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= psy15152
(192 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 207 bits (526), Expect = 4e-54, Method: Compositional matrix adjust.
Identities = 95/142 (66%), Positives = 119/142 (83%), Gaps = 1/142 (0%)
Query: 8 KGIARLKEKARKKKGRGFGTETSTRNEIREYESMETDVGDE-EPGPQRSVEGWILFVTGV 66
+GI RLKEKA+ +KGRGFG++++TR I YE + + DE EPGPQRSVEGWILFVT +
Sbjct: 21 QGIVRLKEKAKHRKGRGFGSDSNTREAIHSYERVRNEDDDELEPGPQRSVEGWILFVTSI 80
Query: 67 HEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDALNGTTIL 126
HEEAQED++ EKF +YGEIKN+HLNLDRRTGF KGYALVEY+++K+A AA++ALNG I+
Sbjct: 81 HEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIM 140
Query: 127 GQTVTVDWCFVKGPKKVAGEQK 148
GQT+ VDWCFVKGPK+V +K
Sbjct: 141 GQTIQVDWCFVKGPKRVKKSEK 162
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 169 bits (429), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 77/109 (70%), Positives = 93/109 (85%), Gaps = 1/109 (0%)
Query: 35 IREYESMETDVGDE-EPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLD 93
I YE + + DE EPGPQRSVEGWILFVT +HEEAQED++ EKF +YGEIKN+HLNLD
Sbjct: 2 IHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLD 61
Query: 94 RRTGFLKGYALVEYDSYKEASAARDALNGTTILGQTVTVDWCFVKGPKK 142
RRTGF KGYALVEY+++K+A AA++ALNG I+GQT+ VDWCFVKGPK+
Sbjct: 62 RRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFVKGPKR 110
>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 = 166 bits (421), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 76/104 (73%), Positives = 93/104 (89%), Gaps = 2/104 (1%)
Query: 37 EYESMETDVGDEEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRT 96
+Y+S+E D GDE PGPQRSVEGWILFVTGVHEEA E+D+H+KF+EYGEIKN+HLNLDRRT
Sbjct: 4 DYDSVEQD-GDE-PGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRT 61
Query: 97 GFLKGYALVEYDSYKEASAARDALNGTTILGQTVTVDWCFVKGP 140
G+LKGY LVEY++YKEA AA + LNG ++GQ ++VDWCFV+GP
Sbjct: 62 GYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFVRGP 105
>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 = 160 bits (405), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 74/101 (73%), Positives = 90/101 (89%), Gaps = 2/101 (1%)
Query: 37 EYESMETDVGDEEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRT 96
+Y+S+E D GDE PGPQRSVEGWILFVTGVHEEA E+D+H+KF+EYGEIKN+HLNLDRRT
Sbjct: 3 DYDSVEQD-GDE-PGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRT 60
Query: 97 GFLKGYALVEYDSYKEASAARDALNGTTILGQTVTVDWCFV 137
G+LKGY LVEY++YKEA AA + LNG ++GQ ++VDWCFV
Sbjct: 61 GYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFV 101
>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 = 160 bits (405), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 69/91 (75%), Positives = 83/91 (91%)
Query: 50 PGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDS 109
PGPQRSVEGWILFVTGVHEEA E+D+H+KF+EYGEIKN+HLNLDRRTG+LKGY LVEY++
Sbjct: 1 PGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 60
Query: 110 YKEASAARDALNGTTILGQTVTVDWCFVKGP 140
YKEA AA + LNG ++GQ ++VDWCFV+GP
Sbjct: 61 YKEAQAAMEGLNGQDLMGQPISVDWCFVRGP 91
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 155 bits (392), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 67/89 (75%), Positives = 81/89 (91%)
Query: 52 PQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYK 111
PQRSVEGWILFVTGVHEEA E+D+H+KF+EYGEIKN+HLNLDRRTG+LKGY LVEY++YK
Sbjct: 1 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYK 60
Query: 112 EASAARDALNGTTILGQTVTVDWCFVKGP 140
EA AA + LNG ++GQ ++VDWCFV+GP
Sbjct: 61 EAQAAMEGLNGQDLMGQPISVDWCFVRGP 89
>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 = 155 bits (392), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 67/89 (75%), Positives = 81/89 (91%)
Query: 52 PQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYK 111
PQRSVEGWILFVTGVHEEA E+D+H+KF+EYGEIKN+HLNLDRRTG+LKGY LVEY++YK
Sbjct: 1 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYK 60
Query: 112 EASAARDALNGTTILGQTVTVDWCFVKGP 140
EA AA + LNG ++GQ ++VDWCFV+GP
Sbjct: 61 EAQAAMEGLNGQDLMGQPISVDWCFVRGP 89
>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 = 149 bits (377), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 65/86 (75%), Positives = 78/86 (90%)
Query: 52 PQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYK 111
PQRSVEGWILFVTGVHEEA E+D+H+KF+EYGEIKN+HLNLDRRTG+LKGY LVEY++YK
Sbjct: 1 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYK 60
Query: 112 EASAARDALNGTTILGQTVTVDWCFV 137
EA AA + LNG ++GQ ++VDWCFV
Sbjct: 61 EAQAAMEGLNGQDLMGQPISVDWCFV 86
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 47/76 (61%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
+L+V G+ EE + +H F +G+I ++ + LD T +G+A VE++ ++A+AA D
Sbjct: 14 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 73
Query: 120 LNGTTILGQTVTVDWC 135
+N + + G+T+ V+
Sbjct: 74 MNESELFGRTIRVNLA 89
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 53.9 bits (128), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 31/86 (36%), Positives = 48/86 (55%), Gaps = 4/86 (4%)
Query: 51 GPQ-RSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDS 109
GP RS LFV G+ E+ E+ + E F G ++ + DR TG KG+ V+++S
Sbjct: 7 GPNARSQPSKTLFVKGLSEDTTEETLKESFD--GSVR-ARIVTDRETGSSKGFGFVDFNS 63
Query: 110 YKEASAARDALNGTTILGQTVTVDWC 135
++A AA++A+ I G VT+DW
Sbjct: 64 EEDAKAAKEAMEDGEIDGNKVTLDWA 89
>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 = 53.5 bits (127), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 47/76 (61%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
+L+V G+ EE + +H F +G+I ++ + LD T +G+A VE++ ++A+AA D
Sbjct: 9 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 68
Query: 120 LNGTTILGQTVTVDWC 135
+N + + G+T+ V+
Sbjct: 69 MNESELFGRTIRVNLA 84
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 53.1 bits (126), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 47/76 (61%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
+L+V G+ EE + +H F +G+I ++ + LD T +G+A VE++ ++A+AA D
Sbjct: 7 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66
Query: 120 LNGTTILGQTVTVDWC 135
+N + + G+T+ V+
Sbjct: 67 MNESELFGRTIRVNLA 82
>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 = 53.1 bits (126), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 47/76 (61%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
+L+V G+ EE + +H F +G+I ++ + LD T +G+A VE++ ++A+AA D
Sbjct: 4 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 63
Query: 120 LNGTTILGQTVTVDWC 135
+N + + G+T+ V+
Sbjct: 64 MNESELFGRTIRVNLA 79
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 47/74 (63%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
+L+V G+ EE + +H F +G+I ++ + LD T +G+A VE++ ++A+AA D
Sbjct: 65 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 124
Query: 120 LNGTTILGQTVTVD 133
+N + + G+T+ V+
Sbjct: 125 MNESELFGRTIRVN 138
>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 = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 41/73 (56%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LFV V+ + E + +F YG IK +H+ +R+G +GYA +EY+ ++ +A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 121 NGTTILGQTVTVD 133
+G I G+ V VD
Sbjct: 165 DGKKIDGRRVLVD 177
>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 = 50.1 bits (118), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 41/73 (56%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LFV V+ + E + +F YG IK +H+ +R+G +GYA +EY+ ++ +A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 121 NGTTILGQTVTVD 133
+G I G+ V VD
Sbjct: 165 DGKKIDGRRVLVD 177
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 50.1 bits (118), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 30/84 (35%), Positives = 42/84 (50%), Gaps = 2/84 (2%)
Query: 50 PGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDS 109
P RS+ +FV + EA E+ + + FSE G + + L DR TG KGY EY
Sbjct: 2 PAVDRSLRS--VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQD 59
Query: 110 YKEASAARDALNGTTILGQTVTVD 133
+ A +A LNG G+ + VD
Sbjct: 60 QETALSAMRNLNGREFSGRALRVD 83
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 50.1 bits (118), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 40/82 (48%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L+V+G+ + + +M + FS+YG I + LD+ TG +G + +D EA A L
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 121 NGTTILGQTVTVDWCFVKGPKK 142
NG LG + F P +
Sbjct: 64 NGQKPLGAAEPITVKFANNPSQ 85
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 42/88 (47%)
Query: 55 SVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEAS 114
S+ L+V+G+ + + +M + FS+YG I + LD+ TG +G + +D EA
Sbjct: 87 SIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAE 146
Query: 115 AARDALNGTTILGQTVTVDWCFVKGPKK 142
A LNG LG + F P +
Sbjct: 147 EAIKGLNGQKPLGAAEPITVKFANNPSQ 174
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 35/75 (46%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L V + + +D+ F G+I++ L D+ TG GY V Y +A A + L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 121 NGTTILGQTVTVDWC 135
NG + +T+ V +
Sbjct: 67 NGLKLQTKTIKVSYA 81
>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 = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 40/72 (55%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V VH++ +DD+ F +G+IK+ L D TG KGY +EY+ + + A ++
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 172
Query: 121 NGTTILGQTVTV 132
N + GQ + V
Sbjct: 173 NLFDLGGQYLRV 184
Score = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 41/72 (56%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V ++ E ED + + F+ +G IK++ ++ D T KG+A VEY+ + A A + +
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 121 NGTTILGQTVTV 132
N + G+ + V
Sbjct: 76 NSVMLGGRNIKV 87
>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 = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 40/72 (55%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V VH++ +DD+ F +G+IK+ L D TG KGY +EY+ + + A ++
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 187
Query: 121 NGTTILGQTVTV 132
N + GQ + V
Sbjct: 188 NLFDLGGQYLRV 199
Score = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 41/72 (56%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V ++ E ED + + F+ +G IK++ ++ D T KG+A VEY+ + A A + +
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 121 NGTTILGQTVTV 132
N + G+ + V
Sbjct: 91 NSVMLGGRNIKV 102
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 42/75 (56%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LFV G+ + E + + FS+YG+I + + DR T +G+ V +++ +A A A+
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 121 NGTTILGQTVTVDWC 135
NG ++ G+ + VD
Sbjct: 75 NGKSVDGRQIRVDQA 89
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 45/82 (54%)
Query: 59 WILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARD 118
L V G+ E D+ E FS+YG I ++ + D+++ +G+A V +++ +A A++
Sbjct: 13 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 72
Query: 119 ALNGTTILGQTVTVDWCFVKGP 140
NG + G+ + VD+ K P
Sbjct: 73 RANGMELDGRRIRVDFSITKRP 94
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 44/82 (53%), Gaps = 1/82 (1%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEI-KNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
+F+ + E E +++ FS +G I + + D TG KGYA + + S+ + AA +A
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 120 LNGTTILGQTVTVDWCFVKGPK 141
+NG + + +TV + F K K
Sbjct: 68 MNGQYLCNRPITVSYAFKKDSK 89
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 45/82 (54%)
Query: 59 WILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARD 118
L V G+ E D+ E FS+YG I ++ + D+++ +G+A V +++ +A A++
Sbjct: 16 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 75
Query: 119 ALNGTTILGQTVTVDWCFVKGP 140
NG + G+ + VD+ K P
Sbjct: 76 RANGMELDGRRIRVDFSITKRP 97
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 45/82 (54%)
Query: 59 WILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARD 118
L V G+ E D+ E FS+YG I ++ + D+++ +G+A V +++ +A A++
Sbjct: 47 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 106
Query: 119 ALNGTTILGQTVTVDWCFVKGP 140
NG + G+ + VD+ K P
Sbjct: 107 RANGMELDGRRIRVDFSITKRP 128
>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 = 47.0 bits (110), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V VH++ +DD+ F +G+IK+ L D TG KGY +EY+ + + A +
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSX 171
Query: 121 NGTTILGQTVTV 132
N + GQ + V
Sbjct: 172 NLFDLGGQYLRV 183
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 39/72 (54%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V ++ E ED + + F+ +G IK++ + D T KG+A VEY+ + A A +
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 121 NGTTILGQTVTV 132
N + G+ + V
Sbjct: 75 NSVXLGGRNIKV 86
>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 = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 52/110 (47%), Gaps = 10/110 (9%)
Query: 45 VGDEEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYAL 104
G ++ GP EG LF+ + +E + D+ + F +G + + + +D++T K +
Sbjct: 16 AGSQKEGP----EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGF 71
Query: 105 VEYDSYKEASAARDALNGTTILGQTVTVDWCFVKGPKKVAGEQKVGPEGG 154
V YD+ A AA ++NG I + + V K+ + K GP G
Sbjct: 72 VSYDNPVSAQAAIQSMNGFQIGMKRLKVQL------KRSKNDSKSGPSSG 115
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 44/86 (51%), Gaps = 1/86 (1%)
Query: 51 GPQRSVE-GWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDS 109
GP R + + VT + E+ +E D+ E F +G I ++L D+ TG KG+A + +
Sbjct: 7 GPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHR 66
Query: 110 YKEASAARDALNGTTILGQTVTVDWC 135
++A+ A ++G + V+W
Sbjct: 67 REDAARAIAGVSGFGYDHLILNVEWA 92
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 72 EDDMHEKFSEYGEIKNLHLNLDRRTGFL-KGYALVEYDSYKEASAARDALNGTTILGQTV 130
+D + E FS YG+IK + + ++R L KGYA VE+++ EA A ++G I GQ +
Sbjct: 18 KDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEI 77
Query: 131 TVDWCFVKGPK 141
T P+
Sbjct: 78 TATAVLAPWPR 88
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 40/82 (48%), Gaps = 6/82 (7%)
Query: 51 GPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSY 110
GP R L+V +H ED + F +G I+++ L +D TG KGY + +
Sbjct: 25 GPMR------LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDS 78
Query: 111 KEASAARDALNGTTILGQTVTV 132
+ A A + LNG + G+ + V
Sbjct: 79 ECAKKALEQLNGFELAGRPMKV 100
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 38/76 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L+++G+ + D+ + FS +G I N + +D+ TG +G A + +D EA A +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 121 NGTTILGQTVTVDWCF 136
NG G + + F
Sbjct: 151 NGHKPPGSSEPITVXF 166
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L V + + +D++ FS GE+++ L D+ G GY V Y + K+A A + L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 121 NGTTILGQTVTVDWC 135
NG + +T+ V +
Sbjct: 65 NGLRLQSKTIKVSYA 79
>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 = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L+++G+ + D+ + FS +G I N + +D+ TG +G A + +D EA A +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 121 NGTTILGQT--VTVDWC 135
NG G + +TV +
Sbjct: 151 NGHKPPGSSEPITVKFA 167
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L V + + +D++ FS GE+++ L D+ G GY V Y + K+A A + L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 121 NGTTILGQTVTVDWC 135
NG + +T+ V +
Sbjct: 65 NGLRLQSKTIKVSYA 79
>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 = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 40/79 (50%)
Query: 57 EGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAA 116
+G L V + + +D++ FS GE+++ L D+ G GY V Y + K+A A
Sbjct: 18 QGTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 77
Query: 117 RDALNGTTILGQTVTVDWC 135
+ LNG + +T+ V +
Sbjct: 78 INTLNGLRLQSKTIKVSYA 96
>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 = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 44/89 (49%)
Query: 46 GDEEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALV 105
GD E + + L+V + E+ ++E FS+ G+IK + + LD+ G+ V
Sbjct: 27 GDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFV 86
Query: 106 EYDSYKEASAARDALNGTTILGQTVTVDW 134
EY S +A A +NGT + + + DW
Sbjct: 87 EYYSRADAENAMRYINGTRLDDRIIRTDW 115
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 42/85 (49%), Gaps = 4/85 (4%)
Query: 51 GPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSY 110
GP R+ L V + + +D++ FS GE+++ L D+ G GY V Y +
Sbjct: 1 GPGRTN----LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTA 56
Query: 111 KEASAARDALNGTTILGQTVTVDWC 135
K+A A + LNG + +T+ V +
Sbjct: 57 KDAERAINTLNGLRLQSKTIKVSYA 81
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 37/74 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L+V +H + E ++EKFS G I ++ + D T GYA V + +A A D +
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 77
Query: 121 NGTTILGQTVTVDW 134
N I G+ V + W
Sbjct: 78 NFDVIKGKPVRIMW 91
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 49 EPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYD 108
+P ++S G I F+ + + +++ FS +G I + + D KGY V ++
Sbjct: 95 DPSLRKSGVGNI-FIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS--KGYGFVHFE 151
Query: 109 SYKEASAARDALNGTTILGQTVTV 132
+ + A A + +NG + + V V
Sbjct: 152 TQEAAERAIEKMNGMLLNDRKVFV 175
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 37/74 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L+V +H + E ++EKFS G I ++ + D T GYA V + +A A D +
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 121 NGTTILGQTVTVDW 134
N I G+ V + W
Sbjct: 73 NFDVIKGKPVRIMW 86
Score = 30.0 bits (66), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 49 EPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYD 108
+P ++S G I F+ + + +++ FS +G I + + D KGY V ++
Sbjct: 90 DPSLRKSGVGNI-FIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS--KGYGFVHFE 146
Query: 109 SYKEASAARDALNGTTILGQTVTV 132
+ + A A + +NG + + V V
Sbjct: 147 TQEAAERAIEKMNGMLLNDRKVFV 170
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 2/83 (2%)
Query: 55 SVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEAS 114
S+ L+V+G+ + + ++ + FS+YG I + +D+ TG +G + +D EA
Sbjct: 85 SIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAE 144
Query: 115 AARDALNGTTILGQT--VTVDWC 135
A LNG G T +TV +
Sbjct: 145 EAIKGLNGQKPSGATEPITVKFA 167
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L V + + +++ F GEI++ L D+ TG GY V Y K+A A + L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 121 NGTTILGQTVTVDWC 135
NG + +T+ V +
Sbjct: 65 NGLRLQTKTIKVSYA 79
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 38/77 (49%), Gaps = 1/77 (1%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
+L+V + + ED + + F G I N+ + +D+ + YA VEY +A+ A
Sbjct: 2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVN-YAFVEYHQSHDANIALQT 60
Query: 120 LNGTTILGQTVTVDWCF 136
LNG I V ++W F
Sbjct: 61 LNGKQIENNIVKINWAF 77
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 38/75 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LFV ++ ++ + F ++ + H+ D +TG +GY V + S +A A D++
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 121 NGTTILGQTVTVDWC 135
G + G+ + ++W
Sbjct: 150 QGQDLNGRPLRINWA 164
>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 = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 44/89 (49%), Gaps = 1/89 (1%)
Query: 46 GDEEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALV 105
GD E + + L+V + E+ ++E FS+ G+IK + + LD+ G+ V
Sbjct: 6 GDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTAC-GFCFV 64
Query: 106 EYDSYKEASAARDALNGTTILGQTVTVDW 134
EY S +A A +NGT + + + DW
Sbjct: 65 EYYSRADAENAMRYINGTRLDDRIIRTDW 93
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LFV ++++ EDD+ F +G I+ + L G KG A V+Y S+ EA AA +AL
Sbjct: 18 LFVGMLNKQQSEDDVRRLFEAFGNIEECTI-LRGPDGNSKGCAFVKYSSHAEAQAAINAL 76
Query: 121 NGTTIL 126
+G+ +
Sbjct: 77 HGSQTM 82
>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 = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 48 EEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEY 107
+ PG +V+ +FV G+ E+ +E + + F +YG+I+ + + DR +G +G+A V +
Sbjct: 96 QRPGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
Query: 108 DSY 110
D +
Sbjct: 154 DDH 156
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 30/59 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
LF+ G+ E ++ + F ++G + + + D T +G+ V Y + +E AA +A
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 41/82 (50%), Gaps = 6/82 (7%)
Query: 53 QRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKE 112
Q S + ++ G+ + M + FS +G+I + + + KGY+ V + +++
Sbjct: 20 QSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHES 73
Query: 113 ASAARDALNGTTILGQTVTVDW 134
A+ A ++NGTTI G V W
Sbjct: 74 AAHAIVSVNGTTIEGHVVKCYW 95
>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 = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 48 EEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEY 107
+ PG +V+ +FV G+ E+ +E + + F +YG+I+ + + DR +G +G+A V +
Sbjct: 89 QRPGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 146
Query: 108 DSY 110
D +
Sbjct: 147 DDH 149
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 30/59 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
LF+ G+ E ++ + F ++G + + + D T +G+ V Y + +E AA +A
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 48 EEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEY 107
+ PG +V+ +FV G+ E+ +E + + F +YG+I+ + + DR +G +G+A V +
Sbjct: 97 QRPGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 154
Query: 108 DSY 110
D +
Sbjct: 155 DDH 157
Score = 30.0 bits (66), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 35/74 (47%)
Query: 46 GDEEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALV 105
G + P+ + LF+ G+ E ++ + F ++G + + + D T +G+ V
Sbjct: 2 GSKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 61
Query: 106 EYDSYKEASAARDA 119
Y + +E AA +A
Sbjct: 62 TYATVEEVDAAMNA 75
>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 = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 48 EEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEY 107
+ PG +V+ +FV G+ E+ +E + + F +YG+I+ + + DR +G +G+A V +
Sbjct: 95 QRPGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 152
Query: 108 DSY 110
D +
Sbjct: 153 DDH 155
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 30/59 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
LF+ G+ E ++ + F ++G + + + D T +G+ V Y + +E AA +A
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 48 EEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEY 107
+ PG +V+ +FV G+ E+ +E + + F +YG+I+ + + DR +G +G+A V +
Sbjct: 96 QRPGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
Query: 108 DSY 110
D +
Sbjct: 154 DDH 156
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 30/59 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
LF+ G+ E ++ + F ++G + + + D T +G+ V Y + +E AA +A
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
>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 = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 1/85 (1%)
Query: 52 PQRSVEGWI-LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSY 110
P VEG L V + D + F +YG + ++++ DR T +G+A V +
Sbjct: 40 PPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDK 99
Query: 111 KEASAARDALNGTTILGQTVTVDWC 135
++A A DA++G + G+ + V
Sbjct: 100 RDAEDAMDAMDGAVLDGRELRVQMA 124
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 43/97 (44%), Gaps = 14/97 (14%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALV---EYDSYKEASAAR 117
L V G+ + E D+ E FS +GE+ + + D +TG KG+ V EY++ + + R
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR 77
Query: 118 DALNGTTILGQTVTVDWCFVKGPKKVAGEQKVGPEGG 154
++G WC K P Q GP G
Sbjct: 78 HMIDGR----------WCDCKLPNSKQ-SQDSGPSSG 103
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 48 EEPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEY 107
+ PG +V+ +FV G+ E+ +E + + F +YG+I+ + + DR +G +G+A V +
Sbjct: 94 QRPGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 151
Query: 108 DSY 110
D +
Sbjct: 152 DDH 154
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 30/59 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
LF+ G+ E ++ + F ++G + + + D T +G+ V Y + +E AA +A
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
>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 = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 30/65 (46%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LF+ G+ +D + E + +G +K +L D TG KGYA EY A L
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 176
Query: 121 NGTTI 125
NG +
Sbjct: 177 NGMQL 181
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 40/73 (54%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V G+ E+ E + E F + G + N H+ DR TG +GY VE+ S ++A A +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 121 NGTTILGQTVTVD 133
+ + G+ + V+
Sbjct: 78 DMIKLYGKPIRVN 90
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 55 SVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEAS 114
S+E LF++G+ ++++ E +G +K+L L + R G KG A VEY++ +AS
Sbjct: 14 SLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRL-VTNRAGKPKGLAYVEYENESQAS 72
Query: 115 AARDALNGTTI 125
A ++G TI
Sbjct: 73 QAVMKMDGMTI 83
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 41/74 (55%)
Query: 59 WILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARD 118
L V G+ E D+ E FS+YG I ++ + D+++ +G+A V +++ +A A++
Sbjct: 16 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 75
Query: 119 ALNGTTILGQTVTV 132
NG + G+ + V
Sbjct: 76 RANGMELDGRRIRV 89
>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 = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 30/65 (46%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LF+ G+ +D + E + +G +K +L D TG KGYA EY A L
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 158
Query: 121 NGTTI 125
NG +
Sbjct: 159 NGMQL 163
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 41/95 (43%), Gaps = 7/95 (7%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L V + E + + F YG I+++ + DR T +GY V++ S A A L
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 121 NGTTILGQTVTVDWCFVKGPKKVAGEQKVGPEGGV 155
NG IL + + V +G Q+ G G V
Sbjct: 105 NGFNILNKRLKVALA-------ASGHQRPGIAGAV 132
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 38/75 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LFV ++ ++ + F ++ + H+ D +TG +GY V + S +A A D++
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 121 NGTTILGQTVTVDWC 135
G + G+ + ++W
Sbjct: 64 QGQDLNGRPLRINWA 78
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 43/97 (44%), Gaps = 8/97 (8%)
Query: 52 PQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKN--------LHLNLDRRTGFLKGYA 103
P + ++V G+++ DD+ + F + G +K +H+ LD+ TG KG A
Sbjct: 9 PDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDA 68
Query: 104 LVEYDSYKEASAARDALNGTTILGQTVTVDWCFVKGP 140
V Y+ A AA + +G G + V K P
Sbjct: 69 TVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLARKKPP 105
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 30/65 (46%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LF+ G+ +D + E + +G +K +L D TG KGYA EY A L
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 156
Query: 121 NGTTI 125
NG +
Sbjct: 157 NGMQL 161
>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 = 7e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 36/72 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L+V +H ED + F +G+I N+ L D TG KGY + + + A A + L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 121 NGTTILGQTVTV 132
NG + G+ + V
Sbjct: 68 NGFELAGRPMRV 79
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 40.4 bits (93), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 38/83 (45%), Gaps = 8/83 (9%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKN--------LHLNLDRRTGFLKGYALVEYDSYKE 112
+FV G+ E + + + F + G IK ++L DR TG LKG A V +D
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 113 ASAARDALNGTTILGQTVTVDWC 135
A AA D +G G + V +
Sbjct: 76 AKAAIDWFDGKEFSGNPIKVSFA 98
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 41/91 (45%), Gaps = 8/91 (8%)
Query: 53 QRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKN--------LHLNLDRRTGFLKGYAL 104
Q + + +FV G+ E + + + F + G IK ++L DR TG LKG A
Sbjct: 2 QDNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEAT 61
Query: 105 VEYDSYKEASAARDALNGTTILGQTVTVDWC 135
V +D A AA D +G G + V +
Sbjct: 62 VSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA 92
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 50 PGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDS 109
PG + S++ L+VT + +D + F +YG I ++ D+ TG +G A V Y+
Sbjct: 82 PGGE-SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNK 140
Query: 110 YKEASAARDALN 121
+EA A ALN
Sbjct: 141 REEAQEAISALN 152
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 37/75 (49%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L V + ++ + +++ F G I + D +TG+ GYA V++ S ++ A L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 121 NGTTILGQTVTVDWC 135
NG T+ + + V +
Sbjct: 66 NGITVRNKRLKVSYA 80
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 40.0 bits (92), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LFV + + E+D+ + FS YG + LH +D T KG+A V + + A A +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 121 NGTTILGQTVTV 132
+G G+ + V
Sbjct: 71 DGQVFQGRMLHV 82
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 30/65 (46%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LF+ G+ +D + E + +G +K +L D TG KGYA EY A L
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 121 NGTTI 125
NG +
Sbjct: 64 NGMQL 68
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LF+ G++ E E + F ++G I + L DR T +G+A + +++ +A A +
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKDM 68
Query: 121 NGTTILGQTVTVDWC 135
NG ++ G+ + V+
Sbjct: 69 NGKSLHGKAIKVEQA 83
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 35/67 (52%)
Query: 55 SVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEAS 114
S++ L+VT + +D + F +YG I ++ D+ TG +G A V Y+ +EA
Sbjct: 10 SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQ 69
Query: 115 AARDALN 121
A ALN
Sbjct: 70 EAISALN 76
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDS 109
+FV G+ + + + E FS++G I + L LD+ TG +G+ V YDS
Sbjct: 90 IFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDS 138
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 36/68 (52%), Gaps = 3/68 (4%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYD---SYKEASAAR 117
+F+ G++ + ED++ E F +YG + +L + D TG +G+ + ++ S E +
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQ 65
Query: 118 DALNGTTI 125
L+G I
Sbjct: 66 HILDGKVI 73
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 33/68 (48%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L++ G+ + D+ + YG+I + LD+ T KGY V++DS A A AL
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 121 NGTTILGQ 128
+ + Q
Sbjct: 68 KASGVQAQ 75
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 50 PGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDS 109
PG + S++ L+VT + +D + F +YG I ++ D+ TG +G A V Y+
Sbjct: 93 PGGE-SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNK 151
Query: 110 YKEASAARDALNG 122
+EA A ALN
Sbjct: 152 REEAQEAISALNN 164
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 37/75 (49%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L V + ++ + +++ F G I + D +TG+ GYA V++ S ++ A L
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 121 NGTTILGQTVTVDWC 135
NG T+ + + V +
Sbjct: 77 NGITVRNKRLKVSYA 91
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 42/73 (57%), Gaps = 2/73 (2%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L V+ + ++ D+ + F ++G+I ++ + + R KG+ V +++ +A AR+ L
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGS--KGFGFVTFENSADADRAREKL 75
Query: 121 NGTTILGQTVTVD 133
+GT + G+ + V+
Sbjct: 76 HGTVVEGRKIEVN 88
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 37/80 (46%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
+FV + E +D+ F+ +G I + + D TG KGY V + + +A A +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 121 NGTTILGQTVTVDWCFVKGP 140
G + G+ + +W K P
Sbjct: 78 GGQWLGGRQIRTNWATRKPP 97
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 42/73 (57%), Gaps = 2/73 (2%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L V+ + ++ D+ + F ++G+I ++ + + R KG+ V +++ +A AR+ L
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGS--KGFGFVTFENSADADRAREKL 89
Query: 121 NGTTILGQTVTVD 133
+GT + G+ + V+
Sbjct: 90 HGTVVEGRKIEVN 102
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 6/79 (7%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
ILF+T + EE E + F+++ K + L R A VE+D+ +A AARDA
Sbjct: 209 ILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHD-----IAFVEFDNEVQAGAARDA 263
Query: 120 LNGTTILGQTVTVDWCFVK 138
L G I Q + F K
Sbjct: 264 LQGFKIT-QNNAMKISFAK 281
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 37/75 (49%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L V + ++ + +++ F G I + D +TG+ GYA V++ S ++ A L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 121 NGTTILGQTVTVDWC 135
NG T+ + + V +
Sbjct: 66 NGITVRNKRLKVSYA 80
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 33/70 (47%)
Query: 52 PQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYK 111
P + + LFV + E D+ F E+G I L + DR TG KG A + Y +
Sbjct: 9 PMKDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARD 68
Query: 112 EASAARDALN 121
A A+ AL+
Sbjct: 69 SALKAQSALH 78
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 35/74 (47%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L V + + +D+ F G+I++ L D+ TG GY V Y +A A + L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 121 NGTTILGQTVTVDW 134
NG + +T+ V +
Sbjct: 67 NGLKLQTKTIKVSY 80
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
+FV + E +D+ F+ +G+I + + D TG KGY V + + +A A +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 121 NGTTILGQTVTVDWCFVKGP 140
G + G+ + +W K P
Sbjct: 78 GGQWLGGRQIRTNWATRKPP 97
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 55 SVEGWI-LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEA 113
VEG L V + D + F +YG + ++++ DR T +G+A V + ++A
Sbjct: 66 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA 125
Query: 114 SAARDALNGTTILGQTVTV 132
A DA++G + G+ + V
Sbjct: 126 EDAMDAMDGAVLDGRELRV 144
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 5/72 (6%)
Query: 51 GPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSY 110
GP R ++++ + + E+ + + S G + NL + D +TG KGYA +E+
Sbjct: 1 GPSR-----VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDL 55
Query: 111 KEASAARDALNG 122
+ +++A LNG
Sbjct: 56 ESSASAVRNLNG 67
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 46/101 (45%), Gaps = 16/101 (15%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
+LFV + E+ + + FS++G+++ R LK YA + +D A A +
Sbjct: 13 VLFVRNLANTVTEEILEKAFSQFGKLE--------RVKKLKDYAFIHFDERDGAVKAMEE 64
Query: 120 LNGTTILGQTVTVDWCFVKGPKKVAGEQKV------GPEGG 154
+NG + G+ + + F K P + E+K GP G
Sbjct: 65 MNGKDLEGENIEI--VFAKPPDQKRKERKAQRQAASGPSSG 103
>pdb|2U1A|A Chain A, Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20
Structures
Length = 88
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 6/79 (7%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
ILF+T + EE E + F+++ K + L R A VE+D+ +A AARDA
Sbjct: 15 ILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRH-----DIAFVEFDNEVQAGAARDA 69
Query: 120 LNGTTILGQTVTVDWCFVK 138
L G I Q + F K
Sbjct: 70 LQGFKI-TQNNAMKISFAK 87
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 4/82 (4%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V + A + + E FS++G++ N+ L DR T KG+ VE + S A L
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAKL 62
Query: 121 NGTTILGQTVTVDWCFVKGPKK 142
+ T +G+T+ V PKK
Sbjct: 63 DNTDFMGRTIRVTEA---NPKK 81
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 35/63 (55%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
++++ + + E+ + + S G + NL + D +TG KGYA +E+ + +++A
Sbjct: 6 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 65
Query: 120 LNG 122
LNG
Sbjct: 66 LNG 68
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 35/63 (55%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
++++ + + E+ + + S G + NL + D +TG KGYA +E+ + +++A
Sbjct: 4 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 63
Query: 120 LNG 122
LNG
Sbjct: 64 LNG 66
>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 = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 39/80 (48%), Gaps = 1/80 (1%)
Query: 53 QRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKE 112
++ ++ ++V V + D+ FS G I + + D+ +G KGYA +E+
Sbjct: 31 KKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNS 90
Query: 113 ASAARDALNGTTILGQTVTV 132
AA A++ T G+T+ V
Sbjct: 91 VDAAV-AMDETVFRGRTIKV 109
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LF+ + E D+ F E+G+I L + DR TG KG A + Y + A A+ AL
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSAL 75
Query: 121 N 121
+
Sbjct: 76 H 76
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 35.8 bits (81), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 47/98 (47%), Gaps = 10/98 (10%)
Query: 57 EGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAA 116
E L ++ + A E+ + E F + IK + G KGYA +E+ S+++A A
Sbjct: 14 ESKTLVLSNLSYSATEETLQEVFEKATFIKVPQ----NQNGKSKGYAFIEFASFEDAKEA 69
Query: 117 RDALNGTTILGQTVTVDWCFVKGPKKVAGEQKVGPEGG 154
++ N I G+ + ++ ++GP+ G GP G
Sbjct: 70 LNSCNKREIEGRAIRLE---LQGPR---GSPNSGPSSG 101
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 35.8 bits (81), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 41/87 (47%), Gaps = 20/87 (22%)
Query: 71 QEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDALNGTTILGQTV 130
++ D+ FS+YG + ++ KGYA V+Y + + A AA NG + GQT+
Sbjct: 41 KKSDVETIFSKYGRVAGCSVH--------KGYAFVQYSNERHARAAVLGENGRVLAGQTL 92
Query: 131 TVDWCFVKGPKKVAGEQK---VGPEGG 154
++ +AGE K GP G
Sbjct: 93 DIN---------MAGEPKPDRSGPSSG 110
>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 = 35.8 bits (81), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 4/69 (5%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA- 119
+F+ G+ + + D+ + FS++GE+ + L LD TG +G+ V + + D
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 120 ---LNGTTI 125
LNG I
Sbjct: 62 EHKLNGKVI 70
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 45/94 (47%), Gaps = 8/94 (8%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L+V + + E + + FS+ G K+ + + + Y VE+ +++A+AA A+
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSN--DPYCFVEFYEHRDAAAALAAM 75
Query: 121 NGTTILGQTVTVDWCFVKGPKKVAGEQKVGPEGG 154
NG ILG+ V V+W QK GP G
Sbjct: 76 NGRKILGKEVKVNW------ATTPSSQKSGPSSG 103
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 38/75 (50%), Gaps = 8/75 (10%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LFV + QE +++E F +G +K + + L G+A VE++ + A+ A + +
Sbjct: 7 LFVRPFPLDVQESELNEIFGPFGPMKEVKI--------LNGFAFVEFEEAESAAKAIEEV 58
Query: 121 NGTTILGQTVTVDWC 135
+G + Q + V +
Sbjct: 59 HGKSFANQPLEVVYS 73
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 35.4 bits (80), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 38/75 (50%), Gaps = 8/75 (10%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LFV + QE +++E F +G +K + + L G+A VE++ + A+ A + +
Sbjct: 34 LFVRPFPLDVQESELNEIFGPFGPMKEVKI--------LNGFAFVEFEEAESAAKAIEEV 85
Query: 121 NGTTILGQTVTVDWC 135
+G + Q + V +
Sbjct: 86 HGKSFANQPLEVVYS 100
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 35.0 bits (79), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 39/86 (45%), Gaps = 6/86 (6%)
Query: 50 PGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDS 109
PG + + LFV + + E+D F YGE + +N DR GF++ +S
Sbjct: 14 PGEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIR------LES 67
Query: 110 YKEASAARDALNGTTILGQTVTVDWC 135
A A+ L+GT + + + + +
Sbjct: 68 RTLAEIAKAELDGTILKSRPLRIRFA 93
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 34.3 bits (77), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 41/83 (49%), Gaps = 3/83 (3%)
Query: 51 GPQRSVEGWI-LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDS 109
GP V+G I L V + D + F +YG + ++++ + T +G+A V +
Sbjct: 7 GPD--VDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHD 64
Query: 110 YKEASAARDALNGTTILGQTVTV 132
++A A A++G + G+ + V
Sbjct: 65 RRDAQDAEAAMDGAELDGRELRV 87
>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 = 33.9 bits (76), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 14/60 (23%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
+FV G+ + E+ + E F +GE++++ L +D +T +G+ + ++KE + +
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFI---TFKEEEPVKKIM 60
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 33.9 bits (76), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 14/60 (23%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
+FV G+ + E+ + E F +GE++++ L +D +T +G+ + ++KE + +
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFI---TFKEEEPVKKIM 58
>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 = 33.9 bits (76), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
+L V + + E +G ++ L RTG KGY EY A+ A+
Sbjct: 95 LLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSD 154
Query: 120 LNGTTILGQTVTVDW 134
L G + +T+ V W
Sbjct: 155 LLGKPLGPRTLYVHW 169
Score = 31.2 bits (69), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 97 GFLKGYALVEYDSYKEASAARDALNGTTILGQTVTVDWCFVKGP 140
G LKG+A++EY++ + A A+ +G ++ G + V +C GP
Sbjct: 221 GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC-APGP 263
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 33.9 bits (76), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
+L V + + E +G ++ L RTG KGY EY A+ A+
Sbjct: 97 LLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSD 156
Query: 120 LNGTTILGQTVTVDW 134
L G + +T+ V W
Sbjct: 157 LLGKPLGPRTLYVHW 171
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 97 GFLKGYALVEYDSYKEASAARDALNGTTILGQTVTVDWCFVKGP 140
G LKG+A++EY++ + A A+ +G ++ G + V +C GP
Sbjct: 223 GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC-APGP 265
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 33.9 bits (76), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
+L V + + E +G ++ L RTG KGY EY A+ A+
Sbjct: 97 LLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSD 156
Query: 120 LNGTTILGQTVTVDW 134
L G + +T+ V W
Sbjct: 157 LLGKPLGPRTLYVHW 171
Score = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 97 GFLKGYALVEYDSYKEASAARDALNGTTILGQTVTVDWCFVKGP 140
G LKG+A++EY++ + A A+ +G ++ G + V +C GP
Sbjct: 223 GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC-APGP 265
>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 = 33.5 bits (75), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 52 PQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEY 107
P+ + +FV G+ E ++ F+ YG +K + + D RTG KGY V +
Sbjct: 3 PEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 57
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 33.1 bits (74), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEY 107
+FV G+ E ++ F+ YG +K + + D RTG KGY V +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 58
>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 = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 52 PQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEY 107
P+ + +FV G+ E ++ F+ YG +K + + D RTG KGY V +
Sbjct: 3 PEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 57
>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 = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 48/87 (55%), Gaps = 9/87 (10%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYG-EIKNLHLNLDRRTGFLKGYALVEYDSYKEAS---- 114
I+ + + + A EDD+ + +G + + + L ++ +G +G+A VE+ ++A+
Sbjct: 3 IVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWME 62
Query: 115 AARDALNGTTILGQTVTVDWCFVKGPK 141
A + +LN ILGQ V++ + K PK
Sbjct: 63 ANQHSLN---ILGQKVSMHYSDPK-PK 85
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 38/96 (39%), Gaps = 15/96 (15%)
Query: 59 WILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARD 118
W +FV V ++ F G + + D +K YA V + +A AA
Sbjct: 10 WKIFVGNVSAACTSQELRSLFERRGRV----IECD----VVKDYAFVHMEKEADAKAAIA 61
Query: 119 ALNGTTILGQTVTVDWCFVKGPKKVAGEQKVGPEGG 154
LNG + G+ + V+ G++K GP G
Sbjct: 62 QLNGKEVKGKRINVEL-------STKGQKKSGPSSG 90
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 36/73 (49%), Gaps = 5/73 (6%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V + A + ++ FS YG ++ + + + G+A VE++ ++A A L
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRGL 57
Query: 121 NGTTILGQTVTVD 133
+G I G V V+
Sbjct: 58 DGKVICGSRVRVE 70
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 2/76 (2%)
Query: 53 QRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFL--KGYALVEYDSY 110
Q ++ +FV V E D+ E F +YG + +++ DR KG V + +
Sbjct: 10 QPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTR 69
Query: 111 KEASAARDALNGTTIL 126
K A A++AL+ +L
Sbjct: 70 KAALEAQNALHNMKVL 85
Score = 30.4 bits (67), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 7/81 (8%)
Query: 55 SVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEAS 114
+VE LF+ + ++ E+D+ FS +G+I+ + L G +G A V + + A
Sbjct: 104 AVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRI-LRGPDGLSRGCAFVTFTTRAMAQ 162
Query: 115 AARDALNGTTILGQTVTVDWC 135
A A++ Q T++ C
Sbjct: 163 TAIKAMH------QAQTMEGC 177
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 32.0 bits (71), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 8/71 (11%)
Query: 52 PQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYK 111
P+ + +LFV + E+ + + FSE+G+++ R LK YA V ++
Sbjct: 9 PEVMAKVKVLFVRNLATTVTEEILEKSFSEFGKLE--------RVKKLKDYAFVHFEDRG 60
Query: 112 EASAARDALNG 122
A A D +NG
Sbjct: 61 AAVKAMDEMNG 71
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 32.0 bits (71), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 9/95 (9%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LFV G+ ++ + FS+YGE+ + + D+ T +G+ V+ +K+ +
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVK---FKDPNCV---- 71
Query: 121 NGTTILGQTVTVDWCFVKG-PKKVAGEQKVGPEGG 154
GT + + T+D + P G Q GP G
Sbjct: 72 -GTVLASRPHTLDGRNIDPKPCTPRGMQPSGPSSG 105
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 32.0 bits (71), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 20/87 (22%)
Query: 71 QEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDALNGTTILGQTV 130
++ D+ FS+YG+I ++ KG+A V+Y + + A AA +G I GQ +
Sbjct: 29 KKSDVEAIFSKYGKIVGCSVH--------KGFAFVQYVNERNARAAVAGEDGRMIAGQVL 80
Query: 131 TVDWCFVKGPKKVAGEQKV---GPEGG 154
++ +A E KV GP G
Sbjct: 81 DIN---------LAAEPKVNRSGPSSG 98
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTG--FLKGYALVEYDSYKEASAARD 118
+FV V E D+ E F +YG + +++ DR KG V + + K A A++
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 119 ALNGTTIL 126
AL+ +L
Sbjct: 66 ALHNMKVL 73
Score = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 7/81 (8%)
Query: 55 SVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEAS 114
+VE LF+ + ++ E+D+ FS +G+I+ + L G +G A V + + A
Sbjct: 92 AVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRI-LRGPDGLSRGCAFVTFTTRAMAQ 150
Query: 115 AARDALNGTTILGQTVTVDWC 135
A A++ Q T++ C
Sbjct: 151 TAIKAMH------QAQTMEGC 165
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 31.6 bits (70), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 17/80 (21%), Positives = 37/80 (46%), Gaps = 4/80 (5%)
Query: 51 GPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSY 110
P +S ++V+ + +D++ FS+YG++ + + D+ T KG A + +
Sbjct: 13 APSKST----VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDK 68
Query: 111 KEASAARDALNGTTILGQTV 130
A A+N + G+ +
Sbjct: 69 DSAQNCTRAINNKQLFGRVI 88
>pdb|2DIS|A Chain A, Solution Structure Of The Rrm Domain Of Unnamed Protein
Product
Length = 109
Score = 31.6 bits (70), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 100 KGYALVEYDSYKEASAARDAL--NGTTILGQTVTVDWC 135
+G+A VEY+S++ A+ AR L + G + VDW
Sbjct: 52 RGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWA 89
>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 = 31.2 bits (69), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFL--KGYALVEYDSYKEASAARD 118
+FV V E D+ E F +YG + +++ DR KG V + + K A A++
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 119 ALNGTTIL 126
AL+ +L
Sbjct: 66 ALHNMKVL 73
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 38/75 (50%), Gaps = 3/75 (4%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
IL++ + + ++M++ F +YG I+ + + T +G A V Y+ +A A D
Sbjct: 14 ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPET---RGTAYVVYEDIFDAKNACDH 70
Query: 120 LNGTTILGQTVTVDW 134
L+G + + + V +
Sbjct: 71 LSGFNVCNRYLVVLY 85
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 57 EGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAA 116
+ +F + + D+ + FS G+++++ + DR + KG A VE+ + A
Sbjct: 24 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLA 83
Query: 117 RDALNGTTILGQTVTV 132
L G +LG + V
Sbjct: 84 -IGLTGQRLLGVPIIV 98
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 30.8 bits (68), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 38/75 (50%), Gaps = 3/75 (4%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
IL++ + + ++M++ F +YG I+ + + T +G A V Y+ +A A D
Sbjct: 20 ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNACDH 76
Query: 120 LNGTTILGQTVTVDW 134
L+G + + + V +
Sbjct: 77 LSGFNVCNRYLVVLY 91
>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 = 30.8 bits (68), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 14/60 (23%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 62 FVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDALN 121
FV G+ + + D+ + F+++GE+ + + D TG +G+ + +K+A++ L+
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFI---LFKDAASVEKVLD 71
>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 = 30.4 bits (67), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 55 SVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEAS 114
+VE LF+ + ++ E+D+ FS +G+I+ + L G +G A V + + A
Sbjct: 92 AVEDRKLFIGXISKKCTENDIRVXFSSFGQIEECRI-LRGPDGLSRGCAFVTFTTRAXAQ 150
Query: 115 AA 116
A
Sbjct: 151 TA 152
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 30.0 bits (66), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 49 EPGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYD 108
+P ++S G I F+ + + +++ FS +G I + + D KGY V ++
Sbjct: 3 DPSLRKSGVGNI-FIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS--KGYGFVHFE 59
Query: 109 SYKEASAARDALNGTTILGQTVTV 132
+ + A A + +NG + + V V
Sbjct: 60 TQEAAERAIEKMNGMLLNDRKVFV 83
>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 = 30.0 bits (66), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 33/75 (44%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
+FV + E + F+ +G I + + D TG KGY V + + +A A +
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 121 NGTTILGQTVTVDWC 135
G + G+ + +W
Sbjct: 69 GGQWLGGRQIRTNWA 83
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 30.0 bits (66), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 38/75 (50%), Gaps = 3/75 (4%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
IL++ + + ++M++ F +YG I+ + + T +G A V Y+ +A A D
Sbjct: 10 ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNAVDH 66
Query: 120 LNGTTILGQTVTVDW 134
L+G + + + V +
Sbjct: 67 LSGFNVSNRYLVVLY 81
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 37/75 (49%), Gaps = 7/75 (9%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEAS-AARDA 119
L+V G+ + E D+ F ++GEI+ + + ++ F +++ + + A AA +
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAF------IQFATRQAAEVAAEKS 68
Query: 120 LNGTTILGQTVTVDW 134
N + G+ + V W
Sbjct: 69 FNKLIVNGRRLNVKW 83
>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 = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 79 FSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDALNG 122
FS+ G++ N+ +D TG KG+ VE S +A + +G
Sbjct: 33 FSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHG 76
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 43/95 (45%), Gaps = 9/95 (9%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LF+ G+ E E+ + + ++G++ + + D + +G+ V + S E AA
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAA---- 85
Query: 121 NGTTILGQTVTVDWCFVKGPKKVAGEQK-VGPEGG 154
+ + ++D V+ + VA E+ GP G
Sbjct: 86 ----MAARPHSIDGRVVEPKRAVAREESGSGPSSG 116
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/79 (22%), Positives = 35/79 (44%), Gaps = 4/79 (5%)
Query: 51 GPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSY 110
G G +F+ G+ + ++ + E F ++GE+K + D T +G+ V +
Sbjct: 18 GSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQ 77
Query: 111 ----KEASAARDALNGTTI 125
K + +R L+ TI
Sbjct: 78 AGVDKVLAQSRHELDSKTI 96
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
L+V + + ++ + + FS +G I + + ++ G KG+ V + S +EA+ A +
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 121 NGTTI 125
NG +
Sbjct: 76 NGRIV 80
>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 = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 79 FSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDALNG 122
FS+ G++ N+ +D TG KG+ VE S +A + +G
Sbjct: 33 FSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHG 76
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 24/45 (53%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALV 105
+FV G+ + + + F +G+I+ + DR+TG +GY V
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFV 64
>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 = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 34/72 (47%), Gaps = 2/72 (2%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
+F+ + + +++ FS +G I + + D KGY V +++ + A A + +
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS--KGYGFVHFETQEAAERAIEKM 65
Query: 121 NGTTILGQTVTV 132
NG + + V V
Sbjct: 66 NGMLLNDRKVFV 77
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/86 (20%), Positives = 40/86 (46%), Gaps = 6/86 (6%)
Query: 50 PGPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDS 109
PG + + LFV + + E++M + F +YG+ + ++ D KG+ + ++
Sbjct: 14 PGEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLET 67
Query: 110 YKEASAARDALNGTTILGQTVTVDWC 135
A A+ L+ + G+ + V +
Sbjct: 68 RTLAEIAKVELDNMPLRGKQLRVRFA 93
>pdb|2EBU|A Chain A, Solution Structure Of The Brct Domain From Human
Replication Factor C Large Subunit 1
Length = 112
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 7/76 (9%)
Query: 51 GPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSY 110
G + +EG I +TGV E + D+ YG + N+ ++T +L ++ DS
Sbjct: 18 GAENCLEGLIFVITGVLESIERDEAKSLIERYG--GKVTGNVSKKTNYL----VMGRDSG 71
Query: 111 KEASAARDALNGTTIL 126
+ S AL GT I+
Sbjct: 72 QSKSDKAAAL-GTKII 86
>pdb|1EP3|B Chain B, Crystal Structure Of Lactococcus Lactis Dihydroorotate
Dehydrogenase B. Data Collected Under Cryogenic
Conditions
Length = 262
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 81 EYGEIKNLHLNLDRR--TGFLKGYALVEYDSYKEASAARDALNGTTILGQTVTV 132
+Y +++ L+++++ R G YA VE+D E+ A + +G LG+ +++
Sbjct: 209 KYDQLERLYISMESRMACGIGACYACVEHDKEDESHALKVCEDGPVFLGKQLSL 262
>pdb|1EP1|B Chain B, Crystal Structure Of Lactococcus Lactis Dihydroorotate
Dehydrogenase B
pdb|1EP2|B Chain B, Crystal Structure Of Lactococcus Lactis Dihydroorotate
Dehydrogenase B Complexed With Orotate
Length = 261
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 81 EYGEIKNLHLNLDRR--TGFLKGYALVEYDSYKEASAARDALNGTTILGQTVTV 132
+Y +++ L+++++ R G YA VE+D E+ A + +G LG+ +++
Sbjct: 208 KYDQLERLYISMESRMACGIGACYACVEHDKEDESHALKVCEDGPVFLGKQLSL 261
>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 = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V V A +++ F G + + + D+ +G KG+A +E+ S KE+ AL
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEF-SDKESVRTSLAL 67
Query: 121 NGTTILGQTVTV 132
+ + G+ + V
Sbjct: 68 DESLFRGRQIKV 79
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 37/73 (50%), Gaps = 5/73 (6%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V + + ++ F YG ++++ + + G+A VE++ ++A+ A L
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNP-----PGFAFVEFEDPRDAADAVREL 130
Query: 121 NGTTILGQTVTVD 133
+G T+ G V V+
Sbjct: 131 DGRTLCGCRVRVE 143
>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 = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/75 (21%), Positives = 36/75 (48%), Gaps = 6/75 (8%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
LFV + + E++M + F +YG+ + ++ D KG+ + ++ A A+ L
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVEL 71
Query: 121 NGTTILGQTVTVDWC 135
+ + G+ + V +
Sbjct: 72 DNMPLRGKQLRVRFA 86
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 37/73 (50%), Gaps = 5/73 (6%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V + + ++ F YG ++++ + + G+A VE++ ++A+ A L
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNP-----PGFAFVEFEDPRDAADAVRDL 130
Query: 121 NGTTILGQTVTVD 133
+G T+ G V V+
Sbjct: 131 DGRTLCGCRVRVE 143
>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 = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
++V V A +++ F G + + + D+ +G KG+A +E+ S KE+ AL
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEF-SDKESVRTSLAL 66
Query: 121 NGTTILGQTVTV 132
+ + G+ + V
Sbjct: 67 DESLFRGRQIKV 78
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 71 QEDDMHEKFSEYGE-IKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDALNGTTILGQT 129
E+ + F+ GE + ++ + +R TG GY VE+ A +NG + G T
Sbjct: 22 DENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGAT 81
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 23/109 (21%), Positives = 46/109 (42%), Gaps = 12/109 (11%)
Query: 52 PQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYK 111
P EG +F+ + +++E+ + E ++G++K + + L T KG A ++ + +
Sbjct: 9 PSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQE 68
Query: 112 EASAARDALN------GTTILGQTVTVDWCFVKGPKKVAGEQKVGPEGG 154
A A + G + G+ + VD + E GP G
Sbjct: 69 AAQKCLAAASLEAEGGGLKLDGRQLKVDLAVTR------DEAASGPSSG 111
>pdb|1HH2|P Chain P, Crystal Structure Of Nusa From Thermotoga Maritima
Length = 344
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 82 YGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
+G KN+ + +DR TG +K Y L+E E A + +L
Sbjct: 39 FGNSKNVEVVIDRNTGNIKVYQLLEVVEEVEDPATQISL 77
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 33/69 (47%), Gaps = 4/69 (5%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSY----KEASAA 116
+F+ G+ + ++ + E F ++GE+K + D T +G+ V + K + +
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 62
Query: 117 RDALNGTTI 125
R L+ TI
Sbjct: 63 RHELDSKTI 71
>pdb|2K7F|A Chain A, Haddock Calculated Model Of The Complex Between The Brct
Region Of Rfc P140 And Dsdna
pdb|2K6G|A Chain A, Solution Structure Of The Dna Binding Brct Domain From
The Large Subunit Of Human Replication Factor C
Length = 109
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 51 GPQRSVEGWILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFL 99
G + +EG I +TGV E + D+ YG + N+ ++T +L
Sbjct: 28 GAENCLEGLIFVITGVLESIERDEAKSLIERYG--GKVTGNVSKKTNYL 74
>pdb|1L2F|A Chain A, Crystal Structure Of Nusa From Thermotoga Maritima: A
Structure-Based Role Of The N-Terminal Domain
Length = 369
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 82 YGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDAL 120
+G KN+ + +DR TG +K Y L+E E A + +L
Sbjct: 64 FGNSKNVEVVIDRNTGNIKVYQLLEVVEEVEDPATQISL 102
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 26/49 (53%)
Query: 61 LFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDS 109
+FV G+ +D+ F ++G++ + L D+ T +G+ V ++S
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFES 50
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 38/95 (40%), Gaps = 12/95 (12%)
Query: 60 ILFVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDA 119
IL+V + E+ M EK E N+ R ++ YA V + + ++A A A
Sbjct: 17 ILYVRNLMLSTSEE-MIEK-----EFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKA 70
Query: 120 LNGTTILGQTVTVDWCFVKGPKKVAGEQKVGPEGG 154
LNG + G + V K + GP G
Sbjct: 71 LNGKVLDGSPIEVTLA------KPVDKDSSGPSSG 99
>pdb|1OWX|A Chain A, Solution Structure Of The C-Terminal Rrm Of Human La
(La225- 334)
Length = 121
Score = 26.6 bits (57), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 62 FVTGVHEEAQEDDMHEKFSEYGEIKNLHLNLDRRTGFLKGYALVEYDSYKEASAARDALN 121
F + ++ +D+H FS +GEIK +D G +G L + + + A+DA N
Sbjct: 23 FSGDLDDQTCREDLHILFSNHGEIK----WIDFVRGAKEGIILFKEKAKEALGKAKDANN 78
Query: 122 GTTILGQTVTVDWCFVKGP 140
G L + V W ++G
Sbjct: 79 GNLQL-RNKEVTWEVLEGE 96
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
0.316 0.134 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,677,741
Number of Sequences: 62578
Number of extensions: 226005
Number of successful extensions: 539
Number of sequences better than 100.0: 153
Number of HSP's better than 100.0 without gapping: 117
Number of HSP's successfully gapped in prelim test: 36
Number of HSP's that attempted gapping in prelim test: 391
Number of HSP's gapped (non-prelim): 178
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
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: 49 (23.5 bits)