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= 030975
(168 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 44/65 (67%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ 153
++L+VG+L F++ L G+FE G +E ++++ D TGRS+G+GF+T S E + A +
Sbjct: 27 MRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALE 86
Query: 154 QFNGY 158
Q NG+
Sbjct: 87 QLNGF 91
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/62 (45%), Positives = 37/62 (59%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
K+FVG LP+ A L FE G++E VI D+ TG+SRG+GFVTM+ E A +
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 155 FN 156
N
Sbjct: 79 PN 80
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 40/63 (63%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L+VG+L F++ L G+FE G ++ + ++ D TGRS+G+GF+T S E A +Q
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 156 NGY 158
NG+
Sbjct: 68 NGF 70
>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 = 54.3 bits (129), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/57 (49%), Positives = 34/57 (59%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
KLF+G L F L FE G + V+ D T RSRGFGFVT ++VEEV+AA
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 70
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
K+FVG + + L FE G +E++E++ D+ +G+ RGF FVT + V+ Q
Sbjct: 105 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 164
>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 = 54.3 bits (129), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/57 (49%), Positives = 34/57 (59%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
KLF+G L F L FE G + V+ D T RSRGFGFVT ++VEEV+AA
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 71
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
K+FVG + + L FE G +E++E++ D+ +G+ RGF FVT + V+ Q
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 165
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 53.9 bits (128), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 28/57 (49%), Positives = 34/57 (59%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
KLF+G L F L FE G + V+ D T RSRGFGFVT ++VEEV+AA
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 71
Score = 47.0 bits (110), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
K+FVG + + L FE G +E++E++ D+ +G+ RGF FVT + V+ Q
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 165
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 53.9 bits (128), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 28/57 (49%), Positives = 34/57 (59%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
KLF+G L F L FE G + V+ D T RSRGFGFVT ++VEEV+AA
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 72
Score = 46.6 bits (109), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
K+FVG + + L FE G +E++E++ D+ +G+ RGF FVT + V+ Q
Sbjct: 107 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 166
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 53.9 bits (128), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 28/57 (49%), Positives = 34/57 (59%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
KLF+G L F L FE G + V+ D T RSRGFGFVT ++VEEV+AA
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 69
Score = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
K+FVG + + L FE G +E++E++ D+ +G+ RGF FVT + V+ Q
Sbjct: 104 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 163
>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 = 53.9 bits (128), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 28/57 (49%), Positives = 34/57 (59%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
KLF+G L F L FE G + V+ D T RSRGFGFVT ++VEEV+AA
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 64
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
K+FVG + + L FE G +E++E++ D+ +G+ RGF FVT + V+ Q
Sbjct: 99 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ 158
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 53.1 bits (126), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 38/67 (56%)
Query: 91 SPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEA 150
S + KLFVG L F + L +F G + V V+ D+ T RSRGFGFVT ++++ +
Sbjct: 10 SDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKD 69
Query: 151 AAQQFNG 157
A NG
Sbjct: 70 AMMAMNG 76
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/72 (38%), Positives = 40/72 (55%), Gaps = 2/72 (2%)
Query: 89 NFSPDL--KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVE 146
N PD+ L V +P +VD QL LFE G +E V+++ D+ T +SRG+GFV S
Sbjct: 36 NPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGS 95
Query: 147 EVEAAAQQFNGY 158
+ A NG+
Sbjct: 96 SAQQAIAGLNGF 107
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 50.8 bits (120), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 26/57 (45%), Positives = 33/57 (57%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
KLF+G L F L +E G + V+ D + RSRGFGFVT SS+ EV+AA
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAA 85
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 49.7 bits (117), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L++ NLP S+D +L + + G V ++ D +G SRG GF M S E+ EA F
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEAVIGHF 86
Query: 156 NG 157
NG
Sbjct: 87 NG 88
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 35/67 (52%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAA 152
D L+V NLP ++ QL +F G++ ++ DK+TGR RG FV + EE + A
Sbjct: 100 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 159
Query: 153 QQFNGYV 159
N +
Sbjct: 160 SALNNVI 166
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 38/73 (52%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
+FVG L + + FE G V+ +++DK T R RGFGFVT S + VE +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 156 NGYVSNKLSPKKK 168
++NK+ KK
Sbjct: 62 FHEINNKMVECKK 74
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 35/67 (52%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAA 152
D L+V NLP ++ QL +F G++ ++ DK+TGR RG FV + EE + A
Sbjct: 13 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 72
Query: 153 QQFNGYV 159
N +
Sbjct: 73 SALNNVI 79
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
+FVGN+P+ QL +F G V ++YD+ TG+ +G+GF E +A +
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 156 NG 157
NG
Sbjct: 71 NG 72
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 35/67 (52%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAA 152
D L+V NLP ++ QL +F G++ ++ DK+TGR RG FV + EE + A
Sbjct: 89 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 148
Query: 153 QQFNGYV 159
N +
Sbjct: 149 SALNNVI 155
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 35/58 (60%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ 153
++VGNL +S S Q+ LF G V V++IYD+ T + +GFGFV M EA A+
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAK 61
>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 = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 34/62 (54%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L V LP ++ +L LF + G VE ++I DKV G S G+GFV + ++ E A
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 156 NG 157
NG
Sbjct: 67 NG 68
>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 = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 34/62 (54%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L V LP ++ +L LF + G VE ++I DKV G S G+GFV + ++ E A
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 156 NG 157
NG
Sbjct: 65 NG 66
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 31/66 (46%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAA 152
D L++ LP ++ + +F G + V+ D+ TG SRG F+ E E A
Sbjct: 88 DANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
Query: 153 QQFNGY 158
FNG+
Sbjct: 148 TSFNGH 153
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 34/62 (54%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L V LP ++ +L LF + G VE ++I DKV G S G+GFV + ++ E A
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 156 NG 157
NG
Sbjct: 65 NG 66
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 31/66 (46%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAA 152
D L++ LP ++ + +F G + V+ D+ TG SRG F+ E E A
Sbjct: 88 DANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
Query: 153 QQFNGY 158
FNG+
Sbjct: 148 TSFNGH 153
>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 = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 33/62 (53%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L V LP + +L LF + G VE ++I DKV G S G+GFV + ++ E A
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 156 NG 157
NG
Sbjct: 82 NG 83
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L V LP ++ + LF + G++E +++ DK+TG+S G+GFV S + + A
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 156 NG 157
NG
Sbjct: 67 NG 68
>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 = 46.2 bits (108), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 40/77 (51%), Gaps = 6/77 (7%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTM---SSVEEVEA 150
K+F+G L + L F G V ++++ D TGRSRGFGF++ SSV+EV
Sbjct: 4 CKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK 63
Query: 151 AAQQFNGYVSNKLSPKK 167
+G V + PK+
Sbjct: 64 TQHILDGKV---IDPKR 77
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ- 153
K+FVG + V + F G + +++ DK TG+SRGFGFVT S + V+ Q
Sbjct: 89 KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQN 148
Query: 154 QFNGYVSNKLSPKK 167
+F + K+ K+
Sbjct: 149 KFIDFKDRKIEIKR 162
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L V LP ++ + LF + G++E +++ DK+TG+S G+GFV S + + A
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 156 NG 157
NG
Sbjct: 67 NG 68
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 32/65 (49%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAA 152
D L+V LP ++ ++ LF G + ++ D+ TG SRG GF+ E E A
Sbjct: 90 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 149
Query: 153 QQFNG 157
+ NG
Sbjct: 150 KGLNG 154
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ- 153
K+FVG +P + +L F+ G V V +IYD R RGFGF+T + V+ A
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 154 QFNGYVSNKLSPKK 167
F+ + K+ K+
Sbjct: 72 HFHDIMGKKVEVKR 85
>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 = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 33/65 (50%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAA 152
D L+V LP ++ +L LF G + ++ D+VTG SRG GF+ E E A
Sbjct: 88 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAI 147
Query: 153 QQFNG 157
+ NG
Sbjct: 148 KGLNG 152
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 34/62 (54%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L V LP ++ + LF + G +E +++ DK+TG+S G+GFV ++ E A
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 156 NG 157
NG
Sbjct: 65 NG 66
>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 = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 37/67 (55%)
Query: 92 PDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
P +++G++P+ Q+ L G V +++++D TGRS+G+ F+ +E +A
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 62
Query: 152 AQQFNGY 158
+ NGY
Sbjct: 63 VRNLNGY 69
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 37/67 (55%)
Query: 92 PDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
P +++G++P+ Q+ L G V +++++D TGRS+G+ F+ +E +A
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 152 AQQFNGY 158
+ NGY
Sbjct: 61 VRNLNGY 67
>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 = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 37/67 (55%)
Query: 92 PDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
P +++G++P+ Q+ L G V +++++D TGRS+G+ F+ +E +A
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 61
Query: 152 AQQFNGY 158
+ NGY
Sbjct: 62 VRNLNGY 68
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 43.5 bits (101), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVE 146
+KLF+G +P ++D L LFE G + + V+ D+ TG +G F+T E
Sbjct: 14 IKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERE 66
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 32/65 (49%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAA 152
D L+V LP ++ ++ LF G + ++ D+ TG SRG GF+ E E A
Sbjct: 1 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 60
Query: 153 QQFNG 157
+ NG
Sbjct: 61 KGLNG 65
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 30/51 (58%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSS 144
+KLFVG +P +D L LFE G + + V+ D++TG +G F+T +
Sbjct: 16 IKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCA 66
>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 = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
+F+G L + L F G V + D +TGRSRGFGFV E V+ Q
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 156 NGYVSNK-LSPKK 167
++ K + PK+
Sbjct: 62 EHKLNGKVIDPKR 74
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 42.7 bits (99), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ 153
+ L+V NL +D +L F G + +V+ + GRS+GFGFV SS EE A
Sbjct: 16 VNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVT 73
Query: 154 QFNGYV 159
+ NG +
Sbjct: 74 EMNGRI 79
>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 = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%)
Query: 91 SPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEA 150
S +FVG+L + + + F G + V+ D TG+S+G+GFV+ + + E
Sbjct: 13 SNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAEN 72
Query: 151 AAQQFNG 157
A QQ G
Sbjct: 73 AIQQMGG 79
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 40/73 (54%), Gaps = 2/73 (2%)
Query: 87 GSNFSPDLKLFVGNLPFSVDSAQ--LAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSS 144
GS +PD +G S+ + + L +F G + V ++YD+ + RSRGF FV +
Sbjct: 4 GSRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 63
Query: 145 VEEVEAAAQQFNG 157
V++ + A ++ NG
Sbjct: 64 VDDAKEAKERANG 76
>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 = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 34/64 (53%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ 153
LFVG+L +VD L F+ + V++D TG SRG+GFV+ +S ++ + A
Sbjct: 2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 61
Query: 154 QFNG 157
G
Sbjct: 62 SMQG 65
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
KLF+G L + L +F G + V +I D+ T +SRGF F+T + + + AA+
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 155 FNG 157
NG
Sbjct: 68 MNG 70
>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 = 2e-04, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 34/64 (53%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ 153
LFVG+L +VD L F+ + V++D TG SRG+GFV+ +S ++ + A
Sbjct: 88 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 147
Query: 154 QFNG 157
G
Sbjct: 148 SMQG 151
Score = 30.8 bits (68), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L+VGNL ++ L F+ G + ++++ DK ++ + FV + A Q
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQTL 61
Query: 156 NG 157
NG
Sbjct: 62 NG 63
>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 = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
+F+ NL S+D+ L F GN+ +V+ D+ S+G+GFV + E E A ++
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 158
Query: 156 NGYVSN 161
NG + N
Sbjct: 159 NGMLLN 164
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%)
Query: 92 PDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
P L+VG+L V A L F AG + + V D +T RS G+ +V + E A
Sbjct: 9 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 68
Query: 152 AQQFN 156
N
Sbjct: 69 LDTMN 73
>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 = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 33/62 (53%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LFV + + ++L FE G ++ + ++Y K +G+ RG+ F+ ++ +A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 156 NG 157
+G
Sbjct: 165 DG 166
>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 = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
+F+ NL S+D+ L F GN+ +V+ D+ S+G+GFV + E E A ++
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 163
Query: 156 NGYVSN 161
NG + N
Sbjct: 164 NGMLLN 169
Score = 36.2 bits (82), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%)
Query: 92 PDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
P L+VG+L V A L F AG + + V D +T RS G+ +V + E A
Sbjct: 14 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 73
Query: 152 AQQFN 156
N
Sbjct: 74 LDTMN 78
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 36/70 (51%)
Query: 88 SNFSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEE 147
+N P+ L V L L +F G + V ++YD+ + RSRGF FV +V++
Sbjct: 10 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDD 69
Query: 148 VEAAAQQFNG 157
+ A ++ NG
Sbjct: 70 AKEAKERANG 79
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
+F+ NL S+D+ L F GN+ +V+ D+ S+G+GFV + E E A ++
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 71
Query: 156 NGYVSN 161
NG + N
Sbjct: 72 NGMLLN 77
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVE-EVEAAAQQ 154
L V LP+ L F T G V MV+V D TG S+GFGFV + E +V+ +Q+
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR 77
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 91 SPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEA 150
S K+F+G L + L F G V+ V+ D +T RSRGFGFVT V+
Sbjct: 23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDK 82
Query: 151 A-AQQFNGYVSNKLSPK 166
AQ + S + PK
Sbjct: 83 VLAQSRHELDSKTIDPK 99
>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 = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 31/74 (41%), Gaps = 1/74 (1%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
K FVG L + L F G V + D TGRSRGFGF+ VE Q
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 155 FNGYVSNK-LSPKK 167
+ + + PKK
Sbjct: 73 KEHRLDGRVIDPKK 86
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 25/46 (54%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFV 140
KLFVG L +S L F G V ++ DK T +SRGFGFV
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFV 63
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 88 SNFSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEE 147
++ +LFVGNLP + LFE G E EV + R RGFGF+ + S
Sbjct: 17 KTYTQRCRLFVGNLPTDITEEDFKRLFERYG--EPSEVFIN----RDRGFGFIRLESRTL 70
Query: 148 VEAAAQQFNGYV 159
E A + +G +
Sbjct: 71 AEIAKAELDGTI 82
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
A Ph 9.0
Length = 115
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
+F+ NL S+D+ L F GN+ +V+ D+ S+G+GFV + E E A ++
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 65
Query: 156 NGYVSN 161
NG + N
Sbjct: 66 NGMLLN 71
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 36/70 (51%)
Query: 88 SNFSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEE 147
+N P+ L V L L +F G + V ++YD+ + RSRGF FV +V++
Sbjct: 10 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDD 69
Query: 148 VEAAAQQFNG 157
+ A ++ NG
Sbjct: 70 AKEAKERANG 79
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 32/63 (50%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LF+ +LP LA F GNV +V DK T S+ FGFV+ + + + A +
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 156 NGY 158
NG+
Sbjct: 103 NGF 105
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 36/70 (51%)
Query: 88 SNFSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEE 147
+N P+ L V L L +F G + V ++YD+ + RSRGF FV +V++
Sbjct: 41 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDD 100
Query: 148 VEAAAQQFNG 157
+ A ++ NG
Sbjct: 101 AKEAKERANG 110
>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 = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 33/62 (53%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LFV + + ++L FE G ++ + ++Y K +G+ RG+ F+ ++ +A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 156 NG 157
+G
Sbjct: 165 DG 166
>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 = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
++VGN+ + + +L F G+V V ++ DK +G +GF ++ S E V +
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTS 64
>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 = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
++VGN+ + + +L F G+V V ++ DK +G +GF ++ S E V +
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTS 63
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 35/74 (47%), Gaps = 1/74 (1%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA-A 152
K+F+G L + L F G V+ V+ D +T RSRGFGFVT V+ A
Sbjct: 1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA 60
Query: 153 QQFNGYVSNKLSPK 166
Q + S + PK
Sbjct: 61 QSRHELDSKTIDPK 74
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 39.7 bits (91), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
+L V N+PF L +F G + VE+I+++ S+GFGFVT + + + A ++
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 74
Query: 155 FNGYV 159
+G V
Sbjct: 75 LHGTV 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 = 39.7 bits (91), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L+VGNL F Q+ LF +G+++ + + DK+ + GF FV S + E A +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 156 NG 157
NG
Sbjct: 102 NG 103
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 39.7 bits (91), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
+FV NL + V +L +F AG V +++ DK G+SRG G VT E A F
Sbjct: 18 VFVANLDYKVGWKKLKEVFSMAGVVVRADILEDK-DGKSRGIGTVTFEQSIEAVQAISMF 76
Query: 156 NGYV 159
NG +
Sbjct: 77 NGQL 80
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
+L V N+PF L +F G + VE+I+++ S+GFGFVT + + + A ++
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 88
Query: 155 FNGYV 159
+G V
Sbjct: 89 LHGTV 93
>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 = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 32/63 (50%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LF+ +LP L +F GNV +V DK T S+ FGFV+ + +AA Q
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 156 NGY 158
NG+
Sbjct: 88 NGF 90
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ 153
K+FVGN+ + S +L LFE G V +V+ D + FV M + +AA
Sbjct: 10 WKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIA 61
Query: 154 QFNG 157
Q NG
Sbjct: 62 QLNG 65
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNV-EMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
+F+GNL +D L F G + + +++ D TG S+G+ F+ +S + +AA +
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 155 FNG-YVSNK 162
NG Y+ N+
Sbjct: 68 MNGQYLCNR 76
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 31/61 (50%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
++V NLPFS+ + L +F G V V ++ DK T +S+G F+ + + +
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 156 N 156
N
Sbjct: 79 N 79
>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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 31/56 (55%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
++VGN+ + + L F + G++ + ++ DK +G +G+ ++ + V+AA
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAA 94
>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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 39/65 (60%), Gaps = 4/65 (6%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSS---VEEVEAAA 152
+FVG + +D ++ F G+V+ V++I D+ TG S+G+GFV+ + V+++ +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 153 QQFNG 157
F+G
Sbjct: 71 INFHG 75
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAA 152
D ++VG L V L LF AG V + D+VTG+ +G+GFV S E+ + A
Sbjct: 15 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74
Query: 153 Q 153
+
Sbjct: 75 K 75
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 39/65 (60%), Gaps = 4/65 (6%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSS---VEEVEAAA 152
+FVG + +D ++ F G+V+ V++I D+ TG S+G+GFV+ + V+++ +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 153 QQFNG 157
F+G
Sbjct: 71 INFHG 75
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 30/65 (46%), Gaps = 1/65 (1%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAA 152
D +FVGNL V L LF AG + V + D+ G+ + FGFV E V A
Sbjct: 16 DRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDR-EGKPKSFGFVCFKHPESVSYAI 74
Query: 153 QQFNG 157
NG
Sbjct: 75 ALLNG 79
>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 = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
KLF+G LP ++ Q+ L + G ++ ++ D TG S+G+ F + + A
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 157
Query: 155 FNG 157
NG
Sbjct: 158 LNG 160
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 18/76 (23%)
Query: 95 KLFVGNLPFSVD----------SAQLAGLFETAGN-VEMVEVIYDKVTGRSRGFGFVTMS 143
+L+VGN+PF + +L GL + GN V V++ DK F F+
Sbjct: 8 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDK------NFAFLEFR 61
Query: 144 SVEEVEAAAQQFNGYV 159
SV+E A F+G +
Sbjct: 62 SVDET-TQAMAFDGII 76
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 39/65 (60%), Gaps = 4/65 (6%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSS---VEEVEAAA 152
+FVG + +D ++ F G+V+ V++I D+ TG S+G+GFV+ + V+++ +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 153 QQFNG 157
F+G
Sbjct: 72 INFHG 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 = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
KLF+G LP ++ Q+ L + G ++ ++ D TG S+G+ F + + A
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 175
Query: 155 FNG 157
NG
Sbjct: 176 LNG 178
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 18/76 (23%)
Query: 95 KLFVGNLPFSVD----------SAQLAGLFETAGN-VEMVEVIYDKVTGRSRGFGFVTMS 143
+L+VGN+PF + +L GL + GN V V++ DK F F+
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDK------NFAFLEFR 59
Query: 144 SVEEVEAAAQQFNGYV 159
SV+E A F+G +
Sbjct: 60 SVDET-TQAMAFDGII 74
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 27/48 (56%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFV 140
D L V NLP S+ Q L G++E ++Y + TG+S+G+GF
Sbjct: 95 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFA 142
>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 = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 27/48 (56%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFV 140
D L V NLP S+ Q L G++E ++Y + TG+S+G+GF
Sbjct: 93 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFA 140
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 27/48 (56%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFV 140
D L V NLP S+ Q L G++E ++Y + TG+S+G+GF
Sbjct: 95 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFA 142
>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 = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L+VGNL F Q+ LF +G+++ + + DK+ + GF FV S + E A +
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK-TACGFCFVEYYSRADAENAMRYI 79
Query: 156 NG 157
NG
Sbjct: 80 NG 81
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
KLF+G LP ++ Q+ L + G ++ ++ D TG S+G+ F + + A
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 155
Query: 155 FNG 157
NG
Sbjct: 156 LNG 158
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 18/76 (23%)
Query: 95 KLFVGNLPFSVD----------SAQLAGLFETAGN-VEMVEVIYDKVTGRSRGFGFVTMS 143
+L+VGN+PF + +L GL + GN V V++ DK F F+
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDK------NFAFLEFR 59
Query: 144 SVEEVEAAAQQFNGYV 159
SV+E A F+G +
Sbjct: 60 SVDET-TQAMAFDGII 74
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%)
Query: 91 SPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEA 150
S +FVG+L + + + F G + V+ D TG+S+G+GFV+ + + E
Sbjct: 13 SNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAEN 72
Query: 151 AAQQFNG 157
A G
Sbjct: 73 AIVHMGG 79
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
KLF+G LP ++ Q+ L + G ++ ++ D TG S+G+ F + + A
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 155 FNG 157
NG
Sbjct: 63 LNG 65
>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 = 23/70 (32%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 88 SNFSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEE 147
S S ++FV NLPF L F G+V ++ + G+S+G G V S E
Sbjct: 3 SGSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEV 60
Query: 148 VEAAAQQFNG 157
E A + NG
Sbjct: 61 AERACRMMNG 70
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 30/67 (44%), Gaps = 3/67 (4%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGR---SRGFGFVTMSSVEEVEAAA 152
LF+ NL FS L G+F G ++ + K S GFGFV E+ + A
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 153 QQFNGYV 159
+Q G+
Sbjct: 68 KQLQGHT 74
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 110 LAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQFNG 157
L LF AG V +E D+ TG+++GF FV S+ + + + F+G
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHG 76
>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 = 35.8 bits (81), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 28/64 (43%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L V NL + L +FE G V V + D+ T SRGF FV + E A
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 156 NGYV 159
+G V
Sbjct: 110 DGAV 113
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 32/69 (46%), Gaps = 6/69 (8%)
Query: 88 SNFSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEE 147
F+ +LFVGNLP + ++ LFE G V + DK GFGF+ + +
Sbjct: 17 KTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTL 70
Query: 148 VEAAAQQFN 156
E A + +
Sbjct: 71 AEIAKVELD 79
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 110 LAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQFNG 157
L LF AG V +E D+ TG+++GF FV S+ + + + F+G
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHG 76
>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 = 35.4 bits (80), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 6/68 (8%)
Query: 89 NFSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEV 148
F+ +LFVGNLP + ++ LFE G V + DK GFGF+ + +
Sbjct: 11 TFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLA 64
Query: 149 EAAAQQFN 156
E A + +
Sbjct: 65 EIAKVELD 72
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 35.4 bits (80), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
+FV NLPF L F G+V ++ + G+S+G G V S E E A +
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACRMM 65
Query: 156 NG 157
NG
Sbjct: 66 NG 67
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 35.4 bits (80), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 28/64 (43%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L V NL + L +FE G V V + D+ T SRGF FV + E A
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 156 NGYV 159
+G V
Sbjct: 133 DGAV 136
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKV-TGRSRGFGFVTMSSVEEVEAA 151
K+ V N+PF + ++ LF T G ++ V + TG RGFGFV + ++ + A
Sbjct: 17 KILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKA 74
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 35.0 bits (79), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
KLFVG L + LFE GN+E ++ G S+G FV SS E +AA
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGP-DGNSKGCAFVKYSSHAEAQAAINA 75
Query: 155 FNG 157
+G
Sbjct: 76 LHG 78
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 35.0 bits (79), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L+VG L VD L F G++ +++ D T + RGF FV E+ AA
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 156 N 156
N
Sbjct: 126 N 126
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 35.0 bits (79), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 8/65 (12%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ 153
+KLF+GNLP ++ LFE G V ++I + +GFV + E A +
Sbjct: 9 VKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIR 60
Query: 154 QFNGY 158
+ Y
Sbjct: 61 NLHHY 65
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 34.7 bits (78), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 30/65 (46%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
+LFV NL ++ L LF G + + D +T + +GF FVT E A +
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 155 FNGYV 159
+G V
Sbjct: 70 VDGQV 74
>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 = 0.024, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 32/68 (47%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
+ V NL L LF G++ + + DK TG+S+GF F++ E+ A
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV 77
Query: 156 NGYVSNKL 163
+G+ + L
Sbjct: 78 SGFGYDHL 85
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 34.7 bits (78), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L+VG L VD L F G++ +++ D T + RGF FV E+ AA
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 156 N 156
N
Sbjct: 75 N 75
>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 = 34.7 bits (78), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 31/70 (44%)
Query: 87 GSNFSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVE 146
GS + L+VG L VD L F G++ +++ D T + RGF FV E
Sbjct: 1 GSMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 60
Query: 147 EVEAAAQQFN 156
+ AA N
Sbjct: 61 DAAAAIDNMN 70
>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 = 0.028, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L+VG L VD L F G++ +++ D T + RGF FV E+ AA
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 156 N 156
N
Sbjct: 65 N 65
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L+VG L VD L F G++ +++ D T + RGF FV E+ AA
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 156 N 156
N
Sbjct: 68 N 68
>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 = 34.3 bits (77), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 39/71 (54%), Gaps = 4/71 (5%)
Query: 87 GSNFSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVE 146
GS+F +FVG+L + +A +A F G + V+ D TG+S+G+GFV+ +
Sbjct: 4 GSHF----HVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKW 59
Query: 147 EVEAAAQQFNG 157
+ E A QQ G
Sbjct: 60 DAENAIQQMGG 70
>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 = 34.3 bits (77), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 29/60 (48%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
K+FVG L ++ F G VE +E+ D T + RGF F+T E V+ ++
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 33.9 bits (76), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 92 PDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
P +VGNLPF+ + +F+ ++ V ++ DK T + +GF +V V+ ++ A
Sbjct: 14 PPYTAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEA 72
>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 = 33.5 bits (75), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTG--RSRGFGFVT 141
+K+FVG +P + L LFE G V + V+ D+ +S+G FVT
Sbjct: 4 IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVT 53
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 33.5 bits (75), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 5/55 (9%)
Query: 92 PDL---KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTG--RSRGFGFVT 141
PDL K+FVG +P + L LFE G V + V+ D+ +S+G FVT
Sbjct: 11 PDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVT 65
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 33.5 bits (75), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 37/74 (50%), Gaps = 1/74 (1%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEM-VEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
L++G+L +D ++ F T G M V++I +++TG G+ FV + + E +
Sbjct: 12 LWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71
Query: 155 FNGYVSNKLSPKKK 168
NG +P K+
Sbjct: 72 INGKPLPGATPAKR 85
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 33.5 bits (75), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 92 PDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
P LFV L L F+ G+V ++ D+ TG S+GFGFV +S E+ +AA
Sbjct: 14 PSKTLFVKGLSEDTTEETLKESFD--GSV-RARIVTDRETGSSKGFGFVDFNSEEDAKAA 70
Query: 152 AQ 153
+
Sbjct: 71 KE 72
>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 = 33.5 bits (75), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 33/63 (52%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ 153
+++VG++ + + + F G ++ +++ +D VT + +GF FV E + A +
Sbjct: 14 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 73
Query: 154 QFN 156
Q N
Sbjct: 74 QMN 76
Score = 30.0 bits (66), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 12/62 (19%), Positives = 29/62 (46%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
+++V ++ + + +FE G ++ + D TG+ +G+GF+ + + A
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 171
Query: 155 FN 156
N
Sbjct: 172 MN 173
>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 = 32.7 bits (73), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 32/63 (50%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ 153
+++VG++ + + + F G ++ ++ +D VT + +GF FV E + A +
Sbjct: 13 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALE 72
Query: 154 QFN 156
Q N
Sbjct: 73 QXN 75
Score = 30.0 bits (66), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 12/62 (19%), Positives = 29/62 (46%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
+++V ++ + + +FE G ++ + D TG+ +G+GF+ + + A
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 170
Query: 155 FN 156
N
Sbjct: 171 XN 172
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 32.7 bits (73), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTG--RSRGFGFVT 141
+K+FVG +P + L LFE G V + V+ D+ +S+G FVT
Sbjct: 4 IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVT 53
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 32.7 bits (73), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
+FVG L ++ F G VE +E+ D T + RGF F+T E V+ ++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60
>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 = 32.7 bits (73), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 33/62 (53%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
+++VG++ + + + F G ++ +++ +D VT + +GF FV E + A +Q
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 89
Query: 155 FN 156
N
Sbjct: 90 MN 91
Score = 29.6 bits (65), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 12/62 (19%), Positives = 29/62 (46%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
+++V ++ + + +FE G ++ + D TG+ +G+GF+ + + A
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 186
Query: 155 FN 156
N
Sbjct: 187 MN 188
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 32.0 bits (71), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 12/82 (14%)
Query: 84 DEDGSNFSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEM--------VEVIYDKVTGRSR 135
DED N + ++V L SV LA F+ G V+M + + DK TG+ +
Sbjct: 10 DEDSDNSA----IYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPK 65
Query: 136 GFGFVTMSSVEEVEAAAQQFNG 157
G V+ +AA + F+G
Sbjct: 66 GDATVSYEDPPTAKAAVEWFDG 87
>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 = 31.6 bits (70), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 95 KLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
KLF+ LPFS +L + + G V+ + ++ ++ G+ +G +V + + A +
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRA-GKPKGLAYVEYENESQASQAVMK 77
Query: 155 FNG 157
+G
Sbjct: 78 MDG 80
>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 = 0.21, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTG--RSRGFGFVT 141
+K FVG +P + L LFE G V + V+ D+ +S+G FVT
Sbjct: 4 IKXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVT 53
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 31.2 bits (69), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 29/67 (43%)
Query: 92 PDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
P+ L++ NL V L LF + + + +TGR RG F+T + E A
Sbjct: 24 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQA 83
Query: 152 AQQFNGY 158
NGY
Sbjct: 84 LHLVNGY 90
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 92 PDLKLFVGNLPFSVDSAQLAGLF-ETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEA 150
P+ LFVG+L VD L F + + +V+ D+ TG S+G+GFV + E +
Sbjct: 8 PEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFTDELEQKR 66
Query: 151 AAQQFNGYV 159
A + G V
Sbjct: 67 ALTECQGAV 75
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 30.8 bits (68), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 123 VEVIYDKVTGRSRGFGFVTMSSVEEVE 149
V VI DK T +RGF F+ +S++E +
Sbjct: 55 VRVIKDKQTQLNRGFAFIQLSTIEAAQ 81
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 29.3 bits (64), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 32/74 (43%), Gaps = 13/74 (17%)
Query: 88 SNFSPDLKLFVGNLPF-SVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTM---- 142
N P +LF+GNLP +V L +F G++ + + FGF+
Sbjct: 5 HNIPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI--------KNAFGFIQFDNPQ 56
Query: 143 SSVEEVEAAAQQFN 156
S + +E +Q+ N
Sbjct: 57 SVRDAIECESQEMN 70
>pdb|3PET|A Chain A, Crystal Structure Of A Putative Adhesin (Bf0245) From
Bacteroides Fragilis Nctc 9343 At 2.07 A Resolution
pdb|3PET|B Chain B, Crystal Structure Of A Putative Adhesin (Bf0245) From
Bacteroides Fragilis Nctc 9343 At 2.07 A Resolution
Length = 221
Score = 29.3 bits (64), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 107 SAQLAGLF-ETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQFNGYVSNKLSP 165
+AQ+A L + GN+E + + V S+G G +T ++ E ++AA + G + K SP
Sbjct: 147 TAQIAALHSKGVGNIEAGNLRANAVEASSQGVGDITCNATESIDAAVRGV-GSIKYKGSP 205
Query: 166 KKK 168
K
Sbjct: 206 TIK 208
>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 = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 28/62 (45%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LFV + + F G ++ + + D+ TG +G+ V + +E +AA +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 156 NG 157
NG
Sbjct: 86 NG 87
>pdb|3KSM|A Chain A, Crystal Structure Of Abc-Type Sugar Transport System,
Periplasmic Component From Hahella Chejuensis
pdb|3KSM|B Chain B, Crystal Structure Of Abc-Type Sugar Transport System,
Periplasmic Component From Hahella Chejuensis
Length = 276
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 9/78 (11%)
Query: 84 DEDGSNFSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMS 143
D+ G+ S L+L ++ + GLF + + ++ + +G S+ FGF+
Sbjct: 169 DDRGAARSEXLRLLK-------ETPTIDGLFTPNESTTIGALVAIRQSGXSKQFGFIGFD 221
Query: 144 SVEEVEAAAQQFNGYVSN 161
EE+EAA + G +SN
Sbjct: 222 QTEELEAAX--YAGEISN 237
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
L++ L L L + G + + I DK T + +G+GFV S + A
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKA 63
>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 = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 30/62 (48%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LFV ++ ++ F G ++ + + D+ TG S+G+ V + ++ AA +
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 156 NG 157
NG
Sbjct: 135 NG 136
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 30/62 (48%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LFV ++ ++ F G ++ + + D+ TG S+G+ V + ++ AA +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 156 NG 157
NG
Sbjct: 89 NG 90
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 5/62 (8%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L NLP+ V +L +FE A + +V G+S+G ++ + + E ++
Sbjct: 96 LLAKNLPYKVTQDELKEVFEDAAEIRLV-----SKDGKSKGIAYIEFKTEADAEKTFEEK 150
Query: 156 NG 157
G
Sbjct: 151 QG 152
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 18/85 (21%)
Query: 95 KLFVGNLPFSVD----------SAQLAGLFETAGN-VEMVEVIYDKVTGRSRGFGFVTMS 143
+L+VGN+PF + +L GL + GN V V++ DK F F+
Sbjct: 3 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDK------NFAFLEFR 56
Query: 144 SVEEVEAAAQQFNGYVSNKLSPKKK 168
SV+E A F+G + S K +
Sbjct: 57 SVDET-TQAMAFDGIIFQGQSLKIR 80
>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 = 1.5, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 28/62 (45%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LFV + + F G ++ + + D+ TG +G+ V + +E +AA +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 156 NG 157
NG
Sbjct: 85 NG 86
>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 = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 28/62 (45%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LFV + + F G ++ + + D+ TG +G+ V + +E +AA +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 156 NG 157
NG
Sbjct: 70 NG 71
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large
Subunit
Length = 87
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 18/85 (21%)
Query: 95 KLFVGNLPFSVD----------SAQLAGLFETAGN-VEMVEVIYDKVTGRSRGFGFVTMS 143
+L+VGN+PF + +L GL + GN V V++ DK F F+
Sbjct: 8 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDK------NFAFLEFR 61
Query: 144 SVEEVEAAAQQFNGYVSNKLSPKKK 168
SV+E A F+G + S K +
Sbjct: 62 SVDET-TQAMAFDGIIFQGQSLKIR 85
>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 = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 28/62 (45%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LFV + + F G ++ + + D+ TG +G+ V + +E +AA +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 156 NG 157
NG
Sbjct: 72 NG 73
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 28/62 (45%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LFV + + F G ++ + + D+ TG +G+ V + +E +AA +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 156 NG 157
NG
Sbjct: 70 NG 71
>pdb|2NXX|E Chain E, Crystal Structure Of The Ligand-Binding Domains Of The
T.Castaneum (Coleoptera) Heterodimer Ecrusp Bound To
Ponasterone A
pdb|2NXX|F Chain F, Crystal Structure Of The Ligand-Binding Domains Of The
T.Castaneum (Coleoptera) Heterodimer Ecrusp Bound To
Ponasterone A
pdb|2NXX|G Chain G, Crystal Structure Of The Ligand-Binding Domains Of The
T.Castaneum (Coleoptera) Heterodimer Ecrusp Bound To
Ponasterone A
pdb|2NXX|H Chain H, Crystal Structure Of The Ligand-Binding Domains Of The
T.Castaneum (Coleoptera) Heterodimer Ecrusp Bound To
Ponasterone A
Length = 248
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNV 120
LFV N P+S DS LAG+ ET ++
Sbjct: 114 LFVNNQPYSRDSYNLAGMGETIEDL 138
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 101 LPFSVDSAQLAGLFETAG-NVEMVEVIYDKVTGRSRGFGFVTMSSVEE 147
LP + + G ++ G V ++ +K +G+SRGF FV S +++
Sbjct: 9 LPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQD 56
>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 = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 28/62 (45%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
LFV + + F G ++ + + D+ TG +G+ V + +E +AA +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 156 NG 157
NG
Sbjct: 70 NG 71
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 30/68 (44%), Gaps = 7/68 (10%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRG--FGFVTMSSVEEVEA 150
D +++VGNLP + + + +F G + ++ + R G F FV + E
Sbjct: 22 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDID-----LKNRRGGPPFAFVEFEDPRDAED 76
Query: 151 AAQQFNGY 158
A +GY
Sbjct: 77 AVYGRDGY 84
>pdb|2E5G|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 21
Length = 94
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 26/59 (44%), Gaps = 5/59 (8%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQ 154
+FV P VDSAQL+ F G V V+ DK G F V M V EA Q
Sbjct: 11 VFVSGFPRGVDSAQLSEYFLAFGPV--ASVVMDKDKGV---FAIVEMGDVGAREAVLSQ 64
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 13/70 (18%)
Query: 92 PDLKLFVGNLPF-SVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTM----SSVE 146
P +LF+GNLP +V L +F G++ + + FGF+ S +
Sbjct: 1 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI--------KNAFGFIQFDNPQSVRD 52
Query: 147 EVEAAAQQFN 156
+E +Q+ N
Sbjct: 53 AIECESQEMN 62
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 120 VEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ 153
V + +I DK T ++RGF FV +SS + Q
Sbjct: 38 VNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQ 71
>pdb|2HEZ|A Chain A, Bifidobacterium Longum Bile Salt Hydrolase
pdb|2HEZ|B Chain B, Bifidobacterium Longum Bile Salt Hydrolase
Length = 316
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 25/65 (38%)
Query: 60 SSPSRFVRNVAVSSEFDQEEDLLSDEDGSNFSPDLKLFVGNLPFSVDSAQLAGLFETAGN 119
SSPSRFVR ++ + Q+ D ++A ++ LF T G+
Sbjct: 221 SSPSRFVRVAYTNAHYPQQND-------------------------EAANVSRLFHTLGS 255
Query: 120 VEMVE 124
V+MV+
Sbjct: 256 VQMVD 260
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 93 DLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAA 151
D KLFVG L + +FE G ++ V+ G S+G FV + E +AA
Sbjct: 12 DRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGP-DGTSKGCAFVKFQTHAEAQAA 69
>pdb|2HF0|A Chain A, Bifidobacterium Longum Bile Salt Hydrolase
pdb|2HF0|B Chain B, Bifidobacterium Longum Bile Salt Hydrolase
Length = 316
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 25/65 (38%)
Query: 60 SSPSRFVRNVAVSSEFDQEEDLLSDEDGSNFSPDLKLFVGNLPFSVDSAQLAGLFETAGN 119
SSPSRFVR ++ + Q+ D ++A ++ LF T G+
Sbjct: 221 SSPSRFVRVAYTNAHYPQQND-------------------------EAANVSRLFHTLGS 255
Query: 120 VEMVE 124
V+MV+
Sbjct: 256 VQMVD 260
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 26/64 (40%)
Query: 94 LKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQ 153
+ L V NL + L +FE G V V + + T RGF FV + + A
Sbjct: 14 ITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEA 73
Query: 154 QFNG 157
+G
Sbjct: 74 AMDG 77
>pdb|1HH2|P Chain P, Crystal Structure Of Nusa From Thermotoga Maritima
Length = 344
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 118 GNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQFNGYVSNKLSP 165
GN + VEV+ D+ TG + + + VEEVE A Q + + K+ P
Sbjct: 40 GNSKNVEVVIDRNTGNIKVYQL--LEVVEEVEDPATQISLEEAKKIDP 85
>pdb|1L2F|A Chain A, Crystal Structure Of Nusa From Thermotoga Maritima: A
Structure-Based Role Of The N-Terminal Domain
Length = 369
Score = 27.3 bits (59), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 118 GNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQFNGYVSNKLSP 165
GN + VEV+ D+ TG + + + VEEVE A Q + + K+ P
Sbjct: 65 GNSKNVEVVIDRNTGNIKVYQL--LEVVEEVEDPATQISLEEAKKIDP 110
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 27.3 bits (59), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 26/62 (41%), Gaps = 4/62 (6%)
Query: 90 FSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVE 149
F P L + N+P SV L LF + G V V K + R + M SVEE
Sbjct: 117 FPPSATLHLSNIPPSVSEEDLKVLFSSNGGV----VKGFKFFQKDRKMALIQMGSVEEAV 172
Query: 150 AA 151
A
Sbjct: 173 QA 174
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 26.9 bits (58), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
L + NL +S L +FE A ++ + G+S+G+ F+ +S E+ + A
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 156 N 156
N
Sbjct: 74 N 74
>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 = 26.9 bits (58), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 26/62 (41%), Gaps = 4/62 (6%)
Query: 90 FSPDLKLFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVE 149
F P L + N+P SV L LF + G V V K + R + M SVEE
Sbjct: 148 FPPSATLHLSNIPPSVSEEDLKVLFSSNGGV----VKGFKFFQKDRKMALIQMGSVEEAV 203
Query: 150 AA 151
A
Sbjct: 204 QA 205
>pdb|3JVD|A Chain A, Crystal Structure Of Putative Transcription Regulation
Repressor (Laci Family) From Corynebacterium Glutamicum
pdb|3JVD|B Chain B, Crystal Structure Of Putative Transcription Regulation
Repressor (Laci Family) From Corynebacterium Glutamicum
Length = 333
Score = 26.9 bits (58), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 121 EMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQFNGYVSNKLS 164
E+ V Y + G G+V+ + E+V+AAA++ N YV N+L+
Sbjct: 14 ELAGVGYATASRALSGKGYVSPQTREKVQAAAKELN-YVPNQLA 56
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 26.9 bits (58), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 31/68 (45%)
Query: 96 LFVGNLPFSVDSAQLAGLFETAGNVEMVEVIYDKVTGRSRGFGFVTMSSVEEVEAAAQQF 155
+++ LPF ++ + F+ VE I G++ G GFV + + +AA +
Sbjct: 28 VYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRH 87
Query: 156 NGYVSNKL 163
Y+ N+
Sbjct: 88 KQYMGNRF 95
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.312 0.129 0.355
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,522,670
Number of Sequences: 62578
Number of extensions: 115977
Number of successful extensions: 394
Number of sequences better than 100.0: 159
Number of HSP's better than 100.0 without gapping: 126
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 225
Number of HSP's gapped (non-prelim): 183
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 48 (23.1 bits)