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= 027505
(222 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 60.8 bits (146), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 30/75 (40%), Positives = 47/75 (62%), Gaps = 1/75 (1%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
+L+VG L + SL +VF++ G ++ +V DR T RSRGFGFVT ++++AK+A+
Sbjct: 13 GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMM 72
Query: 173 LFDGSVSADGICIAI 187
+G S DG I +
Sbjct: 73 AMNGK-SVDGRQIRV 86
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 57.0 bits (136), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 28/63 (44%), Positives = 40/63 (63%), Gaps = 1/63 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+YVGNL YS TS + E+F++ G V + +++YDR T + +GFGFV M E EAI
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAKL 62
Query: 175 DGS 177
D +
Sbjct: 63 DNT 65
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
++VGN+PY T L ++F+E G V S +VYDR T + +G+GF E A A+R
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 175 DG 176
+G
Sbjct: 71 NG 72
>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 = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 40/64 (62%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LYV LP +MT L ++F++ G + ++ I+ D+VT SRG GF+ EA+EAI+
Sbjct: 89 ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK 148
Query: 173 LFDG 176
+G
Sbjct: 149 GLNG 152
Score = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT +F G + S ++V D++T +S G+GFV ++A++AI
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 175 DG 176
+G
Sbjct: 65 NG 66
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 37/68 (54%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYV NLP ++T L +F + G++ I+ D++T R RG FV EEA+EAI
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 151
Query: 175 DGSVSADG 182
+ + G
Sbjct: 152 NNVIPEGG 159
>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 = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 37/68 (54%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYV NLP ++T L +F + G++ I+ D++T R RG FV EEA+EAI
Sbjct: 103 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 162
Query: 175 DGSVSADG 182
+ + G
Sbjct: 163 NNVIPEGG 170
>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 = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 37/68 (54%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYV NLP ++T L +F + G++ I+ D++T R RG FV EEA+EAI
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 175 DGSVSADG 182
+ + G
Sbjct: 76 NNVIPEGG 83
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 36/59 (61%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
+++VG LPY T +SL + F G + A ++ DR T +SRG+GFVTM A+ A +
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACK 77
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 39/64 (60%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LYV LP +M+ + ++F++ G + ++ I+ D+ T SRG GF+ EA+EAI+
Sbjct: 91 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 150
Query: 173 LFDG 176
+G
Sbjct: 151 GLNG 154
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT +F G + S ++V D++T +S G+GFV +A +AI
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 175 DG 176
+G
Sbjct: 67 NG 68
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 50.8 bits (120), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 39/64 (60%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LYV LP +M+ + ++F++ G + ++ I+ D+ T SRG GF+ EA+EAI+
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 173 LFDG 176
+G
Sbjct: 62 GLNG 65
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 50.4 bits (119), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 39/63 (61%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RLYVG+L +++T L +F G + S +++ D T RS+G+GF+T E AK+A+
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 174 FDG 176
+G
Sbjct: 88 LNG 90
>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 = 50.4 bits (119), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 40/70 (57%), Gaps = 3/70 (4%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTM---GSVEEAK 168
+ ++++G L + T +L E F + GTV +I+ D T RSRGFGF++ SV+E
Sbjct: 3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVV 62
Query: 169 EAIRLFDGSV 178
+ + DG V
Sbjct: 63 KTQHILDGKV 72
Score = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 32/54 (59%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVE 165
+++VG + + E F++ GT+ A+++ D+ T +SRGFGFVT S +
Sbjct: 87 TGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSAD 140
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 34/58 (58%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 70
Score = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 14/84 (16%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+++VG + L + F + G + EI+ DR + + RGF FVT
Sbjct: 104 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT------------- 150
Query: 174 FDGSVSADGICIAIV-LIEPFNCQ 196
FD S D I I + NC+
Sbjct: 151 FDDHDSVDKIVIQKYHTVNGHNCE 174
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 34/58 (58%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 72
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 14/84 (16%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+++VG + L + F + G + EI+ DR + + RGF FVT
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT------------- 152
Query: 174 FDGSVSADGICIAIV-LIEPFNCQ 196
FD S D I I + NC+
Sbjct: 153 FDDHDSVDKIVIQKYHTVNGHNCE 176
>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 = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 34/58 (58%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 65
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 14/84 (16%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+++VG + L + F + G + EI+ DR + + RGF FVT
Sbjct: 99 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT------------- 145
Query: 174 FDGSVSADGICIAIV-LIEPFNCQ 196
FD S D I I + NC+
Sbjct: 146 FDDHDSVDKIVIQKYHTVNGHNCE 169
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 38/63 (60%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A +YVG L ++ L E+F +AG V + + DRVT + +G+GFV S E+A AI+
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75
Query: 173 LFD 175
+ D
Sbjct: 76 IMD 78
>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 = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 34/58 (58%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 71
Score = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 14/84 (16%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+++VG + L + F + G + EI+ DR + + RGF FVT
Sbjct: 105 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT------------- 151
Query: 174 FDGSVSADGICIAIV-LIEPFNCQ 196
FD S D I I + NC+
Sbjct: 152 FDDHDSVDKIVIQKYHTVNGHNCE 175
>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 = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 34/58 (58%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 72
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 14/84 (16%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+++VG + L + F + G + EI+ DR + + RGF FVT
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT------------- 152
Query: 174 FDGSVSADGICIAIV-LIEPFNCQ 196
FD S D I I + NC+
Sbjct: 153 FDDHDSVDKIVIQKYHTVNGHNCE 176
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 34/58 (58%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+L++G L + T SL F + GT+ ++ D T RSRGFGFVT +VEE A+
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 73
Score = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 14/84 (16%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+++VG + L + F + G + EI+ DR + + RGF FVT
Sbjct: 107 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT------------- 153
Query: 174 FDGSVSADGICIAIV-LIEPFNCQ 196
FD S D I I + NC+
Sbjct: 154 FDDHDSVDKIVIQKYHTVNGHNCE 177
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 37/64 (57%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LY+ LP +MT + ++F+ G + ++ ++ D+ T SRG F+ EA+EAI
Sbjct: 89 ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAIT 148
Query: 173 LFDG 176
F+G
Sbjct: 149 SFNG 152
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 36/62 (58%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT L +F+ G V SA+++ D+V S G+GFV + ++A+ AI
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 175 DG 176
+G
Sbjct: 65 NG 66
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 37/64 (57%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
A LY+ LP +MT + ++F+ G + ++ ++ D+ T SRG F+ EA+EAI
Sbjct: 89 ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAIT 148
Query: 173 LFDG 176
F+G
Sbjct: 149 SFNG 152
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 36/62 (58%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT L +F+ G V SA+++ D+V S G+GFV + ++A+ AI
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 175 DG 176
+G
Sbjct: 65 NG 66
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 30/73 (41%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V L T L EVF++ G +A IVYD+ + RSRGF FV +V++AKEA
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 74
Query: 175 DGSVSADGICIAI 187
+G + DG I +
Sbjct: 75 NG-MELDGRRIRV 86
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/63 (42%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 125 TSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLFDGSVSADGIC 184
T L EVF++ G +A IVYD+ + RSRGF FV +V++AKEA +G + DG
Sbjct: 59 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG-MELDGRR 117
Query: 185 IAI 187
I +
Sbjct: 118 IRV 120
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 30/73 (41%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V L T L EVF++ G +A IVYD+ + RSRGF FV +V++AKEA
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 175 DGSVSADGICIAI 187
+G + DG I +
Sbjct: 78 NG-MELDGRRIRV 89
>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 = 47.0 bits (110), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 36/62 (58%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT L +F+ G V SA+++ D+V S G+GFV + ++A+ AI
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 175 DG 176
+G
Sbjct: 67 NG 68
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 47.0 bits (110), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/63 (42%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 125 TSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLFDGSVSADGIC 184
T L EVF++ G +A IVYD+ + RSRGF FV +V++AKEA +G + DG
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG-MELDGRR 86
Query: 185 IAI 187
I +
Sbjct: 87 IRV 89
>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 = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 41/86 (47%), Gaps = 4/86 (4%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V NL Y + +L VF + G V I DR T SRGF FV +A++A+
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 175 DGSVSADGICIAIVLI---EPFNCQH 197
DG+V DG + + + P + H
Sbjct: 110 DGAV-LDGRELRVQMARYGRPPDSHH 134
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 33/64 (51%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V NL Y + +L VF + G V I DR T SRGF FV +A++A+
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 175 DGSV 178
DG+V
Sbjct: 133 DGAV 136
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
++V NL Y + L EVF+ AG V A+I+ D+ +SRG G VT EA +AI +F
Sbjct: 18 VFVANLDYKVGWKKLKEVFSMAGVVVRADILEDK-DGKSRGIGTVTFEQSIEAVQAISMF 76
Query: 175 DGSV 178
+G +
Sbjct: 77 NGQL 80
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP +MT +F G + S ++V D++T +S G+GFV +A +AI
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 175 DG 176
+G
Sbjct: 67 NG 68
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 30/47 (63%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFV 159
+L+VG L +S T +L F++ G V I+ D+ T++SRGFGFV
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFV 63
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 28/47 (59%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVT 160
++++G L + T L E F + G V ++ D +T RSRGFGFVT
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVT 48
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVT 160
++++G L + T L E F + G V ++ D +T RSRGFGFVT
Sbjct: 25 GCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVT 73
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 34/58 (58%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
+YV NLP+S+T++ L +F++ G V I+ D+ T +S+G F+ + A+ R
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTR 76
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 33/60 (55%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+++VG +P++ + L E F + G V ++YD R RGFGF+T + +A+ +
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
>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 = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 37/62 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+Y+G++PY T + ++ + G V + ++++D T RS+G+ F+ +E + A+R
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 175 DG 176
+G
Sbjct: 67 NG 68
>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 = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 35/62 (56%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V LP + T L +F+ G V SA+++ D+V S G+GFV + ++A+ AI
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 175 DG 176
+G
Sbjct: 82 NG 83
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 36/62 (58%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L++ +LP T + LA F G V SA++ D+ T S+ FGFV+ + + A+ AI+
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 175 DG 176
+G
Sbjct: 103 NG 104
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 35/62 (56%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V +P ++ L ++F G + S +IV DR T +SRG+GFV S A++AI
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 175 DG 176
+G
Sbjct: 105 NG 106
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGS 163
++VG L + T + F + G V A +++D+ T+R RGFGFVT S
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFES 50
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 37/62 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+Y+G++PY T + ++ + G V + ++++D T RS+G+ F+ +E + A+R
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 175 DG 176
+G
Sbjct: 65 NG 66
>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 = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 37/62 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+Y+G++PY T + ++ + G V + ++++D T RS+G+ F+ +E + A+R
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 175 DG 176
+G
Sbjct: 66 NG 67
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 38/66 (57%), Gaps = 2/66 (3%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYV NL + L + F+ GT+ SA+++ + RS+GFGFV S EEA +A+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 175 DGSVSA 180
+G + A
Sbjct: 76 NGRIVA 81
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 39/66 (59%), Gaps = 2/66 (3%)
Query: 116 YVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLFD 175
YVGNLP++ + +F + ++ S +V D+ TD+ +GF +V V+ KEA+ +D
Sbjct: 19 YVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYD 76
Query: 176 GSVSAD 181
G++ D
Sbjct: 77 GALLGD 82
>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 = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 37/62 (59%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
++VG+L +T+ + FA G ++ A +V D T +S+G+GFV+ + +A+ AI+
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 175 DG 176
G
Sbjct: 78 GG 79
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 2/65 (3%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RL+V N+P+ L ++F + G + EI+++ S+GFGFVT + +A A
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 88
Query: 174 FDGSV 178
G+V
Sbjct: 89 LHGTV 93
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 41/79 (51%), Gaps = 6/79 (7%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR-L 173
L+V L T +L E F G+V A IV DR T S+GFGFV S E+AK A +
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSV-RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 174 FDGSVSADGICIAIVLIEP 192
DG + DG + + +P
Sbjct: 75 EDGEI--DGNKVTLDWAKP 91
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 2/65 (3%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RL+V N+P+ L ++F + G + EI+++ S+GFGFVT + +A A
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 74
Query: 174 FDGSV 178
G+V
Sbjct: 75 LHGTV 79
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 29/57 (50%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+++G L + T L + F++ G V + D +T RSRGFGFV E + +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVM 58
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 44/77 (57%), Gaps = 2/77 (2%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L V NL + ++ + + E+FAE GT+ A + YDR + RS G V +A +A++
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQ 88
Query: 174 FDGSVSADGICIAIVLI 190
++G V DG + I L+
Sbjct: 89 YNG-VPLDGRPMNIQLV 104
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 38/65 (58%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
++ LYVG+L +++T L +F G + + ++ D T RS+G+GF+T E A+ A+
Sbjct: 5 SSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRAL 64
Query: 172 RLFDG 176
+G
Sbjct: 65 EQLNG 69
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 32/58 (55%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+L++G L + T SL + + G + ++ D + RSRGFGFVT S+ E A+
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM 86
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 31/52 (59%)
Query: 126 SSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLFDGS 177
+L +F++AG V + E D T +++GF FV GS+ +AK+ I+ F G
Sbjct: 26 KKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGK 77
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+VG+L ++ +L F + + S +++D T SRG+GFV+ S ++A+ A+
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 175 DG 176
G
Sbjct: 150 QG 151
Score = 34.7 bits (78), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVGNL ++T L + F G +A+ +I+ D+ +++ + FV +A A++
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQTL 61
Query: 175 DG 176
+G
Sbjct: 62 NG 63
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LY+ NLP SM L + G V S I+ D + SRG GF M S E+ + I F
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEAVIGHF 86
Query: 175 DG 176
+G
Sbjct: 87 NG 88
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 31/52 (59%)
Query: 126 SSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLFDGS 177
+L +F++AG V + E D T +++GF FV GS+ +AK+ I+ F G
Sbjct: 26 KKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGK 77
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 2/79 (2%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A+L V NL + ++ + + E+FAE GT+ A + YDR + RS G V +A +A+
Sbjct: 88 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAM 146
Query: 172 RLFDGSVSADGICIAIVLI 190
+ + G V DG + I L+
Sbjct: 147 KQYKG-VPLDGRPMDIQLV 164
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 34/65 (52%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RL+V NL Y+ + L ++F+ G ++ D +T + +GF FVT E A +A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 174 FDGSV 178
DG V
Sbjct: 70 VDGQV 74
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+VG+L ++ +L F + + S +++D T SRG+GFV+ S ++A+ A+
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 175 DG 176
G
Sbjct: 64 QG 65
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 35/57 (61%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
++VG+L +T+ + FA G ++ A +V D T +S+G+GFV+ + +A+ AI
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAI 74
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 43/90 (47%), Gaps = 2/90 (2%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
+L++G L L VF + G ++ ++ DR T +SRGF F+T + +AK A +
Sbjct: 8 GKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAK 66
Query: 173 LFDGSVSADGICIAIVLIEPFNCQHFGNGR 202
+G S G I + + + Q G R
Sbjct: 67 DMNGK-SLHGKAIKVEQAKKPSFQSGGRRR 95
>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 = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 34/58 (58%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
R+YVG++ Y + ++ + FA G + S ++ +D VT + +GF FV E A+ A+
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLAL 72
Score = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI-- 171
R+YV ++ ++ + VF G + S + D T + +G+GF+ + +++A+
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 171
Query: 172 -RLFD 175
LFD
Sbjct: 172 MNLFD 176
>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 = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 33/59 (55%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A LYVG+L +T + L E F+ AG + S + D +T RS G+ +V +A+ A+
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 69
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+++ NL S+ + +L + F+ G + S ++V D + S+G+GFV + E A+ AI
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKM 158
Query: 175 DGSVSAD 181
+G + D
Sbjct: 159 NGMLLND 165
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 40.0 bits (92), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 2/79 (2%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A+L V NL + ++ + + E+FAE GT+ A + YDR + RS G V +A +A+
Sbjct: 35 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAM 93
Query: 172 RLFDGSVSADGICIAIVLI 190
+ + G V DG + I L+
Sbjct: 94 KQYKG-VPLDGRPMDIQLV 111
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 2/79 (2%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A+L V NL + ++ + + E+FAE GT+ A + YDR + RS G V +A +A+
Sbjct: 35 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAM 93
Query: 172 RLFDGSVSADGICIAIVLI 190
+ + G V DG + I L+
Sbjct: 94 KQYKG-VPLDGRPMDIQLV 111
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
R+YVG++ Y + ++ + FA G + S + +D VT + +GF FV E A+ A+
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLAL 71
Score = 35.0 bits (79), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI-- 171
R+YV ++ ++ + VF G + S + D T + +G+GF+ + +++A+
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 170
Query: 172 -RLFD 175
LFD
Sbjct: 171 XNLFD 175
>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 = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 33/59 (55%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A LYVG+L +T + L E F+ AG + S + D +T RS G+ +V +A+ A+
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 74
Score = 35.4 bits (80), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+++ NL S+ + +L + F+ G + S ++V D + S+G+GFV + E A+ AI
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 163
Query: 175 DGSVSAD 181
+G + D
Sbjct: 164 NGMLLND 170
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 25/48 (52%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFV 159
A + +VG L + + L + F + G V I D T RSRGFGF+
Sbjct: 11 AGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFI 58
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 42/77 (54%), Gaps = 2/77 (2%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L V NL + ++ + + E+FAE GT+ A + YDR + RS G V +A +A +
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAXKQ 89
Query: 174 FDGSVSADGICIAIVLI 190
++G V DG I L+
Sbjct: 90 YNG-VPLDGRPXNIQLV 105
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 35/59 (59%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+R+YVG++ Y + ++ + FA G + S ++ +D VT + +GF FV E A+ A+
Sbjct: 29 SRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLAL 87
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI-- 171
R+YV ++ ++ + VF G + SA + D T + +G+GF+ + +++A+
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 186
Query: 172 -RLFD 175
LFD
Sbjct: 187 MNLFD 191
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 36/65 (55%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A L++ +LP L ++F G V SA++ D+ T+ S+ FGFV+ + A+ AI
Sbjct: 25 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAI 84
Query: 172 RLFDG 176
+ +G
Sbjct: 85 QSMNG 89
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 43/88 (48%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVGNL + T + E+F+++G + + D++ + GF FV S +A+ A+R
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 175 DGSVSADGICIAIVLIEPFNCQHFGNGR 202
+G+ D I + +G GR
Sbjct: 102 NGTRLDDRIIRTDWDAGFKEGRQYGRGR 129
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 35/65 (53%), Gaps = 2/65 (3%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +++V NLP+ T L + F E G V A+I + +S+G G V S E A+ A
Sbjct: 8 ACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERAC 65
Query: 172 RLFDG 176
R+ +G
Sbjct: 66 RMMNG 70
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RL+VGNLP +T +F G + I +R RGFGF+ + S A+ A
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEIAKAE 77
Query: 174 FDGSV 178
DG++
Sbjct: 78 LDGTI 82
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+ +L+VGN+ + T+ L F E G V +IV D + FV M E+A EAI
Sbjct: 10 STKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAI 61
Query: 172 RLFDGS 177
R D +
Sbjct: 62 RGLDNT 67
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 1/69 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVGNL + T + E+F+++G + + D++ + GF FV S +A+ A+R
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK-TACGFCFVEYYSRADAENAMRYI 79
Query: 175 DGSVSADGI 183
+G+ D I
Sbjct: 80 NGTRLDDRI 88
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
L + NL YS T +L EVF +A + V +S+G+ F+ S E+AKEA+
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEAL 70
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 41/80 (51%), Gaps = 4/80 (5%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDR---SRGFGFVTMGSVEEAKEAI 171
L++ NL +S T +L VF++ G + S I + S GFGFV E+A++A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 172 RLFDGSVSADGICIAIVLIE 191
+ G + DG + + + E
Sbjct: 68 KQLQGH-TVDGHKLEVRISE 86
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
++V NLP+ T L + F E G V A+I + +S+G G V S E A+ A R+
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACRMM 65
Query: 175 DG 176
+G
Sbjct: 66 NG 67
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 46/82 (56%), Gaps = 3/82 (3%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDR-SRGFGFVTMGSVEEAKEAIR 172
++++G L ++T + E+F+ G + ++ +R+ S+G+ +V + +EA++A++
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
Query: 173 LFDGSVSADGICI-AIVLIEPF 193
DG DG I A ++ P+
Sbjct: 66 HMDGG-QIDGQEITATAVLAPW 86
>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 = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+++VG L + E F G V S E+ D T++ RGF F+T E K+ +
Sbjct: 1 VKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 60
>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 = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
+L++ LP+S T L E+ GTV +V +R + +G +V + +A +A+
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRA-GKPKGLAYVEYENESQASQAVMK 77
Query: 174 FDG-SVSADGICIAI 187
DG ++ + I +AI
Sbjct: 78 MDGMTIKENIIKVAI 92
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
Length = 88
Score = 35.8 bits (81), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD--RSRGFGFVTMGSVEEAKE 169
A +++VG +P + + L E+F + G V ++ DR + +S+G FVT + + A E
Sbjct: 3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 62
Query: 170 A 170
A
Sbjct: 63 A 63
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 35.8 bits (81), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
+++ NL S+ + +L + F+ G + S ++V D + S+G+GFV + E A+ AI
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKM 71
Query: 175 DGSVSAD 181
+G + D
Sbjct: 72 NGMLLND 78
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LY+ NLPY +T+ + ++F + G + + T +RG +V + +AK A+
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNAVDHL 67
Query: 175 DG 176
G
Sbjct: 68 SG 69
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAE-----AGTVASAEIVYDRVTDRSRGFGFVTMGSVEE 166
A RLYVGN+P+ +T ++ + F T A V ++ + F F+ SV+E
Sbjct: 1 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 60
Query: 167 AKEAIRLFDGSV 178
+A+ FDG +
Sbjct: 61 TTQAM-AFDGII 71
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD--RSRGFGFVTMGSVEEAKE 169
A +++VG +P + + L E+F + G V ++ DR + +S+G FVT + + A E
Sbjct: 15 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 74
Query: 170 A 170
A
Sbjct: 75 A 75
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVY--DRVTDRSRGFGFVTMGSVEEAKEAIR 172
LY+GNL + T L E G EI + +R +S+GF V +GS +K+ +
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
Query: 173 LF 174
L
Sbjct: 64 LL 65
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 35.4 bits (80), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 27/57 (47%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
++VG L + E F G V S E+ D T++ RGF F+T E K+ +
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 58
>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 = 35.4 bits (80), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+ +++ NL S+ + +L + F+ G + S ++V D + S+G+GFV + E A+ AI
Sbjct: 5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAI 62
Query: 172 RLFDGSVSAD 181
+G + D
Sbjct: 63 EKMNGMLLND 72
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 35.4 bits (80), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD--RSRGFGFVTMGSVEEAKE 169
A +++VG +P + + L E+F + G V ++ DR + +S+G FVT + + A E
Sbjct: 3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 62
Query: 170 A 170
A
Sbjct: 63 A 63
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 35.4 bits (80), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAE-----AGTVASAEIVYDRVTDRSRGFGFVTMGSVEE 166
A RLYVGN+P+ +T ++ + F T A V ++ + F F+ SV+E
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 167 AKEAIRLFDGSV 178
+A+ FDG +
Sbjct: 64 TTQAMA-FDGII 74
Score = 33.5 bits (75), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 31/70 (44%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +L++G LP + + E+ G + + +V D T S+G+ F + +AI
Sbjct: 94 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 153
Query: 172 RLFDGSVSAD 181
+G D
Sbjct: 154 AGLNGMQLGD 163
>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 = 35.4 bits (80), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAE-----AGTVASAEIVYDRVTDRSRGFGFVTMGSVEE 166
A RLYVGN+P+ +T ++ + F T A V ++ + F F+ SV+E
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 65
Query: 167 AKEAIRLFDGSV 178
+A+ FDG +
Sbjct: 66 TTQAMA-FDGII 76
Score = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 31/70 (44%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +L++G LP + + E+ G + + +V D T S+G+ F + +AI
Sbjct: 96 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 155
Query: 172 RLFDGSVSAD 181
+G D
Sbjct: 156 AGLNGMQLGD 165
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 23/45 (51%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFV 159
L V LP+ T L E F+ G V ++ D T S+GFGFV
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFV 62
>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 = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 30/62 (48%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +YVGN+ Y T+ L F G+V I+ D+ + +GF ++ E + ++
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65
Query: 172 RL 173
L
Sbjct: 66 AL 67
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 35.0 bits (79), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
++VGNL + L E+F +AG + I DR + + FGFV E AI L
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDR-EGKPKSFGFVCFKHPESVSYAIALL 77
Query: 175 DG 176
+G
Sbjct: 78 NG 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 = 35.0 bits (79), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 30/62 (48%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +YVGN+ Y T+ L F G+V I+ D+ + +GF ++ E + ++
Sbjct: 5 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 64
Query: 172 RL 173
L
Sbjct: 65 AL 66
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 35.0 bits (79), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 31/63 (49%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LY+ L T L ++ G + S + + D+ T++ +G+GFV S A++A+
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 175 DGS 177
S
Sbjct: 68 KAS 70
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 26/57 (45%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
LYVG L + L F G + +I D T++ RGF FV E+A AI
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 122
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large
Subunit
Length = 87
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAE-----AGTVASAEIVYDRVTDRSRGFGFVTMGSVEE 166
A RLYVGN+P+ +T ++ + F T A V ++ + F F+ SV+E
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 65
Query: 167 AKEAIRLFDGSV 178
+A+ FDG +
Sbjct: 66 TTQAM-AFDGII 76
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAE-----AGTVASAEIVYDRVTDRSRGFGFVTMGSVEE 166
A RLYVGN+P+ +T ++ + F T A V ++ + F F+ SV+E
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 167 AKEAIRLFDGSV 178
+A+ FDG +
Sbjct: 64 TTQAMA-FDGII 74
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 31/70 (44%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +L++G LP + + E+ G + + +V D T S+G+ F + +AI
Sbjct: 114 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173
Query: 172 RLFDGSVSAD 181
+G D
Sbjct: 174 AGLNGMQLGD 183
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 34.7 bits (78), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEA 170
A L V NLP S+T E+ G++ +VY T +S+G+GF + A A
Sbjct: 96 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>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 = 34.7 bits (78), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 26/57 (45%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
LYVG L + L F G + +I D T++ RGF FV E+A AI
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 61
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 34.7 bits (78), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEA 170
A L V NLP S+T E+ G++ +VY T +S+G+GF + A A
Sbjct: 96 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 34.7 bits (78), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEA 170
A L V NLP S+T E+ G++ +VY T +S+G+GF + A A
Sbjct: 94 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 34.7 bits (78), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 31/59 (52%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A + V NL + L E+F G+++ + D+ T +S+GF F++ E+A AI
Sbjct: 16 ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 34.3 bits (77), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 29/63 (46%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L V NL Y + SL VF + G V I + T RGF FV +A++A
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 175 DGS 177
DG+
Sbjct: 76 DGA 78
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 34.3 bits (77), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVT 160
A +L+VG +P + L +F E G + ++ DR+T +G F+T
Sbjct: 15 AIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLT 63
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 34.3 bits (77), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 26/57 (45%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
LYVG L + L F G + +I D T++ RGF FV E+A AI
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 64
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 34.3 bits (77), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTM 161
+RL+VGNLP +T + ++F + G I D +GFGF+ +
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRL 65
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSR--GFGFVTMGSVEEAKE 169
+A L V NLP +++ L E F+ G V A ++ D DR R G G V A++
Sbjct: 96 SASLTVRNLPQYVSNELLEEAFSVFGQVERAVVIVD---DRGRPSGKGIVEFSGKPAARK 152
Query: 170 AI-RLFDGS 177
A+ R +GS
Sbjct: 153 ALDRCSEGS 161
>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 = 34.3 bits (77), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 26/57 (45%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
LYVG L + L F G + +I D T++ RGF FV E+A AI
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 66
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 34.3 bits (77), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEA 170
LY+ NLPY +T+ + ++F + G + + T +RG +V + +AK A
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNA 67
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 34.3 bits (77), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+A L++ N+P S++ L +F+ G V + + R + MGSVEEA +A+
Sbjct: 120 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK----DRKMALIQMGSVEEAVQAL 175
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 34.3 bits (77), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEA 170
LY+ NLPY +T+ + ++F + G + + T +RG +V + +AK A
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNA 73
>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 = 34.3 bits (77), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVT 160
++VG + M + + FA G+V +I+ DR T S+G+GFV+
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVS 56
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 34.3 bits (77), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVT 160
++VG + M + + FA G+V +I+ DR T S+G+GFV+
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVS 56
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 34.3 bits (77), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVT 160
++VG + M + + FA G+V +I+ DR T S+G+GFV+
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVS 57
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 33.9 bits (76), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 36/85 (42%), Gaps = 1/85 (1%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LYVG L + L F G + +I D T++ RGF FV E+A AI
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 175 DGSVSADGICIAIVLIEPFNCQHFG 199
+ S G I + L +P + G
Sbjct: 75 NES-ELFGRTIRVNLAKPMRIKESG 98
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 33.9 bits (76), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD--RSRGFGFVTMGSVEEAKE 169
A + +VG +P + + L E+F + G V ++ DR + +S+G FVT + + A E
Sbjct: 3 AIKXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 62
Query: 170 A 170
A
Sbjct: 63 A 63
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 33.9 bits (76), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVY--DRVTDRSRGFGFVTMGSVEEAKEAIR 172
LY+GNL + T L E G EI + +R +S+GF V +GS +K+ +
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 130
Query: 173 LF 174
L
Sbjct: 131 LL 132
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 33.9 bits (76), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
LY+ NL +T L +FA I + +T R RG F+T + E A +A+ L
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLV 87
Query: 175 DG 176
+G
Sbjct: 88 NG 89
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 33.9 bits (76), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 35/78 (44%), Gaps = 9/78 (11%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
++YVGNL L F+ G + + I + GF FV +A++A+R
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRG 56
Query: 174 FDGSVSADGICIAIVLIE 191
DG V IC + V +E
Sbjct: 57 LDGKV----ICGSRVRVE 70
>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 = 33.5 bits (75), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 27/63 (42%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + Y T S L F G + +VY + + + RG+ F+ + A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 175 DGS 177
DG
Sbjct: 165 DGK 167
>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 = 33.5 bits (75), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
+A L++ N+P S++ L +F+ G V + + R + MGSVEEA +A+
Sbjct: 151 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK----DRKMALIQMGSVEEAVQAL 206
>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 = 33.5 bits (75), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTM 161
+RL+VGNLP +T + ++F + G I D +GFGF+ +
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRL 58
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 40/62 (64%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
++VG+L +T++++A FA G ++ A +V D T +S+G+GFV+ + +A+ AI+
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 175 DG 176
G
Sbjct: 69 GG 70
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 8/59 (13%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIR 172
+L++GNLP T + +F + G V +I+ + +GFV + A++AIR
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIR 60
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 31/70 (44%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A +L++G LP + + E+ G + + +V D T S+G+ F + +AI
Sbjct: 1 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60
Query: 172 RLFDGSVSAD 181
+G D
Sbjct: 61 AGLNGMQLGD 70
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 7/65 (10%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRG--FGFVTMGSVEEAKEAI 171
R+YVGNLP + + + +VF + G + ++ +R G F FV +A++A+
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL-----KNRRGGPPFAFVEFEDPRDAEDAV 78
Query: 172 RLFDG 176
DG
Sbjct: 79 YGRDG 83
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 25/45 (55%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFV 159
+YVGN+ Y T+ L F+ G++ I+ D+ + +G+ ++
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYI 83
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEA 170
L + NLPY +T+ + ++F + G + + T +RG +V + +AK A
Sbjct: 21 LMIRNLPYKITAEEMYDIFGKYGPIRQIRVGN---TPETRGTAYVVYEDIFDAKNA 73
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 30.8 bits (68), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 35/76 (46%), Gaps = 6/76 (7%)
Query: 112 AARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAI 171
A L NLPY +T L EVF +A AEI +S+G ++ + +A++
Sbjct: 93 ARTLLAKNLPYKVTQDELKEVFEDA-----AEIRLVSKDGKSKGIAYIEFKTEADAEKTF 147
Query: 172 RLFDGSVSADGICIAI 187
G+ DG I++
Sbjct: 148 EEKQGT-EIDGRSISL 162
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 30.4 bits (67), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 9/84 (10%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
++YVGNL + + L F G + S + + GF FV +A +A+R
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRE 129
Query: 174 FDGSVSADGICIAIVLIEPFNCQH 197
DG +C V +E N +
Sbjct: 130 LDGRT----LCGCRVRVELSNGEK 149
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 30.4 bits (67), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 113 ARLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRV-TDRSRGFGFVTMGSVEEAKEA 170
+++ V N+P+ + E+F+ G + + + T RGFGFV + ++AK+A
Sbjct: 16 SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKA 74
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 30.4 bits (67), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 9/84 (10%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
++YVGNL + + L F G + S + + GF FV +A +A+R
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRD 129
Query: 174 FDGSVSADGICIAIVLIEPFNCQH 197
DG +C V +E N +
Sbjct: 130 LDGRT----LCGCRVRVELSNGEK 149
>pdb|2DIS|A Chain A, Solution Structure Of The Rrm Domain Of Unnamed Protein
Product
Length = 109
Score = 30.4 bits (67), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 35/82 (42%), Gaps = 3/82 (3%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTD--RSRGFGFVTMGSVEEAKEAI 171
RL++G +P + E A+ IVY D ++RGF FV S A A
Sbjct: 10 RLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMAR 69
Query: 172 R-LFDGSVSADGICIAIVLIEP 192
R L G + G IA+ EP
Sbjct: 70 RKLMPGRIQLWGHQIAVDWAEP 91
>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 = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 27/63 (42%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + Y T S L F G + +VY + + + RG+ F+ + A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 175 DGS 177
DG
Sbjct: 165 DGK 167
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 28/68 (41%), Gaps = 8/68 (11%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RL+V P + S L E+F G + +I+ GF FV E A +AI
Sbjct: 6 RLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKAIEE 57
Query: 174 FDGSVSAD 181
G A+
Sbjct: 58 VHGKSFAN 65
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 28/68 (41%), Gaps = 8/68 (11%)
Query: 114 RLYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRL 173
RL+V P + S L E+F G + +I+ GF FV E A +AI
Sbjct: 33 RLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKAIEE 84
Query: 174 FDGSVSAD 181
G A+
Sbjct: 85 VHGKSFAN 92
>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 = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 30/63 (47%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 175 DGS 177
+G
Sbjct: 70 NGQ 72
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 30/63 (47%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 175 DGS 177
+G
Sbjct: 70 NGQ 72
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 30/63 (47%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 175 DGS 177
+G
Sbjct: 70 NGQ 72
>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 = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 30/63 (47%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 175 DGS 177
+G
Sbjct: 72 NGQ 74
>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 = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 30/63 (47%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 175 DGS 177
+G
Sbjct: 86 NGQ 88
>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 = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 30/63 (47%)
Query: 115 LYVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
L+V + T + + FAE G + + + DR T +G+ V + +EA+ A+
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 175 DGS 177
+G
Sbjct: 85 NGQ 87
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 121 PYSMTSSSLAEVFAEAG-TVASAEIVYDRVTDRSRGFGFVTMGSVEEAKEAIRLF 174
P+++ S + + A V + ++ D+ T ++RGF FV + S +A + +++
Sbjct: 19 PHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQIL 73
>pdb|2Q5C|A Chain A, Crystal Structure Of Ntrc Family Transcriptional Regulator
From Clostridium Acetobutylicum
pdb|2Q5C|D Chain D, Crystal Structure Of Ntrc Family Transcriptional Regulator
From Clostridium Acetobutylicum
Length = 196
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 193 FNCQHFGNGRCLVFLSYIILDVHSIHSM 220
+N + FGN L+ + I+D H I +M
Sbjct: 88 YNAKRFGNELALIAYKHSIVDKHEIEAM 115
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 12/48 (25%)
Query: 121 PYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFVTMGSVEEAK 168
PY++ SSS + ++ D+ T +RGF F+ + ++E A+
Sbjct: 46 PYAVLSSS------------NVRVIKDKQTQLNRGFAFIQLSTIEAAQ 81
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation Initiation
Factor 4b
Length = 100
Score = 27.3 bits (59), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 21/44 (47%)
Query: 116 YVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFV 159
++GNLPY +T S+ E F A +R +GFG+
Sbjct: 23 FLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYA 66
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 21/44 (47%)
Query: 116 YVGNLPYSMTSSSLAEVFAEAGTVASAEIVYDRVTDRSRGFGFV 159
++GNLPY +T S+ E F A +R +GFG+
Sbjct: 19 FLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYA 62
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
0.323 0.136 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,408,087
Number of Sequences: 62578
Number of extensions: 131899
Number of successful extensions: 486
Number of sequences better than 100.0: 156
Number of HSP's better than 100.0 without gapping: 122
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 329
Number of HSP's gapped (non-prelim): 180
length of query: 222
length of database: 14,973,337
effective HSP length: 95
effective length of query: 127
effective length of database: 9,028,427
effective search space: 1146610229
effective search space used: 1146610229
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)