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= 043164
(1049 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 65.5 bits (158), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 38/91 (41%), Positives = 57/91 (62%), Gaps = 3/91 (3%)
Query: 436 PLGKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLH 495
PLG + ++ P L V GL Y E LR FSK+ PI D+ +V D+ + SRGFAF++
Sbjct: 2 PLGSR-ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVY 60
Query: 496 FHSVEDASKALEATNGTTLEKNGQILRVAYA 526
F +V+DA +A E NG +E +G+ +RV ++
Sbjct: 61 FENVDDAKEAKERANG--MELDGRRIRVDFS 89
Score = 56.6 bits (135), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 52/81 (64%), Gaps = 2/81 (2%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAM 344
P+ + V GLS TTE DL ++ +++GP+ V ++ ++ S SRGFAF+ F +V A+
Sbjct: 11 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 70
Query: 345 MDRIGDDGLVVDGRKLFFEYS 365
+R +G+ +DGR++ ++S
Sbjct: 71 KERA--NGMELDGRRIRVDFS 89
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 65.1 bits (157), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 35/79 (44%), Positives = 50/79 (63%), Gaps = 2/79 (2%)
Query: 446 PTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKA 505
P L V GL Y E LR FSK+ PI D+ +V D+ + SRGFAF++F +V+DA +A
Sbjct: 14 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Query: 506 LEATNGTTLEKNGQILRVA 524
E NG +E +G+ +RV+
Sbjct: 74 KERANG--MELDGRRIRVS 90
Score = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 49/76 (64%), Gaps = 2/76 (2%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAM 344
P+ + V GLS TTE DL ++ +++GP+ V ++ ++ S SRGFAF+ F +V A+
Sbjct: 14 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Query: 345 MDRIGDDGLVVDGRKL 360
+R +G+ +DGR++
Sbjct: 74 KERA--NGMELDGRRI 87
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 64.3 bits (155), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 35/81 (43%), Positives = 51/81 (62%), Gaps = 2/81 (2%)
Query: 446 PTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKA 505
P L V GL Y E LR FSK+ PI D+ +V D+ + SRGFAF++F +V+DA +A
Sbjct: 14 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Query: 506 LEATNGTTLEKNGQILRVAYA 526
E NG +E +G+ +RV ++
Sbjct: 74 KERANG--MELDGRRIRVDFS 92
Score = 57.4 bits (137), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 52/81 (64%), Gaps = 2/81 (2%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAM 344
P+ + V GLS TTE DL ++ +++GP+ V ++ ++ S SRGFAF+ F +V A+
Sbjct: 14 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Query: 345 MDRIGDDGLVVDGRKLFFEYS 365
+R +G+ +DGR++ ++S
Sbjct: 74 KERA--NGMELDGRRIRVDFS 92
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 63.5 bits (153), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 35/81 (43%), Positives = 51/81 (62%), Gaps = 2/81 (2%)
Query: 446 PTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKA 505
P L V GL Y E LR FSK+ PI D+ +V D+ + SRGFAF++F +V+DA +A
Sbjct: 45 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 104
Query: 506 LEATNGTTLEKNGQILRVAYA 526
E NG +E +G+ +RV ++
Sbjct: 105 KERANG--MELDGRRIRVDFS 123
Score = 56.6 bits (135), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 52/81 (64%), Gaps = 2/81 (2%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAM 344
P+ + V GLS TTE DL ++ +++GP+ V ++ ++ S SRGFAF+ F +V A+
Sbjct: 45 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 104
Query: 345 MDRIGDDGLVVDGRKLFFEYS 365
+R +G+ +DGR++ ++S
Sbjct: 105 KERA--NGMELDGRRIRVDFS 123
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 59.3 bits (142), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 49/78 (62%), Gaps = 3/78 (3%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L + GL+ +E+ML+ F KH PI ++ L++D+ T SRGFAF+ F + DA A +
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKDM 68
Query: 510 NGTTLEKNGQILRVAYAK 527
NG +L +G+ ++V AK
Sbjct: 69 NGKSL--HGKAIKVEQAK 84
Score = 49.7 bits (117), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 50/88 (56%), Gaps = 3/88 (3%)
Query: 287 GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
G + + GL+++T E+ L + + GP+ V +IK+R S SRGFAFI F + A+
Sbjct: 8 GKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSK-SRGFAFITFENPADAKNAAK 66
Query: 347 RIGDDGLVVDGRKLFFEYSSKPTGGSGG 374
+ +G + G+ + E + KP+ SGG
Sbjct: 67 DM--NGKSLHGKAIKVEQAKKPSFQSGG 92
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 54.3 bits (129), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 47/77 (61%), Gaps = 2/77 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L V GL +E+ L FSK+ I ++ +V+D+ T SRGF F+ F +++DA A+ A
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 510 NGTTLEKNGQILRVAYA 526
NG +++ G+ +RV A
Sbjct: 75 NGKSVD--GRQIRVDQA 89
Score = 53.5 bits (127), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 49/83 (59%), Gaps = 2/83 (2%)
Query: 287 GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
G + V GLS T E+ L Q+ +++G + V V+K+R + SRGF F+ F ++ A+ M
Sbjct: 13 GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAM- 71
Query: 347 RIGDDGLVVDGRKLFFEYSSKPT 369
+ +G VDGR++ + + K +
Sbjct: 72 -MAMNGKSVDGRQIRVDQAGKSS 93
>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 = 54.3 bits (129), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 44/78 (56%), Gaps = 2/78 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L V L + LR F K+ + D+ + RD++T SRGFAF+ FH DA A++A
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 510 NGTTLEKNGQILRVAYAK 527
+G L +G+ LRV A+
Sbjct: 110 DGAVL--DGRELRVQMAR 125
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 43/73 (58%), Gaps = 2/73 (2%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDR 347
++ V L+ +T+ + L ++ ++G + V + ++R + SRGFAF+ F A MD
Sbjct: 49 SLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDA 108
Query: 348 IGDDGLVVDGRKL 360
+ DG V+DGR+L
Sbjct: 109 M--DGAVLDGREL 119
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 53.1 bits (126), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 34/84 (40%), Positives = 53/84 (63%), Gaps = 6/84 (7%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAM 344
PS T+ VKGLS+ TTEE L + G +R R++ +R +G S+GF F+DF S A+A
Sbjct: 14 PSKTLFVKGLSEDTTEETLKESFD--GSVR-ARIVTDRETGSSKGFGFVDFNSEEDAKAA 70
Query: 345 MDRIGDDGLVVDGRKLFFEYSSKP 368
+ + +DG +DG K+ ++ +KP
Sbjct: 71 KEAM-EDG-EIDGNKVTLDW-AKP 91
Score = 47.4 bits (111), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 40/82 (48%), Gaps = 3/82 (3%)
Query: 446 PTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKA 505
P+ L V+GL E EE L+ F R+V D+ T S+GF F+ F+S EDA A
Sbjct: 14 PSKTLFVKGLSEDTTEETLKESFDGSVRA---RIVTDRETGSSKGFGFVDFNSEEDAKAA 70
Query: 506 LEATNGTTLEKNGQILRVAYAK 527
EA ++ N L A K
Sbjct: 71 KEAMEDGEIDGNKVTLDWAKPK 92
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 52.8 bits (125), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 41/66 (62%), Gaps = 2/66 (3%)
Query: 462 EMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTTLEKNGQIL 521
+ LR F K+ + D+ + RD++T SRGFAF+ FH DA A++A +G L +G+ L
Sbjct: 85 DTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVL--DGREL 142
Query: 522 RVAYAK 527
RV A+
Sbjct: 143 RVQMAR 148
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 43/73 (58%), Gaps = 2/73 (2%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDR 347
++ V L+ +T+ + L ++ ++G + V + ++R + SRGFAF+ F A MD
Sbjct: 72 SLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDA 131
Query: 348 IGDDGLVVDGRKL 360
+ DG V+DGR+L
Sbjct: 132 M--DGAVLDGREL 142
>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 = 48.9 bits (115), Expect = 1e-05, Method: Composition-based stats.
Identities = 32/87 (36%), Positives = 45/87 (51%), Gaps = 2/87 (2%)
Query: 441 GSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVE 500
GS VL V GL E D+++L F I D+++ D T RGFAF+ F E
Sbjct: 1 GSMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 60
Query: 501 DASKALEATNGTTLEKNGQILRVAYAK 527
DA+ A++ N + L G+ +RV AK
Sbjct: 61 DAAAAIDNMNESEL--FGRTIRVNLAK 85
Score = 30.0 bits (66), Expect = 7.5, Method: Composition-based stats.
Identities = 15/65 (23%), Positives = 34/65 (52%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V GL+++ ++ L+ +G + +++ + + RGFAF++F A A +D +
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 349 GDDGL 353
+ L
Sbjct: 70 NESEL 74
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 48.9 bits (115), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 43/80 (53%), Gaps = 4/80 (5%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L+V + DE LR F ++ PI+ +++V D+ T SRG+ F+ F S A +A+
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 510 NG-TTLEKNGQILRVAYAKS 528
NG L K L+VA A S
Sbjct: 105 NGFNILNKR---LKVALAAS 121
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
++V + E L Q+ +GP+ V+++ +R + SRG+ F+ F S +A+ +
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIA-- 102
Query: 349 GDDGLVVDGRKL 360
G +G + ++L
Sbjct: 103 GLNGFNILNKRL 114
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 47.8 bits (112), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
VL V GL E D+++L F I D+++ D T RGFAF+ F EDA+ A++
Sbjct: 14 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 73
Query: 509 TNGTTLEKNGQILRVAYAK 527
N + L G+ +RV AK
Sbjct: 74 MNESEL--FGRTIRVNLAK 90
Score = 29.6 bits (65), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 34/66 (51%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDR 347
+ V GL+++ ++ L+ +G + +++ + + RGFAF++F A A +D
Sbjct: 14 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 73
Query: 348 IGDDGL 353
+ + L
Sbjct: 74 MNESEL 79
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 47.8 bits (112), Expect = 4e-05, Method: Composition-based stats.
Identities = 30/79 (37%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
VL V GL E D+++L F I D+++ D T RGFAF+ F EDA+ A++
Sbjct: 7 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66
Query: 509 TNGTTLEKNGQILRVAYAK 527
N + L G+ +RV AK
Sbjct: 67 MNESEL--FGRTIRVNLAK 83
Score = 29.6 bits (65), Expect = 8.5, Method: Composition-based stats.
Identities = 15/65 (23%), Positives = 34/65 (52%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V GL+++ ++ L+ +G + +++ + + RGFAF++F A A +D +
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 349 GDDGL 353
+ L
Sbjct: 68 NESEL 72
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 47.0 bits (110), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 42/90 (46%), Gaps = 2/90 (2%)
Query: 438 GKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFH 497
G G D L V L + LR F K+ + D+ + R+ T RGFAF+ FH
Sbjct: 4 GSSGPDVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFH 63
Query: 498 SVEDASKALEATNGTTLEKNGQILRVAYAK 527
DA A A +G L +G+ LRV A+
Sbjct: 64 DRRDAQDAEAAMDGAEL--DGRELRVQVAR 91
Score = 34.3 bits (77), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 40/76 (52%), Gaps = 8/76 (10%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF---PSVGAARAM 344
T+ V L+ +T+ + L ++ ++G + V + +E ++ RGFAF+ F A A
Sbjct: 15 TLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAA 74
Query: 345 MDRIGDDGLVVDGRKL 360
M DG +DGR+L
Sbjct: 75 M-----DGAELDGREL 85
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 46.6 bits (109), Expect = 6e-05, Method: Composition-based stats.
Identities = 29/78 (37%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
VL V GL E D+++L F I D+++ D T RGFAF+ F EDA+ A++
Sbjct: 65 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 124
Query: 509 TNGTTLEKNGQILRVAYA 526
N + L G+ +RV A
Sbjct: 125 MNESEL--FGRTIRVNLA 140
Score = 30.4 bits (67), Expect = 5.9, Method: Composition-based stats.
Identities = 15/65 (23%), Positives = 34/65 (52%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V GL+++ ++ L+ +G + +++ + + RGFAF++F A A +D +
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 349 GDDGL 353
+ L
Sbjct: 126 NESEL 130
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 46.6 bits (109), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 49/103 (47%), Gaps = 11/103 (10%)
Query: 425 PPAEMNSSNPIPLGKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKF 484
P MN S P + P L V L E ML +FS PI +R+ RD
Sbjct: 2 PLGSMNPSAP---------SYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMI 52
Query: 485 THVSRGFAFLHFHSVEDASKALEATNGTTLEKNGQILRVAYAK 527
T S G+A+++F DA +AL+ N ++ G+ +R+ +++
Sbjct: 53 TRRSLGYAYVNFQQPADAERALDTMNFDVIK--GKPVRIMWSQ 93
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
+ ++ LD+ D + L FS I ++V D+ + S+G+ F+HF + E A +A+E
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 163
Query: 510 NGTTL 514
NG L
Sbjct: 164 NGMLL 168
Score = 38.5 bits (88), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 50/99 (50%), Gaps = 11/99 (11%)
Query: 287 GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
G I +K L + + LY + +G + +V+ + N S+G+ F+ F + AA ++
Sbjct: 104 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIE 161
Query: 347 RIGDDGLVVDGRKLFFEYSSKPTGGSGGHYGQESAMGAR 385
++ +G++++ RK+F G +E+ +GAR
Sbjct: 162 KM--NGMLLNDRKVF-------VGRFKSRKEREAELGAR 191
Score = 36.2 bits (82), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 41/83 (49%), Gaps = 2/83 (2%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAM 344
P ++ V L TE LY+ + GP+ +RV ++ + S G+A+++F A
Sbjct: 14 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 73
Query: 345 MDRIGDDGLVVDGRKLFFEYSSK 367
+D + D V+ G+ + +S +
Sbjct: 74 LDTMNFD--VIKGKPVRIMWSQR 94
>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 = 46.2 bits (108), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 52/81 (64%), Gaps = 2/81 (2%)
Query: 447 THVLVVRGLDEYADEEMLRYEFSKH-APIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKA 505
++++++R L + A E+ +R + H +++RL+R+K + SRGFAF+ F ++DA++
Sbjct: 1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRW 60
Query: 506 LEATNGTTLEKNGQILRVAYA 526
+EA N +L GQ + + Y+
Sbjct: 61 MEA-NQHSLNILGQKVSMHYS 80
Score = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 46/81 (56%), Gaps = 2/81 (2%)
Query: 286 SGTIVVKGLSQKTTEEDLY-QILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAM 344
S ++++ L Q TE+D+ Q+ + R VR+++ ++SG SRGFAF++F + A
Sbjct: 1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRW 60
Query: 345 MDRIGDDGLVVDGRKLFFEYS 365
M+ L + G+K+ YS
Sbjct: 61 ME-ANQHSLNILGQKVSMHYS 80
>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 = 46.2 bits (108), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 32/120 (26%), Positives = 61/120 (50%), Gaps = 9/120 (7%)
Query: 284 APSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARA 343
A + ++V L Q T+ +LY + GP+ R+ ++ +G S G+AF+DF S ++
Sbjct: 12 ASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQR 71
Query: 344 MMDRIGDDGLVVDGRKLFFEYSSKPTGGSGGHYGQESAMGARHSNHKSTIPCDWMCTICG 403
+ + +G+ V ++L Y ++P GG +++ + +N TI D + TI G
Sbjct: 72 AIKVL--NGITVRNKRLKVSY-ARP----GGESIKDTNLYV--TNLPRTITDDQLDTIFG 122
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L+V L + + L F PI R+ RD T S G+AF+ F S D+ +A++
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 510 NGTTLEKNGQILRVAYAK 527
NG T+ + L+V+YA+
Sbjct: 77 NGITVR--NKRLKVSYAR 92
Score = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 42/92 (45%), Gaps = 4/92 (4%)
Query: 436 PLGKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLH 495
P G+ DT L V L ++ L F K+ I ++RDK T RG AF+
Sbjct: 93 PGGESIKDTN----LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVR 148
Query: 496 FHSVEDASKALEATNGTTLEKNGQILRVAYAK 527
++ E+A +A+ A N E Q L V A+
Sbjct: 149 YNKREEAQEAISALNNVIPEGGSQPLSVRLAE 180
>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 = 45.8 bits (107), Expect = 1e-04, Method: Composition-based stats.
Identities = 29/78 (37%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
VL V GL E D+++L F I D+++ D T RGFAF+ F EDA+ A++
Sbjct: 4 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 63
Query: 509 TNGTTLEKNGQILRVAYA 526
N + L G+ +RV A
Sbjct: 64 MNESEL--FGRTIRVNLA 79
Score = 30.0 bits (66), Expect = 7.6, Method: Composition-based stats.
Identities = 15/65 (23%), Positives = 34/65 (52%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V GL+++ ++ L+ +G + +++ + + RGFAF++F A A +D +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 349 GDDGL 353
+ L
Sbjct: 65 NESEL 69
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 43/86 (50%), Gaps = 10/86 (11%)
Query: 442 SDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVED 501
S VL VR L EE+L FS+ ++ ++ ++D +AF+HF +
Sbjct: 6 SGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDG 57
Query: 502 ASKALEATNGTTLEKNGQILRVAYAK 527
A KA+E NG LE G+ + + +AK
Sbjct: 58 AVKAMEEMNGKDLE--GENIEIVFAK 81
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 45.4 bits (106), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L+V L + +E R F I+ +LVRDK T S G+ F+++ +DA KA+
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 510 NGTTLEKNGQILRVAYAK 527
NG L+ + ++V+YA+
Sbjct: 65 NGLRLQT--KTIKVSYAR 80
Score = 37.4 bits (85), Expect = 0.042, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 39/77 (50%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L V GL + ++ L FS++ I R++ D+ T VSRG F+ F +A +A++
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 510 NGTTLEKNGQILRVAYA 526
NG + + V +A
Sbjct: 151 NGQKPSGATEPITVKFA 167
Score = 37.4 bits (85), Expect = 0.046, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 31/49 (63%)
Query: 287 GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
+ V GL + T+++L Q+ +++G + R++ ++ +GVSRG FI F
Sbjct: 89 ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRF 137
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 40/71 (56%), Gaps = 6/71 (8%)
Query: 282 AVAPSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFP----- 336
AV + ++V GL KTTE+DL + + +G + V+V K+ +G S+GF F+ F
Sbjct: 11 AVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQ 70
Query: 337 -SVGAARAMMD 346
V + R M+D
Sbjct: 71 VKVMSQRHMID 81
>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 = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 43/82 (52%), Gaps = 2/82 (2%)
Query: 446 PTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKA 505
P L V L E ML +FS PI +R+ RD T S G+A+++F DA +A
Sbjct: 9 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 68
Query: 506 LEATNGTTLEKNGQILRVAYAK 527
L+ N ++ G+ +R+ +++
Sbjct: 69 LDTMNFDVIK--GKPVRIMWSQ 88
Score = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
+ ++ LD+ D + L FS I ++V D+ + S+G+ F+HF + E A +A+E
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 158
Query: 510 NGTTL 514
NG L
Sbjct: 159 NGMLL 163
Score = 38.5 bits (88), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 50/99 (50%), Gaps = 11/99 (11%)
Query: 287 GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
G I +K L + + LY + +G + +V+ + N S+G+ F+ F + AA ++
Sbjct: 99 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIE 156
Query: 347 RIGDDGLVVDGRKLFFEYSSKPTGGSGGHYGQESAMGAR 385
++ +G++++ RK+F G +E+ +GAR
Sbjct: 157 KM--NGMLLNDRKVF-------VGRFKSRKEREAELGAR 186
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 41/83 (49%), Gaps = 2/83 (2%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAM 344
P ++ V L TE LY+ + GP+ +RV ++ + S G+A+++F A
Sbjct: 9 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 68
Query: 345 MDRIGDDGLVVDGRKLFFEYSSK 367
+D + D V+ G+ + +S +
Sbjct: 69 LDTMNFD--VIKGKPVRIMWSQR 89
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 40/79 (50%), Gaps = 2/79 (2%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
+ V L E E L+ F I + L +DK T S+GFAF+ FH EDA++A+
Sbjct: 17 TIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAG 76
Query: 509 TNGTTLEKNGQILRVAYAK 527
+G + IL V +AK
Sbjct: 77 VSGFGYDH--LILNVEWAK 93
Score = 44.3 bits (103), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 47/87 (54%), Gaps = 5/87 (5%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFP-SVGAARAMMD 346
TI V LS+ T E DL ++ +G + + + K++ +G S+GFAFI F AARA+
Sbjct: 17 TIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIA- 75
Query: 347 RIGDDGLVVDGRKLFFEYSSKPTGGSG 373
G G D L E+ +KP+ SG
Sbjct: 76 --GVSGFGYDHLILNVEW-AKPSTNSG 99
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 44.7 bits (104), Expect = 3e-04, Method: Composition-based stats.
Identities = 25/89 (28%), Positives = 49/89 (55%), Gaps = 3/89 (3%)
Query: 284 APSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARA 343
A + ++V L Q T+ +LY + GP+ R++++ +G S G+AF+DF S ++
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 344 MMDRIGDDGLVVDGRKLFFEYSSKPTGGS 372
+ + +G+ V ++L Y ++P G S
Sbjct: 61 AIKVL--NGITVRNKRLKVSY-ARPGGES 86
Score = 41.6 bits (96), Expect = 0.003, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L+V L + + L F PI R++RD T S G+AF+ F S D+ +A++
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 510 NGTTLEKNGQILRVAYAK 527
NG T+ + L+V+YA+
Sbjct: 66 NGITVRN--KRLKVSYAR 81
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 45/78 (57%), Gaps = 2/78 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L+V L + ++ LR FS ++ +L+RDK S G+ F+++ + +DA +A+
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 510 NGTTLEKNGQILRVAYAK 527
NG L+ + ++V+YA+
Sbjct: 65 NGLRLQ--SKTIKVSYAR 80
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 32/53 (60%)
Query: 283 VAPSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
V + + GL + T++D+ + + +G + + RV+ ++ +G+SRG AFI F
Sbjct: 85 VIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
Score = 34.3 bits (77), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L + GL ++ + FS+ I + R++ D+ T +SRG AF+ F +A +A+ +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 510 NG 511
NG
Sbjct: 151 NG 152
>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 = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 45/78 (57%), Gaps = 2/78 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L+V L + ++ LR FS ++ +L+RDK S G+ F+++ + +DA +A+
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 510 NGTTLEKNGQILRVAYAK 527
NG L+ + ++V+YA+
Sbjct: 65 NGLRLQ--SKTIKVSYAR 80
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 32/53 (60%)
Query: 283 VAPSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
V + + GL + T++D+ + + +G + + RV+ ++ +G+SRG AFI F
Sbjct: 85 VIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
Score = 34.3 bits (77), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L + GL ++ + FS+ I + R++ D+ T +SRG AF+ F +A +A+ +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 510 NG 511
NG
Sbjct: 151 NG 152
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 44.3 bits (103), Expect = 3e-04, Method: Composition-based stats.
Identities = 25/89 (28%), Positives = 49/89 (55%), Gaps = 3/89 (3%)
Query: 284 APSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARA 343
A + ++V L Q T+ +LY + GP+ R++++ +G S G+AF+DF S ++
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 344 MMDRIGDDGLVVDGRKLFFEYSSKPTGGS 372
+ + +G+ V ++L Y ++P G S
Sbjct: 61 AIKVL--NGITVRNKRLKVSY-ARPGGES 86
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L+V L + + L F PI R++RD T S G+AF+ F S D+ +A++
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 510 NGTTLEKNGQILRVAYAK 527
NG T+ + L+V+YA+
Sbjct: 66 NGITVRN--KRLKVSYAR 81
Score = 40.0 bits (92), Expect = 0.008, Method: Composition-based stats.
Identities = 29/91 (31%), Positives = 41/91 (45%), Gaps = 4/91 (4%)
Query: 436 PLGKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLH 495
P G+ DT L V L ++ L F K+ I ++RDK T RG AF+
Sbjct: 82 PGGESIKDTN----LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVR 137
Query: 496 FHSVEDASKALEATNGTTLEKNGQILRVAYA 526
++ E+A +A+ A N E Q L V A
Sbjct: 138 YNKREEAQEAISALNNVIPEGGSQPLSVRLA 168
>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 = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 34/70 (48%)
Query: 446 PTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKA 505
+ L V L Y EE + FSK IK + + DK + GF F+ ++S DA A
Sbjct: 38 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENA 97
Query: 506 LEATNGTTLE 515
+ NGT L+
Sbjct: 98 MRYINGTRLD 107
Score = 36.2 bits (82), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 35/66 (53%)
Query: 283 VAPSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAAR 342
+ S T+ V LS TTEE +Y++ ++ G ++ + + ++ + GF F+++ S A
Sbjct: 36 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAE 95
Query: 343 AMMDRI 348
M I
Sbjct: 96 NAMRYI 101
>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 = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 35/67 (52%)
Query: 448 HVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALE 507
H L + GL Y +++ ++ + P+K LV+D T +S+G+AF + + +A+
Sbjct: 115 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 174
Query: 508 ATNGTTL 514
NG L
Sbjct: 175 GLNGMQL 181
Score = 38.1 bits (87), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 17/78 (21%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ + GL ++ + ++L +GPL+ ++K+ +G+S+G+AF ++ + +
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA-- 174
Query: 349 GDDGLVVDGRKLFFEYSS 366
G +G+ + +KL + +S
Sbjct: 175 GLNGMQLGDKKLLVQRAS 192
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 43.9 bits (102), Expect = 4e-04, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 45/78 (57%), Gaps = 2/78 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L+V L + ++ LR FS ++ +L+RDK S G+ F+++ + +DA +A+
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 510 NGTTLEKNGQILRVAYAK 527
NG L+ + ++V+YA+
Sbjct: 82 NGLRLQS--KTIKVSYAR 97
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 43.5 bits (101), Expect = 5e-04, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 45/78 (57%), Gaps = 2/78 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L+V L + ++ LR FS ++ +L+RDK S G+ F+++ + +DA +A+
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 510 NGTTLEKNGQILRVAYAK 527
NG L+ + ++V+YA+
Sbjct: 67 NGLRLQS--KTIKVSYAR 82
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 43.5 bits (101), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 29/47 (61%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHF 496
L V GLD +E LR FS++ + D +++DK T+ SRGF F+ F
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF 65
Score = 38.1 bits (87), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 28/49 (57%)
Query: 287 GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
G + V GL TT+E L +++G + ++K++ + SRGF F+ F
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF 65
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 43.1 bits (100), Expect = 7e-04, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 46/78 (58%), Gaps = 3/78 (3%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
VL V LD+ E++L+ F PI +++++ DK + + +AF+ +H DA+ AL+
Sbjct: 2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQT 60
Query: 509 TNGTTLEKNGQILRVAYA 526
NG +E N I+++ +A
Sbjct: 61 LNGKQIENN--IVKINWA 76
Score = 40.4 bits (93), Expect = 0.005, Method: Composition-based stats.
Identities = 28/85 (32%), Positives = 42/85 (49%), Gaps = 2/85 (2%)
Query: 442 SDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVED 501
S + T L V L+ D+E LR F ++ D T SRG+ F+ F S +D
Sbjct: 82 SSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDD 141
Query: 502 ASKALEATNGTTLEKNGQILRVAYA 526
A A+++ G L NG+ LR+ +A
Sbjct: 142 AQNAMDSMQGQDL--NGRPLRINWA 164
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 43.1 bits (100), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 31/57 (54%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMM 345
+ + GLS +TTEE L +WG L V+++ S SRGF F+ F S+ A M
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM 86
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 36/74 (48%)
Query: 435 IPLGKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFL 494
+PL +K + L + GL EE LR + + + D ++RD + SRGF F+
Sbjct: 15 VPLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFV 74
Query: 495 HFHSVEDASKALEA 508
F S+ + A+ A
Sbjct: 75 TFSSMAEVDAAMAA 88
>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 = 0.001, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 38/66 (57%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
+L V G+ E A EE + +F+++ IK++ L D+ T +G+ + + + ++A A+E
Sbjct: 25 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 84
Query: 509 TNGTTL 514
NG L
Sbjct: 85 LNGQDL 90
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/67 (23%), Positives = 40/67 (59%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDR 347
+ V G+ ++ TEED++ AE+G ++++ + +R +G +G+ +++ + A+A M+
Sbjct: 25 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 84
Query: 348 IGDDGLV 354
+ L+
Sbjct: 85 LNGQDLM 91
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 35/67 (52%)
Query: 448 HVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALE 507
H L + GL Y +++ ++ + P+K LV+D T +S+G+AF + + +A+
Sbjct: 2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61
Query: 508 ATNGTTL 514
NG L
Sbjct: 62 GLNGMQL 68
Score = 38.1 bits (87), Expect = 0.027, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ + GL ++ + ++L +GPL+ ++K+ +G+S+G+AF ++ + +
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI--A 61
Query: 349 GDDGLVVDGRKLFFEYSS 366
G +G+ + +KL + +S
Sbjct: 62 GLNGMQLGDKKLLVQRAS 79
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 42.4 bits (98), Expect = 0.001, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L+V L + ++ + F I+ +LVRDK T S G+ F+++ DA KA+
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 510 NGTTLEKNGQILRVAYAK 527
NG L+ + ++V+YA+
Sbjct: 67 NGLKLQT--KTIKVSYAR 82
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 43/85 (50%), Gaps = 1/85 (1%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDL-RLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
+ + LD DE++L FS I +++RD T S+G+AF++F S + + A+EA
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 509 TNGTTLEKNGQILRVAYAKSILGPG 533
NG L + A+ K G G
Sbjct: 68 MNGQYLCNRPITVSYAFKKDSKGSG 92
Score = 35.0 bits (79), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 286 SGTIVVKGLSQKTTEEDLYQILAEWGPLRHV-RVIKERNSGVSRGFAFIDFPSVGAARAM 344
S I + L + E+ LY + +G + +++++ ++G S+G+AFI+F S A+ A
Sbjct: 5 SSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAA 64
Query: 345 MDRI 348
++ +
Sbjct: 65 IEAM 68
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 42.4 bits (98), Expect = 0.001, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L+V L + ++ + F I+ +LVRDK T S G+ F+++ DA KA+
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 510 NGTTLEKNGQILRVAYAK 527
NG L+ + ++V+YA+
Sbjct: 67 NGLKLQT--KTIKVSYAR 82
Score = 35.8 bits (81), Expect = 0.11, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 34/62 (54%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L V GL + ++ + FS++ I R++ D+ T VSRG F+ F +A +A++
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 510 NG 511
NG
Sbjct: 153 NG 154
Score = 35.4 bits (80), Expect = 0.19, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 31/49 (63%)
Query: 287 GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
+ V GL + +++++ Q+ +++G + R++ ++ +GVSRG FI F
Sbjct: 91 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRF 139
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 33/58 (56%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
+ + GLS +TT+E L +WG L V+++ N+ SRGF F+ + +V A M+
Sbjct: 17 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 74
Score = 38.1 bits (87), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
I V G+ + T E L ++G + + ++ +R SG RGFAF+ F
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 154
Score = 37.4 bits (85), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
L + GL +E LR F + + D ++RD T SRGF F+ + +VE+ A+ A
Sbjct: 17 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Score = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHF 496
+ V G+ E +E LR F ++ I+ + ++ D+ + RGFAF+ F
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 33/58 (56%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
+ + GLS +TT+E L +WG L V+++ N+ SRGF F+ + +V A M+
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 72
Score = 38.1 bits (87), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
I V G+ + T E L ++G + + ++ +R SG RGFAF+ F
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 152
Score = 36.6 bits (83), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
L + GL +E LR F + + D ++RD T SRGF F+ + +VE+ A+ A
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Score = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHF 496
+ V G+ E +E LR F ++ I+ + ++ D+ + RGFAF+ F
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 152
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 42.0 bits (97), Expect = 0.002, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 35/67 (52%)
Query: 448 HVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALE 507
H L + GL Y +++ ++ + P+K LV+D T +S+G+AF + + +A+
Sbjct: 95 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 154
Query: 508 ATNGTTL 514
NG L
Sbjct: 155 GLNGMQL 161
Score = 37.4 bits (85), Expect = 0.039, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ + GL ++ + ++L +GPL+ ++K+ +G+S+G+AF ++ + +
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI--A 154
Query: 349 GDDGLVVDGRKLFFEYSS 366
G +G+ + +KL + +S
Sbjct: 155 GLNGMQLGDKKLLVQRAS 172
>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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 33/58 (56%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
+ + GLS +TT+E L +WG L V+++ N+ SRGF F+ + +V A M+
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Score = 38.1 bits (87), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
I V G+ + T E L ++G + + ++ +R SG RGFAF+ F
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
Score = 36.6 bits (83), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
L + GL +E LR F + + D ++RD T SRGF F+ + +VE+ A+ A
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHF 496
+ V G+ E +E LR F ++ I+ + ++ D+ + RGFAF+ F
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 33/58 (56%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
+ + GLS +TT+E L +WG L V+++ N+ SRGF F+ + +V A M+
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 71
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
I V G+ + T E L ++G + + ++ +R SG RGFAF+ F
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 151
Score = 36.2 bits (82), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
L + GL +E LR F + + D ++RD T SRGF F+ + +VE+ A+ A
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHF 496
+ V G+ E +E LR F ++ I+ + ++ D+ + RGFAF+ F
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 151
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 33/58 (56%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
+ + GLS +TT+E L +WG L V+++ N+ SRGF F+ + +V A M+
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
I V G+ + T E L ++G + + ++ +R SG RGFAF+ F
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
Score = 36.2 bits (82), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
L + GL +E LR F + + D ++RD T SRGF F+ + +VE+ A+ A
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHF 496
+ V G+ E +E LR F ++ I+ + ++ D+ + RGFAF+ F
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
>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 = 42.0 bits (97), Expect = 0.002, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 35/67 (52%)
Query: 448 HVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALE 507
H L + GL Y +++ ++ + P+K LV+D T +S+G+AF + + +A+
Sbjct: 97 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 156
Query: 508 ATNGTTL 514
NG L
Sbjct: 157 GLNGMQL 163
Score = 37.4 bits (85), Expect = 0.042, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ + GL ++ + ++L +GPL+ ++K+ +G+S+G+AF ++ + +
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI--A 156
Query: 349 GDDGLVVDGRKLFFEYSS 366
G +G+ + +KL + +S
Sbjct: 157 GLNGMQLGDKKLLVQRAS 174
>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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 33/58 (56%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
+ + GLS +TT+E L +WG L V+++ N+ SRGF F+ + +V A M+
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
I V G+ + T E L ++G + + ++ +R SG RGFAF+ F
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 146
Score = 36.2 bits (82), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
L + GL +E LR F + + D ++RD T SRGF F+ + +VE+ A+ A
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Score = 30.0 bits (66), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHF 496
+ V G+ E +E LR F ++ I+ + ++ D+ + RGFAF+ F
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 146
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L V L E+MLR F I ++ L++D T S+G+ F+ F E A +ALE
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 510 NGTTLEKNGQILRVAYA 526
NG E G+ +RV +
Sbjct: 68 NG--FELAGRPMRVGHV 82
Score = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 47/89 (52%), Gaps = 3/89 (3%)
Query: 286 SGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMM 345
S + V L TE+ L I +G + ++ ++K+ ++G S+G+ FI F AR +
Sbjct: 5 SSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRAL 64
Query: 346 DRIGDDGLVVDGRKLFFEY-SSKPTGGSG 373
+++ +G + GR + + + + GGSG
Sbjct: 65 EQL--NGFELAGRPMRVGHVTERLDGGSG 91
>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 = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 46/84 (54%), Gaps = 3/84 (3%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
+L V + E A E+ ++ +F + IK++ L D+ T S+G+A + + + + A A EA
Sbjct: 74 ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEA 133
Query: 509 TNGTTLEKNGQILRVAYAKSILGP 532
NG + GQ ++V + + GP
Sbjct: 134 LNGAEI--MGQTIQVDWC-FVKGP 154
>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 = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 38/66 (57%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
+L V G+ E A EE + +F+++ IK++ L D+ T +G+ + + + ++A A+E
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 509 TNGTTL 514
NG L
Sbjct: 69 LNGQDL 74
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 16/66 (24%), Positives = 40/66 (60%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V G+ ++ TEED++ AE+G ++++ + +R +G +G+ +++ + A+A M+ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 349 GDDGLV 354
L+
Sbjct: 70 NGQDLM 75
>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 = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 43/81 (53%), Gaps = 5/81 (6%)
Query: 439 KKGSDTGPTH-----VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAF 493
+ G + GP +L V G+ E A EE + +F+++ IK++ L D+ T +G+
Sbjct: 9 QDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTL 68
Query: 494 LHFHSVEDASKALEATNGTTL 514
+ + + ++A A+E NG L
Sbjct: 69 VEYETYKEAQAAMEGLNGQDL 89
Score = 39.7 bits (91), Expect = 0.008, Method: Composition-based stats.
Identities = 16/66 (24%), Positives = 40/66 (60%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V G+ ++ TEED++ AE+G ++++ + +R +G +G+ +++ + A+A M+ +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 349 GDDGLV 354
L+
Sbjct: 85 NGQDLM 90
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 21/57 (36%), Positives = 35/57 (61%), Gaps = 2/57 (3%)
Query: 474 IKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNG--TTLEKNGQILRVAYAKS 528
+ ++RL++DK T +RGFAF+ S DAS+ L+ L+ +G+ + V +AKS
Sbjct: 38 VNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAKS 94
Score = 33.1 bits (74), Expect = 0.87, Method: Composition-based stats.
Identities = 18/82 (21%), Positives = 44/82 (53%), Gaps = 4/82 (4%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPL--RHVRVIKERNSGVSRGFAFIDFPSVGAARAMM 345
TI+++ ++ T + + L+ + L ++R+IK++ + +RGFAF+ S A ++
Sbjct: 11 TIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLL 70
Query: 346 DRIGD--DGLVVDGRKLFFEYS 365
+ L +DG+ + +++
Sbjct: 71 QILQSLHPPLKIDGKTIGVDFA 92
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 38/66 (57%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
+L V G+ E A EE + +F+++ IK++ L D+ T +G+ + + + ++A A+E
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 509 TNGTTL 514
NG L
Sbjct: 69 LNGQDL 74
Score = 40.8 bits (94), Expect = 0.004, Method: Composition-based stats.
Identities = 16/66 (24%), Positives = 40/66 (60%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V G+ ++ TEED++ AE+G ++++ + +R +G +G+ +++ + A+A M+ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 349 GDDGLV 354
L+
Sbjct: 70 NGQDLM 75
>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 = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 38/66 (57%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
+L V G+ E A EE + +F+++ IK++ L D+ T +G+ + + + ++A A+E
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 509 TNGTTL 514
NG L
Sbjct: 69 LNGQDL 74
Score = 40.4 bits (93), Expect = 0.005, Method: Composition-based stats.
Identities = 16/66 (24%), Positives = 40/66 (60%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V G+ ++ TEED++ AE+G ++++ + +R +G +G+ +++ + A+A M+ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 349 GDDGLV 354
L+
Sbjct: 70 NGQDLM 75
>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 = 40.8 bits (94), Expect = 0.004, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 38/66 (57%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
+L V G+ E A EE + +F+++ IK++ L D+ T +G+ + + + ++A A+E
Sbjct: 11 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 70
Query: 509 TNGTTL 514
NG L
Sbjct: 71 LNGQDL 76
Score = 40.4 bits (93), Expect = 0.005, Method: Composition-based stats.
Identities = 16/66 (24%), Positives = 40/66 (60%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V G+ ++ TEED++ AE+G ++++ + +R +G +G+ +++ + A+A M+ +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 349 GDDGLV 354
L+
Sbjct: 72 NGQDLM 77
>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 = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 3/76 (3%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFH---SVEDASKAL 506
+ + GL+ E+ LR F K+ + DL++++D T SRGF FL F SV++ K
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQ 65
Query: 507 EATNGTTLEKNGQILR 522
+G ++ I R
Sbjct: 66 HILDGKVIDPKRAIPR 81
Score = 37.7 bits (86), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 32/50 (64%)
Query: 286 SGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
S + + GL+ TTE++L + ++G + ++++K+ +G SRGF F+ F
Sbjct: 3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSF 52
Score = 36.2 bits (82), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 286 SGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAA 341
+G I V G+ ++ + ++WG + +++ ++++G SRGF F+ + S A
Sbjct: 87 TGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAV 142
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L VR L + EE L FS + P+ +L D T +GFAF+ F E A KA
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 510 NGTTLEKNGQILRV 523
+G + G++L V
Sbjct: 71 DGQVFQ--GRMLHV 82
Score = 37.7 bits (86), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V+ LS ++EEDL ++ + +GPL + + + +GFAF+ F + A+
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTF--MFPEHAVKAYA 68
Query: 349 GDDGLVVDGRKL 360
DG V GR L
Sbjct: 69 EVDGQVFQGRML 80
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 40.4 bits (93), Expect = 0.005, Method: Composition-based stats.
Identities = 32/87 (36%), Positives = 45/87 (51%), Gaps = 4/87 (4%)
Query: 439 KKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHS 498
+KGS GP L V L E+MLR F I+ ++L+ D T S+G+ F+ F
Sbjct: 20 QKGS-AGPMR-LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSD 77
Query: 499 VEDASKALEATNGTTLEKNGQILRVAY 525
E A KALE NG E G+ ++V +
Sbjct: 78 SECAKKALEQLNG--FELAGRPMKVGH 102
Score = 30.4 bits (67), Expect = 6.1, Method: Composition-based stats.
Identities = 17/72 (23%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V L TE+ L I +G + ++++ + +G S+G+ FI F A+ ++++
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 349 GDDGLVVDGRKL 360
+G + GR +
Sbjct: 89 --NGFELAGRPM 98
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 41/74 (55%), Gaps = 8/74 (10%)
Query: 454 GLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTT 513
G+ ++++R FS I ++R+ +K G++F+ F + E A+ A+ + NGTT
Sbjct: 32 GIASGLTDQLMRQTFSPFGQIMEIRVFPEK------GYSFVRFSTHESAAHAIVSVNGTT 85
Query: 514 LEKNGQILRVAYAK 527
+E G +++ + K
Sbjct: 86 IE--GHVVKCYWGK 97
>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 = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 37/78 (47%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L V L ++ L F K+ I ++RDK T RG AF+ ++ E+A +A+ A
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 510 NGTTLEKNGQILRVAYAK 527
N E Q L V A+
Sbjct: 76 NNVIPEGGSQPLSVRLAE 93
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 40.4 bits (93), Expect = 0.005, Method: Composition-based stats.
Identities = 28/83 (33%), Positives = 48/83 (57%), Gaps = 6/83 (7%)
Query: 283 VAPSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAAR 342
V T+ ++ LS + EE L ++L ++G L++VRV+ ++ S+G AF F + AA+
Sbjct: 12 VTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQ 71
Query: 343 -----AMMDRIGDDGLVVDGRKL 360
A ++ G GL +DGR+L
Sbjct: 72 KCLAAASLEAEG-GGLKLDGRQL 93
Score = 32.7 bits (73), Expect = 1.1, Method: Composition-based stats.
Identities = 27/89 (30%), Positives = 42/89 (47%), Gaps = 4/89 (4%)
Query: 442 SDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVED 501
SD + +R L ++EE L + +K +R+V T S+G AF F + E
Sbjct: 10 SDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEA 69
Query: 502 ASKALEATN----GTTLEKNGQILRVAYA 526
A K L A + G L+ +G+ L+V A
Sbjct: 70 AQKCLAAASLEAEGGGLKLDGRQLKVDLA 98
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 40.4 bits (93), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDR 347
T+ V ++ TTE L + +GP++ + ++ + SG RG+AFI++ +
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 348 IGDDGLVVDGRKLFFE 363
DG +DGR++ +
Sbjct: 164 A--DGKKIDGRRVLVD 177
Score = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 39/83 (46%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
L V ++ E LR EF + PIK + +V K + RG+AF+ + D A +
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 509 TNGTTLEKNGQILRVAYAKSILG 531
+G ++ ++ V +++ G
Sbjct: 164 ADGKKIDGRRVLVDVERGRTVKG 186
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 41/83 (49%), Gaps = 2/83 (2%)
Query: 447 THVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKAL 506
T L V L+ D+E LR F ++ D T SRG+ F+ F S +DA A+
Sbjct: 1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM 60
Query: 507 EATNGTTLEKNGQILRVAYAKSI 529
++ G L NG+ LR+ +A +
Sbjct: 61 DSMQGQDL--NGRPLRINWAAKL 81
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 40.0 bits (92), Expect = 0.006, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 43/77 (55%), Gaps = 2/77 (2%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
+L V + E A E+ ++ +F + IK++ L D+ T S+G+A + + + + A A EA
Sbjct: 28 ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEA 87
Query: 509 TNGTTLEKNGQILRVAY 525
NG E GQ ++V +
Sbjct: 88 LNGA--EIMGQTIQVDW 102
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L V+ LD+ D+E LR FS I +++ + S+GF F+ F S E+A+KA+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG--GRSKGFGFVCFSSPEEATKAVTEM 75
Query: 510 NG 511
NG
Sbjct: 76 NG 77
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 40.0 bits (92), Expect = 0.007, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 49/81 (60%), Gaps = 3/81 (3%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLR--HVRVIKERNSGVSRGFAFIDFPSVGAARAM- 344
TI+++ L+ +T + + LA + L +VRVIK++ + ++RGFAFI ++ AA+ +
Sbjct: 25 TIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTIEAAQLLQ 84
Query: 345 MDRIGDDGLVVDGRKLFFEYS 365
+ + L +DG+ + E++
Sbjct: 85 ILQALHPPLTIDGKTINVEFA 105
Score = 37.4 bits (85), Expect = 0.040, Method: Composition-based stats.
Identities = 24/101 (23%), Positives = 55/101 (54%), Gaps = 5/101 (4%)
Query: 431 SSNPIPLGKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIK--DLRLVRDKFTHVS 488
+S + G + S +++R L+ ++ + + + +A + ++R+++DK T ++
Sbjct: 7 ASQALSQGSEPSSENANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLN 66
Query: 489 RGFAFLHFHSVEDAS--KALEATNGTTLEKNGQILRVAYAK 527
RGFAF+ ++E A + L+A + L +G+ + V +AK
Sbjct: 67 RGFAFIQLSTIEAAQLLQILQALH-PPLTIDGKTINVEFAK 106
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 40.0 bits (92), Expect = 0.007, Method: Composition-based stats.
Identities = 28/83 (33%), Positives = 45/83 (54%), Gaps = 12/83 (14%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAP--IKDLRLVRDKFTHVSRGFAFLHFHSVEDASKAL 506
+L VR L EEM+ EF+ P ++ ++ +RD +AF+HF + EDA +A+
Sbjct: 17 ILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRD--------YAFVHFSNREDAVEAM 68
Query: 507 EATNGTTLEKNGQILRVAYAKSI 529
+A NG L+ G + V AK +
Sbjct: 69 KALNGKVLD--GSPIEVTLAKPV 89
>pdb|1WEX|A Chain A, Solution Structure Of Rrm Domain In Protein Bab28521
Length = 104
Score = 40.0 bits (92), Expect = 0.008, Method: Composition-based stats.
Identities = 24/102 (23%), Positives = 50/102 (49%), Gaps = 6/102 (5%)
Query: 280 HYAVAPSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVG 339
H+ V+ S + V+GL + E DL + L ++G + +V ++ + A ++F ++
Sbjct: 9 HHKVSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQ------ALVEFENID 62
Query: 340 AARAMMDRIGDDGLVVDGRKLFFEYSSKPTGGSGGHYGQESA 381
+A+ + D + + G++ FF YS+ G+ G S
Sbjct: 63 SAKECVTFAADVPVYIAGQQAFFNYSTSKRITRPGNSGPSSG 104
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 39.7 bits (91), Expect = 0.008, Method: Composition-based stats.
Identities = 20/54 (37%), Positives = 34/54 (62%), Gaps = 1/54 (1%)
Query: 283 VAPS-GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
+APS T+ V L T DLY+I +++G + V ++K++++ S+G AFI F
Sbjct: 12 LAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILF 65
Score = 31.2 bits (69), Expect = 3.1, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 468 FSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTTLEKNGQILRVAYA 526
FSK+ + + +++DK T S+G AF+ F + A A N L G++++ + A
Sbjct: 37 FSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQL--FGRVIKASIA 93
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 36/70 (51%), Gaps = 2/70 (2%)
Query: 459 ADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTTLEKNG 518
A EE L+ FS+ P+ RLV D+ T +G+ F + E A A+ NG E +G
Sbjct: 20 ATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGR--EFSG 77
Query: 519 QILRVAYAKS 528
+ LRV A S
Sbjct: 78 RALRVDNAAS 87
Score = 36.2 bits (82), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 2/73 (2%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDR 347
++ V + + TEE L I +E GP+ R++ +R +G +G+ F ++ A + M
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 348 IGDDGLVVDGRKL 360
+ +G GR L
Sbjct: 70 L--NGREFSGRAL 80
>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 = 39.3 bits (90), Expect = 0.011, Method: Composition-based stats.
Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 286 SGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMM 345
+G V GLS T+++DL ++G + + + N+G SRGF FI F + ++
Sbjct: 11 AGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVL 70
Query: 346 DRIGD--DGLVVDGRK 359
D+ DG V+D +K
Sbjct: 71 DQKEHRLDGRVIDPKK 86
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 38.9 bits (89), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 37/65 (56%), Gaps = 3/65 (4%)
Query: 287 GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPS---VGAARA 343
T+ V GL +K +E L+++ + GP+ + + K+R +G +G+ F++F S A
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75
Query: 344 MMDRI 348
+MD I
Sbjct: 76 IMDMI 80
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 38.9 bits (89), Expect = 0.014, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 40/76 (52%), Gaps = 5/76 (6%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ ++ L K T E++Y I ++GP+R +RV N+ +RG A++ + + A+ +D +
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNAVDHL 67
Query: 349 GDDGLVVDGRKLFFEY 364
G V R L Y
Sbjct: 68 --SGFNVSNRYLVVLY 81
>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 = 38.9 bits (89), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDR 347
T+ V ++ TTE L + +GP++ + ++ + SG RG+AFI++ +
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 348 IGDDGLVVDGRKLFFE 363
DG +DGR++ +
Sbjct: 164 A--DGKKIDGRRVLVD 177
Score = 37.0 bits (84), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 39/83 (46%)
Query: 449 VLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
L V ++ E LR EF + PIK + +V K + RG+AF+ + D A +
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 509 TNGTTLEKNGQILRVAYAKSILG 531
+G ++ ++ V +++ G
Sbjct: 164 ADGKKIDGRRVLVDVERGRTVKG 186
>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 = 38.9 bits (89), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%)
Query: 461 EEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTTL 514
E+ +R F+ PIK + + D T +GFAF+ + E A ALE N L
Sbjct: 42 EDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVML 95
Score = 30.0 bits (66), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 464 LRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTTLEKNGQILRV 523
++ F IK L RD T +G+ F+ + + + A+ + N + GQ LRV
Sbjct: 142 IKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMN--LFDLGGQYLRV 199
Query: 524 AYA 526
A
Sbjct: 200 GKA 202
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 38.9 bits (89), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V LS + T ED+ A +G + RV+K+ +G S+G+ F+ F + A + ++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 349 GDDGLVVDGRKLFFEYSSK 367
G G + GR++ ++++
Sbjct: 78 G--GQWLGGRQIRTNWATR 94
Score = 38.1 bits (87), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
Query: 438 GKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFH 497
G+K + HV V E E+ ++ F+ I D R+V+D T S+G+ F+ F
Sbjct: 7 GQKKDTSNHFHVFVGDLSPEITTED-IKAAFAPFGRISDARVVKDMATGKSKGYGFVSFF 65
Query: 498 SVEDASKALEATNGTTLEKNGQILRVAYA 526
+ DA A++ G L G+ +R +A
Sbjct: 66 NKWDAENAIQQMGGQWL--GGRQIRTNWA 92
>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 = 38.9 bits (89), Expect = 0.017, Method: Composition-based stats.
Identities = 27/85 (31%), Positives = 46/85 (54%), Gaps = 5/85 (5%)
Query: 448 HVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALE 507
H L + GL +E L H +KDLRLV ++ +G A++ + + AS+A+
Sbjct: 18 HKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVM 76
Query: 508 ATNGTTLEKNGQILRVAYAKSILGP 532
+G T+++N I++VA + S GP
Sbjct: 77 KMDGMTIKEN--IIKVAISNS--GP 97
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 38.5 bits (88), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 42/82 (51%), Gaps = 2/82 (2%)
Query: 445 GPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASK 504
GP+ V+ + + EE + S P+ +L+++ D T S+G+AF+ F +E ++
Sbjct: 1 GPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSAS 60
Query: 505 ALEATNGTTLEKNGQILRVAYA 526
A+ NG L + L+ Y+
Sbjct: 61 AVRNLNGYQL--GSRFLKCGYS 80
Score = 35.4 bits (80), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 31/51 (60%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
PS + + + TEE + + + GP+ +++++ + +G S+G+AFI+F
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEF 52
>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 = 38.5 bits (88), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%)
Query: 461 EEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTTL 514
E+ +R F+ PIK + + D T +GFAF+ + E A ALE N L
Sbjct: 27 EDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVML 80
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 38.5 bits (88), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 36/72 (50%), Gaps = 5/72 (6%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
I V GL TT+ L + +G + VI +R +G SRG+ F+ A RA +R
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTM----ADRAAAERA 75
Query: 349 GDD-GLVVDGRK 359
D ++DGRK
Sbjct: 76 CKDPNPIIDGRK 87
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 38.1 bits (87), Expect = 0.025, Method: Composition-based stats.
Identities = 29/103 (28%), Positives = 48/103 (46%), Gaps = 17/103 (16%)
Query: 425 PPAEMNSSNPIPLGKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKF 484
PPA+ S NP P H+L + L E +E ML F++ K++RLV +
Sbjct: 196 PPAQPLSENP-----------PNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR- 243
Query: 485 THVSRGFAFLHFHSVEDASKALEATNGTTLEKNGQILRVAYAK 527
AF+ F + A A +A G + +N +++++AK
Sbjct: 244 ----HDIAFVEFDNEVQAGAARDALQGFKITQNNA-MKISFAK 281
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 38.1 bits (87), Expect = 0.026, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 35/60 (58%), Gaps = 3/60 (5%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
++++ L K T E++Y I ++GP+R +RV N+ +RG A++ + + A+ D +
Sbjct: 21 LMIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 77
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 37.7 bits (86), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 47/90 (52%), Gaps = 6/90 (6%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ V LS + T ED+ A +G + RV+K+ +G S+G+ F+ F + A + +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 349 GDDGLVVDGRKLFFEYSSK----PTGGSGG 374
G G + GR++ ++++ P+G S G
Sbjct: 78 G--GQWLGGRQIRTNWATRKPPAPSGPSSG 105
Score = 37.0 bits (84), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
Query: 438 GKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFH 497
G+K + HV V E E+ ++ F+ I D R+V+D T S+G+ F+ F+
Sbjct: 7 GQKKDTSNHFHVFVGDLSPEITTED-IKSAFAPFGKISDARVVKDMATGKSKGYGFVSFY 65
Query: 498 SVEDASKALEATNGTTLEKNGQILRVAYA 526
+ DA A+ G L G+ +R +A
Sbjct: 66 NKLDAENAIVHMGGQWL--GGRQIRTNWA 92
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 37.7 bits (86), Expect = 0.034, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ ++ L K T E++Y I ++GP+R +RV N+ +RG A++ + + A+ D +
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 71
Query: 349 GDDGLVVDGRKLFFEY 364
G V R L Y
Sbjct: 72 --SGFNVCNRYLVVLY 85
>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 = 37.7 bits (86), Expect = 0.035, Method: Composition-based stats.
Identities = 25/100 (25%), Positives = 51/100 (51%), Gaps = 11/100 (11%)
Query: 286 SGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMM 345
SG I +K L + + LY + +G + +V+ + N S+G+ F+ F + AA +
Sbjct: 5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAI 62
Query: 346 DRIGDDGLVVDGRKLFFEYSSKPTGGSGGHYGQESAMGAR 385
+++ +G++++ RK+F G +E+ +GAR
Sbjct: 63 EKM--NGMLLNDRKVF-------VGRFKSRKEREAELGAR 93
Score = 37.4 bits (85), Expect = 0.046, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
+ ++ LD+ D + L FS I ++V D+ + S+G+ F+HF + E A +A+E
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 65
Query: 510 NGTTL 514
NG L
Sbjct: 66 NGMLL 70
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 37.4 bits (85), Expect = 0.040, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
+ ++ LD+ D + L FS I ++V D+ + S+G+ F+HF + E A +A+E
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 71
Query: 510 NGTTL 514
NG L
Sbjct: 72 NGMLL 76
Score = 36.2 bits (82), Expect = 0.10, Method: Composition-based stats.
Identities = 19/75 (25%), Positives = 42/75 (56%), Gaps = 4/75 (5%)
Query: 287 GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
G I +K L + + LY + +G + +V+ + N S+G+ F+ F + AA ++
Sbjct: 12 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIE 69
Query: 347 RIGDDGLVVDGRKLF 361
++ +G++++ RK+F
Sbjct: 70 KM--NGMLLNDRKVF 82
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 37.4 bits (85), Expect = 0.042, Method: Composition-based stats.
Identities = 24/66 (36%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L V L Y EE + FSK IK + + DK + GF F+ ++S DA A+
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK-TACGFCFVEYYSRADAENAMRYI 79
Query: 510 NGTTLE 515
NGT L+
Sbjct: 80 NGTRLD 85
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 37.0 bits (84), Expect = 0.051, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 34/60 (56%), Gaps = 3/60 (5%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ ++ L K T E++Y I ++GP+R +RV N+ +RG A++ + + A+ D +
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 77
>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 = 37.0 bits (84), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 26/54 (48%)
Query: 461 EEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTTL 514
E+ +R F+ PIK + D T +GFAF+ + E A ALE N L
Sbjct: 26 EDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQXNSVXL 79
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 21/101 (20%), Positives = 44/101 (43%), Gaps = 3/101 (2%)
Query: 426 PAEMNSSNPIPLGKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFT 485
P+ + + PI + + + + + V + + ++ ++ F IK L RD T
Sbjct: 89 PSNIGQAQPI-IDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTT 147
Query: 486 HVSRGFAFLHFHSVEDASKALEATNGTTLEKNGQILRVAYA 526
+G+ F+ + + + A+ + N + GQ LRV A
Sbjct: 148 GKHKGYGFIEYEKAQSSQDAVSSXN--LFDLGGQYLRVGKA 186
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 37.0 bits (84), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 9/70 (12%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ + GLS +TT+E L + ++G ++ V+++ + SRGF F+ F MD+
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF---------MDQA 78
Query: 349 GDDGLVVDGR 358
G D ++ R
Sbjct: 79 GVDKVLAQSR 88
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 1/68 (1%)
Query: 440 KGSDTGPTHV-LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHS 498
+GS G + + + GL +E LR F + +K+ ++RD T SRGF F+ F
Sbjct: 17 RGSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMD 76
Query: 499 VEDASKAL 506
K L
Sbjct: 77 QAGVDKVL 84
>pdb|2U1A|A Chain A, Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20
Structures
Length = 88
Score = 37.0 bits (84), Expect = 0.062, Method: Composition-based stats.
Identities = 28/102 (27%), Positives = 47/102 (46%), Gaps = 17/102 (16%)
Query: 426 PAEMNSSNPIPLGKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFT 485
PA+ S NP P H+L + L E +E ML F++ K++RLV +
Sbjct: 3 PAQPLSENP-----------PNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR-- 49
Query: 486 HVSRGFAFLHFHSVEDASKALEATNGTTLEKNGQILRVAYAK 527
AF+ F + A A +A G + +N +++++AK
Sbjct: 50 ---HDIAFVEFDNEVQAGAARDALQGFKITQNNA-MKISFAK 87
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 37.0 bits (84), Expect = 0.064, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 37/68 (54%)
Query: 286 SGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMM 345
S + ++GL TT++DL ++ +G + + I ++ + +G+ F+DF S AA+ +
Sbjct: 5 SSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64
Query: 346 DRIGDDGL 353
+ G+
Sbjct: 65 TALKASGV 72
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 36.6 bits (83), Expect = 0.066, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 9/70 (12%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ + GLS +TT+E L + ++G ++ V+++ + SRGF F+ F MD+
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF---------MDQA 53
Query: 349 GDDGLVVDGR 358
G D ++ R
Sbjct: 54 GVDKVLAQSR 63
Score = 33.9 bits (76), Expect = 0.47, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 27/57 (47%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKAL 506
+ + GL +E LR F + +K+ ++RD T SRGF F+ F K L
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL 59
>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 = 36.6 bits (83), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 2/81 (2%)
Query: 446 PTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKA 505
P+ V+ + + EE + S P+ +L+++ D T S+G+AF+ F +E ++ A
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 62
Query: 506 LEATNGTTLEKNGQILRVAYA 526
+ NG L + L+ Y+
Sbjct: 63 VRNLNGYQL--GSRFLKCGYS 81
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 31/51 (60%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
PS + + + TEE + + + GP+ +++++ + +G S+G+AFI+F
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEF 53
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 36.6 bits (83), Expect = 0.082, Method: Composition-based stats.
Identities = 22/83 (26%), Positives = 40/83 (48%), Gaps = 7/83 (8%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDR 347
T++ K L K T+++L ++ + +R V G S+G A+I+F + A +
Sbjct: 95 TLLAKNLPYKVTQDELKEVFEDAAEIRLVS-----KDGKSKGIAYIEFKTEADAEKTFEE 149
Query: 348 IGDDGLVVDGRKLFFEYSSKPTG 370
G +DGR + Y+ +P G
Sbjct: 150 --KQGTEIDGRSISLYYTGEPKG 170
>pdb|3R27|A Chain A, Crystal Structure Of The First Rrm Domain Of Heterogeneous
Nuclear Ribonucleoprotein L (Hnrnp L)
pdb|3R27|B Chain B, Crystal Structure Of The First Rrm Domain Of Heterogeneous
Nuclear Ribonucleoprotein L (Hnrnp L)
Length = 100
Score = 36.2 bits (82), Expect = 0.096, Method: Composition-based stats.
Identities = 22/83 (26%), Positives = 41/83 (49%), Gaps = 7/83 (8%)
Query: 285 PSGTIV-VKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARA 343
P+ +V ++GL E DL + L E+GP+ +V V+ ++ A ++F V A
Sbjct: 19 PASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQ------ALVEFEDVLGACN 72
Query: 344 MMDRIGDDGLVVDGRKLFFEYSS 366
++ D+ + + G F YS+
Sbjct: 73 AVNYAADNQIYIAGHPAFVNYST 95
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 36.2 bits (82), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 50/104 (48%), Gaps = 11/104 (10%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGP--LRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
+ + L+ TT+EDL + + G + ++ + R +G S+GFA + S +++ +MD
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 130
Query: 347 RI------GDDGLVVDGRKLF---FEYSSKPTGGSGGHYGQESA 381
+ G + +V K F FE S+ T SG G+ A
Sbjct: 131 LLPKRELHGQNPVVTPVNKQFLSQFEMQSRKTTQSGQMSGEGKA 174
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 35.8 bits (81), Expect = 0.12, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 36/78 (46%), Gaps = 10/78 (12%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L VR E L F P+K+++++ GFAF+ F E A+KA+E
Sbjct: 7 LFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKAIEEV 58
Query: 510 NGTTLEKNGQILRVAYAK 527
+G + Q L V Y+K
Sbjct: 59 HGKSFAN--QPLEVVYSK 74
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 2/81 (2%)
Query: 446 PTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKA 505
P+ V+ + + EE + S P+ +L+++ D T S+G+AF+ F +E ++ A
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 506 LEATNGTTLEKNGQILRVAYA 526
+ NG L + L+ Y+
Sbjct: 61 VRNLNGYQL--GSRFLKCGYS 79
Score = 35.0 bits (79), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 31/51 (60%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
PS + + + TEE + + + GP+ +++++ + +G S+G+AFI+F
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEF 51
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERN-SGVSRGFAFIDFPSVGAARAMMDR 347
I+V+ + + + ++ ++ + +G L+ VR+ K+ +G RGF F+DF + A+ +
Sbjct: 18 ILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNA 77
Query: 348 IGDDGLVVDGRKLFFEYS 365
+ + GR+L E++
Sbjct: 78 LCHSTHLY-GRRLVLEWA 94
Score = 35.0 bits (79), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 447 THVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKF-THVSRGFAFLHFHSVEDASKA 505
T ++VR + A++ +R FS +K +RL + T RGF F+ F + +DA KA
Sbjct: 15 TSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKA 74
Query: 506 LEATNGTT 513
A +T
Sbjct: 75 FNALCHST 82
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 35.8 bits (81), Expect = 0.13, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 34/62 (54%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L V GL + ++ + FS++ I R++ D+ T VSRG F+ F +A +A++
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 510 NG 511
NG
Sbjct: 64 NG 65
Score = 35.0 bits (79), Expect = 0.22, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 31/49 (63%)
Query: 287 GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
+ V GL + +++++ Q+ +++G + R++ ++ +GVSRG FI F
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRF 50
>pdb|1N0Z|A Chain A, Solution Structure Of The First Zinc-Finger Domain From
Znf265
Length = 45
Score = 35.4 bits (80), Expect = 0.15, Method: Composition-based stats.
Identities = 16/28 (57%), Positives = 19/28 (67%), Gaps = 2/28 (7%)
Query: 396 DWMC--TICGCVNFARRTSCFQCNEART 421
DW+C CG VNFARRTSC +C +T
Sbjct: 14 DWICPDKKCGNVNFARRTSCDRCGREKT 41
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 35.0 bits (79), Expect = 0.24, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFP---SVGAARAM 344
T+ V L + EE LY++ + GPL V + K+R G + F F+ F SV A A+
Sbjct: 18 TVFVGNLEARVREEILYELFLQAGPLTKVTICKDR-EGKPKSFGFVCFKHPESVSYAIAL 76
Query: 345 MDRI 348
++ I
Sbjct: 77 LNGI 80
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 10/84 (11%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEW----GPLRHVRVIKERNSGVSRGFAFIDFPSVGA 340
P+ + +K LS + TE DL + A + GP R++ +G RG AFI FP+
Sbjct: 24 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMM----TGRMRGQAFITFPNKEI 79
Query: 341 ARAMMDRIGDDGLVVDGRKLFFEY 364
A + + +G + G+ L E+
Sbjct: 80 AWQALHLV--NGYKLYGKILVIEF 101
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 41/94 (43%), Gaps = 2/94 (2%)
Query: 435 IPLGKKGSDTGPTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFL 494
IP+ + P VL ++ L E L F++ K + T RG AF+
Sbjct: 13 IPMFSSYNPGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFI 72
Query: 495 HFHSVEDASKALEATNGTTLEKNGQILRVAYAKS 528
F + E A +AL NG L G+IL + + K+
Sbjct: 73 TFPNKEIAWQALHLVNGYKLY--GKILVIEFGKN 104
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 34.7 bits (78), Expect = 0.25, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 36/78 (46%), Gaps = 10/78 (12%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEAT 509
L VR E L F P+K+++++ GFAF+ F E A+KA+E
Sbjct: 34 LFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKAIEEV 85
Query: 510 NGTTLEKNGQILRVAYAK 527
+G + Q L V Y+K
Sbjct: 86 HGKSFAN--QPLEVVYSK 101
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 34.7 bits (78), Expect = 0.27, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 27/48 (56%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
T+ L+ + DL + G +R VR+I +RNS S+G A+++F
Sbjct: 27 TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEF 74
>pdb|3G9Y|A Chain A, Crystal Structure Of The Second Zinc Finger From
Zranb2ZNF265 BOUND To 6 Nt Ssrna Sequence Agguaa
pdb|2K1P|A Chain A, Solution Structure Of The Second Zinc Finger Domain Of
Zranb2ZNF265
Length = 33
Score = 34.7 bits (78), Expect = 0.32, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 396 DWMCTICGCVNFARRTSCFQCNEAR 420
DW C C VN+ARR+ C CN +
Sbjct: 6 DWQCKTCSNVNWARRSECNMCNTPK 30
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 34.3 bits (77), Expect = 0.33, Method: Composition-based stats.
Identities = 19/69 (27%), Positives = 36/69 (52%), Gaps = 1/69 (1%)
Query: 287 GTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
+ VK LS + E L Q +++GP+ V+ + + G + G F++F + AR ++
Sbjct: 97 AALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRATGKGFVEFAAKPPARKALE 155
Query: 347 RIGDDGLVV 355
R GD ++
Sbjct: 156 RCGDGAFLL 164
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 34.3 bits (77), Expect = 0.35, Method: Composition-based stats.
Identities = 25/69 (36%), Positives = 34/69 (49%), Gaps = 4/69 (5%)
Query: 447 THVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKAL 506
+ LV+ L A EE L+ F K IK V S+G+AF+ F S EDA +AL
Sbjct: 15 SKTLVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEAL 70
Query: 507 EATNGTTLE 515
+ N +E
Sbjct: 71 NSCNKREIE 79
Score = 30.8 bits (68), Expect = 3.7, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 4/61 (6%)
Query: 286 SGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMM 345
S T+V+ LS TEE L ++ + ++ + + +G S+G+AFI+F S A+ +
Sbjct: 15 SKTLVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEAL 70
Query: 346 D 346
+
Sbjct: 71 N 71
>pdb|2LK0|A Chain A, Solution Structure And Binding Studies Of The Ranbp2-Type
Zinc Finger Of Rbm5
pdb|2LK1|A Chain A, Solution Structure And Binding Studies Of The Ranbp2-Type
Zinc Finger Of Rbm5
Length = 32
Score = 33.9 bits (76), Expect = 0.50, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 396 DWMCTICGCVNFARRTSCFQCNEARTD 422
DW+C C NF +R CF+C + D
Sbjct: 5 DWLCNKCCLNNFRKRLKCFRCGADKFD 31
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 33.5 bits (75), Expect = 0.61, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 3/78 (3%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTH---VSRGFAFLHFHSVEDASKAL 506
L ++ L+ EE L+ FSK IK + + K +S GF F+ + E A KAL
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 507 EATNGTTLEKNGQILRVA 524
+ G T++ + +R++
Sbjct: 68 KQLQGHTVDGHKLEVRIS 85
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 33.5 bits (75), Expect = 0.63, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 26/49 (53%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPS 337
I V GLS TT ED+ ++G + ++ ++ + RGF F+ F S
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFES 50
>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 = 33.1 bits (74), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 474 IKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTTLEKNGQILRVAYA 526
I D R+V+D T S+G+ F+ F + DA A++ G L G+ +R +A
Sbjct: 33 ISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWL--GGRQIRTNWA 83
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%)
Query: 470 KHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKAL 506
K I+ +RLVRDK T +GF ++ F V+ +AL
Sbjct: 37 KDLSIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL 73
Score = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 41/82 (50%), Gaps = 8/82 (9%)
Query: 285 PSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAM 344
P T V L T + D+ I + +R VR+++++++ +GF +++F V + +
Sbjct: 14 PPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEA 72
Query: 345 MD----RIGDDGLVVD---GRK 359
+ +GD L VD GRK
Sbjct: 73 LTYDGALLGDRSLRVDIAEGRK 94
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 33.1 bits (74), Expect = 0.94, Method: Composition-based stats.
Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 13/79 (16%)
Query: 438 GKKGSDTGP-----THVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFA 492
G GS P VL VR L EE+L FS+ ++ ++ ++D +A
Sbjct: 1 GSSGSSGDPEVMAKVKVLFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YA 52
Query: 493 FLHFHSVEDASKALEATNG 511
F+HF A KA++ NG
Sbjct: 53 FVHFEDRGAAVKAMDEMNG 71
Score = 30.8 bits (68), Expect = 3.8, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 283 VAPSGTIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAAR 342
+A + V+ L+ TEE L + +E+G L V+ +K+ +AF+ F GAA
Sbjct: 12 MAKVKVLFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVHFEDRGAAV 63
Query: 343 AMMDRI 348
MD +
Sbjct: 64 KAMDEM 69
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 32.7 bits (73), Expect = 1.0, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 460 DEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEA 508
DE+ L+ F + I +L +++D+FT + +G AFL + E A KA A
Sbjct: 26 DEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Score = 29.6 bits (65), Expect = 9.8, Method: Composition-based stats.
Identities = 12/36 (33%), Positives = 24/36 (66%)
Query: 300 EEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
E+DL + E+G + + V+K+R +G+ +G AF+ +
Sbjct: 27 EKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTY 62
>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 = 32.3 bits (72), Expect = 1.3, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 28/59 (47%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDR 347
I V GLS T EE + + +G + + + + + RGF FI F + +M++
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 32.3 bits (72), Expect = 1.4, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 28/59 (47%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDR 347
I V GLS T EE + + +G + + + + + RGF FI F + +M++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 32.3 bits (72), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 35/60 (58%), Gaps = 4/60 (6%)
Query: 451 VVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATN 510
+ RGLDE D + L EF + I +L +++D+ T + +G AFL + + + A KA A +
Sbjct: 23 IPRGLDEQ-DLKPLFEEFGR---IYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSALH 78
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 24/36 (66%)
Query: 300 EEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF 335
E+DL + E+G + + V+K+R +G+ +G AF+ +
Sbjct: 29 EQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTY 64
>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 = 31.6 bits (70), Expect = 2.4, Method: Composition-based stats.
Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMDRI 348
+ + GLS TT++DL +++G + + + +G SRGF F+ F + +MD+
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 349 GD--DGLVVDGRK 359
+G V+D ++
Sbjct: 62 EHKLNGKVIDPKR 74
Score = 30.4 bits (67), Expect = 5.9, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 27/58 (46%)
Query: 450 LVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALE 507
+ + GL ++ L+ FSK + D L D T SRGF F+ F E K ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD 59
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 464 LRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTTLE 515
LR F + I D+ ++ ++ S+GF F+ F + DA +A E +GT +E
Sbjct: 32 LRQMFGQFGKILDVEIIFNE--RGSKGFGFVTFENSADADRAREKLHGTVVE 81
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 31.2 bits (69), Expect = 3.0, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWG--PLRHVRVIKERNSGVSRGFAFIDFPSVGAARAMMD 346
+ + L+ TT+EDL + + G + ++ + R +G S+GFA + S +++ +MD
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
>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 = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 9/76 (11%)
Query: 288 TIVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDFP---SVGAARAM 344
++ V + +T +DL + G + + ++ ++ SG +G+A+I+F SV AA AM
Sbjct: 38 SVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAM 97
Query: 345 MDRIGDDGLVVDGRKL 360
D V GR +
Sbjct: 98 ------DETVFRGRTI 107
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 31.2 bits (69), Expect = 3.5, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 289 IVVKGLSQKTTEEDLYQILAEWGPLRHVRVIKERNSGVSRGFAFIDF--PSVGAARAMMD 346
I V L T E + ++ +++G + +V++I +R + +GF F++ SV A A +D
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLD 63
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 30.8 bits (68), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 10/67 (14%)
Query: 464 LRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTTLEKNGQILRV 523
LR +F ++ P+ + +V+D +AF+H EDA +A+ + T E G+ + V
Sbjct: 27 LRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRGLDNT--EFQGKRMHV 76
Query: 524 AYAKSIL 530
+ S L
Sbjct: 77 QLSTSRL 83
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 30.8 bits (68), Expect = 4.1, Method: Composition-based stats.
Identities = 25/88 (28%), Positives = 47/88 (53%), Gaps = 7/88 (7%)
Query: 446 PTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRL-VRDKFTHVSRGFAFLHFHSVEDASK 504
PT V + R L ++ + FS + IK + + V H+S+G+A++ F + ++A K
Sbjct: 4 PTKVHIGR-LTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEK 62
Query: 505 ALEATNGTTLEKNGQILRVAYAKSILGP 532
AL+ +G ++ GQ + A ++L P
Sbjct: 63 ALKHMDGGQID--GQEIT---ATAVLAP 85
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 30.4 bits (67), Expect = 4.8, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 464 LRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKALEATNGTTLE 515
LR F + I D+ ++ ++ S+GF F+ F + DA +A E +GT +E
Sbjct: 46 LRQMFGQFGKILDVEIIFNE--RGSKGFGFVTFENSADADRAREKLHGTVVE 95
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 35/83 (42%), Gaps = 6/83 (7%)
Query: 446 PTHVLVVRGLDEYADEEMLRYEFSKHAPIKDLRLVRDKFTHVSRGFAFLHFHSVEDASKA 505
PT L V GL L EF + I+ + V+ FA++ + S++ A A
Sbjct: 16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGD------SFAYIQYESLDAAQAA 69
Query: 506 LEATNGTTLEKNGQILRVAYAKS 528
G L + LRV +AKS
Sbjct: 70 CAKMRGFPLGGPDRRLRVDFAKS 92
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
0.314 0.133 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,904,551
Number of Sequences: 62578
Number of extensions: 1199437
Number of successful extensions: 2039
Number of sequences better than 100.0: 136
Number of HSP's better than 100.0 without gapping: 110
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 1790
Number of HSP's gapped (non-prelim): 267
length of query: 1049
length of database: 14,973,337
effective HSP length: 109
effective length of query: 940
effective length of database: 8,152,335
effective search space: 7663194900
effective search space used: 7663194900
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (26.6 bits)