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= psy222
(225 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/75 (40%), Positives = 45/75 (60%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R++F+G + + E L+ F+E G V+S R+V D TG K YGF EY ++ L+A+R
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68
Query: 151 ALNRQNFQGSEIIVD 165
LN + F G + VD
Sbjct: 69 NLNGREFSGRALRVD 83
>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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/123 (29%), Positives = 65/123 (52%), Gaps = 4/123 (3%)
Query: 38 SGQTVKYWYPYCITYDPIQAGSIDGTDTIPHDRAILRALRSTYKPHTSSTDPTRTLFIGR 97
+GQ++ Y + I DP A +T+ R + ++ +Y +S++ L++
Sbjct: 40 TGQSLGYGFVNYI--DPKDAEK--AINTLNGLRLQTKTIKVSYARPSSASIRDANLYVSG 95
Query: 98 LNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRALNRQNF 157
L K + +LEQ F++YG++I+ R++ D VTG S+ GF+ +D AI+ LN Q
Sbjct: 96 LPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKP 155
Query: 158 QGS 160
G+
Sbjct: 156 SGA 158
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 35/74 (47%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L + L +N + + F G++ S ++VRD +TG S YGF+ Y K AI L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 153 NRQNFQGSEIIVDF 166
N Q I V +
Sbjct: 65 NGLRLQTKTIKVSY 78
>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 = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 49/96 (51%), Gaps = 3/96 (3%)
Query: 79 TYKPHTSST---DPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYG 135
+ PH D +TLF+ R+N ++ E+ L + F YG + + +V +G + Y
Sbjct: 88 MWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYA 147
Query: 136 FLEYDCEKACLAAIRALNRQNFQGSEIIVDFECGRV 171
F+EY+ E+ +A + + + G ++VD E GR
Sbjct: 148 FIEYEHERDMHSAYKHADGKKIDGRRVLVDVERGRT 183
>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 = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 43/74 (58%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+ +++ + E D+ FAEYG++ ++ + D TG+ K Y +EY+ K AA+ L
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 153 NRQNFQGSEIIVDF 166
N Q+ G I VD+
Sbjct: 86 NGQDLMGQPISVDW 99
>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 = 54.3 bits (129), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 49/95 (51%), Gaps = 3/95 (3%)
Query: 80 YKPHTSST---DPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGF 136
+ PH D +TLF+ R+N ++ E+ L + F YG + + +V +G + Y F
Sbjct: 89 WDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAF 148
Query: 137 LEYDCEKACLAAIRALNRQNFQGSEIIVDFECGRV 171
+EY+ E+ +A + + + G ++VD E GR
Sbjct: 149 IEYEHERDMHSAYKHADGKKIDGRRVLVDVERGRT 183
>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 = 53.5 bits (127), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 43/74 (58%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+ +++ + E D+ FAEYG++ ++ + D TG+ K Y +EY+ K AA+ L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 153 NRQNFQGSEIIVDF 166
N Q+ G I VD+
Sbjct: 72 NGQDLMGQPISVDW 85
>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 = 53.5 bits (127), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 43/74 (58%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+ +++ + E D+ FAEYG++ ++ + D TG+ K Y +EY+ K AA+ L
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 153 NRQNFQGSEIIVDF 166
N Q+ G I VD+
Sbjct: 85 NGQDLMGQPISVDW 98
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 53.5 bits (127), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 43/74 (58%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+ +++ + E D+ FAEYG++ ++ + D TG+ K Y +EY+ K AA+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 153 NRQNFQGSEIIVDF 166
N Q+ G I VD+
Sbjct: 70 NGQDLMGQPISVDW 83
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 43/74 (58%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+ +++ + E D+ FAEYG++ ++ + D TG+ K Y +EY+ K AA+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 153 NRQNFQGSEIIVDF 166
N Q+ G I VD+
Sbjct: 70 NGQDLMGQPISVDW 83
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 44/75 (58%)
Query: 92 TLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRA 151
LF+ +++ ++E ++++ F +YG++ ++ + D TG SK Y +EY+ K LAA A
Sbjct: 28 ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEA 87
Query: 152 LNRQNFQGSEIIVDF 166
LN G I VD+
Sbjct: 88 LNGAEIMGQTIQVDW 102
>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 = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 43/74 (58%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+ +++ + E D+ FAEYG++ ++ + D TG+ K Y +EY+ K AA+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 153 NRQNFQGSEIIVDF 166
N Q+ G I VD+
Sbjct: 70 NGQDLMGQPISVDW 83
>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 = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 44/74 (59%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+ +++ ++E ++++ F +YG++ ++ + D TG SK Y +EY+ K LAA AL
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 153 NRQNFQGSEIIVDF 166
N G I VD+
Sbjct: 135 NGAEIMGQTIQVDW 148
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 68/132 (51%), Gaps = 8/132 (6%)
Query: 38 SGQTVKYWYPYCITY-DPIQAGSIDGTDTIPHDRAILRALRSTYKPHTSSTDPTRTLFIG 96
+GQ++ Y + + Y DP A +T+ + + ++ +Y +S++ L++
Sbjct: 42 TGQSLGYGF---VNYSDPNDADK--AINTLNGLKLQTKTIKVSYARPSSASIRDANLYVS 96
Query: 97 RLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRALNRQN 156
L K + ++EQ F++YG++I+ R++ D TG S+ GF+ +D AI+ LN Q
Sbjct: 97 GLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQK 156
Query: 157 FQGSE--IIVDF 166
G+ I V F
Sbjct: 157 PLGAAEPITVKF 168
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 35/79 (44%)
Query: 88 DPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLA 147
D L + L +N + + + F G + S ++VRD +TG S YGF+ Y
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADK 61
Query: 148 AIRALNRQNFQGSEIIVDF 166
AI LN Q I V +
Sbjct: 62 AINTLNGLKLQTKTIKVSY 80
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 45/73 (61%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+G L+ ++ E LEQ F++YG++ V VV+D T S+ +GF+ ++ A+ A+
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 153 NRQNFQGSEIIVD 165
N ++ G +I VD
Sbjct: 75 NGKSVDGRQIRVD 87
>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 = 51.2 bits (121), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 39/70 (55%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+F+G L+ D++ AFA +G++ RVV+D TG SK YGF+ + + AI+ +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 153 NRQNFQGSEI 162
Q G +I
Sbjct: 78 GGQWLGGRQI 87
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 51.2 bits (121), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 38/70 (54%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+F+G L+ D++ AFA +GK+ RVV+D TG SK YGF+ + + AI +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 153 NRQNFQGSEI 162
Q G +I
Sbjct: 78 GGQWLGGRQI 87
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 50.8 bits (120), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 42/80 (52%)
Query: 80 YKPHTSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY 139
++ SS+D T LF+G LN N + L AF ++ +S V+ D TG S+ YGF+ +
Sbjct: 77 FQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSF 136
Query: 140 DCEKACLAAIRALNRQNFQG 159
+ A+ ++ Q+ G
Sbjct: 137 TSQDDAQNAMDSMQGQDLNG 156
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 43/76 (56%), Gaps = 2/76 (2%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L++ L K + ++EQ F++YG++I+ R++ D TG S+ GF+ +D AI+ L
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 153 NRQNFQGSE--IIVDF 166
N Q G+ I V F
Sbjct: 64 NGQKPLGAAEPITVKF 79
>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 = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 89 PTRT-LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLA 147
P RT L + L +N + +L F+ G+V S +++RD V GHS YGF+ Y K
Sbjct: 2 PGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAER 61
Query: 148 AIRALNRQNFQGSEIIVDF 166
AI LN Q I V +
Sbjct: 62 AINTLNGLRLQSKTIKVSY 80
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 47/78 (60%), Gaps = 3/78 (3%)
Query: 89 PTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAA 148
P++TLF+ L++++ E L+++F + R+V D TG SK +GF++++ E+ AA
Sbjct: 14 PSKTLFVKGLSEDTTEETLKESFD---GSVRARIVTDRETGSSKGFGFVDFNSEEDAKAA 70
Query: 149 IRALNRQNFQGSEIIVDF 166
A+ G+++ +D+
Sbjct: 71 KEAMEDGEIDGNKVTLDW 88
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/64 (42%), Positives = 39/64 (60%), Gaps = 2/64 (3%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEK-ACLAAIRA 151
LFIG++ +N E DL+ F E+GK+ + V++D TG K FL Y CE+ + L A A
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTY-CERESALKAQSA 74
Query: 152 LNRQ 155
L+ Q
Sbjct: 75 LHEQ 78
>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 = 6e-06, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 37/74 (50%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L + L +N + +L F+ G+V S +++RD V GHS YGF+ Y K AI L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 153 NRQNFQGSEIIVDF 166
N Q I V +
Sbjct: 65 NGLRLQSKTIKVSY 78
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 45/97 (46%), Gaps = 2/97 (2%)
Query: 74 RALRSTYKPHTSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKR 133
+ ++ +Y +S L+I L + + D+E F+ +G++I+ RV+ D TG S+
Sbjct: 72 KTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRG 131
Query: 134 YGFLEYDCEKACLAAIRALNRQNFQGSE--IIVDFEC 168
F+ +D AI + N GS I V F
Sbjct: 132 VAFIRFDKRSEAEEAITSFNGHKPPGSSEPITVKFAA 168
>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 = 7e-06, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 37/74 (50%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L + L +N + +L F+ G+V S +++RD V GHS YGF+ Y K AI L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 153 NRQNFQGSEIIVDF 166
N Q I V +
Sbjct: 65 NGLRLQSKTIKVSY 78
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 45/97 (46%), Gaps = 2/97 (2%)
Query: 74 RALRSTYKPHTSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKR 133
+ ++ +Y +S L+I L + + D+E F+ +G++I+ RV+ D TG S+
Sbjct: 72 KTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRG 131
Query: 134 YGFLEYDCEKACLAAIRALNRQNFQGSE--IIVDFEC 168
F+ +D AI + N GS I V F
Sbjct: 132 VAFIRFDKRSEAEEAITSFNGHKPPGSSEPITVXFAA 168
>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 = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 37/74 (50%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L + L +N + +L F+ G+V S +++RD V GHS YGF+ Y K AI L
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 153 NRQNFQGSEIIVDF 166
N Q I V +
Sbjct: 82 NGLRLQSKTIKVSY 95
>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 = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 35/62 (56%)
Query: 92 TLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRA 151
LFI L + + DL Q F +G V+S +V D T SK +GF+ YD + AAI++
Sbjct: 27 NLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQS 86
Query: 152 LN 153
+N
Sbjct: 87 MN 88
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 36/64 (56%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+G++ + E DL+ F E+G++ + V++D +TG K FL Y + L A AL
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSAL 77
Query: 153 NRQN 156
+ Q
Sbjct: 78 HEQK 81
>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 = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 33/48 (68%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYD 140
+FIG LN ++ E +L + F +YG V +++++D TG S+ +GFL ++
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFE 53
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 34/58 (58%)
Query: 88 DPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKAC 145
D T +F+G + + R + E+ F+++G +I +++ D TG S+ +GF+ YD A
Sbjct: 85 DKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAV 142
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 33/61 (54%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LFI L + + DL F +G VIS +V D T SK +GF+ +D + AI+A+
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 153 N 153
N
Sbjct: 103 N 103
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 33/66 (50%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L+I L + + DL + YGK++S + + D T K YGF+++D A A+ AL
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 153 NRQNFQ 158
Q
Sbjct: 68 KASGVQ 73
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 41/74 (55%)
Query: 92 TLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRA 151
T+++G L++ E L + F + G V++ + +D VTG + YGF+E+ E+ AI+
Sbjct: 17 TVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKI 76
Query: 152 LNRQNFQGSEIIVD 165
++ G I V+
Sbjct: 77 MDMIKLYGKPIRVN 90
>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 = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 39/67 (58%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+++ ++++ + D++ F +GK+ S + RD TG K YGF+EY+ ++ A+ ++
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 187
Query: 153 NRQNFQG 159
N + G
Sbjct: 188 NLFDLGG 194
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+++G + E + QAFA +G + S+ + D VT K + F+EY+ +A A+ +
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 153 NRQNFQGSEIIV 164
N G I V
Sbjct: 91 NSVMLGGRNIKV 102
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISV-RVVRDFVTGHSKRYGFLEYDCEKACLAAIRA 151
+FIG L+ E L F+ +G ++ +++RD TG+SK Y F+ + A AAI A
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 152 LNRQNFQGSEIIVDF 166
+N Q I V +
Sbjct: 68 MNGQYLCNRPITVSY 82
>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 = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 39/69 (56%), Gaps = 3/69 (4%)
Query: 89 PTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAA 148
P +L++G L+ + EA L + F+ G ++S+RV RD +T S Y ++ + + A
Sbjct: 14 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNF---QQPADA 70
Query: 149 IRALNRQNF 157
RAL+ NF
Sbjct: 71 ERALDTMNF 79
>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 = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 31/104 (29%), Positives = 44/104 (42%), Gaps = 6/104 (5%)
Query: 67 PHDRAILRALR---STYKPHTSST---DPTRTLFIGRLNKNSREADLEQAFAEYGKVISV 120
PHD L + S Y P ST D LFIG L + +++ +G + +
Sbjct: 85 PHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAF 144
Query: 121 RVVRDFVTGHSKRYGFLEYDCEKACLAAIRALNRQNFQGSEIIV 164
+V+D TG SK Y F EY AI LN +++V
Sbjct: 145 NLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 188
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 32/50 (64%)
Query: 90 TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY 139
T L + L + E DL++ F+ +G+V+ V+V +D TGHSK +GF+ +
Sbjct: 15 TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRF 64
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 39/69 (56%), Gaps = 3/69 (4%)
Query: 89 PTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAA 148
P +L++G L+ + EA L + F+ G ++S+RV RD +T S Y ++ + + A
Sbjct: 9 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNF---QQPADA 65
Query: 149 IRALNRQNF 157
RAL+ NF
Sbjct: 66 ERALDTMNF 74
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 39/67 (58%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+++ ++++ + D++ F +GK+ S + RD TG K YGF+EY+ ++ A+ ++
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 172
Query: 153 NRQNFQG 159
N + G
Sbjct: 173 NLFDLGG 179
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+++G + E + QAFA +G + S+ + D VT K + F+EY+ +A A+ +
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 153 NRQNFQGSEIIV 164
N G I V
Sbjct: 76 NSVMLGGRNIKV 87
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 35/79 (44%)
Query: 88 DPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLA 147
D L + L +N + + + F G + S ++VRD +TG S YGF+ Y
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADK 61
Query: 148 AIRALNRQNFQGSEIIVDF 166
AI LN Q I V +
Sbjct: 62 AINTLNGLKLQTKTIKVSY 80
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+G L+ ++ + L F++YG+V+ +++D T S+ +GF+++ + C+ + A
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFK-DPNCVGTVLAS 77
Query: 153 NRQNFQGSEI 162
G I
Sbjct: 78 RPHTLDGRNI 87
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R++++G ++ S DLE F+ G + + ++ D +GH K Y ++E+ E+ + A
Sbjct: 37 RSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEF-AERNSVDAAV 95
Query: 151 ALNRQNFQGSEIIV 164
A++ F+G I V
Sbjct: 96 AMDETVFRGRTIKV 109
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 88 DPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLA 147
DPT L+I L + E +LE +G+VIS R++RD +G S+ GF + + C A
Sbjct: 24 DPTN-LYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEA 81
Query: 148 AIRALN 153
I N
Sbjct: 82 VIGHFN 87
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 40/79 (50%), Gaps = 4/79 (5%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R LF+G LNK E D+ + F +G + ++R G+SK F++Y AAI
Sbjct: 16 RKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRG-PDGNSKGCAFVKYSSHAEAQAAIN 74
Query: 151 ALN-RQNFQG--SEIIVDF 166
AL+ Q G S ++V F
Sbjct: 75 ALHGSQTMPGASSSLVVKF 93
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 1/68 (1%)
Query: 86 STDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKAC 145
S P R L++G L+ N E L F +G++ S++++ D TG SK YGF+ + +
Sbjct: 23 SAGPMR-LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECA 81
Query: 146 LAAIRALN 153
A+ LN
Sbjct: 82 KKALEQLN 89
>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 = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 38/67 (56%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+++ ++++ + D++ F +GK+ S + RD TG K YGF+EY+ ++ A+ +
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSX 171
Query: 153 NRQNFQG 159
N + G
Sbjct: 172 NLFDLGG 178
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 34/72 (47%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+++G + E + QAFA +G + S+ D VT K + F+EY+ +A A+
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 153 NRQNFQGSEIIV 164
N G I V
Sbjct: 75 NSVXLGGRNIKV 86
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 33/70 (47%)
Query: 88 DPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLA 147
D R L + + E L Q F YG + SV++V D T S+ YGF+++ +
Sbjct: 40 DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQ 99
Query: 148 AIRALNRQNF 157
AI LN N
Sbjct: 100 AIAGLNGFNI 109
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 8/82 (9%)
Query: 84 TSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEK 143
+S + LFIG L + + E ++ F +YGKV+ ++ K YGF+ + +
Sbjct: 2 SSGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKT 53
Query: 144 ACLAAIRALNRQNFQGSEIIVD 165
A AIR L+ G I V+
Sbjct: 54 AAEDAIRNLHHYKLHGVNINVE 75
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 41/83 (49%), Gaps = 8/83 (9%)
Query: 84 TSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEK 143
+S + LF+ L E LE+AF+++GK+ V+ ++D Y F+ +D
Sbjct: 5 SSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERD 56
Query: 144 ACLAAIRALNRQNFQGSEIIVDF 166
+ A+ +N ++ +G I + F
Sbjct: 57 GAVKAMEEMNGKDLEGENIEIVF 79
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R +++G L ++ +++ F+++GKV +V+++ D T K +GF+E E++ AI
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQ-EESVSEAIA 60
Query: 151 ALNRQNFQGSEI 162
L+ +F G I
Sbjct: 61 KLDNTDFMGRTI 72
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 40.4 bits (93), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 90 TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAI 149
RT+F +L R DLE F+ GKV VR++ D + SK ++E+ CE +
Sbjct: 25 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEF-CEIQSVPLA 83
Query: 150 RALNRQNFQGSEIIV 164
L Q G IIV
Sbjct: 84 IGLTGQRLLGVPIIV 98
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 35/67 (52%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L++G L+ N E L F +GK+ ++ +++D TG SK YGF+ + + A+ L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 153 NRQNFQG 159
N G
Sbjct: 68 NGFELAG 74
>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 = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 38/65 (58%)
Query: 89 PTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAA 148
P+R +++G + + E + + G VI+++++ D TG SK Y F+E+ ++ +A
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 62
Query: 149 IRALN 153
+R LN
Sbjct: 63 VRNLN 67
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LFIG LN+ + E L+ F ++G + V +++D T S+ + F+ ++ A + +
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKD-RTSKSRGFAFITFENPADAKNAAKDM 68
Query: 153 NRQNFQGSEIIVD 165
N ++ G I V+
Sbjct: 69 NGKSLHGKAIKVE 81
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 38/65 (58%)
Query: 89 PTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAA 148
P+R +++G + + E + + G VI+++++ D TG SK Y F+E+ ++ +A
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 61
Query: 149 IRALN 153
+R LN
Sbjct: 62 VRNLN 66
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 38/65 (58%)
Query: 89 PTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAA 148
P+R +++G + + E + + G VI+++++ D TG SK Y F+E+ ++ +A
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 149 IRALN 153
+R LN
Sbjct: 61 VRNLN 65
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 37/76 (48%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R L++G L + + L AF +G + +++ D+ T + + F+E++ + AAI
Sbjct: 13 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 72
Query: 151 ALNRQNFQGSEIIVDF 166
+N G I V+
Sbjct: 73 NMNESELFGRTIRVNL 88
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 42/80 (52%), Gaps = 2/80 (2%)
Query: 88 DPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLA 147
D T+ + L++++RE DL++ F +G + + + +D TG SK + F+ + +
Sbjct: 13 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAAR 72
Query: 148 AIRALNRQNFQGSEIIVDFE 167
AI ++ F +I++ E
Sbjct: 73 AIAGVS--GFGYDHLILNVE 90
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 8/79 (10%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L +G ++ +L F EYG VI +V+D Y F+ + + + AIR L
Sbjct: 13 LHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRGL 64
Query: 153 NRQNFQGSEIIVDFECGRV 171
+ FQG + V R+
Sbjct: 65 DNTEFQGKRMHVQLSTSRL 83
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 39/79 (49%), Gaps = 4/79 (5%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R LF+G LNK E D+ + F +G + V+R G SK F+++ AAI
Sbjct: 16 RKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRG-PDGSSKGCAFVKFSSHTEAQAAIH 74
Query: 151 ALN-RQNFQG--SEIIVDF 166
AL+ Q G S ++V F
Sbjct: 75 ALHGSQTMPGASSSLVVKF 93
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 38/70 (54%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+F+G L+ A + AFA +G++ RVV+D TG SK YGF+ + + AI+ +
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 153 NRQNFQGSEI 162
Q G +I
Sbjct: 69 GGQWLGGRQI 78
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 11/85 (12%)
Query: 82 PHTSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY-- 139
P S T+F+G ++ E ++ FA YG V V+++ D TG SK YGF+ +
Sbjct: 2 PLGSGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYN 60
Query: 140 --DCEKACLAAIRALNRQNFQGSEI 162
D +K + I NF G ++
Sbjct: 61 DVDVQKIVESQI------NFHGKKL 79
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 32/61 (52%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L++ L + + L+ F +YG ++ ++RD +TG + F+ Y+ + AI AL
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 153 N 153
N
Sbjct: 76 N 76
>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 = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 39/75 (52%), Gaps = 11/75 (14%)
Query: 92 TLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY----DCEKACLA 147
T+F+G ++ E ++ FA YG V V+++ D TG SK YGF+ + D +K +
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVES 69
Query: 148 AIRALNRQNFQGSEI 162
I NF G ++
Sbjct: 70 QI------NFHGKKL 78
>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 = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 4/72 (5%)
Query: 82 PHTSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDC 141
P S+T+ L + L ++ + +L F G + + R+ RD+ TG+S Y F+++
Sbjct: 10 PRASNTN----LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTS 65
Query: 142 EKACLAAIRALN 153
E AI+ LN
Sbjct: 66 EXDSQRAIKVLN 77
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 32/61 (52%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L++ L + + L+ F +YG ++ ++RD +TG + F+ Y+ + AI AL
Sbjct: 103 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 162
Query: 153 N 153
N
Sbjct: 163 N 163
>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 = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 39/75 (52%), Gaps = 11/75 (14%)
Query: 92 TLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY----DCEKACLA 147
T+F+G ++ E ++ FA YG V V+++ D TG SK YGF+ + D +K +
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVES 69
Query: 148 AIRALNRQNFQGSEI 162
I NF G ++
Sbjct: 70 QI------NFHGKKL 78
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 33/61 (54%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L + L ++ + +L F G + + R++RD+ TG+S Y F+++ E AI+ L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 153 N 153
N
Sbjct: 66 N 66
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 32/61 (52%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L++ L + + L+ F +YG ++ ++RD +TG + F+ Y+ + AI AL
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 151
Query: 153 N 153
N
Sbjct: 152 N 152
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 34/67 (50%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+ L+ S E DLE+ F+ YG + + D +T K + F+ + + + A +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 153 NRQNFQG 159
+ Q FQG
Sbjct: 71 DGQVFQG 77
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 37/76 (48%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R L++G L + + L AF +G + +++ D+ T + + F+E++ + AAI
Sbjct: 6 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 65
Query: 151 ALNRQNFQGSEIIVDF 166
+N G I V+
Sbjct: 66 NMNESELFGRTIRVNL 81
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 37/76 (48%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R L++G L + + L AF +G + +++ D+ T + + F+E++ + AAI
Sbjct: 64 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 123
Query: 151 ALNRQNFQGSEIIVDF 166
+N G I V+
Sbjct: 124 NMNESELFGRTIRVNL 139
>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 = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 37/76 (48%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R L++G L + + L AF +G + +++ D+ T + + F+E++ + AAI
Sbjct: 8 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 67
Query: 151 ALNRQNFQGSEIIVDF 166
+N G I V+
Sbjct: 68 NMNESELFGRTIRVNL 83
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 5/77 (6%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+++G L N + +LE+AF YG + SV V R + + F+E++ + A+R L
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVAR-----NPPGFAFVEFEDPRDAADAVREL 130
Query: 153 NRQNFQGSEIIVDFECG 169
+ + G + V+ G
Sbjct: 131 DGRTLCGCRVRVELSNG 147
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 33/61 (54%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
L + L ++ + +L F G + + R++RD+ TG+S Y F+++ E AI+ L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 153 N 153
N
Sbjct: 66 N 66
>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 = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 1/85 (1%)
Query: 81 KPHTSSTDP-TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY 139
+PH P LFIG L + +++ +G + + +V+D TG SK Y F EY
Sbjct: 86 RPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 145
Query: 140 DCEKACLAAIRALNRQNFQGSEIIV 164
AI LN +++V
Sbjct: 146 VDINVTDQAIAGLNGMQLGDKKLLV 170
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 5/77 (6%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+++G L N + +LE+AF YG + SV V R + + F+E++ + A+R L
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVAR-----NPPGFAFVEFEDPRDAADAVRDL 130
Query: 153 NRQNFQGSEIIVDFECG 169
+ + G + V+ G
Sbjct: 131 DGRTLCGCRVRVELSNG 147
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 32/47 (68%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY 139
+FIG L+ ++ + DL+ F+++G+V+ + D +TG S+ +GF+ +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF 48
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 37/76 (48%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R L++G L + + L AF +G + +++ D+ T + + F+E++ + AAI
Sbjct: 3 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 62
Query: 151 ALNRQNFQGSEIIVDF 166
+N G I V+
Sbjct: 63 NMNESELFGRTIRVNL 78
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 1/85 (1%)
Query: 81 KPHTSSTDP-TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY 139
+PH P LFIG L + +++ +G + + +V+D TG SK Y F EY
Sbjct: 84 RPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 143
Query: 140 DCEKACLAAIRALNRQNFQGSEIIV 164
AI LN +++V
Sbjct: 144 VDINVTDQAIAGLNGMQLGDKKLLV 168
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 86 STDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGH-SKRYGFLEYDCEKA 144
S PT+ + IGRL +N + + + F+ YGK+ + + + + H SK Y ++E++
Sbjct: 1 SMKPTK-VHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDE 59
Query: 145 CLAAIRALNRQNFQGSEI 162
A++ ++ G EI
Sbjct: 60 AEKALKHMDGGQIDGQEI 77
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R LFIG L+ + E L + ++GK+ V+RD + S+ +GF+ + AA+
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA 87
Query: 151 A 151
A
Sbjct: 88 A 88
>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 = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTG--HSKRYGFLEYDCEKACLAAIR 150
+F+G++ + E DL + F +YG V + V+RD SK F+ + KA L A
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 151 ALN 153
AL+
Sbjct: 66 ALH 68
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 41/77 (53%), Gaps = 5/77 (6%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+++G L + + +LE+AF+ YG + +V + R+ + F+E++ + A+R L
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRGL 57
Query: 153 NRQNFQGSEIIVDFECG 169
+ + GS + V+ G
Sbjct: 58 DGKVICGSRVRVELSTG 74
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
+FIG L+ + + L + F ++G+V V+RD +T S+ +GF+ + ++A + + A
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF-MDQAGVDKVLAQ 86
Query: 153 NRQNFQGSEI 162
+R I
Sbjct: 87 SRHELDSKTI 96
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical
Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens
At 1.95 A Resolution
Length = 89
Score = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 90 TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAI 149
R++++G ++ + +LE F G V V ++ D +GH K + ++E+ +K +
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFS-DKESVRTS 64
Query: 150 RALNRQNFQGSEIIV 164
AL+ F+G +I V
Sbjct: 65 LALDESLFRGRQIKV 79
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R LFIG L+ + + L F ++G + V+RD T S+ +GF+ Y + AA+
Sbjct: 15 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 74
Query: 151 A 151
A
Sbjct: 75 A 75
Score = 35.0 bits (79), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 90 TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYD----CEKAC 145
+ +F+G + +++ E L F +YGK+ + ++ D +G + + F+ +D +K
Sbjct: 105 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 164
Query: 146 LAAIRALNRQN 156
+ +N N
Sbjct: 165 IQKYHTVNGHN 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 = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R LFIG L+ + + L F ++G + V+RD T S+ +GF+ Y + AA+
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 151 A 151
A
Sbjct: 74 A 74
Score = 35.0 bits (79), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 90 TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYD----CEKAC 145
+ +F+G + +++ E L F +YGK+ + ++ D +G + + F+ +D +K
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Query: 146 LAAIRALNRQN 156
+ +N N
Sbjct: 164 IQKYHTVNGHN 174
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTG--HSKRYGFLEYDCEKACLAAIR 150
+F+G++ + E DL + F +YG V + V+RD SK F+ + KA L A
Sbjct: 18 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 77
Query: 151 ALN 153
AL+
Sbjct: 78 ALH 80
>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 = 35.4 bits (80), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R LFIG L+ + + L F ++G + V+RD T S+ +GF+ Y + AA+
Sbjct: 13 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 72
Query: 151 A 151
A
Sbjct: 73 A 73
Score = 35.0 bits (79), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 90 TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYD----CEKAC 145
+ +F+G + +++ E L F +YGK+ + ++ D +G + + F+ +D +K
Sbjct: 103 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 162
Query: 146 LAAIRALNRQN 156
+ +N N
Sbjct: 163 IQKYHTVNGHN 173
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 35.4 bits (80), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 8/83 (9%)
Query: 84 TSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEK 143
+ S+ T +F+G ++ +L F G+VI VV+D Y F+ + E
Sbjct: 3 SGSSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEA 54
Query: 144 ACLAAIRALNRQNFQGSEIIVDF 166
AAI LN + +G I V+
Sbjct: 55 DAKAAIAQLNGKEVKGKRINVEL 77
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 35.4 bits (80), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 90 TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAI 149
R++++G ++ + +LE F G V V ++ D +GH K + ++E+ +K +
Sbjct: 5 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFS-DKESVRTS 63
Query: 150 RALNRQNFQGSEIIV 164
AL+ F+G +I V
Sbjct: 64 LALDESLFRGRQIKV 78
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 35.4 bits (80), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R LFIG L+ + + L F ++G + V+RD T S+ +GF+ Y + AA+
Sbjct: 12 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 71
Query: 151 A 151
A
Sbjct: 72 A 72
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 90 TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYD----CEKAC 145
+ +F+G + +++ E L F +YGK+ + ++ D +G + + F+ +D +K
Sbjct: 102 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 161
Query: 146 LAAIRALNRQN 156
+ +N N
Sbjct: 162 IQKYHTVNGHN 172
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 35.4 bits (80), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R LFIG L+ + + L F ++G + V+RD T S+ +GF+ Y + AA+
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 151 A 151
A
Sbjct: 74 A 74
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 90 TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYD----CEKAC 145
+ +F+G + +++ E L F +YGK+ + ++ D +G + + F+ +D +K
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Query: 146 LAAIRALNRQN 156
+ +N N
Sbjct: 164 IQKYHTVNGHN 174
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 35.4 bits (80), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 1/74 (1%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
RT+F+G L RE L + F + G + V + +D G K +GF+ + ++ AI
Sbjct: 17 RTVFVGNLEARVREEILYELFLQAGPLTKVTICKD-REGKPKSFGFVCFKHPESVSYAIA 75
Query: 151 ALNRQNFQGSEIIV 164
LN G I V
Sbjct: 76 LLNGIRLYGRPINV 89
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 38/82 (46%)
Query: 85 SSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKA 144
++ DP L + L+ + E DL + F++YG + V +V D + S+ + F+ ++
Sbjct: 41 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDD 100
Query: 145 CLAAIRALNRQNFQGSEIIVDF 166
A N G I VDF
Sbjct: 101 AKEAKERANGMELDGRRIRVDF 122
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTG--HSKRYGFLEYDCEKACLAAIR 150
+F+G++ + E DL + F +YG V + V+RD SK F+ + KA L A
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 151 ALN 153
AL+
Sbjct: 66 ALH 68
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 35.0 bits (79), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 41/87 (47%), Gaps = 12/87 (13%)
Query: 84 TSSTDPTRT---LFIGRLNKN-SREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY 139
T+ DP +FIG LN +++D+E F++YG+V V K Y F++Y
Sbjct: 18 TNKNDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--------HKGYAFVQY 69
Query: 140 DCEKACLAAIRALNRQNFQGSEIIVDF 166
E+ AA+ N + G + ++
Sbjct: 70 SNERHARAAVLGENGRVLAGQTLDINM 96
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 35.0 bits (79), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 41/93 (44%), Gaps = 6/93 (6%)
Query: 76 LRSTYKPHTSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYG 135
L++ KP + LF+G L + E ++ + F +YGK V + +D K +G
Sbjct: 8 LKNFRKPGEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFG 61
Query: 136 FLEYDCEKACLAAIRALNRQNFQGSEIIVDFEC 168
F+ + A L+ +G ++ V F C
Sbjct: 62 FIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC 94
>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 = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
R LFIG L+ + + L F ++G + V+RD T S+ +GF+ Y + AA+
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66
Query: 151 A 151
A
Sbjct: 67 A 67
Score = 34.7 bits (78), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 90 TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYD----CEKAC 145
+ +F+G + +++ E L F +YGK+ + ++ D +G + + F+ +D +K
Sbjct: 97 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 156
Query: 146 LAAIRALNRQN 156
+ +N N
Sbjct: 157 IQKYHTVNGHN 167
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 37/71 (52%)
Query: 92 TLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRA 151
T+++ L + DL + F++YGKV+ V +++D T SK F+ + + + RA
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRA 77
Query: 152 LNRQNFQGSEI 162
+N + G I
Sbjct: 78 INNKQLFGRVI 88
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 33/72 (45%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LFIG L + +++ +G + + +V+D TG SK Y F EY AI L
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 153 NRQNFQGSEIIV 164
N +++V
Sbjct: 64 NGMQLGDKKLLV 75
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 38/82 (46%)
Query: 85 SSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKA 144
++ DP L + L+ + E DL + F++YG + V +V D + S+ + F+ ++
Sbjct: 10 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDD 69
Query: 145 CLAAIRALNRQNFQGSEIIVDF 166
A N G I VDF
Sbjct: 70 AKEAKERANGMELDGRRIRVDF 91
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 35.0 bits (79), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 47/87 (54%), Gaps = 3/87 (3%)
Query: 84 TSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEK 143
+ ST P LFIG LN N A+L+ A +E + VV D TG ++++G+++++ +
Sbjct: 12 SESTTPFN-LFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAE 69
Query: 144 ACLAAIRALNRQNFQGSEIIVDFECGR 170
A+ + F G+EI ++ GR
Sbjct: 70 DLEKALELTGLKVF-GNEIKLEKPKGR 95
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 35.0 bits (79), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 38/82 (46%)
Query: 85 SSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKA 144
++ DP L + L+ + E DL + F++YG + V +V D + S+ + F+ ++
Sbjct: 7 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDD 66
Query: 145 CLAAIRALNRQNFQGSEIIVDF 166
A N G I VDF
Sbjct: 67 AKEAKERANGMELDGRRIRVDF 88
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 34.7 bits (78), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 13/74 (17%)
Query: 85 SSTDP-----TRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY 139
SS DP + LF+ L E LE++F+E+GK+ V+ ++D Y F+ +
Sbjct: 5 SSGDPEVMAKVKVLFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVHF 56
Query: 140 DCEKACLAAIRALN 153
+ A + A+ +N
Sbjct: 57 EDRGAAVKAMDEMN 70
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 34.7 bits (78), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 34/61 (55%), Gaps = 3/61 (4%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKA---CLA 147
+T+FI L+ +S E L + ++G + VRVV T HSK F ++ ++A CLA
Sbjct: 16 KTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLA 75
Query: 148 A 148
A
Sbjct: 76 A 76
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 34.7 bits (78), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 32/54 (59%), Gaps = 1/54 (1%)
Query: 87 TDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYD 140
T+P T ++G L N+ + D++ F + + SVR+VRD T K + ++E+D
Sbjct: 12 TEPPYTAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFD 64
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 34.7 bits (78), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 47/87 (54%), Gaps = 3/87 (3%)
Query: 84 TSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEK 143
+ ST P LFIG LN N A+L+ A +E + VV D TG ++++G+++++ +
Sbjct: 8 SESTTPF-NLFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAE 65
Query: 144 ACLAAIRALNRQNFQGSEIIVDFECGR 170
A+ + F G+EI ++ GR
Sbjct: 66 DLEKALELTGLKVF-GNEIKLEKPKGR 91
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 34.7 bits (78), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 29/47 (61%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY 139
+FIG L+ + + L + F ++G+V V+RD +T S+ +GF+ +
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 49
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 34.3 bits (77), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 29/46 (63%)
Query: 94 FIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEY 139
F+G L+ ++ + DL+ F ++G+V+ + D TG S+ +GF+ +
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILF 60
>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 = 34.3 bits (77), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 94 FIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTG--HSKRYGFLEYDCEKACLAAIRA 151
F+G++ + E DL + F +YG V + V+RD SK F+ + KA L A A
Sbjct: 7 FVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNA 66
Query: 152 LN 153
L+
Sbjct: 67 LH 68
>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 = 34.3 bits (77), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 6/76 (7%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRAL 152
LF+G L + E ++ + F +YGK V + +D K +GF+ + A L
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVEL 71
Query: 153 NRQNFQGSEIIVDFEC 168
+ +G ++ V F C
Sbjct: 72 DNMPLRGKQLRVRFAC 87
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 33.9 bits (76), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYD----CEKACLAA 148
+F+G L+ N+ D++ F ++GKV ++ D T + +GF+ ++ EK C
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 149 IRALNRQ 155
+N +
Sbjct: 62 FHEINNK 68
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 33.9 bits (76), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 35/82 (42%), Gaps = 8/82 (9%)
Query: 83 HTSSTDPTR--TLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYD 140
H + P R T +IG + + EADL F +G ++ DF K F++YD
Sbjct: 18 HIIRSAPPRVTTAYIGNIPHFATEADLIPLFQNFGFIL------DFKHYPEKGCCFIKYD 71
Query: 141 CEKACLAAIRALNRQNFQGSEI 162
+ I AL FQG +
Sbjct: 72 THEQAAVCIVALANFPFQGRNL 93
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 35/67 (52%), Gaps = 12/67 (17%)
Query: 87 TDP---TRTLFIGRLNK-NSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCE 142
TDP +FIG LN +++D+E F++YGK++ V K + F++Y E
Sbjct: 9 TDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV--------HKGFAFVQYVNE 60
Query: 143 KACLAAI 149
+ AA+
Sbjct: 61 RNARAAV 67
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 31/49 (63%), Gaps = 1/49 (2%)
Query: 92 TLFIGRLNKNSREADLEQAFAEYGK-VISVRVVRDFVTGHSKRYGFLEY 139
+L++G L E + +AFA G+ V+SV+++R+ +TG Y F+E+
Sbjct: 11 SLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEF 59
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 43/76 (56%), Gaps = 2/76 (2%)
Query: 91 RTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIR 150
RTL++G L+++ E + Q F++ G S +++ + + + Y F+E+ + AA+
Sbjct: 16 RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTS--NDPYCFVEFYEHRDAAAALA 73
Query: 151 ALNRQNFQGSEIIVDF 166
A+N + G E+ V++
Sbjct: 74 AMNGRKILGKEVKVNW 89
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 18/91 (19%), Positives = 40/91 (43%), Gaps = 4/91 (4%)
Query: 76 LRSTYKPHTSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYG 135
+ S+Y P +P + L++ L+ E DL FA + + + +TG +
Sbjct: 15 MFSSYNP----GEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQA 70
Query: 136 FLEYDCEKACLAAIRALNRQNFQGSEIIVDF 166
F+ + ++ A+ +N G ++++F
Sbjct: 71 FITFPNKEIAWQALHLVNGYKLYGKILVIEF 101
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 14/68 (20%), Positives = 33/68 (48%), Gaps = 6/68 (8%)
Query: 92 TLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKACLAAIRA 151
T++ G + + + Q F+ +G+++ +RV + K Y F+ + ++ AI +
Sbjct: 27 TVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVS 80
Query: 152 LNRQNFQG 159
+N +G
Sbjct: 81 VNGTTIEG 88
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 30.8 bits (68), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 22/34 (64%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDF 126
+F+GR ++ +L+Q F +YG+V+ V + + F
Sbjct: 14 VFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPF 47
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 29/53 (54%)
Query: 88 DPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYD 140
DP L + L+ + E DL + F++YG + V +V D + S+ + F+ ++
Sbjct: 13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFE 65
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 21/34 (61%)
Query: 93 LFIGRLNKNSREADLEQAFAEYGKVISVRVVRDF 126
+F+GR + E +L + F++YG V+ V + + F
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPF 41
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 34/64 (53%), Gaps = 7/64 (10%)
Query: 92 TLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYGFLEYDCEKAC-LAAIR 150
TL++G L E DL F ++G++ ++ VV ++ F+++ +A +AA +
Sbjct: 14 TLYVGGLGDTITETDLRNHFYQFGEIRTITVV------QRQQCAFIQFATRQAAEVAAEK 67
Query: 151 ALNR 154
+ N+
Sbjct: 68 SFNK 71
>pdb|1FUX|A Chain A, Crystal Structure Of E.Coli Ybcl, A New Member Of The
Mammalian Pebp Family
pdb|1FUX|B Chain B, Crystal Structure Of E.Coli Ybcl, A New Member Of The
Mammalian Pebp Family
Length = 166
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 32/65 (49%), Gaps = 11/65 (16%)
Query: 6 KSAKNSPSSHHSEVRD-SKSSSQTVEPRDAKSSSGQTVKYWY------PYCITYDPIQAG 58
+ SPS S V + +KS + TV DA + SG +W+ P +TY P+ AG
Sbjct: 28 EGGNTSPSLTWSGVPEGTKSFAVTVYDPDAPTGSG----WWHWTVVNIPATVTYLPVDAG 83
Query: 59 SIDGT 63
DGT
Sbjct: 84 RRDGT 88
>pdb|3CQ0|A Chain A, Crystal Structure Of Tal2_yeast
pdb|3CQ0|B Chain B, Crystal Structure Of Tal2_yeast
Length = 339
Score = 27.7 bits (60), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 78 STYKPHTSSTDPTRTLFIGRLNKNSREADLEQAFAEYGK 116
S Y+P S+T+P+ L +L K +R D A EYG+
Sbjct: 37 SKYEPQDSTTNPSLILAASKLEKYARFID---AAVEYGR 72
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 27.3 bits (59), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 8/74 (10%)
Query: 76 LRSTYKPHTSSTDPTRTLFIGRLNKNSREADLEQAFAEYGKVISVRVVRDFVTGHSKRYG 135
++S KP + LF+G L + E D ++ F YG+ V + RD + +G
Sbjct: 8 IKSFLKPGEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFG 61
Query: 136 FLEYDCEKACLAAI 149
F+ E LA I
Sbjct: 62 FIR--LESRTLAEI 73
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
0.315 0.131 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,427,912
Number of Sequences: 62578
Number of extensions: 229237
Number of successful extensions: 622
Number of sequences better than 100.0: 127
Number of HSP's better than 100.0 without gapping: 112
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 483
Number of HSP's gapped (non-prelim): 144
length of query: 225
length of database: 14,973,337
effective HSP length: 95
effective length of query: 130
effective length of database: 9,028,427
effective search space: 1173695510
effective search space used: 1173695510
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)