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= 033266
(123 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 33/79 (41%), Positives = 49/79 (62%)
Query: 42 SSAGLYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGAS 101
+ ++DP DP A GD T+FV R+++ T+E LR+ YG +K + +V +G
Sbjct: 84 TELKMWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKP 143
Query: 102 RGYAFVEYETEREMRRAYE 120
RGYAF+EYE ER+M AY+
Sbjct: 144 RGYAFIEYEHERDMHSAYK 162
>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 = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 48/75 (64%)
Query: 46 LYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYA 105
++DP DP A GD T+FV R+++ T+E LR+ YG +K + +V +G RGYA
Sbjct: 88 MWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYA 147
Query: 106 FVEYETEREMRRAYE 120
F+EYE ER+M AY+
Sbjct: 148 FIEYEHERDMHSAYK 162
>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 = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 35/50 (70%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
C +F+G L+ T+ED LR+ KYG V +L++++D TG SRG+ F+ +E
Sbjct: 4 CKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFE 53
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 30/59 (50%)
Query: 53 PKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYET 111
P+ D +FVG + + S++G + + +L+ D TG SRG+ FV Y++
Sbjct: 80 PRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDS 138
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 38/64 (59%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119
H VFVG LS + + ++ A + +GR+ + R+V+D+ TG S+GY FV + + + A
Sbjct: 15 HFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAI 74
Query: 120 EVCG 123
+ G
Sbjct: 75 QQMG 78
>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 = 51.2 bits (121), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 37/60 (61%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
C V+VG + + EDT+R+A + +G +K++ + D VT +G+AFVEYE + A E
Sbjct: 14 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 73
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 31/56 (55%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
++V + S+D ++ +G++K+ L RD TG +GY F+EYE + + A
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDA 168
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 44/72 (61%), Gaps = 1/72 (1%)
Query: 49 PLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVE 108
PLG +A DP+C + V LS +T+E LR+ SKYG + ++ +V D + SRG+AFV
Sbjct: 2 PLGS-RANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVY 60
Query: 109 YETEREMRRAYE 120
+E + + A E
Sbjct: 61 FENVDDAKEAKE 72
>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 = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 36/60 (60%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
C V+VG + + EDT+R+A + +G +K++ D VT +G+AFVEYE + A E
Sbjct: 13 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALE 72
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 31/56 (55%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
++V + S+D ++ +G++K+ L RD TG +GY F+EYE + + A
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDA 167
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 48.9 bits (115), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 41/67 (61%)
Query: 54 KAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETER 113
+A DP+C + V LS +T+E LR+ SKYG + ++ +V D + SRG+AFV +E
Sbjct: 9 RANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVD 68
Query: 114 EMRRAYE 120
+ + A E
Sbjct: 69 DAKEAKE 75
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 48.9 bits (115), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 36/59 (61%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
H VFVG LS + + ++ A + +G++ + R+V+D+ TG S+GY FV + + + A
Sbjct: 15 HFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENA 73
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 48.5 bits (114), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 41/67 (61%)
Query: 54 KAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETER 113
+A DP+C + V LS +T+E LR+ SKYG + ++ +V D + SRG+AFV +E
Sbjct: 9 RANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVD 68
Query: 114 EMRRAYE 120
+ + A E
Sbjct: 69 DAKEAKE 75
>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 = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 37/62 (59%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
++ V L++ TS DTLR+ KYGRV ++ + RD T SRG+AFV + +R+ A +
Sbjct: 48 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMD 107
Query: 121 VC 122
Sbjct: 108 AM 109
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 42/69 (60%), Gaps = 3/69 (4%)
Query: 53 PKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETE 112
P A P T+FV LS T+E+TL+++ G V+ R+V D TG+S+G+ FV++ +E
Sbjct: 8 PNARSQPSKTLFVKGLSEDTTEETLKESFD--GSVR-ARIVTDRETGSSKGFGFVDFNSE 64
Query: 113 REMRRAYEV 121
+ + A E
Sbjct: 65 EDAKAAKEA 73
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 41/67 (61%)
Query: 54 KAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETER 113
+A DP+C + V LS +T+E LR+ SKYG + ++ +V D + SRG+AFV +E
Sbjct: 40 RANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVD 99
Query: 114 EMRRAYE 120
+ + A E
Sbjct: 100 DAKEAKE 106
>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 = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 36/58 (62%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
V+VG + + EDT+R+A + +G +K++ + D VT +G+AFVEYE + A E
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 88
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 31/56 (55%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
++V + S+D ++ +G++K+ L RD TG +GY F+EYE + + A
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDA 183
>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 = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 43/80 (53%), Gaps = 1/80 (1%)
Query: 30 PHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKN 89
PHD + + +Y P + D +F+G L ++ ++D +++ ++ +G +K
Sbjct: 85 PHDYQPLPGM-SENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKA 143
Query: 90 LRLVRDIVTGASRGYAFVEY 109
LV+D TG S+GYAF EY
Sbjct: 144 FNLVKDSATGLSKGYAFCEY 163
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 37/62 (59%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
++ V L++ TS DTLR+ KYGRV ++ + RD T SRG+AFV + +R+ A +
Sbjct: 71 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMD 130
Query: 121 VC 122
Sbjct: 131 AM 132
>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 = 47.0 bits (110), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 33/47 (70%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
+F+G L ++ ++D +++ ++ +G +K LV+D TG S+GYAF EY
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 145
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 33/47 (70%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
+F+G L ++ ++D +++ ++ +G +K LV+D TG S+GYAF EY
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 50
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 33/47 (70%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
+F+G L ++ ++D +++ ++ +G +K LV+D TG S+GYAF EY
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 143
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 33/58 (56%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+FV + ED +++ YG +KN+ L D TG S+GYA VEYET ++ A E
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 86
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 34/54 (62%)
Query: 56 IGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
+G C +F+G LS T+++ LR+ ++G VK ++RD +T SRG+ FV +
Sbjct: 21 MGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 74
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 37/61 (60%)
Query: 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRR 117
D T+ V L++ TS D+LR+ KYGRV ++ + R+ T A RG+AFV + R+ +
Sbjct: 11 DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQD 70
Query: 118 A 118
A
Sbjct: 71 A 71
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 33/58 (56%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
++VG L +ED LR +G++ N+ L++D TG S+GY F+ + RRA E
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 45.4 bits (106), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 32/49 (65%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYET 111
+FVG LS T+E +L + SKYG++ + +V+D T SRG+ FV +E
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFEN 63
>pdb|1HL6|A Chain A, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|C Chain C, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1RK8|A Chain A, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|A Chain A, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|C Chain C, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 165
Score = 45.1 bits (105), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 33/58 (56%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+FV + ED +++ YG +KN+ L D TG S+GYA VEYET ++ A E
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 132
>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 = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 32/62 (51%)
Query: 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMR 116
G + V L ++D LR S G V++ +L+RD V G S GY FV Y T ++
Sbjct: 1 GPGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAE 60
Query: 117 RA 118
RA
Sbjct: 61 RA 62
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 32/48 (66%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
+FVG L T+++TLR S+YG V + +++D T SRG+ FV+++
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFK 66
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 32/49 (65%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
C +F+G LS T+++ LR+ ++G VK ++RD +T SRG+ FV +
Sbjct: 1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 49
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 31/58 (53%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+ V L ++D LR S G V++ +L+RD V G S GY FV Y T ++ RA
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 77
>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 = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 36/64 (56%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119
H VFVG LS + + A + +GR+ + R+V+D+ TG S+GY FV + + + A
Sbjct: 6 HFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAI 65
Query: 120 EVCG 123
+ G
Sbjct: 66 QQMG 69
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 31/59 (52%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+ V L ++D LR S G V++ +L+RD V G S GY FV Y T ++ RA
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+++ L ++ + S++GR+ N R++ D TG SRG AF+ ++ E A
Sbjct: 89 ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEA 146
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 31/59 (52%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+ V L ++D LR S G V++ +L+RD V G S GY FV Y T ++ RA
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+++ L ++ + S++GR+ N R++ D TG SRG AF+ ++ E A
Sbjct: 89 ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEA 146
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 49 PLG--DPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAF 106
PLG +P A P +++VG L +E L + S G + ++R+ RD++T S GYA+
Sbjct: 2 PLGSMNPSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAY 61
Query: 107 VEYETEREMRRAYEV 121
V ++ + RA +
Sbjct: 62 VNFQQPADAERALDT 76
Score = 32.0 bits (71), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+F+ L L S +G + + ++V D S+GY FV +ET+ RA E
Sbjct: 105 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIE 161
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+FV + +E+ + ++YG +KN+ L D TG +GY VEYET +E + A E
Sbjct: 24 WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 83
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 34/58 (58%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
++VG L +ED LR +GR+++++L+ D TG S+GY F+ + ++A E
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALE 86
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 41/72 (56%), Gaps = 4/72 (5%)
Query: 49 PLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVE 108
PLG K + + TVFVG + E +R ++YG VK ++++ D TG S+GY FV
Sbjct: 2 PLGSGKIMPN---TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVS 57
Query: 109 YETEREMRRAYE 120
+ + ++++ E
Sbjct: 58 FYNDVDVQKIVE 69
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+FV + +E+ + ++YG +KN+ L D TG +GY VEYET +E + A E
Sbjct: 10 WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 69
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+FV + +E+ + ++YG +KN+ L D TG +GY VEYET +E + A E
Sbjct: 8 WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+FV + +E+ + ++YG +KN+ L D TG +GY VEYET +E + A E
Sbjct: 23 WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 82
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 33/58 (56%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+FV + +E+ + ++YG +KN+ L D TG +GY VEYET +E + A E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+FV + +E+ + ++YG +KN+ L D TG +GY VEYET +E + A E
Sbjct: 8 WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 33/62 (53%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
TV+VG L SE L + + G V N + +D VTG +GY FVE+ +E + A +
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75
Query: 121 VC 122
+
Sbjct: 76 IM 77
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 31/51 (60%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETE 112
+VFVG + + +E+ L+ S+ G V + RLV D TG +GY F EY+ +
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQ 60
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 33/66 (50%)
Query: 53 PKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETE 112
P D + T+ V LS T E L++ +G + + L +D TG S+G+AF+ +
Sbjct: 8 PNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRR 67
Query: 113 REMRRA 118
+ RA
Sbjct: 68 EDAARA 73
>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|B Chain B, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|C Chain C, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|D Chain D, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|E Chain E, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|F Chain F, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|G Chain G, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|H Chain H, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
Length = 190
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 38/70 (54%)
Query: 52 DPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYET 111
+P A P +++VG L +E L + S G + ++R+ RD++T S GYA+V ++
Sbjct: 2 NPSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQ 61
Query: 112 EREMRRAYEV 121
+ RA +
Sbjct: 62 PADAERALDT 71
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+F+ L L S +G + + ++V D S+GY FV +ET+ RA E
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIE 156
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
TVFVG + E +R ++YG VK ++++ D TG S+GY FV + + ++++ E
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVE 68
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
TVFVG + E +R ++YG VK ++++ D TG S+GY FV + + ++++ E
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVE 68
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 35/63 (55%)
Query: 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRR 117
D +FVG L+ ++TLR A + + ++ D+ TG+SRGY FV + ++ + +
Sbjct: 85 DDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQN 144
Query: 118 AYE 120
A +
Sbjct: 145 AMD 147
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121
++VG L +ED L++ G + N++++ D + YAFVEY + A +
Sbjct: 2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMID-KNNKNVNYAFVEYHQSHDANIALQT 60
Query: 122 C 122
Sbjct: 61 L 61
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%)
Query: 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
P V++G + + +E+ + S G V NL+++ D TG S+GYAF+E+
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEF 53
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 30/56 (53%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+FVG L + T++ +LRK +G ++ ++ D TG SRGY FV RA
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA 75
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%)
Query: 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
P V++G + + +E+ + S G V NL+++ D TG S+GYAF+E+
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEF 52
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%)
Query: 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
P V++G + + +E+ + S G V NL+++ D TG S+GYAF+E+
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEF 51
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 38/67 (56%)
Query: 49 PLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVE 108
PL K + +F+G LS T+E++LR ++G++ + ++RD + SRG+ FV
Sbjct: 16 PLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVT 75
Query: 109 YETEREM 115
+ + E+
Sbjct: 76 FSSMAEV 82
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%)
Query: 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
CT++VG LS +T+E+ + + SK G +K + + D + + G+ FVEY
Sbjct: 38 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEY 88
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 33/58 (56%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+FVG LS T E+ +R+ +G V+++ L D T RG+ F+ ++ E +++ E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 59
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%)
Query: 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRR 117
D + V L ++D + G +++ +LVRD +TG S GY FV Y + +
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADK 61
Query: 118 A 118
A
Sbjct: 62 A 62
>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 = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 34/59 (57%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+FVG L+ ++TLR A + + ++ D+ TG+SRGY FV + ++ + + A +
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 61
>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 = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 33/58 (56%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+FVG LS T E+ +R+ +G V+++ L D T RG+ F+ ++ E +++ E
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
>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 = 6e-04, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 33/53 (62%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREM 115
+F+G LS T++++LR ++G + + ++RD T SRG+ FV Y T E+
Sbjct: 17 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEV 69
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 29/48 (60%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
+FVG + T E LR +YG+++ + ++ D +G RG+AFV ++
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 155
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 33/53 (62%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREM 115
+F+G LS T++++LR ++G + + ++RD T SRG+ FV Y T E+
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEV 66
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 29/48 (60%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
+FVG + T E LR +YG+++ + ++ D +G RG+AFV ++
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 152
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 33/53 (62%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREM 115
+F+G LS T++++LR ++G + + ++RD T SRG+ FV Y T E+
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEV 68
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 29/48 (60%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
+FVG + T E LR +YG+++ + ++ D +G RG+AFV ++
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 154
>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 = 38.9 bits (89), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 33/53 (62%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREM 115
+F+G LS T++++LR ++G + + ++RD T SRG+ FV Y T E+
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEV 61
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 29/48 (60%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
+FVG + T E LR +YG+++ + ++ D +G RG+AFV ++
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 147
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+F+G LS T++ L+ SK+G V + L D +TG SRG+ FV ++ + + +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD 59
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
++V L ++D L KYG + ++RD +TG RG AFV Y E + A
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 71
>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 = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 33/53 (62%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREM 115
+F+G LS T++++LR ++G + + ++RD T SRG+ FV Y T E+
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEV 68
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 29/48 (60%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
+FVG + T E LR +YG+++ + ++ D +G RG+AFV ++
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 154
>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 = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 33/53 (62%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREM 115
+F+G LS T++++LR ++G + + ++RD T SRG+ FV Y T E+
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEV 67
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 29/48 (60%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
+FVG + T E LR +YG+++ + ++ D +G RG+AFV ++
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 153
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
++V L ++D L KYG + ++RD +TG RG AFV Y E + A
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 158
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 48 DPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFV 107
D + DP+A + + V L ++ L G + R+ RD TG S GYAFV
Sbjct: 5 DLMNDPRA---SNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFV 61
Query: 108 EYETEREMRRAYEVC 122
++ +E + +RA +V
Sbjct: 62 DFTSEXDSQRAIKVL 76
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%)
Query: 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRR 117
D + V L ++D + G +++ +LVRD +TG S GY FV Y + +
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADK 61
Query: 118 A 118
A
Sbjct: 62 A 62
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/102 (23%), Positives = 44/102 (43%), Gaps = 2/102 (1%)
Query: 21 GSIDGTDIHPHDNAI--CRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLR 78
G ++ +D + D AI L + + P + ++V L S+ +
Sbjct: 49 GFVNYSDPNDADKAINTLNGLKLQTKTIKVSYARPSSASIRDANLYVSGLPKTMSQKEME 108
Query: 79 KAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+ S+YGR+ R++ D TG SRG F+ ++ E A +
Sbjct: 109 QLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 150
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
++V L ++D L KYG + ++RD +TG RG AFV Y E + A
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 147
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119
+ + V L ++ L G + R++RD TG S GYAFV++ +E + +RA
Sbjct: 3 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAI 62
Query: 120 EVC 122
+V
Sbjct: 63 KVL 65
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%)
Query: 53 PKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETE 112
P + ++V L ++ L + S+YGR+ R++ D VTG SRG F+ ++
Sbjct: 81 PSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKR 140
Query: 113 REMRRA 118
E A
Sbjct: 141 IEAEEA 146
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 29/59 (49%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+ V L +++ R G +++ +LVRD +TG S GY FV Y ++ +A
Sbjct: 2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKA 60
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY-EV 121
+FV LS+ +SE+ L K S YG + L D +T +G+AFV + +AY EV
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 122 CG 123
G
Sbjct: 71 DG 72
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGR--VKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119
T+ + ++ T D++ A+S Y V N+RL++D T +RG+AFV+ + + +
Sbjct: 11 TIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLL 70
Query: 120 EVC 122
++
Sbjct: 71 QIL 73
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+F+G L+ T+E L+ K+G + + L++D T SRG+AF+ +E + + A
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKD-RTSKSRGFAFITFENPADAKNA 64
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRL-VRDIVTGASRGYAFVEYETEREMRRA 118
V +GRL+ ++D + + S YG++K + + V + S+GYA+VE+E E +A
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKA 63
>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 = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
CT++VG LS +T+E+ + + SK G +K + + D + A G+ FVEY
Sbjct: 17 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTAC-GFCFVEY 66
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
H +FVG L+ SED +R+ +G ++ ++R G S+G AFV+Y + E + A
Sbjct: 15 HRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRG-PDGNSKGCAFVKYSSHAEAQAA 72
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 32/50 (64%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETE 112
++VG L + + + +++ S++G+V N++L+ D T +G+ FVE + E
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEE 53
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 37.7 bits (86), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYG-RVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
V + L +ED +R + +G + + +RL+R+ +G SRG+AFVE+ ++ R E
Sbjct: 4 VMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWME 62
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 34/59 (57%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121
+FVG LS T+ + ++ ++G+V + L+ D T RG+ FV +E+E + + E+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEI 60
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 29/58 (50%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
++V L S+ + + S+YGR+ R++ D TG SRG F+ ++ E A
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEA 59
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 31/44 (70%), Gaps = 1/44 (2%)
Query: 77 LRKAMSKYGRVKNLRLVRDIV-TGASRGYAFVEYETEREMRRAY 119
+R+ S +G +K +RL + + TGA RG+ FV++ T+++ ++A+
Sbjct: 32 IRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+FVG + H E LR+ K+G V + ++ D RG+ F+ +E E+ + +A
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQA 68
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 33/61 (54%), Gaps = 5/61 (8%)
Query: 49 PLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVE 108
P+ D AI +FVG++ E L+ ++GR+ L +++D +TG +G AF+
Sbjct: 9 PMKDHDAI-----KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLT 63
Query: 109 Y 109
Y
Sbjct: 64 Y 64
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 33/68 (48%), Gaps = 12/68 (17%)
Query: 52 DPKAIGDPHCTVFVGRL-SHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
DPK+I + VF+G L + + + SKYGRV + +GYAFV+Y
Sbjct: 22 DPKSI---NSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--------HKGYAFVQYS 70
Query: 111 TEREMRRA 118
ER R A
Sbjct: 71 NERHARAA 78
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122
+F+G L+ S L+ A+S+ KN V D+ TG +R + +V++E+ ++ +A E+
Sbjct: 20 LFIGNLNPNKSVAELKVAISEL-FAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELT 78
Query: 123 G 123
G
Sbjct: 79 G 79
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 35.8 bits (81), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 29/44 (65%), Gaps = 3/44 (6%)
Query: 72 TSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFV---EYETE 112
T+E L++ S +G V +++ +D+ TG S+G+ FV EYET+
Sbjct: 27 TTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQ 70
>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 = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%)
Query: 64 FVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
FVG LS TS+ L+ +K+G V + + D TG SRG+ F+ ++
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFK 61
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 59 PHCTVFVGRLSHFTSEDTLRKAMSK-YGRVKNLRLVRDIVTGASRGYAFVEYETEREMRR 117
P ++FVG L+ + L + K Y + ++V D TG S+GY FV++ E E +R
Sbjct: 8 PEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLD-QTGVSKGYGFVKFTDELEQKR 66
Query: 118 AYEVC 122
A C
Sbjct: 67 ALTEC 71
>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 = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+F+ L +++ L + +G VK+LRLV + G +G A+VEYE E + +A
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTN-RAGKPKGLAYVEYENESQASQA 74
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119
+ + V L ++ L G + R++RD TG S GYAFV++ +E + +RA
Sbjct: 3 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAI 62
Query: 120 EVC 122
+V
Sbjct: 63 KVL 65
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 35.0 bits (79), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETERE 114
+F+G++ E L+ ++G++ L +++D TG +G AF+ Y ERE
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTY-CERE 66
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 32/57 (56%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+ V + E LR+ +YG ++++++V D T SRGY FV++++ ++A
Sbjct: 44 NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQA 100
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRV-KNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121
+F+G L E L S +G + + +++RD TG S+GYAF+ + + A E
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 33/56 (58%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRR 117
TVF+ LS + E+ L + + ++G +K +R+V T S+G AF ++ T+ ++
Sbjct: 17 TVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQK 72
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 37/61 (60%), Gaps = 1/61 (1%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122
+F+G L+ S L+ A+S+ +L +V D+ TG +R + +V++E+ ++ +A E+
Sbjct: 16 LFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKALELT 74
Query: 123 G 123
G
Sbjct: 75 G 75
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121
T+ + LS+ +E+TL++ K +K V G S+GYAF+E+ + + + A
Sbjct: 17 TLVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEALNS 72
Query: 122 C 122
C
Sbjct: 73 C 73
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
++VG L+ + L A +G + ++++ D T RG+AFVE+E
Sbjct: 65 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFE 113
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 8/61 (13%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122
VFVGR + +ED LR+ S+YG V ++ + + R +AFV + + + A +C
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPF-----RAFAFVTFADD---QIAQSLC 59
Query: 123 G 123
G
Sbjct: 60 G 60
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 33/61 (54%), Gaps = 3/61 (4%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGA---SRGYAFVEYETEREMRRAY 119
+F+ L+ T+E+TL+ SK G +K+ + + S G+ FVEY+ + ++A
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 120 E 120
+
Sbjct: 68 K 68
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 33.5 bits (75), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
++VG L+ + L A +G + ++++ D T RG+AFVE+E
Sbjct: 14 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFE 62
>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 = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
++VG L+ + L A +G + ++++ D T RG+AFVE+E
Sbjct: 4 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFE 52
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 33.1 bits (74), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 31/49 (63%), Gaps = 1/49 (2%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGR-VKNLRLVRDIVTGASRGYAFVEY 109
++++G L + E+ + +A + G V +++++R+ +TG GY FVE+
Sbjct: 11 SLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEF 59
>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 = 33.1 bits (74), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
++VG L+ + L A +G + ++++ D T RG+AFVE+E
Sbjct: 9 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFE 57
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
++VG L+ + L A +G + ++++ D T RG+AFVE+E
Sbjct: 7 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFE 55
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 33.1 bits (74), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
TV+V L + + L + SKYG+V + +++D T S+G AF+ +
Sbjct: 16 KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILF 65
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 33.1 bits (74), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 31/54 (57%), Gaps = 5/54 (9%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETERE 114
C V+VG L + ++ L +A YG ++++ + R+ G+AFVE+E R+
Sbjct: 74 CKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRD 122
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 33.1 bits (74), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 31/54 (57%), Gaps = 5/54 (9%)
Query: 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETERE 114
C V+VG L + ++ L +A YG ++++ + R+ G+AFVE+E R+
Sbjct: 74 CKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRD 122
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 32.7 bits (73), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 34/60 (56%), Gaps = 9/60 (15%)
Query: 51 GDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
GDP+ + +FV L+ +E+ L K+ S++G+++ ++ ++D YAFV +E
Sbjct: 7 GDPEVMAKVKV-LFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVHFE 57
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 32.7 bits (73), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 30/56 (53%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+++ L T++ L K YG++ + + + D T +GY FV++++ ++A
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKA 63
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 32.3 bits (72), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 65 VGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123
V LS S + L +A S++G V+ +V D G + G FVE+ + R+A E CG
Sbjct: 101 VKNLSPVVSNELLEQAFSQFGPVEKAVVVVDD-RGRATGKGFVEFAAKPPARKALERCG 158
Score = 29.3 bits (64), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 6/52 (11%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYET 111
C +FVG L +E+ ++ +YG + + RD RG+ F+ E+
Sbjct: 22 RCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRLES 67
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 32.3 bits (72), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+FVG L +++ +RK +G + ++R G S+G AFV+++T E + A
Sbjct: 15 LFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRG-PDGTSKGCAFVKFQTHAEAQAA 69
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 32.3 bits (72), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 32/52 (61%), Gaps = 2/52 (3%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVK--NLRLVRDIVTGASRGYAFVEYET 111
T+ + L+ ++ D++ A++ Y + N+R+++D T +RG+AF++ T
Sbjct: 25 TIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLST 76
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 32.0 bits (71), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRR 117
+P T +VG L T + + A+ K ++++RLVRD T +G+ +VE++ ++
Sbjct: 13 EPPYTAYVGNLPFNTVQGDI-DAIFKDLSIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKE 71
Query: 118 A 118
A
Sbjct: 72 A 72
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+F+ L L S +G + + ++V D S+GY FV +ET+ RA E
Sbjct: 13 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIE 69
>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 = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
+F+ L L S +G + + ++V D S+GY FV +ET+ RA E
Sbjct: 7 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIE 63
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 36/68 (52%), Gaps = 12/68 (17%)
Query: 52 DPKAIGDPHCTVFVGRLSHFTSEDTLRKAM-SKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
DP+++ + VF+G L+ + + +A+ SKYG++ + +G+AFV+Y
Sbjct: 10 DPRSM---NSRVFIGNLNTLVVKKSDVEAIFSKYGKI--------VGCSVHKGFAFVQYV 58
Query: 111 TEREMRRA 118
ER R A
Sbjct: 59 NERNARAA 66
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTG--ASRGYAFVEYETER 113
+FVG++ SE LR+ +YG V + ++RD S+G FV + T +
Sbjct: 18 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK 70
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
Length = 88
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTG--ASRGYAFVEYETER 113
+FVG++ SE LR+ +YG V + ++RD S+G FV + T +
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK 58
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTG--ASRGYAFVEYETER 113
+FVG++ SE LR+ +YG V + ++RD S+G FV + T +
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK 58
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 5/52 (9%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETERE 114
V+VG L + L +A S YG ++ + + R+ G+AFVE+E R+
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRD 49
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 30/49 (61%), Gaps = 8/49 (16%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110
+FV L++ +E+ L KA S++G+++ ++ ++D YAF+ ++
Sbjct: 13 VLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFD 53
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 64 FVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTG--ASRGYAFVEYETER 113
FVG++ SE LR+ +YG V + ++RD S+G FV + T +
Sbjct: 7 FVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRK 58
>pdb|4GJI|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant H101n In Complex With L-Rhamnopyranose
pdb|4GJI|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant H101n In Complex With L-Rhamnopyranose
pdb|4GJI|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant H101n In Complex With L-Rhamnopyranose
pdb|4GJI|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant H101n In Complex With L-Rhamnopyranose
pdb|4GJJ|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant H101n In Complex With D-Allopyranose
pdb|4GJJ|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant H101n In Complex With D-Allopyranose
pdb|4GJJ|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant H101n In Complex With D-Allopyranose
pdb|4GJJ|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant H101n In Complex With D-Allopyranose
Length = 438
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 8/72 (11%)
Query: 13 GSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFT 72
G H + GS+ T+ A+ L C G KAIG TV++G S+F
Sbjct: 136 GQAHSYKYGSLSHTNAATRAQAVEHNLECIEIG--------KAIGSKALTVWIGDGSNFP 187
Query: 73 SEDTLRKAMSKY 84
+ +A +Y
Sbjct: 188 GQSNFTRAFERY 199
>pdb|3ITL|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With L-Rhamnulose
pdb|3ITL|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With L-Rhamnulose
pdb|3ITL|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With L-Rhamnulose
pdb|3ITL|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With L-Rhamnulose
pdb|3ITO|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With D-Psicose
pdb|3ITO|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With D-Psicose
pdb|3ITO|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With D-Psicose
pdb|3ITO|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With D-Psicose
Length = 438
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 8/72 (11%)
Query: 13 GSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFT 72
G H + GS+ T+ A+ L C G KAIG TV++G S+F
Sbjct: 136 GQAHSYKYGSLSHTNAATRAQAVEHNLECIEIG--------KAIGSKALTVWIGDGSNFP 187
Query: 73 SEDTLRKAMSKY 84
+ +A +Y
Sbjct: 188 GQSNFTRAFERY 199
>pdb|3ITT|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329k In Complex With L-Rhamnose
pdb|3ITT|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329k In Complex With L-Rhamnose
pdb|3ITT|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329k In Complex With L-Rhamnose
pdb|3ITT|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329k In Complex With L-Rhamnose
pdb|3ITV|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329k In Complex With D-Psicose
pdb|3ITV|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329k In Complex With D-Psicose
pdb|3ITV|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329k In Complex With D-Psicose
pdb|3ITV|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329k In Complex With D-Psicose
Length = 438
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 8/72 (11%)
Query: 13 GSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFT 72
G H + GS+ T+ A+ L C G KAIG TV++G S+F
Sbjct: 136 GQAHSYKYGSLSHTNAATRAQAVEHNLECIEIG--------KAIGSKALTVWIGDGSNFP 187
Query: 73 SEDTLRKAMSKY 84
+ +A +Y
Sbjct: 188 GQSNFTRAFERY 199
>pdb|3M0H|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With L-Rhamnose
pdb|3M0H|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With L-Rhamnose
pdb|3M0H|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With L-Rhamnose
pdb|3M0H|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With L-Rhamnose
pdb|3M0L|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With D-Psicose
pdb|3M0L|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With D-Psicose
pdb|3M0L|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With D-Psicose
pdb|3M0L|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With D-Psicose
pdb|3M0M|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With D-Allose
pdb|3M0M|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With D-Allose
pdb|3M0M|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With D-Allose
pdb|3M0M|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329f In Complex With D-Allose
Length = 438
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 8/72 (11%)
Query: 13 GSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFT 72
G H + GS+ T+ A+ L C G KAIG TV++G S+F
Sbjct: 136 GQAHSYKYGSLSHTNAATRAQAVEHNLECIEIG--------KAIGSKALTVWIGDGSNFP 187
Query: 73 SEDTLRKAMSKY 84
+ +A +Y
Sbjct: 188 GQSNFTRAFERY 199
>pdb|3M0Y|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329a In Complex With L-Rhamnose
pdb|3M0Y|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329a In Complex With L-Rhamnose
pdb|3M0Y|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329a In Complex With L-Rhamnose
pdb|3M0Y|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329a In Complex With L-Rhamnose
Length = 438
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 8/72 (11%)
Query: 13 GSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFT 72
G H + GS+ T+ A+ L C G KAIG TV++G S+F
Sbjct: 136 GQAHSYKYGSLSHTNAATRAQAVEHNLECIEIG--------KAIGSKALTVWIGDGSNFP 187
Query: 73 SEDTLRKAMSKY 84
+ +A +Y
Sbjct: 188 GQSNFTRAFERY 199
>pdb|3M0V|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329l In Complex With L-Rhamnose
pdb|3M0V|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329l In Complex With L-Rhamnose
pdb|3M0V|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329l In Complex With L-Rhamnose
pdb|3M0V|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329l In Complex With L-Rhamnose
pdb|3M0X|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329l In Complex With D-Psicose
pdb|3M0X|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329l In Complex With D-Psicose
pdb|3M0X|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329l In Complex With D-Psicose
pdb|3M0X|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant S329l In Complex With D-Psicose
Length = 438
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 8/72 (11%)
Query: 13 GSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFT 72
G H + GS+ T+ A+ L C G KAIG TV++G S+F
Sbjct: 136 GQAHSYKYGSLSHTNAATRAQAVEHNLECIEIG--------KAIGSKALTVWIGDGSNFP 187
Query: 73 SEDTLRKAMSKY 84
+ +A +Y
Sbjct: 188 GQSNFTRAFERY 199
>pdb|2HCV|A Chain A, Crystal Structure Of L-Rhamnose Isomerase From Pseudomonas
Stutzeri With Metal Ion
pdb|2HCV|B Chain B, Crystal Structure Of L-Rhamnose Isomerase From Pseudomonas
Stutzeri With Metal Ion
pdb|2HCV|C Chain C, Crystal Structure Of L-Rhamnose Isomerase From Pseudomonas
Stutzeri With Metal Ion
pdb|2HCV|D Chain D, Crystal Structure Of L-Rhamnose Isomerase From Pseudomonas
Stutzeri With Metal Ion
pdb|2I56|A Chain A, Crystal Structure Of L-Rhamnose Isomerase From Pseudomonas
Stutzeri With L-Rhamnose
pdb|2I56|B Chain B, Crystal Structure Of L-Rhamnose Isomerase From Pseudomonas
Stutzeri With L-Rhamnose
pdb|2I56|C Chain C, Crystal Structure Of L-Rhamnose Isomerase From Pseudomonas
Stutzeri With L-Rhamnose
pdb|2I56|D Chain D, Crystal Structure Of L-Rhamnose Isomerase From Pseudomonas
Stutzeri With L-Rhamnose
pdb|2I57|A Chain A, Crystal Structure Of L-rhamnose Isomerase From Pseudomonas
Stutzeri In Complex With D-allose
pdb|2I57|B Chain B, Crystal Structure Of L-rhamnose Isomerase From Pseudomonas
Stutzeri In Complex With D-allose
pdb|2I57|C Chain C, Crystal Structure Of L-rhamnose Isomerase From Pseudomonas
Stutzeri In Complex With D-allose
pdb|2I57|D Chain D, Crystal Structure Of L-rhamnose Isomerase From Pseudomonas
Stutzeri In Complex With D-allose
pdb|3ITX|A Chain A, Mn2+ Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3ITX|B Chain B, Mn2+ Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3ITX|C Chain C, Mn2+ Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3ITX|D Chain D, Mn2+ Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3ITY|A Chain A, Metal-Free Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3ITY|B Chain B, Metal-Free Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3ITY|C Chain C, Metal-Free Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3ITY|D Chain D, Metal-Free Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUD|A Chain A, Cu2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUD|B Chain B, Cu2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUD|C Chain C, Cu2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUD|D Chain D, Cu2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUH|A Chain A, Co2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUH|B Chain B, Co2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUH|C Chain C, Co2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUH|D Chain D, Co2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUI|A Chain A, Zn2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUI|B Chain B, Zn2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUI|C Chain C, Zn2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
pdb|3IUI|D Chain D, Zn2+-Bound Form Of Pseudomonas Stutzeri L-Rhamnose
Isomerase
Length = 438
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 8/72 (11%)
Query: 13 GSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFT 72
G H + GS+ T+ A+ L C G KAIG TV++G S+F
Sbjct: 136 GQAHSYKYGSLSHTNAATRAQAVEHNLECIEIG--------KAIGSKALTVWIGDGSNFP 187
Query: 73 SEDTLRKAMSKY 84
+ +A +Y
Sbjct: 188 GQSNFTRAFERY 199
>pdb|1BJW|A Chain A, Aspartate Aminotransferase From Thermus Thermophilus
pdb|1BJW|B Chain B, Aspartate Aminotransferase From Thermus Thermophilus
Length = 382
Score = 30.0 bits (66), Expect = 0.30, Method: Composition-based stats.
Identities = 12/21 (57%), Positives = 17/21 (80%)
Query: 67 RLSHFTSEDTLRKAMSKYGRV 87
RLS+ TSE+ LRKA+ ++ RV
Sbjct: 361 RLSYATSEENLRKALERFARV 381
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYET 111
DP +++ L E L + +G+V + R++RD +G SRG F E+
Sbjct: 24 DP-TNLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMES 75
>pdb|1BKG|A Chain A, Aspartate Aminotransferase From Thermus Thermophilus With
Maleate
pdb|1BKG|B Chain B, Aspartate Aminotransferase From Thermus Thermophilus With
Maleate
pdb|1BKG|C Chain C, Aspartate Aminotransferase From Thermus Thermophilus With
Maleate
pdb|1BKG|D Chain D, Aspartate Aminotransferase From Thermus Thermophilus With
Maleate
Length = 385
Score = 30.0 bits (66), Expect = 0.32, Method: Composition-based stats.
Identities = 12/21 (57%), Positives = 17/21 (80%)
Query: 67 RLSHFTSEDTLRKAMSKYGRV 87
RLS+ TSE+ LRKA+ ++ RV
Sbjct: 361 RLSYATSEENLRKALERFARV 381
>pdb|1B5O|A Chain A, Thermus Thermophilus Aspartate Aminotransferase Single
Mutant 1
pdb|1B5O|B Chain B, Thermus Thermophilus Aspartate Aminotransferase Single
Mutant 1
Length = 385
Score = 30.0 bits (66), Expect = 0.32, Method: Composition-based stats.
Identities = 12/21 (57%), Positives = 17/21 (80%)
Query: 67 RLSHFTSEDTLRKAMSKYGRV 87
RLS+ TSE+ LRKA+ ++ RV
Sbjct: 361 RLSYATSEENLRKALERFARV 381
>pdb|5BJ3|A Chain A, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 1
pdb|5BJ3|B Chain B, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 1
pdb|5BJ3|C Chain C, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 1
pdb|5BJ3|D Chain D, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 1
Length = 385
Score = 30.0 bits (66), Expect = 0.32, Method: Composition-based stats.
Identities = 12/21 (57%), Positives = 17/21 (80%)
Query: 67 RLSHFTSEDTLRKAMSKYGRV 87
RLS+ TSE+ LRKA+ ++ RV
Sbjct: 361 RLSYATSEENLRKALERFARV 381
>pdb|1GCK|A Chain A, Thermus Thermophilus Aspartate Aminotransferase Double
Mutant 1 Complexed With Aspartate
pdb|1GCK|B Chain B, Thermus Thermophilus Aspartate Aminotransferase Double
Mutant 1 Complexed With Aspartate
pdb|1B5P|A Chain A, Thermus Thermophilus Aspartate Aminotransferase Double
Mutant 1
pdb|1B5P|B Chain B, Thermus Thermophilus Aspartate Aminotransferase Double
Mutant 1
Length = 385
Score = 30.0 bits (66), Expect = 0.32, Method: Composition-based stats.
Identities = 12/21 (57%), Positives = 17/21 (80%)
Query: 67 RLSHFTSEDTLRKAMSKYGRV 87
RLS+ TSE+ LRKA+ ++ RV
Sbjct: 361 RLSYATSEENLRKALERFARV 381
>pdb|1GC3|A Chain A, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Tryptophan
pdb|1GC3|B Chain B, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Tryptophan
pdb|1GC3|C Chain C, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Tryptophan
pdb|1GC3|D Chain D, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Tryptophan
pdb|1GC3|E Chain E, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Tryptophan
pdb|1GC3|F Chain F, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Tryptophan
pdb|1GC3|G Chain G, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Tryptophan
pdb|1GC3|H Chain H, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Tryptophan
pdb|1GC4|A Chain A, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Aspartate
pdb|1GC4|B Chain B, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Aspartate
pdb|1GC4|C Chain C, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Aspartate
pdb|1GC4|D Chain D, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2 Complexed With Aspartate
pdb|5BJ4|A Chain A, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2
pdb|5BJ4|B Chain B, Thermus Thermophilus Aspartate Aminotransferase Tetra
Mutant 2
Length = 385
Score = 30.0 bits (66), Expect = 0.32, Method: Composition-based stats.
Identities = 12/21 (57%), Positives = 17/21 (80%)
Query: 67 RLSHFTSEDTLRKAMSKYGRV 87
RLS+ TSE+ LRKA+ ++ RV
Sbjct: 361 RLSYATSEENLRKALERFARV 381
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 30.0 bits (66), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+FVG L+ SE+ + + +G + ++R G+S+G AFV++ + E + A
Sbjct: 18 LFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRG-PDGSSKGCAFVKFSSHTEAQAA 72
>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 = 29.6 bits (65), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 12/48 (25%), Positives = 27/48 (56%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
+V+VG + + ++ L S G + + ++ D +G +GYA++E+
Sbjct: 38 SVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEF 85
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYET 111
+FVG L +E+ +RK KYG+ + + +D +G+ F+ ET
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLET 67
>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 = 29.6 bits (65), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYET 111
+FVG L +E+ +RK KYG+ + + +D +G+ F+ ET
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLET 60
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 29.6 bits (65), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 27/48 (56%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
TVF +L+ L S G+V+++R++ D + S+G A+VE+
Sbjct: 27 TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEF 74
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 28/65 (43%), Gaps = 9/65 (13%)
Query: 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRG---YAFVEYETER 113
G+ C ++VG L + KYG +RDI RG +AFVE+E R
Sbjct: 19 GNNDCRIYVGNLPPDIRTKDIEDVFYKYG------AIRDIDLKNRRGGPPFAFVEFEDPR 72
Query: 114 EMRRA 118
+ A
Sbjct: 73 DAEDA 77
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 4/37 (10%)
Query: 76 TLRKAM----SKYGRVKNLRLVRDIVTGASRGYAFVE 108
L+KA+ SK G+V N+ D TG ++G+ FVE
Sbjct: 24 VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVE 60
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 4/37 (10%)
Query: 76 TLRKAM----SKYGRVKNLRLVRDIVTGASRGYAFVE 108
L+KA+ SK G+V N+ D TG ++G+ FVE
Sbjct: 24 VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVE 60
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 28.9 bits (63), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 8/56 (14%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
+FVG +S + LR + GRV +V+D YAFV E E + + A
Sbjct: 12 IFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAA 59
>pdb|2DIS|A Chain A, Solution Structure Of The Rrm Domain Of Unnamed Protein
Product
Length = 109
Score = 28.5 bits (62), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 12/61 (19%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGAS-------RGYAFVEYETE 112
+C +F+G + + + + ++K V D++ AS RG+AFVEYE+
Sbjct: 8 NCRLFIGGIPKMKKREEILEEIAKV-----TEGVLDVIVYASAADKMKNRGFAFVEYESH 62
Query: 113 R 113
R
Sbjct: 63 R 63
>pdb|2ID4|A Chain A, The 1.9 A Structure Of Kex2 In Complex With An
Ac-R-E-R-K-Chloromethyl Ketone Inhibitor.
pdb|2ID4|B Chain B, The 1.9 A Structure Of Kex2 In Complex With An
Ac-R-E-R-K-Chloromethyl Ketone Inhibitor
Length = 503
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 3 GNNINSVFYAGSYHPIQAGSIDGTDIHPHDNAICRALLC 41
G+N N Y S + I G+ID D+HP + C A++
Sbjct: 206 GDNCNYDGYTNSIYSITIGAIDHKDLHPPYSEGCSAVMA 244
>pdb|1R64|A Chain A, The 2.2 A Crystal Structure Of Kex2 Protease In Complex
With Ac-Arg- Glu-Lys-Boroarg Peptidyl Boronic Acid
Inhibitor
pdb|1R64|B Chain B, The 2.2 A Crystal Structure Of Kex2 Protease In Complex
With Ac-Arg- Glu-Lys-Boroarg Peptidyl Boronic Acid
Inhibitor
Length = 481
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 3 GNNINSVFYAGSYHPIQAGSIDGTDIHPHDNAICRALLC 41
G+N N Y S + I G+ID D+HP + C A++
Sbjct: 199 GDNCNYDGYTNSIYSITIGAIDHKDLHPPYSEGCSAVMA 237
>pdb|1OT5|A Chain A, The 2.4 Angstrom Crystal Sructure Of Kex2 In Complex With
A Peptidyl- Boronic Acid Inhibitor
pdb|1OT5|B Chain B, The 2.4 Angstrom Crystal Sructure Of Kex2 In Complex With
A Peptidyl- Boronic Acid Inhibitor
Length = 477
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 3 GNNINSVFYAGSYHPIQAGSIDGTDIHPHDNAICRALLC 41
G+N N Y S + I G+ID D+HP + C A++
Sbjct: 197 GDNCNYDGYTNSIYSITIGAIDHKDLHPPYSEGCSAVMA 235
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 5/59 (8%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
T+ L + ++D L++ + RLV G S+G A++E++TE + + +E
Sbjct: 95 TLLAKNLPYKVTQDELKEVFEDAAEI---RLVSK--DGKSKGIAYIEFKTEADAEKTFE 148
>pdb|1QO8|A Chain A, The Structure Of The Open Conformation Of A
Flavocytochrome C3 Fumarate Reductase
pdb|1QO8|D Chain D, The Structure Of The Open Conformation Of A
Flavocytochrome C3 Fumarate Reductase
Length = 566
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 21/48 (43%), Gaps = 4/48 (8%)
Query: 13 GSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPH 60
GS A I TD H+NA C+ S G Y L + K DPH
Sbjct: 13 GSCQSCHAKPIKVTDSETHENAQCK----SCHGEYAELANDKLQFDPH 56
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETERE 114
T ++G + HF +E L +G + D +G F++Y+T +
Sbjct: 29 TAYIGNIPHFATEADLIPLFQNFG------FILDFKHYPEKGCCFIKYDTHEQ 75
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical
Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens
At 1.95 A Resolution
Length = 89
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/55 (20%), Positives = 29/55 (52%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMR 116
+++VG + + + + L G V + ++ D +G +G+A++E+ + +R
Sbjct: 8 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 62
>pdb|2D9O|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj10634
Length = 100
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 73 SEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120
S+D L + + KYG V NL +++ G A VE+ T + A +
Sbjct: 30 SKDVLLRLLQKYGEVLNL-----VLSSKKPGTAVVEFATVKAAELAVQ 72
>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 = 26.9 bits (58), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 24/54 (44%)
Query: 65 VGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
V L ++ + + +G ++ LV TG S+GY F EY + RA
Sbjct: 98 VANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 26.9 bits (58), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 24/54 (44%)
Query: 65 VGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
V L ++ + + +G ++ LV TG S+GY F EY + RA
Sbjct: 100 VANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 24/54 (44%)
Query: 65 VGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRA 118
V L ++ + + +G ++ LV TG S+GY F EY + RA
Sbjct: 100 VANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122
VFVGR + + + L++ +YG V ++ + + R +AFV + + + A +C
Sbjct: 14 VFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPF-----RAFAFVTFADD---KVAQSLC 65
Query: 123 G 123
G
Sbjct: 66 G 66
>pdb|1NR9|A Chain A, Crystal Structure Of Escherichia Coli 1262 (Apc5008),
Putative Isomerase
pdb|1NR9|B Chain B, Crystal Structure Of Escherichia Coli 1262 (Apc5008),
Putative Isomerase
pdb|1NR9|C Chain C, Crystal Structure Of Escherichia Coli 1262 (Apc5008),
Putative Isomerase
pdb|1NR9|D Chain D, Crystal Structure Of Escherichia Coli 1262 (Apc5008),
Putative Isomerase
Length = 223
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 46 LYDPLGDPKAIGDPH----CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDI 96
L PL P G H V +G +E+ +RKA++ YG +L L RD+
Sbjct: 56 LRQPLAIPSDFGSVHHEVELAVLIGATLRQATEEHVRKAIAGYGVALDLTL-RDV 109
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 28/56 (50%)
Query: 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETE 112
G+P+ +++ LS +E L +++ K + ++TG RG AF+ + +
Sbjct: 22 GEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNK 77
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/55 (20%), Positives = 29/55 (52%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMR 116
+++VG + + + + L G V + ++ D +G +G+A++E+ + +R
Sbjct: 7 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 61
>pdb|2AD9|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd1 Complexed With Cucucu Rna
Length = 119
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 6/63 (9%)
Query: 50 LGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109
+GD ++ G P + + +L +E + +G+V NL +++ + AF+E
Sbjct: 21 MGDSRSAGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLK------GKNQAFIEM 74
Query: 110 ETE 112
TE
Sbjct: 75 NTE 77
>pdb|2AP1|A Chain A, Crystal Structure Of The Putative Regulatory Protein
Length = 327
Score = 25.4 bits (54), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 27/63 (42%), Gaps = 5/63 (7%)
Query: 50 LGDPKAIGDPHCTVFVGRLSHFTSEDT-----LRKAMSKYGRVKNLRLVRDIVTGASRGY 104
LG+ I DP V G LS+FT+ T L + + R + R G RG
Sbjct: 261 LGNILTIVDPDLLVIGGGLSNFTAITTQLAERLPRHLLPVARAPRIERARHGDAGGMRGA 320
Query: 105 AFV 107
AF+
Sbjct: 321 AFL 323
>pdb|2CQ2|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Loc91801
Length = 114
Score = 25.4 bits (54), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 6/54 (11%)
Query: 66 GRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119
G L + S + L + K G LV ++ ++ Y+F Y T E +RAY
Sbjct: 33 GGLGNGVSRNQLLPVLEKCG------LVDALLMPPNKPYSFARYRTTEESKRAY 80
>pdb|2AHS|A Chain A, Crystal Structure Of The Catalytic Domain Of Human
Tyrosine Receptor Phosphatase Beta
pdb|2AHS|B Chain B, Crystal Structure Of The Catalytic Domain Of Human
Tyrosine Receptor Phosphatase Beta
Length = 295
Score = 25.4 bits (54), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 60 HCTVFVGRLSHFTSEDTLRKAMSK------YGRVKNLRLVRDIVTGASRGYAFVEYETER 113
HC+ VGR F + D + + + YG V +LRL R + Y ++ ++ R
Sbjct: 227 HCSAGVGRTGTFIALDRILQQLDSKDSVDIYGAVHDLRLHRVHMVQTECQYVYL-HQCVR 285
Query: 114 EMRRA 118
++ RA
Sbjct: 286 DVLRA 290
>pdb|3THP|A Chain A, Crystal Structure And Rna Binding Properties Of The
RrmALKB DOMAINS In Human Abh8, An Enzyme Catalyzing Trna
Hypermodification, Northeast Structural Genomics
Consortium Target Hr5601b
Length = 345
Score = 25.4 bits (54), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 6/54 (11%)
Query: 66 GRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119
G L + S + L + K G LV ++ ++ Y+F Y T E +RAY
Sbjct: 26 GGLGNGVSRNQLLPVLEKCG------LVDALLXPPNKPYSFARYRTTEESKRAY 73
>pdb|1X4F|A Chain A, Solution Structure Of The Second Rrm Domain In Matrin 3
Length = 112
Score = 25.0 bits (53), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 13/65 (20%)
Query: 65 VGRLSHFT-------SEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRR 117
+GR+ H + S+ + K YG++KN L+R + AF+E ET +
Sbjct: 24 LGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR------MKSQAFIEMETREDAMA 77
Query: 118 AYEVC 122
+ C
Sbjct: 78 MVDHC 82
>pdb|1Q50|A Chain A, Phosphoglucose Isomerase From Leishmania Mexicana
Length = 561
Score = 25.0 bits (53), Expect = 9.6, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 26/60 (43%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121
T+F+ FT+++TL AMS + + I T + FV T E R + +
Sbjct: 208 TIFIIASKTFTTQETLTNAMSARNALMSYLKENGISTDGAVAKHFVALSTNTEKVREFGI 267
>pdb|1T10|A Chain A, Phosphoglucose Isomerase From Leishmania Mexicana In
Complex With Substrate D-Fructose-6-Phosphate
Length = 605
Score = 25.0 bits (53), Expect = 9.6, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 26/60 (43%)
Query: 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121
T+F+ FT+++TL AMS + + I T + FV T E R + +
Sbjct: 251 TIFIIASKTFTTQETLTNAMSARNALMSYLKENGISTDGAVAKHFVALSTNTEKVREFGI 310
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
0.321 0.137 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,945,062
Number of Sequences: 62578
Number of extensions: 151519
Number of successful extensions: 517
Number of sequences better than 100.0: 177
Number of HSP's better than 100.0 without gapping: 145
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 337
Number of HSP's gapped (non-prelim): 201
length of query: 123
length of database: 14,973,337
effective HSP length: 85
effective length of query: 38
effective length of database: 9,654,207
effective search space: 366859866
effective search space used: 366859866
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)