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= psy2141
(173 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 163 bits (412), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 72/111 (64%), Positives = 93/111 (83%)
Query: 6 HVQVGRPSNMPQAQSVIDEITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQ 65
+++VGRPSN+ QAQ +ID++ EEA+ +NRIYVAS+H DL+++DIKSVFEAFG IK C L
Sbjct: 84 NIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLA 143
Query: 66 QGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYLRVGRAITPPNAL 116
+ + +HKGYGFIEYE Q+S +A+SSMNLFDLGGQYLRVG+A+TPP L
Sbjct: 144 RDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTPPMPL 194
Score = 70.9 bits (172), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 32/75 (42%), Positives = 47/75 (62%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
R+YV SI+ +L E+ I+ F FGPIK + S +HKG+ F+EYE +A+ A+
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 94 MNLFDLGGQYLRVGR 108
MN LGG+ ++VGR
Sbjct: 75 MNSVMLGGRNIKVGR 89
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 160 bits (405), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 72/117 (61%), Positives = 94/117 (80%)
Query: 6 HVQVGRPSNMPQAQSVIDEITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQ 65
+++VGRPSN+ QAQ +ID++ EEA+ +NRIYVAS+H DL+++DIKSVFEAFG IK C L
Sbjct: 83 NIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLA 142
Query: 66 QGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYLRVGRAITPPNALHSSKGP 122
+ + +HKGYGFIEYE Q+S +A+SS NLFDLGGQYLRVG+A+TPP L + P
Sbjct: 143 RDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRVGKAVTPPXPLLTPATP 199
Score = 67.0 bits (162), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 45/75 (60%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
R+YV SI+ +L E+ I+ F FGPIK S +HKG+ F+EYE +A+ A+
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 94 MNLFDLGGQYLRVGR 108
N LGG+ ++VGR
Sbjct: 74 XNSVXLGGRNIKVGR 88
>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 = 159 bits (403), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 72/118 (61%), Positives = 94/118 (79%)
Query: 6 HVQVGRPSNMPQAQSVIDEITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQ 65
+++VGRPSN+ QAQ +ID++ EEA+ +NRIYVAS+H DL+++DIKSVFEAFG IK L
Sbjct: 99 NIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLA 158
Query: 66 QGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYLRVGRAITPPNALHSSKGPA 123
+ + +HKGYGFIEYE Q+S +A+SSMNLFDLGGQYLRVG+A+TPP L + P
Sbjct: 159 RDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTPPMPLLTPATPG 216
Score = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 49/78 (62%)
Query: 31 LYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEA 90
+ +R+YV SI+ +L E+ I+ F FGPIK + S +HKG+ F+EYE +A+ A
Sbjct: 27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLA 86
Query: 91 ISSMNLFDLGGQYLRVGR 108
+ MN LGG+ ++VGR
Sbjct: 87 LEQMNSVMLGGRNIKVGR 104
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 48/74 (64%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
R+YV S+H ++TE+ ++ +FE FG I+ +L S R KGYGFI + + + +A+
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 94 MNLFDLGGQYLRVG 107
+N F+L G+ ++VG
Sbjct: 88 LNGFELAGRPMKVG 101
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 63.5 bits (153), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 45/73 (61%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV S+H ++TE+ ++ +FE FG I L + S R KGYGFI + + + A+ +
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 95 NLFDLGGQYLRVG 107
N F+L G+ +RVG
Sbjct: 68 NGFELAGRPMRVG 80
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 56.6 bits (135), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 46/91 (50%), Gaps = 8/91 (8%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V + P++T EDIKS F FG I ++ + + + KGYGF+ + K + AI M
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 95 NLFDLGGQYLRVGRAITPPNALHSSKGPAPS 125
LGG+ +R A P PAPS
Sbjct: 78 GGQWLGGRQIRTNWATRKP--------PAPS 100
>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 = 56.2 bits (134), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 48/94 (51%), Gaps = 8/94 (8%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V + P++T EDIK+ F FG I ++ + + + KGYGF+ + K + AI M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 95 NLFDLGGQYLRVGRAITPPNALHSSKGPAPSTSH 128
LGG+ +R A P PAP +++
Sbjct: 78 GGQWLGGRQIRTNWATRKP--------PAPKSTY 103
>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 = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 40/73 (54%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+Y+ SI D TEE I + GP+ K+ R KGY FIE+ ++S A+ ++
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 95 NLFDLGGQYLRVG 107
N + LG ++L+ G
Sbjct: 67 NGYQLGSRFLKCG 79
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 44/80 (55%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V +I + TEE +K +F GP+ +L + KGYGF EY+ ++ + A+ ++
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 95 NLFDLGGQYLRVGRAITPPN 114
N + G+ LRV A + N
Sbjct: 71 NGREFSGRALRVDNAASEKN 90
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 40/73 (54%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+Y+ SI D TEE I + GP+ K+ R KGY FIE+ ++S A+ ++
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 95 NLFDLGGQYLRVG 107
N + LG ++L+ G
Sbjct: 65 NGYQLGSRFLKCG 77
>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 = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 40/73 (54%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+Y+ SI D TEE I + GP+ K+ R KGY FIE+ ++S A+ ++
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 95 NLFDLGGQYLRVG 107
N + LG ++L+ G
Sbjct: 66 NGYQLGSRFLKCG 78
>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 = 50.4 bits (119), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 42/76 (55%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
++++ + L ++ +K + +FGP+K L + S+ KGY F EY +++AI+
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 175
Query: 94 MNLFDLGGQYLRVGRA 109
+N LG + L V RA
Sbjct: 176 LNGMQLGDKKLLVQRA 191
>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 = 50.1 bits (118), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 42/76 (55%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
++++ + L ++ +K + +FGP+K L + S+ KGY F EY +++AI+
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 157
Query: 94 MNLFDLGGQYLRVGRA 109
+N LG + L V RA
Sbjct: 158 LNGMQLGDKKLLVQRA 173
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 49.7 bits (117), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 42/76 (55%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
++++ + L ++ +K + +FGP+K L + S+ KGY F EY +++AI+
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 155
Query: 94 MNLFDLGGQYLRVGRA 109
+N LG + L V RA
Sbjct: 156 LNGMQLGDKKLLVQRA 171
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 49.7 bits (117), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 42/76 (55%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
++++ + L ++ +K + +FGP+K L + S+ KGY F EY +++AI+
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 94 MNLFDLGGQYLRVGRA 109
+N LG + L V RA
Sbjct: 63 LNGMQLGDKKLLVQRA 78
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 43/74 (58%), Gaps = 6/74 (8%)
Query: 33 NRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAIS 92
+R++V ++ PD+TEE+++ +FE +G + H+ KG+GFI ET+ + A
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI------HKDKGFGFIRLETRTLAEIAKV 76
Query: 93 SMNLFDLGGQYLRV 106
++ L G+ LRV
Sbjct: 77 ELDNMPLRGKQLRV 90
>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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 43/74 (58%), Gaps = 6/74 (8%)
Query: 33 NRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAIS 92
+R++V ++ PD+TEE+++ +FE +G + H+ KG+GFI ET+ + A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI------HKDKGFGFIRLETRTLAEIAKV 69
Query: 93 SMNLFDLGGQYLRV 106
++ L G+ LRV
Sbjct: 70 ELDNMPLRGKQLRV 83
>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 = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 37/72 (51%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V +H + TEEDI F +G IK L KGY +EYET + + A+ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 95 NLFDLGGQYLRV 106
N DL GQ + V
Sbjct: 70 NGQDLMGQPISV 81
>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 = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 35/68 (51%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V +H + TEEDI F +G IK L KGY +EYET + + A+ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 95 NLFDLGGQ 102
N DL GQ
Sbjct: 70 NGQDLMGQ 77
>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 = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 37/72 (51%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V +H + TEEDI F +G IK L KGY +EYET + + A+ +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 95 NLFDLGGQYLRV 106
N DL GQ + V
Sbjct: 72 NGQDLMGQPISV 83
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 37/72 (51%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V +H + TEEDI F +G IK L KGY +EYET + + A+ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 95 NLFDLGGQYLRV 106
N DL GQ + V
Sbjct: 70 NGQDLMGQPISV 81
>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 = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 37/72 (51%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V +H + TEEDI F +G IK L KGY +EYET + + A+ +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 95 NLFDLGGQYLRV 106
N DL GQ + V
Sbjct: 86 NGQDLMGQPISV 97
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 48/86 (55%)
Query: 24 EITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYET 83
++ E + + V I + E ++ +FE +GPI+ K+ + +GYGF+++++
Sbjct: 34 QMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQS 93
Query: 84 KQASNEAISSMNLFDLGGQYLRVGRA 109
++ +AI+ +N F++ + L+V A
Sbjct: 94 GSSAQQAIAGLNGFNILNKRLKVALA 119
>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 = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 37/72 (51%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V +H + TEEDI F +G IK L KGY +EYET + + A+ +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 95 NLFDLGGQYLRV 106
N DL GQ + V
Sbjct: 85 NGQDLMGQPISV 96
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 49/94 (52%), Gaps = 8/94 (8%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPI-KYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
I++ ++ P++ E+ + F AFG I + K+ + KGY FI + + AS+ AI +
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 94 MNLFDLGGQYLRVGRAITPPNAL-HSSKGPAPST 126
MN GQYL R IT A SKG PS+
Sbjct: 68 MN-----GQYL-CNRPITVSYAFKKDSKGSGPSS 95
>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 = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
I++ ++ + + + F AFG I CK+ + KGYGF+ +ET++A+ AI M
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVV--CDENGSKGYGFVHFETQEAAERAIEKM 65
Query: 95 NLFDLGGQYLRVGR 108
N L + + VGR
Sbjct: 66 NGMLLNDRKVFVGR 79
>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 = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 42/77 (54%), Gaps = 8/77 (10%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKL---QQGSSPHRHKGYGFIEYETKQASNEAI 91
I++ ++ + + + F AFG I CK+ + GS KGYGF+ +ET++A+ AI
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS-----KGYGFVHFETQEAAERAI 155
Query: 92 SSMNLFDLGGQYLRVGR 108
MN L + + VGR
Sbjct: 156 EKMNGMLLNDRKVFVGR 172
Score = 43.5 bits (101), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 42/87 (48%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV +HPD+TE + F GPI ++ + R GY ++ ++ + A+ +M
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 95 NLFDLGGQYLRVGRAITPPNALHSSKG 121
N + G+ +R+ + P+ S G
Sbjct: 73 NFDVIKGKPVRIMWSQRDPSLRKSGVG 99
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
I++ ++ + + + F AFG I CK+ + KGYGF+ +ET++A+ AI M
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVV--CDENGSKGYGFVHFETQEAAERAIEKM 71
Query: 95 NLFDLGGQYLRVGR 108
N L + + VGR
Sbjct: 72 NGMLLNDRKVFVGR 85
>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 = 46.6 bits (109), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 42/77 (54%), Gaps = 8/77 (10%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKL---QQGSSPHRHKGYGFIEYETKQASNEAI 91
I++ ++ + + + F AFG I CK+ + GS KGYGF+ +ET++A+ AI
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS-----KGYGFVHFETQEAAERAI 160
Query: 92 SSMNLFDLGGQYLRVGR 108
MN L + + VGR
Sbjct: 161 EKMNGMLLNDRKVFVGR 177
Score = 43.5 bits (101), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 42/87 (48%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV +HPD+TE + F GPI ++ + R GY ++ ++ + A+ +M
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 77
Query: 95 NLFDLGGQYLRVGRAITPPNALHSSKG 121
N + G+ +R+ + P+ S G
Sbjct: 78 NFDVIKGKPVRIMWSQRDPSLRKSGVG 104
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 46.6 bits (109), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%), Gaps = 7/75 (9%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKL--QQGSSPHRHKGYGFIEYETKQASNEAI 91
RIYV ++ PD+ +DI+ VF +G I+ L ++G P + F+E+E + + +A+
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPP-----FAFVEFEDPRDAEDAV 78
Query: 92 SSMNLFDLGGQYLRV 106
+ +D G LRV
Sbjct: 79 YGRDGYDYDGYRLRV 93
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 43/83 (51%), Gaps = 2/83 (2%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
IYV ++ T E +K +F FG + KL + KG+GF+E + + S EAI+ +
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVS-EAIAKL 62
Query: 95 NLFDLGGQYLRVGRAITPPNALH 117
+ D G+ +RV A P +L
Sbjct: 63 DNTDFMGRTIRVTEA-NPKKSLE 84
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 33 NRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAIS 92
N+I+V I + E +++ F+ FG + + + R +G+GFI +E +Q+ ++A+
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV- 69
Query: 93 SMNLFDLGGQYLRVGRA 109
+M+ D+ G+ + V RA
Sbjct: 70 NMHFHDIMGKKVEVKRA 86
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 40/67 (59%)
Query: 43 DLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQ 102
++T+++ KS+F + G I+ CKL + + GYGF+ Y +++AI+++N L +
Sbjct: 15 NMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTK 74
Query: 103 YLRVGRA 109
++V A
Sbjct: 75 TIKVSYA 81
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 40/67 (59%)
Query: 43 DLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQ 102
++T+++ KS+F + G I+ CKL + + GYGF+ Y +++AI+++N L +
Sbjct: 15 NMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTK 74
Query: 103 YLRVGRA 109
++V A
Sbjct: 75 TIKVSYA 81
Score = 33.5 bits (75), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 13/61 (21%), Positives = 34/61 (55%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV+ + +++++++ +F +G I ++ + +G GFI ++ + + EAI +
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 95 N 95
N
Sbjct: 153 N 153
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%)
Query: 45 TEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYL 104
TE D++ VF +GPI + R +G+ F+ +E + EA N +L G+ +
Sbjct: 25 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 84
Query: 105 RVGRAIT 111
RV +IT
Sbjct: 85 RVDFSIT 91
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 41/76 (53%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
+++V + D E+ ++ VF +G I + + R +G+GF+ +E + +A+ +
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 94 MNLFDLGGQYLRVGRA 109
MN + G+ +RV +A
Sbjct: 74 MNGKSVDGRQIRVDQA 89
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 43/75 (57%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV + ++E + +F GP+ + + +H+GYGF+E+ +++ ++ AI M
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 95 NLFDLGGQYLRVGRA 109
++ L G+ +RV +A
Sbjct: 78 DMIKLYGKPIRVNKA 92
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%)
Query: 45 TEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYL 104
TE D++ VF +GPI + R +G+ F+ +E + EA N +L G+ +
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 87
Query: 105 RVGRAIT 111
RV +IT
Sbjct: 88 RVDFSIT 94
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%)
Query: 45 TEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYL 104
TE D++ VF +GPI + R +G+ F+ +E + EA N +L G+ +
Sbjct: 59 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 118
Query: 105 RVGRAIT 111
RV +IT
Sbjct: 119 RVDFSIT 125
>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 = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 17/83 (20%), Positives = 44/83 (53%), Gaps = 8/83 (9%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
++++ ++ D TE++++ F +G + K+ + + R +G+GF+ +E + +E + +
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 94 MNLFDLGGQYLRVGRAITPPNAL 116
++ D G+ I P A+
Sbjct: 65 QHILD--------GKVIDPKRAI 79
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/83 (21%), Positives = 38/83 (45%), Gaps = 1/83 (1%)
Query: 27 EEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQA 86
+E +I+V I PD+ ++ + F +G I +L + +G+GF+ Y++ A
Sbjct: 82 DEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADA 141
Query: 87 SNEAISSMNLFDLGGQYLRVGRA 109
+ + D + + + RA
Sbjct: 142 VDR-VCQNKFIDFKDRKIEIKRA 163
>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 = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 50/108 (46%), Gaps = 13/108 (12%)
Query: 7 VQVGRPSNMPQAQSVIDEITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQ 66
+++ P N P AQ + ++VA ++ D TE ++ FE +GPIK +
Sbjct: 86 LKMWDPHNDPNAQ---------GDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVY 136
Query: 67 GSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYLRV----GRAI 110
+ +GY FIEYE ++ + A + + G+ + V GR +
Sbjct: 137 SKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERGRTV 184
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 43.5 bits (101), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
I+V + + T ED+K FE FG + L + +RH+G+GF+ +E++ E + +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIV-EKVCEI 60
Query: 95 NLFDLGGQYLRVGRA 109
+ ++ + + +A
Sbjct: 61 HFHEINNKMVECKKA 75
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 36/67 (53%)
Query: 43 DLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQ 102
D+T+ ++ ++F A GPI C++ + GY F+++ ++ S AI +N + +
Sbjct: 14 DMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNK 73
Query: 103 YLRVGRA 109
L+V A
Sbjct: 74 RLKVSYA 80
>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 = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 40/67 (59%)
Query: 43 DLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQ 102
++T+E+ +S+F + G I+ CKL + + GYGF+ Y + + +AI+++N L +
Sbjct: 13 NMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTK 72
Query: 103 YLRVGRA 109
++V A
Sbjct: 73 TIKVSYA 79
Score = 34.3 bits (77), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 33/61 (54%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV+ + +T+++++ +F +G I ++ +G GFI ++ + + EAI +
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 95 N 95
N
Sbjct: 151 N 151
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 36/67 (53%)
Query: 43 DLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQ 102
D+T+ ++ ++F A GPI C++ + GY F+++ ++ S AI +N + +
Sbjct: 14 DMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNK 73
Query: 103 YLRVGRA 109
L+V A
Sbjct: 74 RLKVSYA 80
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 48/90 (53%), Gaps = 11/90 (12%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
++++ ++ + TE++I+S+FE +G + C + K YGF+ E K A+ +AI +
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRN 61
Query: 94 MNLFDLGGQYLRVGRAITPPNALHSSKGPA 123
++ + L G + V N +S GP+
Sbjct: 62 LHHYKLHGVNINVE---ASKNKSKASSGPS 88
>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 = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 41/75 (54%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV + ++ ++ + + F FG I ++ +H+G+ F+E+E + + AI +M
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 95 NLFDLGGQYLRVGRA 109
N +L G+ +RV A
Sbjct: 70 NESELFGRTIRVNLA 84
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 42.7 bits (99), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V SIH + E++I+ F +G IK L KGY +EYET + + A ++
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 95 NLFDLGGQYLRV 106
N ++ GQ ++V
Sbjct: 89 NGAEIMGQTIQV 100
>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 = 42.7 bits (99), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 41/75 (54%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV + ++ ++ + + F FG I ++ +H+G+ F+E+E + + AI +M
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 95 NLFDLGGQYLRVGRA 109
N +L G+ +RV A
Sbjct: 65 NESELFGRTIRVNLA 79
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 41/75 (54%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV + ++ ++ + + F FG I ++ +H+G+ F+E+E + + AI +M
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 95 NLFDLGGQYLRVGRA 109
N +L G+ +RV A
Sbjct: 68 NESELFGRTIRVNLA 82
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 41/75 (54%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV + ++ ++ + + F FG I ++ +H+G+ F+E+E + + AI +M
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 95 NLFDLGGQYLRVGRA 109
N +L G+ +RV A
Sbjct: 75 NESELFGRTIRVNLA 89
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V SIH + E++I+ F +G IK L KGY +EYET + + A ++
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 95 NLFDLGGQYLRV 106
N ++ GQ ++V
Sbjct: 135 NGAEIMGQTIQV 146
>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 = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 47/100 (47%), Gaps = 9/100 (9%)
Query: 7 VQVGRPSNMPQAQSVIDEITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQ 66
+++ P N P AQ + ++VA ++ D TE ++ FE +GPIK +
Sbjct: 86 LKMWDPHNDPNAQ---------GDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVY 136
Query: 67 GSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYLRV 106
+ +GY FIEYE ++ + A + + G+ + V
Sbjct: 137 SKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLV 176
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 41/75 (54%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV + ++ ++ + + F FG I ++ +H+G+ F+E+E + + AI +M
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 95 NLFDLGGQYLRVGRA 109
N +L G+ +RV A
Sbjct: 126 NESELFGRTIRVNLA 140
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 5/83 (6%)
Query: 12 PSNMPQAQSVIDEITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPH 71
P M A S + E+ KL+ + I TE DI+ +F +FG I+ C++ +G
Sbjct: 79 PIQMKPADSEKNNAVEDRKLF----IGMISKKCTENDIRVMFSSFGQIEECRILRGPD-G 133
Query: 72 RHKGYGFIEYETKQASNEAISSM 94
+G F+ + T+ + AI +M
Sbjct: 134 LSRGCAFVTFTTRAMAQTAIKAM 156
Score = 32.3 bits (72), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 37/63 (58%), Gaps = 2/63 (3%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSS--PHRHKGYGFIEYETKQASNEAI 91
+++V + +E+D++ +FE +G + + + S P + KG F+ + T++A+ EA
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 92 SSM 94
+++
Sbjct: 65 NAL 67
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 51/97 (52%), Gaps = 10/97 (10%)
Query: 17 QAQSVIDEITEEAKLYNRIYVASIHPDLTEE-DIKSVFEAFGPIKYCKLQQGSSPHRHKG 75
QA +V ++ + + +R+++ +++ L ++ D++++F +G + C + HKG
Sbjct: 13 QASNVTNK-NDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--------HKG 63
Query: 76 YGFIEYETKQASNEAISSMNLFDLGGQYLRVGRAITP 112
Y F++Y ++ + A+ N L GQ L + A P
Sbjct: 64 YAFVQYSNERHARAAVLGENGRVLAGQTLDINMAGEP 100
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 5/83 (6%)
Query: 12 PSNMPQAQSVIDEITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPH 71
P M A S + E+ KL+ + I TE DI+ +F +FG I+ C++ +G
Sbjct: 91 PIQMKPADSEKNNAVEDRKLF----IGMISKKCTENDIRVMFSSFGQIEECRILRGPD-G 145
Query: 72 RHKGYGFIEYETKQASNEAISSM 94
+G F+ + T+ + AI +M
Sbjct: 146 LSRGCAFVTFTTRAMAQTAIKAM 168
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 37/63 (58%), Gaps = 2/63 (3%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSS--PHRHKGYGFIEYETKQASNEAI 91
+++V + +E+D++ +FE +G + + + S P + KG F+ + T++A+ EA
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 76
Query: 92 SSM 94
+++
Sbjct: 77 NAL 79
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 39/67 (58%)
Query: 43 DLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQ 102
++T+++++S+F + G ++ KL + GYGF+ Y T + + AI+++N L +
Sbjct: 13 NMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 72
Query: 103 YLRVGRA 109
++V A
Sbjct: 73 TIKVSYA 79
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 39/72 (54%), Gaps = 4/72 (5%)
Query: 24 EITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYET 83
E+ ++A LY ++ + +T++D++ +F FG I ++ + +G FI ++
Sbjct: 84 EVIKDANLY----ISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDK 139
Query: 84 KQASNEAISSMN 95
+ + EAI+S N
Sbjct: 140 RSEAEEAITSFN 151
>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 = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 39/67 (58%)
Query: 43 DLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQ 102
++T+++++S+F + G ++ KL + GYGF+ Y T + + AI+++N L +
Sbjct: 13 NMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 72
Query: 103 YLRVGRA 109
++V A
Sbjct: 73 TIKVSYA 79
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 39/72 (54%), Gaps = 4/72 (5%)
Query: 24 EITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYET 83
E+ ++A LY ++ + +T++D++ +F FG I ++ + +G FI ++
Sbjct: 84 EVIKDANLY----ISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDK 139
Query: 84 KQASNEAISSMN 95
+ + EAI+S N
Sbjct: 140 RSEAEEAITSFN 151
>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 = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 39/67 (58%)
Query: 43 DLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQ 102
++T+++++S+F + G ++ KL + GYGF+ Y T + + AI+++N L +
Sbjct: 15 NMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 74
Query: 103 YLRVGRA 109
++V A
Sbjct: 75 TIKVSYA 81
>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 = 17/63 (26%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 32 YNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
+ +++V ++ +E+D++ +FEAFG I+ C + +G + KG F++Y + + AI
Sbjct: 15 HRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGN-SKGCAFVKYSSHAEAQAAI 73
Query: 92 SSM 94
+++
Sbjct: 74 NAL 76
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%)
Query: 45 TEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYL 104
TE D++ VF +GPI + R +G+ F+ +E + EA N +L G+ +
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 87
Query: 105 RV 106
RV
Sbjct: 88 RV 89
>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 = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 44/88 (50%), Gaps = 1/88 (1%)
Query: 23 DEITEEAKLYNRIYVASIHP-DLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEY 81
D++ + + N + + P D T+ ++ ++F A GPI C++ + GY F+++
Sbjct: 4 DDLMNDPRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDF 63
Query: 82 ETKQASNEAISSMNLFDLGGQYLRVGRA 109
++ S AI +N + + L+V A
Sbjct: 64 TSEXDSQRAIKVLNGITVRNKRLKVSYA 91
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/81 (22%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 33 NRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQ-QGSSPHRHKGYGFIEYETKQASNEAI 91
++++ + ++T++ I +F +G IK + + PH KGY ++E+E + +A+
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKAL 64
Query: 92 SSMNLFDLGGQYLRVGRAITP 112
M+ + GQ + + P
Sbjct: 65 KHMDGGQIDGQEITATAVLAP 85
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 37/61 (60%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+Y+ + P T++D+ + + +G I K + ++ KGYGF+++++ A+ +A++++
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 95 N 95
Sbjct: 68 K 68
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 45/86 (52%), Gaps = 11/86 (12%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
R++V ++ D+TEED K +FE +G + +R +G+GFI E++ + A +
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEIAKAE 77
Query: 94 MNLFDLGGQYLRV-----GRAITPPN 114
++ L + LR+ G A+T N
Sbjct: 78 LDGTILKSRPLRIRFATHGAALTVKN 103
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAIS 92
+ V ++ P ++ E ++ F FGP++ + R G GF+E+ K + +A+
Sbjct: 99 LTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDR-GRATGKGFVEFAAKPPARKALE 155
>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 = 5e-04, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 45/80 (56%), Gaps = 10/80 (12%)
Query: 35 IYVASIHPDLTEEDIKSVFEAF-----GPIKYCKLQQGSSPHRHKGYGFIEYETKQASNE 89
++V ++ ++ +E +++ F+ F G + + +Q GSS +GYGF+ + ++ +
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMW-DMQTGSS----RGYGFVSFTSQDDAQN 58
Query: 90 AISSMNLFDLGGQYLRVGRA 109
A+ SM DL G+ LR+ A
Sbjct: 59 AMDSMQGQDLNGRPLRINWA 78
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 22/94 (23%), Positives = 47/94 (50%), Gaps = 11/94 (11%)
Query: 30 KLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNE 89
K +++V +I P T +++++ FE +GP+ C + K Y F+ E + + E
Sbjct: 8 KASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIV--------KDYAFVHMERAEDAVE 59
Query: 90 AISSMNLFDLGGQYLRVGRAITPPNALHSSKGPA 123
AI ++ + G+ + V + + L ++ GP+
Sbjct: 60 AIRGLDNTEFQGKRMHVQLSTS---RLRTASGPS 90
>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 = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 37/65 (56%)
Query: 45 TEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYL 104
T+++++S+F + G ++ KL + GYGF+ Y T + + AI+++N L + +
Sbjct: 32 TQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTI 91
Query: 105 RVGRA 109
+V A
Sbjct: 92 KVSYA 96
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+ VA++ P LT++ + + FG ++ C L + KGYGF EY K ++ A S +
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 95 NLFDLGGQYLRV 106
LG + L V
Sbjct: 158 LGKPLGPRTLYV 169
Score = 35.0 bits (79), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 4/62 (6%)
Query: 48 DIKSVFEAFGPI---KYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYL 104
D+ ++ A + +C+L G + KG+ +EYET + + EA + LGG +L
Sbjct: 198 DVDALCRALSAVHSPTFCQLACGQD-GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHL 256
Query: 105 RV 106
RV
Sbjct: 257 RV 258
>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 = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+ VA++ P LT++ + + FG ++ C L + KGYGF EY K ++ A S +
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 155
Query: 95 NLFDLGGQYLRV 106
LG + L V
Sbjct: 156 LGKPLGPRTLYV 167
Score = 35.0 bits (79), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 4/62 (6%)
Query: 48 DIKSVFEAFGPI---KYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYL 104
D+ ++ A + +C+L G + KG+ +EYET + + EA + LGG +L
Sbjct: 196 DVDALCRALSAVHSPTFCQLACGQD-GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHL 254
Query: 105 RV 106
RV
Sbjct: 255 RV 256
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+ VA++ P LT++ + + FG ++ C L + KGYGF EY K ++ A S +
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 95 NLFDLGGQYLRV 106
LG + L V
Sbjct: 158 LGKPLGPRTLYV 169
Score = 35.0 bits (79), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 4/62 (6%)
Query: 48 DIKSVFEAFGPI---KYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYL 104
D+ ++ A + +C+L G + KG+ +EYET + + EA + LGG +L
Sbjct: 198 DVDALCRALSAVHSPTFCQLACGQD-GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHL 256
Query: 105 RV 106
RV
Sbjct: 257 RV 258
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 39.7 bits (91), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 45/80 (56%), Gaps = 10/80 (12%)
Query: 35 IYVASIHPDLTEEDIKSVFEAF-----GPIKYCKLQQGSSPHRHKGYGFIEYETKQASNE 89
++V ++ ++ +E +++ F+ F G + + +Q GSS +GYGF+ + ++ +
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMW-DMQTGSS----RGYGFVSFTSQDDAQN 144
Query: 90 AISSMNLFDLGGQYLRVGRA 109
A+ SM DL G+ LR+ A
Sbjct: 145 AMDSMQGQDLNGRPLRINWA 164
Score = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV ++ +TE+ +K F+ GPI K+ + +++ Y F+EY +N A+ ++
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKN-NKNVNYAFVEYHQSHDANIALQTL 61
Query: 95 N 95
N
Sbjct: 62 N 62
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 42/72 (58%), Gaps = 4/72 (5%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+ ++++ TEE ++ VFE IK + Q G S KGY FIE+ + + + EA++S
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKS----KGYAFIEFASFEDAKEALNSC 73
Query: 95 NLFDLGGQYLRV 106
N ++ G+ +R+
Sbjct: 74 NKREIEGRAIRL 85
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 48/99 (48%), Gaps = 9/99 (9%)
Query: 27 EEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQA 86
+E + ++++ + + T+E ++S FE +G + C + + + R +G+GF+ Y T +
Sbjct: 1 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 60
Query: 87 SNEAISSM-NLFDLGGQYLRVGRAITPPNALHSSKGPAP 124
+ A+++ + D GR + P A+ P
Sbjct: 61 VDAAMNARPHKVD--------GRVVEPKRAVSREDSQRP 91
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 1/92 (1%)
Query: 1 MQHFPHVQVGRPSNMPQAQSVIDEITEEAKL-YNRIYVASIHPDLTEEDIKSVFEAFGPI 59
M PH GR +A S D A L +I+V I D E ++ FE +G I
Sbjct: 65 MNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 124
Query: 60 KYCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
+ ++ + +G+ F+ ++ + ++ +
Sbjct: 125 EVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 156
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 33 NRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAIS 92
+++V + T+ED++ +FE FG I C + +G KG F++++T + AI+
Sbjct: 13 RKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAEAQAAIN 71
Query: 93 SM 94
++
Sbjct: 72 TL 73
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 48/99 (48%), Gaps = 9/99 (9%)
Query: 27 EEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQA 86
+E + ++++ + + T+E ++S FE +G + C + + + R +G+GF+ Y T +
Sbjct: 8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 67
Query: 87 SNEAISSM-NLFDLGGQYLRVGRAITPPNALHSSKGPAP 124
+ A+++ + D GR + P A+ P
Sbjct: 68 VDAAMNARPHKVD--------GRVVEPKRAVSREDSQRP 98
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 1/92 (1%)
Query: 1 MQHFPHVQVGRPSNMPQAQSVIDEITEEAKL-YNRIYVASIHPDLTEEDIKSVFEAFGPI 59
M PH GR +A S D A L +I+V I D E ++ FE +G I
Sbjct: 72 MNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 131
Query: 60 KYCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
+ ++ + +G+ F+ ++ + ++ +
Sbjct: 132 EVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 48/99 (48%), Gaps = 9/99 (9%)
Query: 27 EEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQA 86
+E + ++++ + + T+E ++S FE +G + C + + + R +G+GF+ Y T +
Sbjct: 8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 67
Query: 87 SNEAISSM-NLFDLGGQYLRVGRAITPPNALHSSKGPAP 124
+ A+++ + D GR + P A+ P
Sbjct: 68 VDAAMNARPHKVD--------GRVVEPKRAVSREDSQRP 98
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 1/92 (1%)
Query: 1 MQHFPHVQVGRPSNMPQAQSVIDEITEEAKL-YNRIYVASIHPDLTEEDIKSVFEAFGPI 59
M PH GR +A S D A L +I+V I D E ++ FE +G I
Sbjct: 72 MNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 131
Query: 60 KYCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
+ ++ + +G+ F+ ++ + ++ +
Sbjct: 132 EVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 48/99 (48%), Gaps = 9/99 (9%)
Query: 27 EEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQA 86
+E + ++++ + + T+E ++S FE +G + C + + + R +G+GF+ Y T +
Sbjct: 6 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 65
Query: 87 SNEAISSM-NLFDLGGQYLRVGRAITPPNALHSSKGPAP 124
+ A+++ + D GR + P A+ P
Sbjct: 66 VDAAMNARPHKVD--------GRVVEPKRAVSREDSQRP 96
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 1/92 (1%)
Query: 1 MQHFPHVQVGRPSNMPQAQSVIDEITEEAKL-YNRIYVASIHPDLTEEDIKSVFEAFGPI 59
M PH GR +A S D A L +I+V I D E ++ FE +G I
Sbjct: 70 MNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 129
Query: 60 KYCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
+ ++ + +G+ F+ ++ + ++ +
Sbjct: 130 EVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 161
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/95 (24%), Positives = 48/95 (50%), Gaps = 9/95 (9%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+++ ++ D EE + V + FG +KY ++ KG F ++ T++A+ + +++
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77
Query: 95 NL------FDLGGQYLRVGRAITPPNALHSSKGPA 123
+L L G+ L+V A+T A + GP+
Sbjct: 78 SLEAEGGGLKLDGRQLKVDLAVTRDEA---ASGPS 109
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 48/99 (48%), Gaps = 9/99 (9%)
Query: 27 EEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQA 86
+E + ++++ + + T+E ++S FE +G + C + + + R +G+GF+ Y T +
Sbjct: 7 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 66
Query: 87 SNEAISSM-NLFDLGGQYLRVGRAITPPNALHSSKGPAP 124
+ A+++ + D GR + P A+ P
Sbjct: 67 VDAAMNARPHKVD--------GRVVEPKRAVSREDSQRP 97
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 1/92 (1%)
Query: 1 MQHFPHVQVGRPSNMPQAQSVIDEITEEAKL-YNRIYVASIHPDLTEEDIKSVFEAFGPI 59
M PH GR +A S D A L +I+V I D E ++ FE +G I
Sbjct: 71 MNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 130
Query: 60 KYCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
+ ++ + +G+ F+ ++ + ++ +
Sbjct: 131 EVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 162
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 48/99 (48%), Gaps = 9/99 (9%)
Query: 27 EEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQA 86
+E + ++++ + + T+E ++S FE +G + C + + + R +G+GF+ Y T +
Sbjct: 9 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 68
Query: 87 SNEAISSM-NLFDLGGQYLRVGRAITPPNALHSSKGPAP 124
+ A+++ + D GR + P A+ P
Sbjct: 69 VDAAMNARPHKVD--------GRVVEPKRAVSREDSQRP 99
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 1/92 (1%)
Query: 1 MQHFPHVQVGRPSNMPQAQSVIDEITEEAKL-YNRIYVASIHPDLTEEDIKSVFEAFGPI 59
M PH GR +A S D A L +I+V I D E ++ FE +G I
Sbjct: 73 MNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 132
Query: 60 KYCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
+ ++ + +G+ F+ ++ + ++ +
Sbjct: 133 EVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 164
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 33 NRIYVASIHPDLTEEDIKSVFEAFGPIKYCKL-QQGSSPHRHKGYGFIEYETKQASNEAI 91
++I V +I + +I+ +F FG +K +L ++ + H+G+GF+++ TKQ + +A
Sbjct: 16 SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
Query: 92 SSM 94
+++
Sbjct: 76 NAL 78
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/107 (18%), Positives = 52/107 (48%), Gaps = 10/107 (9%)
Query: 22 IDEITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEY 81
++ E + + ++++ + + TEE +++ +E +G + C + + + R +G+GF+ +
Sbjct: 17 LERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTF 76
Query: 82 ETKQASNEAISSM-NLFDLGGQYLRVGRAITPPNAL-HSSKGPAPST 126
+ + A+++ + D GR + P A+ G PS+
Sbjct: 77 SSMAEVDAAMAARPHSID--------GRVVEPKRAVAREESGSGPSS 115
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 40/79 (50%), Gaps = 11/79 (13%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHK-------GYGFIEYETKQAS 87
+++ +++ TEE +K VF G IK C + S ++K G+GF+EY+ + +
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTI----SKKKNKAGVLLSMGFGFVEYKKPEQA 63
Query: 88 NEAISSMNLFDLGGQYLRV 106
+A+ + + G L V
Sbjct: 64 QKALKQLQGHTVDGHKLEV 82
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
+++ + + T+ D+ S F FG + K+ K +GF+ ++ ++ AI +
Sbjct: 42 NLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKA 101
Query: 94 MNLFDLGGQYLRV 106
MN F +G + L+V
Sbjct: 102 MNGFQVGTKRLKV 114
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 43/85 (50%), Gaps = 8/85 (9%)
Query: 33 NRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAIS 92
R++V + P+ + + F+ FG I+ +G S + +I+YE+ A+ A +
Sbjct: 18 TRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDS------FAYIQYESLDAAQAACA 71
Query: 93 SMNLFDLGG--QYLRVGRAITPPNA 115
M F LGG + LRV A + P++
Sbjct: 72 KMRGFPLGGPDRRLRVDFAKSGPSS 96
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 43/85 (50%), Gaps = 1/85 (1%)
Query: 28 EAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQAS 87
EA ++++ ++ + E+ +K+VF GPI L + + + +G+ FI +E +
Sbjct: 3 EADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRT-SKSRGFAFITFENPADA 61
Query: 88 NEAISSMNLFDLGGQYLRVGRAITP 112
A MN L G+ ++V +A P
Sbjct: 62 KNAAKDMNGKSLHGKAIKVEQAKKP 86
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 7/82 (8%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
+ +V + D +++D+K F FG + C ++ + R +G+GFI ++ +A S
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFK------DAASV 66
Query: 94 MNLFDLGGQYLRVGRAITPPNA 115
+ D L GR I P A
Sbjct: 67 EKVLDQKEHRLD-GRVIDPKKA 87
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/88 (20%), Positives = 47/88 (53%), Gaps = 9/88 (10%)
Query: 26 TEEAKLYNRIYVASIHPDLTEE-DIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETK 84
T+ + +R+++ +++ + ++ D++++F +G I C + HKG+ F++Y +
Sbjct: 9 TDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV--------HKGFAFVQYVNE 60
Query: 85 QASNEAISSMNLFDLGGQYLRVGRAITP 112
+ + A++ + + GQ L + A P
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEP 88
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 32/58 (55%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAIS 92
+++ + D T++D+K F FG + C L+ R +G+GF+ ++ ++ ++ +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD 59
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V + P++T I + F FG I ++ + + + KGYGF+ + K + AI M
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 95 NLFDLGGQYLRVGRAITPP 113
LGG+ +R A P
Sbjct: 69 GGQWLGGRQIRTNWATRKP 87
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 49 IKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYLRV-- 106
++ VFE +G + + + +G+ F+ + K+ + +A+ +M+ L G+ LRV
Sbjct: 87 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQM 146
Query: 107 GRAITPPNALHS 118
R PP++ HS
Sbjct: 147 ARYGRPPDSHHS 158
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 33/63 (52%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
I V ++ D E D++ +F FG I L + + + KG+ FI + ++ + AI+ +
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV 77
Query: 95 NLF 97
+ F
Sbjct: 78 SGF 80
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 39/74 (52%), Gaps = 2/74 (2%)
Query: 47 EDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYLRV 106
+ ++ VFE +G + + + +G+ F+ + K+ + +A+ +M+ L G+ LRV
Sbjct: 62 DTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRV 121
Query: 107 --GRAITPPNALHS 118
R PP++ HS
Sbjct: 122 QMARYGRPPDSHHS 135
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 48/92 (52%), Gaps = 7/92 (7%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV ++ D+TE I +F GP K CK+ + + Y F+E+ + + A+++M
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMI--TEHTSNDPYCFVEFYEHRDAAAALAAM 75
Query: 95 NLFDLGGQYLRVGRAITPPNALHSSKGPAPST 126
N + G+ ++V A TP SS+ PS+
Sbjct: 76 NGRKILGKEVKVNWATTP-----SSQKSGPSS 102
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV ++ + +E ++ F FG I K+ R KG+GF+ + + + + +A++ M
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMM--EGGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 95 N 95
N
Sbjct: 76 N 76
>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 = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
++++ I TE DI+ F +FG I+ C++ +G +G F+ + T+ + AI +
Sbjct: 97 KLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAXAQTAIKA 155
Score = 30.8 bits (68), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 36/63 (57%), Gaps = 2/63 (3%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSS--PHRHKGYGFIEYETKQASNEAI 91
+ +V + +E+D++ +FE +G + + + S P + KG F+ + T++A+ EA
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 92 SSM 94
+++
Sbjct: 65 NAL 67
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 41/81 (50%), Gaps = 9/81 (11%)
Query: 27 EEAKLYN-RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQ 85
+E +L N R++V D+ E ++ +F FGP+K K+ G+ F+E+E +
Sbjct: 25 QEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAE 76
Query: 86 ASNEAISSMNLFDLGGQYLRV 106
++ +AI ++ Q L V
Sbjct: 77 SAAKAIEEVHGKSFANQPLEV 97
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 36/62 (58%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
++++ I +L E+D+K +FE FG I + + HKG F+ Y ++++ +A S+
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 94 MN 95
++
Sbjct: 75 LH 76
>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 = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 38/73 (52%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
+++ + + ++D+ +F FG + K+ + K +GF+ Y+ ++ AI S
Sbjct: 27 NLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQS 86
Query: 94 MNLFDLGGQYLRV 106
MN F +G + L+V
Sbjct: 87 MNGFQIGMKRLKV 99
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 38/72 (52%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+Y+ ++ P +TE D+ S+F F K +Q R +G FI + K+ + +A+ +
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLV 87
Query: 95 NLFDLGGQYLRV 106
N + L G+ L +
Sbjct: 88 NGYKLYGKILVI 99
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain
Of Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain
Of Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 30/53 (56%)
Query: 33 NRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQ 85
+I+V + PD EE I+ F FG ++ +L + ++ +G+ FI ++ ++
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEE 54
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
+++V I L E+D+K +FE FG I + + HKG F+ Y + ++ +A S+
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 94 MN 95
++
Sbjct: 77 LH 78
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 35.4 bits (80), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 12/65 (18%), Positives = 34/65 (52%)
Query: 29 AKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASN 88
A +++V + T+E ++S F +G + C + + + ++ +G+GF++++
Sbjct: 13 ADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVG 72
Query: 89 EAISS 93
++S
Sbjct: 73 TVLAS 77
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 41/76 (53%), Gaps = 3/76 (3%)
Query: 33 NRIYVASIHPDLTEEDIKSVFEAFGP--IKYCKLQQGSSPHRHKGYGFIEYETKQASNEA 90
+++V + PD+ E++I + F FGP + + + S KGY F+ ++ +++S +A
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQ-EESSVQA 67
Query: 91 ISSMNLFDLGGQYLRV 106
+ L + G YL V
Sbjct: 68 LIDACLEEDGKLYLCV 83
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 9/80 (11%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V ++ +TEE ++ F FG ++ K + K Y FI ++ + + +A+ M
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVK--------KLKDYAFIHFDERDGAVKAMEEM 65
Query: 95 NLFDLGGQYLRVGRAITPPN 114
N DL G+ + + A PP+
Sbjct: 66 NGKDLEGENIEIVFA-KPPD 84
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 35.4 bits (80), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 29/51 (56%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQ 85
I+V + PD EE I+ F FG ++ +L + ++ +G+ FI ++ ++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEE 52
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 35.4 bits (80), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 44/75 (58%), Gaps = 4/75 (5%)
Query: 33 NRI-YVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
NRI Y+ ++ +T E++ +F +GPI+ +++ G++P +G ++ YE + A+
Sbjct: 8 NRILYIRNLPYKITAEEMYDIFGKYGPIR--QIRVGNTPE-TRGTAYVVYEDIFDAKNAV 64
Query: 92 SSMNLFDLGGQYLRV 106
++ F++ +YL V
Sbjct: 65 DHLSGFNVSNRYLVV 79
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 35.4 bits (80), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 11/59 (18%), Positives = 31/59 (52%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAIS 92
++++ + T+E ++ F FG +K C + + R +G+GF+ + + ++ ++
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA 85
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 35.0 bits (79), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
R++V D+ E ++ +F FGP+K K+ G+ F+E+E +++ +AI
Sbjct: 6 RLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKAIEE 57
Query: 94 MNLFDLGGQYLRV 106
++ Q L V
Sbjct: 58 VHGKSFANQPLEV 70
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 35.0 bits (79), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 11/59 (18%), Positives = 31/59 (52%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAIS 92
++++ + T+E ++ F FG +K C + + R +G+GF+ + + ++ ++
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA 60
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 43/75 (57%), Gaps = 4/75 (5%)
Query: 33 NRI-YVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
NRI Y+ ++ +T E++ +F +GPI+ +++ G++P +G ++ YE + A
Sbjct: 12 NRILYIRNLPYKITAEEMYDIFGKYGPIR--QIRVGNTPE-TRGTAYVVYEDIFDAKNAC 68
Query: 92 SSMNLFDLGGQYLRV 106
++ F++ +YL V
Sbjct: 69 DHLSGFNVCNRYLVV 83
>pdb|2E5J|A Chain A, Solution Structure Of Rna Binding Domain In
Methenyltetrahydrofolate Synthetase Domain Containing
Length = 97
Score = 34.3 bits (77), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 34/83 (40%), Gaps = 5/83 (6%)
Query: 27 EEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQA 86
E A L +YV ++ D D+K G + QG P R F+ Y A
Sbjct: 14 EGAPLAADVYVGNLPRDARVSDLKRALRELGSVPLRLTWQG--PRRR---AFLHYPDSAA 68
Query: 87 SNEAISSMNLFDLGGQYLRVGRA 109
+ +A+S + LG LRV A
Sbjct: 69 AQQAVSCLQGLRLGTDTLRVALA 91
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 34.3 bits (77), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 43/75 (57%), Gaps = 4/75 (5%)
Query: 33 NRI-YVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
NRI Y+ ++ +T E++ +F +GPI+ +++ G++P +G ++ YE + A
Sbjct: 18 NRILYIRNLPYKITAEEMYDIFGKYGPIR--QIRVGNTPE-TRGTAYVVYEDIFDAKNAC 74
Query: 92 SSMNLFDLGGQYLRV 106
++ F++ +YL V
Sbjct: 75 DHLSGFNVCNRYLVV 89
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation Initiation
Factor 4b
Length = 100
Score = 33.9 bits (76), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 36 YVASIHPDLTEEDIKSVFEAFGPIKYCKL-QQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++ ++ D+TEE IK F I +L ++ S+P R KG+G+ E+E + + S+
Sbjct: 23 FLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLL-SALSL 80
Query: 95 NLFDLGGQYLRV 106
N LG + +RV
Sbjct: 81 NEESLGNRRIRV 92
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 33.9 bits (76), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 13/61 (21%), Positives = 34/61 (55%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+YV+ + +++++++ +F +G I ++ + +G GFI ++ + + EAI +
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 95 N 95
N
Sbjct: 64 N 64
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 33.9 bits (76), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 36 YVASIHPDLTEEDIKSVFEAFGPIKYCKL-QQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++ ++ D+TEE IK F I +L ++ S+P R KG+G+ E+E + + S+
Sbjct: 19 FLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLL-SALSL 76
Query: 95 NLFDLGGQYLRV 106
N LG + +RV
Sbjct: 77 NEESLGNKRIRV 88
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 33.9 bits (76), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 7/80 (8%)
Query: 28 EAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQAS 87
E K +YV + +TE D+++ F FG I+ + Q + FI++ T+QA+
Sbjct: 8 EDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQ------RQQCAFIQFATRQAA 61
Query: 88 NEAI-SSMNLFDLGGQYLRV 106
A S N + G+ L V
Sbjct: 62 EVAAEKSFNKLIVNGRRLNV 81
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 33.5 bits (75), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 38/84 (45%), Gaps = 6/84 (7%)
Query: 23 DEITEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYE 82
D + + + +Y I LT++ ++ F FG I ++ KGY F+ +
Sbjct: 16 DVVNQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRV------FPEKGYSFVRFS 69
Query: 83 TKQASNEAISSMNLFDLGGQYLRV 106
T +++ AI S+N + G ++
Sbjct: 70 THESAAHAIVSVNGTTIEGHVVKC 93
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 33.5 bits (75), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 29/64 (45%)
Query: 32 YNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
+ +I+V + T+ ++ FE FG I+ + + +GYGF+ + A+ A
Sbjct: 17 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERAC 76
Query: 92 SSMN 95
N
Sbjct: 77 KDPN 80
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 33.1 bits (74), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 37/73 (50%), Gaps = 8/73 (10%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
+I+V ++ T ++++S+FE G + C + K Y F+ E + + AI+
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVV--------KDYAFVHMEKEADAKAAIAQ 62
Query: 94 MNLFDLGGQYLRV 106
+N ++ G+ + V
Sbjct: 63 LNGKEVKGKRINV 75
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 33.1 bits (74), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 33 NRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAIS 92
+++V ++ +EED+ +F+ FG I C + +G KG F+++ + + AI
Sbjct: 16 RKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD-GSSKGCAFVKFSSHTEAQAAIH 74
Query: 93 SMN 95
+++
Sbjct: 75 ALH 77
>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 = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 37/63 (58%), Gaps = 2/63 (3%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSS--PHRHKGYGFIEYETKQASNEAI 91
+++V + +E+D++ +FE +G + + + S P + KG F+ + T++A+ EA
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 92 SSM 94
+++
Sbjct: 65 NAL 67
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 30/101 (29%), Positives = 46/101 (45%), Gaps = 11/101 (10%)
Query: 9 VGRPSNM-PQAQSVIDEITEEAK-LYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQ 66
+G P + PQA +D I A Y+ +I TE D+ +F+ FG I K
Sbjct: 5 IGLPPQVNPQA---VDHIIRSAPPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKH-- 59
Query: 67 GSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQYLRVG 107
+ KG FI+Y+T + + I ++ F G+ LR G
Sbjct: 60 ----YPEKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTG 96
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 28/54 (51%)
Query: 45 TEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFD 98
TE+D+K F FG + ++++ KG+GF+ + + + +S ++ D
Sbjct: 28 TEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQRHMID 81
>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 = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/82 (18%), Positives = 46/82 (56%), Gaps = 1/82 (1%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISS 93
+++++ + T+E+++ + +A G +K +L + + KG ++EYE + +++A+
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVT-NRAGKPKGLAYVEYENESQASQAVMK 77
Query: 94 MNLFDLGGQYLRVGRAITPPNA 115
M+ + ++V + + P++
Sbjct: 78 MDGMTIKENIIKVAISNSGPSS 99
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 31.6 bits (70), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 27/48 (56%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEY 81
R++V ++ +EED++ +F A+GP+ S + KG+ F+ +
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTF 57
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 32/61 (52%), Gaps = 8/61 (13%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
++V ++ +TEE ++ F FG ++ K + K Y F+ +E + A+ +A+ M
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVK--------KLKDYAFVHFEDRGAAVKAMDEM 69
Query: 95 N 95
N
Sbjct: 70 N 70
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 30.8 bits (68), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 47 EDIKSVFEAFGPIKYCKLQQGSSPHRH--KGYGFIEYETKQASNEAISSMNLFDLGGQYL 104
+ ++ VFE +G + + + PH +G+ F+ + ++ + +A ++M+ +L G+ L
Sbjct: 28 DSLRRVFEKYGRVGDVYIPR--EPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGREL 85
Query: 105 RV 106
RV
Sbjct: 86 RV 87
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 30.8 bits (68), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 40/78 (51%), Gaps = 9/78 (11%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIK---YCKLQQGSSPHRHKGYGFIEYETKQASNEAI 91
++V + D TEE +K F+ G ++ + GSS KG+GF+++ +++ + A
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSVRARIVTDRETGSS----KGFGFVDFNSEEDAKAAK 71
Query: 92 SSMNLFDLGGQYLRVGRA 109
+M ++ G + + A
Sbjct: 72 EAMEDGEIDGNKVTLDWA 89
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 30.0 bits (66), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 43/87 (49%), Gaps = 8/87 (9%)
Query: 26 TEEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKL---QQGSSPHRHKGYGFIEYE 82
TE R++V++I + D++ +F FG I ++ ++GS KG+GF+ +E
Sbjct: 23 TENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGS-----KGFGFVTFE 77
Query: 83 TKQASNEAISSMNLFDLGGQYLRVGRA 109
++ A ++ + G+ + V A
Sbjct: 78 NSADADRAREKLHGTVVEGRKIEVNNA 104
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 29.6 bits (65), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 36 YVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMN 95
YV ++ + + DI ++F+ I+ +L + + KG+ ++E++ + EA++
Sbjct: 19 YVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDG 77
Query: 96 LFDLGGQYLRV 106
LG + LRV
Sbjct: 78 AL-LGDRSLRV 87
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 29.3 bits (64), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 41/79 (51%), Gaps = 8/79 (10%)
Query: 34 RIYVASIHPDLTEEDIKSVFEAFGPIKYCKL---QQGSSPHRHKGYGFIEYETKQASNEA 90
R++V++I + D++ +F FG I ++ ++GS KG+GF+ +E ++ A
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGS-----KGFGFVTFENSADADRA 71
Query: 91 ISSMNLFDLGGQYLRVGRA 109
++ + G+ + V A
Sbjct: 72 REKLHGTVVEGRKIEVNNA 90
>pdb|1SLI|A Chain A, Leech Intramolecular Trans-Sialidase Complexed With Dana
pdb|1SLL|A Chain A, Sialidase L From Leech Macrobdella Decora
pdb|2SLI|A Chain A, Leech Intramolecular Trans-Sialidase Complexed With 2,7-
Anhydro-Neu5ac, The Reaction Product
pdb|3SLI|A Chain A, Leech Intramolecular Trans-Sialidase Complexed With 2,7-
Anhydro-Neu5ac Prepared By Soaking With 3'-Sialyllactose
pdb|4SLI|A Chain A, Leech Intramolecular Trans-Sialidase Complexed With 2-
Propenyl-Neu5ac, An Inactive Substrate Analogue
Length = 679
Score = 28.5 bits (62), Expect = 2.3, Method: Composition-based stats.
Identities = 28/104 (26%), Positives = 43/104 (41%), Gaps = 6/104 (5%)
Query: 4 FPHVQVGRPSNMPQAQSVIDEITEEAKLYNRIYV-ASIHPDLTEEDIKSVFEAFGPI--- 59
+P VG+ + + S ID + E KL RI++ A + P SV F +
Sbjct: 276 WPRDSVGKNVQIQGSASYIDPVLLEDKLTKRIFLFADLMPAGIGSSNASVGSGFKEVNGK 335
Query: 60 KYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSMNLFDLGGQY 103
KY KL+ R Y + E N+A + F + G+Y
Sbjct: 336 KYLKLRWHKDAGR--AYDYTIREKGVIYNDATNQPTEFRVDGEY 377
>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 = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 27 EEAKLYNR--IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETK 84
EE K ++ +YV ++ T +D+++ F + G I + KGY +IE+ +
Sbjct: 29 EEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAER 88
Query: 85 QASNEAISSMNLFDLGGQYLRV 106
+ + A+ +M+ G+ ++V
Sbjct: 89 NSVDAAV-AMDETVFRGRTIKV 109
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/92 (18%), Positives = 44/92 (47%), Gaps = 6/92 (6%)
Query: 35 IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYETKQASNEAISSM 94
+Y++++ + E++++++ + FG + ++ + SS +G GF E+ + I
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRDSS-GTSRGVGFARMESTEKCEAVIGHF 86
Query: 95 NLFDLGGQYLRVGRAITPPNALHSSKGPAPST 126
N G++++ ++ P K PS+
Sbjct: 87 N-----GKFIKTPPGVSAPTEPLLCKFSGPSS 113
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 27.3 bits (59), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 4/91 (4%)
Query: 26 TEEAKLYNR-IYVASIHPDLTEEDI-KSVFEAFGPIKYCKLQQGSSPHR-HKGYGFIEYE 82
T+ A L R I + ++ +L +E++ + FE FG I+ + G H + F +E
Sbjct: 203 TDSATLEGREIXIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFXVFE 262
Query: 83 TKQASNEAISSMNLFDLGGQYLRVGRAITPP 113
K ++ A+ N LG + + V A P
Sbjct: 263 NKDSAERAL-QXNRSLLGNREISVSLADKKP 292
>pdb|3C80|A Chain A, T4 Lysozyme Mutant R96y At Room Temperature
Length = 164
Score = 27.3 bits (59), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 27 EEAKLYNRIYVASIHPDLTEEDIKSVFEAFGPIKYCKL 64
E KL+N+ A++ L +K V+++ ++YC L
Sbjct: 62 EAEKLFNQDVDAAVRGILRNAKLKPVYDSLDAVRYCAL 99
>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 = 27.3 bits (59), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 40/84 (47%), Gaps = 6/84 (7%)
Query: 27 EEAKLYNR---IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHK-GYGFIEYE 82
E+ KL + +YV ++ TEE I +F G IK K+ G + G+ F+EY
Sbjct: 10 EQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIK--KIIMGLDKMKTACGFCFVEYY 67
Query: 83 TKQASNEAISSMNLFDLGGQYLRV 106
++ + A+ +N L + +R
Sbjct: 68 SRADAENAMRYINGTRLDDRIIRT 91
>pdb|2IF6|A Chain A, Crystal Structure Of Metalloprotein Yiix From
Escherichia Coli O157:h7, Duf1105
pdb|2IF6|B Chain B, Crystal Structure Of Metalloprotein Yiix From
Escherichia Coli O157:h7, Duf1105
Length = 186
Score = 26.6 bits (57), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 52 VFEAFGPIKYCKLQQGSSPHRHKG 75
VFEA GP+KY L+Q + H KG
Sbjct: 46 VFEAVGPVKYTPLKQWIA-HGEKG 68
>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 = 26.6 bits (57), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 33/72 (45%), Gaps = 3/72 (4%)
Query: 27 EEAKLYNR---IYVASIHPDLTEEDIKSVFEAFGPIKYCKLQQGSSPHRHKGYGFIEYET 83
E+ KL + +YV ++ TEE I +F G IK + G+ F+EY +
Sbjct: 31 EQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYS 90
Query: 84 KQASNEAISSMN 95
+ + A+ +N
Sbjct: 91 RADAENAMRYIN 102
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
0.317 0.132 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,682,400
Number of Sequences: 62578
Number of extensions: 167103
Number of successful extensions: 778
Number of sequences better than 100.0: 146
Number of HSP's better than 100.0 without gapping: 119
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 616
Number of HSP's gapped (non-prelim): 170
length of query: 173
length of database: 14,973,337
effective HSP length: 92
effective length of query: 81
effective length of database: 9,216,161
effective search space: 746509041
effective search space used: 746509041
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)