Query: 143 GRFILVKIA-------------ETGLSKNRGRRTRYKF 167
G+ I + ++ + GL+K+ G ++F
Sbjct: 68 GKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRF 105
>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 = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 8/68 (11%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEK--LSKQPLGSAFVWFSRKESADLAVE 134
+F+ G+ M E ++ F+++G V +VKI+T++ +SK G FV F VE
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSK---GYGFVSFYNDVDVQKIVE 68
Query: 135 ---NMNGK 139
N +GK
Sbjct: 69 SQINFHGK 76
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 32.3 bits (72), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 36/63 (57%), Gaps = 5/63 (7%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIV--TEKLSKQPLGSAFVWFSRKESADLAVE 134
+FI + + TE ++ FS FG++ + +I+ + LS+ G AFV F+ + A A++
Sbjct: 110 LFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSR---GCAFVTFTTRAMAQTAIK 166
Query: 135 NMN 137
M+
Sbjct: 167 AMH 169
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 32.3 bits (72), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 36/63 (57%), Gaps = 5/63 (7%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIV--TEKLSKQPLGSAFVWFSRKESADLAVE 134
+FI + + TE ++ FS FG++ + +I+ + LS+ G AFV F+ + A A++
Sbjct: 98 LFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSR---GCAFVTFTTRAMAQTAIK 154
Query: 135 NMN 137
M+
Sbjct: 155 AMH 157
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+ + LP S+T+ + ++ FG + + +V + + Q G F + +K+SA A ++
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 137 NGKFFYGRFILVKIAETG 154
GK R + V + G
Sbjct: 158 LGKPLGPRTLYVHWTDAG 175
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 40/77 (51%), Gaps = 10/77 (12%)
Query: 77 IFIKGLPESMTEGRVKKAFSQF--GEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
++++ L S +E ++K F+ G V +VK + + AFV FS +E A A++
Sbjct: 18 LYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDY--------AFVHFSNREDAVEAMK 69
Query: 135 NMNGKFFYGRFILVKIA 151
+NGK G I V +A
Sbjct: 70 ALNGKVLDGSPIEVTLA 86
>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 = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 34/72 (47%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ + E E +++ F +GE+ + + ++ + G A V + + A A E +
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 137 NGKFFYGRFILV 148
NG G+ I V
Sbjct: 135 NGAEIMGQTIQV 146
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+ + LP S+T+ + ++ FG + + +V + + Q G F + +K+SA A ++
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 137 NGKFFYGRFILVKIAETG 154
GK R + V + G
Sbjct: 158 LGKPLGPRTLYVHWTDAG 175
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 34/73 (46%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ + E E +++ F +GE+ + + ++ + G A V + + A A E +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 137 NGKFFYGRFILVK 149
NG G+ I V
Sbjct: 89 NGAEIMGQTIQVD 101
>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 = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+ + LP S+T+ + ++ FG + + +V + + Q G F + +K+SA A ++
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 155
Query: 137 NGKFFYGRFILVKIAETG 154
GK R + V + G
Sbjct: 156 LGKPLGPRTLYVHWTDAG 173
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 39/82 (47%), Gaps = 8/82 (9%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
IF+ + + T ++ F + G V++ +V + AFV ++ A A+ +
Sbjct: 12 IFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIAQL 63
Query: 137 NGKFFYGRFILVKIAETGLSKN 158
NGK G+ I V+++ G K+
Sbjct: 64 NGKEVKGKRINVELSTKGQKKS 85
>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 = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 8/68 (11%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEK--LSKQPLGSAFVWFSRKESADLAVE 134
+F+ G+ M E ++ F+++G V +VKI+T++ +SK G FV F VE
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSK---GYGFVSFYNDVDVQKIVE 68
Query: 135 ---NMNGK 139
N +GK
Sbjct: 69 SQINFHGK 76
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 8/68 (11%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEK--LSKQPLGSAFVWFSRKESADLAVE 134
+F+ G+ M E ++ F+++G V +VKI+T++ +SK G FV F VE
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSK---GYGFVSFYNDVDVQKIVE 69
Query: 135 ---NMNGK 139
N +GK
Sbjct: 70 SQINFHGK 77
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 31.6 bits (70), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+ + L +++ +++ F++FG + + + ++ S + LG+A V F RK A A++
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQY 89
Query: 137 NGKFFYGRFILVKI 150
NG GR + +++
Sbjct: 90 NGVPLDGRPMNIQL 103
>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 = 31.6 bits (70), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 33/59 (55%), Gaps = 5/59 (8%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIV--TEKLSKQPLGSAFVWFSRKESADLAV 133
+FI + + TE ++ FS FG++ + +I+ + LS+ G AFV F+ + A A+
Sbjct: 98 LFIGXISKKCTENDIRVXFSSFGQIEECRILRGPDGLSR---GCAFVTFTTRAXAQTAI 153
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 31.6 bits (70), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 19/86 (22%), Positives = 39/86 (45%), Gaps = 8/86 (9%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
T + + + + T ++ F ++G V++ IV + AFV R E A A+
Sbjct: 11 TKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDY--------AFVHMERAEDAVEAIR 62
Query: 135 NMNGKFFYGRFILVKIAETGLSKNRG 160
++ F G+ + V+++ + L G
Sbjct: 63 GLDNTEFQGKRMHVQLSTSRLRTASG 88
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 31.6 bits (70), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
+FI GL TE ++ + Q+G++ ++ + SK+ G FV FS D A+
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM 86
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 39/72 (54%), Gaps = 3/72 (4%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
++I+ LP +T + F ++G + Q+++ ++ G+A+V + A AV+++
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETR---GTAYVVYEDIFDAKNAVDHL 67
Query: 137 NGKFFYGRFILV 148
+G R+++V
Sbjct: 68 SGFNVSNRYLVV 79
>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 = 31.2 bits (69), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 36/70 (51%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+++ L TE ++ + FS+ G++ ++ + +K+ K G FV + + A+ A+ +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 137 NGKFFYGRFI 146
NG R I
Sbjct: 102 NGTRLDDRII 111
>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 = 31.2 bits (69), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 37/75 (49%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ L +T + AF+ FG + ++V + + + G FV F K A+ A++ M
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 137 NGKFFYGRFILVKIA 151
G++ GR I A
Sbjct: 69 GGQWLGGRQIRTNWA 83
>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 = 30.8 bits (68), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
R+ +F+ LP +TE ++K F ++G+ +V I +K G F+ + A++A
Sbjct: 15 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIAK 68
Query: 134 ENMNGKFFYGRFILVKIA 151
++ G+ + V+ A
Sbjct: 69 VELDNMPLRGKQLRVRFA 86
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 30.8 bits (68), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 29/58 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
IF+ GL E ++++ F FGEV +++ + + + G F+ F +E +E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 59
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 30.4 bits (67), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 74 RTGIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAV 133
R+ +F+ LP +TE ++K F ++G+ +V I +K G F+ + A++A
Sbjct: 22 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIAK 75
Query: 134 ENMNGKFFYGRFILVKIA 151
++ G+ + V+ A
Sbjct: 76 VELDNMPLRGKQLRVRFA 93
Score = 30.0 bits (66), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 79 IKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENMN- 137
++ LP+ ++ +++AFS FG+V + ++ + + P G V FS K +A A++ +
Sbjct: 101 VRNLPQYVSNELLEEAFSVFGQVERAVVIVDDRGR-PSGKGIVEFSGKPAARKALDRCSE 159
Query: 138 GKFFYGRF 145
G F F
Sbjct: 160 GSFLLTTF 167
>pdb|3S8S|A Chain A, Crystal Structure Of The Rrm Domain Of Human Setd1a
Length = 110
Score = 30.4 bits (67), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 37/73 (50%)
Query: 82 LPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENMNGKFF 141
L +++ E +K ++GEV +V+I+ +++ LG A V F+ A V+N++
Sbjct: 14 LNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSV 73
Query: 142 YGRFILVKIAETG 154
G I ++ G
Sbjct: 74 MGNIIHAQLDIKG 86
>pdb|2A3J|A Chain A, Structure Of Urndesign, A Complete Computational Redesign
Of Human U1a Protein
Length = 127
Score = 30.4 bits (67), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 3/59 (5%)
Query: 99 GEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENMNGKFFYGRFILVKIAETGLSK 157
G+++ + + LS G A++ F+ +ESA VE G F G +++ +ET S+
Sbjct: 58 GDILDIVV---DLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSETPQSQ 113
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 30.4 bits (67), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+ + L +++ +++ F++FG + + + ++ S + LG+A V F RK A A +
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAXKQY 90
Query: 137 NGKFFYGR 144
NG GR
Sbjct: 91 NGVPLDGR 98
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 30.4 bits (67), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 29/58 (50%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
IF+ GL E ++++ F FGEV +++ + + + G F+ F +E +E
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VOD|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VON|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VON|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VOO|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOO|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOP|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auuuu
Length = 193
Score = 30.0 bits (66), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 1/65 (1%)
Query: 76 GIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
++IKG P T +K+ G+V+ +++ L K GS FV F ESA VE
Sbjct: 111 SVYIKGFPTDATLDDIKEWLEDKGQVLNIQM-RRTLHKAFKGSIFVVFDSIESAKKFVET 169
Query: 136 MNGKF 140
K+
Sbjct: 170 PGQKY 174
>pdb|1S79|A Chain A, Solution Structure Of The Central Rrm Of Human La Protein
Length = 103
Score = 30.0 bits (66), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 1/64 (1%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
++IKG P T +K+ G+V+ +++ L K GS FV F ESA VE
Sbjct: 14 VYIKGFPTDATLDDIKEWLEDKGQVLNIQM-RRTLHKAFKGSIFVVFDSIESAKKFVETP 72
Query: 137 NGKF 140
K+
Sbjct: 73 GQKY 76
>pdb|2PE8|A Chain A, Crystal Structure Of The Uhm Domain Of Human Spf45 (free
Form)
pdb|2PEH|A Chain A, Crystal Structure Of The Uhm Domain Of Human Spf45 In
Complex With Sf3b155-Ulm5
pdb|2PEH|B Chain B, Crystal Structure Of The Uhm Domain Of Human Spf45 In
Complex With Sf3b155-Ulm5
Length = 105
Score = 29.6 bits (65), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 120 FVWFSRKESADLAVENMNGKFFYGRFI 146
F+ F R ESA AV ++NG++F GR +
Sbjct: 60 FLEFERVESAIKAVVDLNGRYFGGRVV 86
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 29.6 bits (65), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 6/83 (7%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESAD--LAVE 134
+FI+ L E + + QFG++ V++V ++ G AF F +E+A LA
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77
Query: 135 NMN----GKFFYGRFILVKIAET 153
++ G GR + V +A T
Sbjct: 78 SLEAEGGGLKLDGRQLKVDLAVT 100
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 29.3 bits (64), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 21/32 (65%)
Query: 75 TGIFIKGLPESMTEGRVKKAFSQFGEVVQVKI 106
+G+F+ MTE +++ FSQ+G+V+ V I
Sbjct: 6 SGVFVGRCTGDMTEDELREFFSQYGDVMDVFI 37
>pdb|1ZH5|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
pdb|1ZH5|B Chain B, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
Length = 195
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 1/65 (1%)
Query: 76 GIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
++IKG P T +K+ G+V+ ++ L K GS FV F ESA VE
Sbjct: 113 SVYIKGFPTDATLDDIKEWLEDKGQVLNIQ-XRRTLHKAFKGSIFVVFDSIESAKKFVET 171
Query: 136 MNGKF 140
K+
Sbjct: 172 PGQKY 176
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 7/71 (9%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQ---PLGSAFVWFSRKESADLAV 133
+F+ GLP + E + +F +FG +V V + SK P G AF+ F + S +
Sbjct: 11 VFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALI 69
Query: 134 ENM---NGKFF 141
+ +GK +
Sbjct: 70 DACLEEDGKLY 80
>pdb|1YTY|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
pdb|1YTY|B Chain B, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
Length = 194
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 1/65 (1%)
Query: 76 GIFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN 135
++IKG P T +K+ G+V+ ++ L K GS FV F ESA VE
Sbjct: 112 SVYIKGFPTDATLDDIKEWLEDKGQVLNIQ-XRRTLHKAFKGSIFVVFDSIESAKKFVET 170
Query: 136 MNGKF 140
K+
Sbjct: 171 PGQKY 175
>pdb|2K3K|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd1
Length = 104
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 95 FSQFGEVVQ-VKIVTEKLSKQPLGSAFVWFSRKESADLAVENMNGKFFYGR 144
FSQFG+++ V + T K+ G AFV F SA A+ M G FY +
Sbjct: 31 FSQFGQILDIVALKTLKMR----GQAFVIFKEIGSASNALRTMQGFPFYDK 77
>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 = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 28/57 (49%)
Query: 78 FIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVE 134
F+ GL ++ +K F++FGEVV I + + + G F+ F S + ++
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLD 71
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 8/82 (9%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIV--TEKLSKQPLGSAFVWFSRKESADLAVE 134
+F+ L + +E V++ F FG + + I+ + SK G AFV +S A A+
Sbjct: 18 LFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSK---GCAFVKYSSHAEAQAAIN 74
Query: 135 NMNGKFFY---GRFILVKIAET 153
++G ++VK A+T
Sbjct: 75 ALHGSQTMPGASSSLVVKFADT 96
>pdb|2B0G|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
pdb|2AYM|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
Length = 83
Score = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 5/62 (8%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVENM 136
+F+ LPE E + F+QF +V++V + AFV F+ + ++ A E +
Sbjct: 11 LFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHD-----IAFVEFTTELQSNAAKEAL 65
Query: 137 NG 138
G
Sbjct: 66 QG 67
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 27.3 bits (59), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKI 106
+F+ E MT +++ F Q+GEVV V I
Sbjct: 14 VFVGRCTEDMTAEELQQFFCQYGEVVDVFI 43
>pdb|1SJQ|A Chain A, Nmr Structure Of Rrm1 From Human Polypyrimidine Tract
Binding Protein Isoform 1 (Ptb1)
Length = 105
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 13/92 (14%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN- 135
I I+ LP +TEG V FG+V + ++ K AF+ + +E+A+ V
Sbjct: 19 IHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGK------NQAFIEMNTEEAANTMVNYY 72
Query: 136 ------MNGKFFYGRFILVKIAETGLSKNRGR 161
+ G+ Y +F K +T S N+ R
Sbjct: 73 TSVTPVLRGQPIYIQFSNHKELKTDSSPNQAR 104
>pdb|1XUP|O Chain O, Enterococcus Casseliflavus Glycerol Kinase Complexed With
Glycerol
pdb|1XUP|X Chain X, Enterococcus Casseliflavus Glycerol Kinase Complexed With
Glycerol
Length = 487
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 103 QVKIVTEKLSKQPLGSAFVWFSRKES 128
+ +V +K + QP+ +A VW SR+ S
Sbjct: 80 ETTVVWDKTTGQPIANAIVWQSRQSS 105
>pdb|1R59|O Chain O, Enterococcus Casseliflavus Glycerol Kinase
pdb|1R59|X Chain X, Enterococcus Casseliflavus Glycerol Kinase
Length = 505
Score = 26.9 bits (58), Expect = 5.1, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 103 QVKIVTEKLSKQPLGSAFVWFSRKES 128
+ +V +K + QP+ +A VW SR+ S
Sbjct: 84 ETTVVWDKTTGQPIANAIVWQSRQSS 109
>pdb|3H45|X Chain X, Glycerol Kinase H232e With Ethylene Glycol
pdb|3H45|O Chain O, Glycerol Kinase H232e With Ethylene Glycol
pdb|3H45|C Chain C, Glycerol Kinase H232e With Ethylene Glycol
pdb|3H45|D Chain D, Glycerol Kinase H232e With Ethylene Glycol
pdb|3H46|X Chain X, Glycerol Kinase H232e With Glycerol
pdb|3H46|O Chain O, Glycerol Kinase H232e With Glycerol
Length = 506
Score = 26.9 bits (58), Expect = 5.1, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 103 QVKIVTEKLSKQPLGSAFVWFSRKES 128
+ +V +K + QP+ +A VW SR+ S
Sbjct: 85 ETTVVWDKTTGQPIANAIVWQSRQSS 110
>pdb|3D7E|O Chain O, Enterococcus Casseliflavus Glycerol Kinase Mutant
His232ala Complexed With Glycerol
pdb|3D7E|X Chain X, Enterococcus Casseliflavus Glycerol Kinase Mutant
His232ala Complexed With Glycerol
Length = 505
Score = 26.9 bits (58), Expect = 5.2, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 103 QVKIVTEKLSKQPLGSAFVWFSRKES 128
+ +V +K + QP+ +A VW SR+ S
Sbjct: 84 ETTVVWDKTTGQPIANAIVWQSRQSS 109
>pdb|3H3N|X Chain X, Glycerol Kinase H232r With Glycerol
pdb|3H3N|O Chain O, Glycerol Kinase H232r With Glycerol
pdb|3H3O|O Chain O, Glycerol Kinase H232r With Ethylene Glycol
pdb|3H3O|X Chain X, Glycerol Kinase H232r With Ethylene Glycol
pdb|3H3O|B Chain B, Glycerol Kinase H232r With Ethylene Glycol
pdb|3H3O|C Chain C, Glycerol Kinase H232r With Ethylene Glycol
Length = 506
Score = 26.9 bits (58), Expect = 5.3, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 103 QVKIVTEKLSKQPLGSAFVWFSRKES 128
+ +V +K + QP+ +A VW SR+ S
Sbjct: 85 ETTVVWDKTTGQPIANAIVWQSRQSS 110
>pdb|3FLC|O Chain O, Crystal Structure Of The His-Tagged H232r Mutant Of
Glycerol Kinase From Enterococcus Casseliflavus With
Glycerol
pdb|3FLC|X Chain X, Crystal Structure Of The His-Tagged H232r Mutant Of
Glycerol Kinase From Enterococcus Casseliflavus With
Glycerol
Length = 518
Score = 26.9 bits (58), Expect = 5.5, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 103 QVKIVTEKLSKQPLGSAFVWFSRKES 128
+ +V +K + QP+ +A VW SR+ S
Sbjct: 97 ETTVVWDKTTGQPIANAIVWQSRQSS 122
>pdb|2AD9|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd1 Complexed With Cucucu Rna
Length = 119
Score = 26.6 bits (57), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 13/92 (14%)
Query: 77 IFIKGLPESMTEGRVKKAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKESADLAVEN- 135
I I+ LP +TEG V FG+V + ++ K AF+ + +E+A+ V
Sbjct: 34 IHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGK------NQAFIEMNTEEAANTMVNYY 87
Query: 136 ------MNGKFFYGRFILVKIAETGLSKNRGR 161
+ G+ Y +F K +T S N+ R
Sbjct: 88 TSVTPVLRGQPIYIQFSNHKELKTDSSPNQAR 119
>pdb|2DNR|A Chain A, Solution Structure Of Rna Binding Domain In Synaptojanin 1
Length = 91
Score = 26.6 bits (57), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 11/59 (18%)
Query: 93 KAFSQFGEVVQVKIVTEKLSKQPLGSAFVWFSRKE-SADLAVENMNGKFFYGRFILVKI 150
+ F+ FGEV+ ++ V +K+ W + E S+ L V ++NGK R I + +
Sbjct: 34 QQFASFGEVILIRFVEDKM----------WVTFLEGSSALNVLSLNGKELLNRTITIAL 82
>pdb|1EN4|A Chain A, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Q146h Mutant
pdb|1EN4|B Chain B, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Q146h Mutant
pdb|1EN4|C Chain C, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Q146h Mutant
pdb|1EN4|D Chain D, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Q146h Mutant
Length = 205
Score = 26.2 bits (56), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 77 IFIKGLPESMT-EGRVKKAFS-QFGEVVQVKIVTEKLSKQPLGSAFVWFSRK 126
+F KGL + T +G +K A FG V K EK + GS + W K
Sbjct: 83 LFWKGLKKGTTLQGDLKAAIERDFGSVDNFKAEFEKAAASRFGSGWAWLVLK 134
>pdb|1EN6|A Chain A, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Q146l Mutant
pdb|1EN6|B Chain B, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Q146l Mutant
pdb|1EN6|C Chain C, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Q146l Mutant
pdb|1EN6|D Chain D, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Q146l Mutant
Length = 205
Score = 26.2 bits (56), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 77 IFIKGLPESMT-EGRVKKAFS-QFGEVVQVKIVTEKLSKQPLGSAFVWFSRK 126
+F KGL + T +G +K A FG V K EK + GS + W K
Sbjct: 83 LFWKGLKKGTTLQGDLKAAIERDFGSVDNFKAEFEKAAASRFGSGWAWLVLK 134
>pdb|1VEW|A Chain A, Manganese Superoxide Dismutase From Escherichia Coli
pdb|1VEW|B Chain B, Manganese Superoxide Dismutase From Escherichia Coli
pdb|1VEW|C Chain C, Manganese Superoxide Dismutase From Escherichia Coli
pdb|1VEW|D Chain D, Manganese Superoxide Dismutase From Escherichia Coli
pdb|1MMM|A Chain A, Distinct Metal Environment In Iron-Substituted Manganese
Superoxide Dismutase Provides A Structural Basis Of
Metal Specificity
pdb|1MMM|B Chain B, Distinct Metal Environment In Iron-Substituted Manganese
Superoxide Dismutase Provides A Structural Basis Of
Metal Specificity
pdb|1D5N|A Chain A, Crystal Structure Of E. Coli Mnsod At 100k
pdb|1D5N|B Chain B, Crystal Structure Of E. Coli Mnsod At 100k
pdb|1D5N|C Chain C, Crystal Structure Of E. Coli Mnsod At 100k
pdb|1D5N|D Chain D, Crystal Structure Of E. Coli Mnsod At 100k
pdb|3K9S|A Chain A, Crystal Structure Of The Peroxide-Bound Manganese
Superoxide Dismutase.
pdb|3K9S|B Chain B, Crystal Structure Of The Peroxide-Bound Manganese
Superoxide Dismutase.
pdb|3K9S|C Chain C, Crystal Structure Of The Peroxide-Bound Manganese
Superoxide Dismutase.
pdb|3K9S|D Chain D, Crystal Structure Of The Peroxide-Bound Manganese
Superoxide Dismutase.
pdb|3OT7|A Chain A, Escherichia Coli Apo-Manganese Superoxide Dismutase
pdb|3OT7|B Chain B, Escherichia Coli Apo-Manganese Superoxide Dismutase
pdb|3OT7|C Chain C, Escherichia Coli Apo-Manganese Superoxide Dismutase
pdb|3OT7|D Chain D, Escherichia Coli Apo-Manganese Superoxide Dismutase
Length = 205
Score = 26.2 bits (56), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 77 IFIKGLPESMT-EGRVKKAFS-QFGEVVQVKIVTEKLSKQPLGSAFVWFSRK 126
+F KGL + T +G +K A FG V K EK + GS + W K
Sbjct: 83 LFWKGLKKGTTLQGDLKAAIERDFGSVDNFKAEFEKAAASRFGSGWAWLVLK 134
>pdb|1I08|A Chain A, Crystal Structure Analysis Of The H30a Mutant Of Manganese
Superoxide Dismutase From E. Coli
pdb|1I08|B Chain B, Crystal Structure Analysis Of The H30a Mutant Of Manganese
Superoxide Dismutase From E. Coli
pdb|1I08|C Chain C, Crystal Structure Analysis Of The H30a Mutant Of Manganese
Superoxide Dismutase From E. Coli
pdb|1I08|D Chain D, Crystal Structure Analysis Of The H30a Mutant Of Manganese
Superoxide Dismutase From E. Coli
Length = 205
Score = 26.2 bits (56), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 77 IFIKGLPESMT-EGRVKKAFS-QFGEVVQVKIVTEKLSKQPLGSAFVWFSRK 126
+F KGL + T +G +K A FG V K EK + GS + W K
Sbjct: 83 LFWKGLKKGTTLQGDLKAAIERDFGSVDNFKAEFEKAAASRFGSGWAWLVLK 134
>pdb|1EN5|A Chain A, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Y34f Mutant
pdb|1EN5|B Chain B, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Y34f Mutant
pdb|1EN5|C Chain C, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Y34f Mutant
pdb|1EN5|D Chain D, Crystal Structure Analysis Of The E. Coli Manganese
Superoxide Dismutase Y34f Mutant
Length = 205
Score = 26.2 bits (56), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 77 IFIKGLPESMT-EGRVKKAFS-QFGEVVQVKIVTEKLSKQPLGSAFVWFSRK 126
+F KGL + T +G +K A FG V K EK + GS + W K
Sbjct: 83 LFWKGLKKGTTLQGDLKAAIERDFGSVDNFKAEFEKAAASRFGSGWAWLVLK 134
>pdb|1I0H|A Chain A, Crystal Structure Of The E. Coli Manganese Superoxide
Dismutase Mutant Y174f At 1.35 Angstroms Resolution.
pdb|1I0H|B Chain B, Crystal Structure Of The E. Coli Manganese Superoxide
Dismutase Mutant Y174f At 1.35 Angstroms Resolution.
pdb|1IX9|A Chain A, Crystal Structure Of The E. Coli Manganase(Iii) Superoxide
Dismutase Mutant Y174f At 0.90 Angstroms Resolution.
pdb|1IX9|B Chain B, Crystal Structure Of The E. Coli Manganase(Iii) Superoxide
Dismutase Mutant Y174f At 0.90 Angstroms Resolution.
pdb|1IXB|A Chain A, Crystal Structure Of The E. Coli Manganese(Ii) Superoxide
Dismutase Mutant Y174f At 0.90 Angstroms Resolution.
pdb|1IXB|B Chain B, Crystal Structure Of The E. Coli Manganese(Ii) Superoxide
Dismutase Mutant Y174f At 0.90 Angstroms Resolution.
pdb|1ZLZ|A Chain A, Re-Evaluation Of The Low-Temperature Azide In Mn-Dependent
Superoxide Dismutase
pdb|1ZLZ|B Chain B, Re-Evaluation Of The Low-Temperature Azide In Mn-Dependent
Superoxide Dismutase
Length = 205
Score = 26.2 bits (56), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 77 IFIKGLPESMT-EGRVKKAFS-QFGEVVQVKIVTEKLSKQPLGSAFVWFSRK 126
+F KGL + T +G +K A FG V K EK + GS + W K
Sbjct: 83 LFWKGLKKGTTLQGDLKAAIERDFGSVDNFKAEFEKAAASRFGSGWAWLVLK 134
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
0.322 0.135 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,222,965
Number of Sequences: 62578
Number of extensions: 96113
Number of successful extensions: 393
Number of sequences better than 100.0: 186
Number of HSP's better than 100.0 without gapping: 145
Number of HSP's successfully gapped in prelim test: 41
Number of HSP's that attempted gapping in prelim test: 215
Number of HSP's gapped (non-prelim): 205
length of query: 167
length of database: 14,973,337
effective HSP length: 92
effective length of query: 75
effective length of database: 9,216,161
effective search space: 691212075
effective search space used: 691212075
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)