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= psy1534
(587 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 96.7 bits (239), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 49/81 (60%), Positives = 59/81 (72%)
Query: 158 LINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSI 217
L + VFVANLDYKV KKL+EVF +AG V +I DKDGKSRG GTV F+ +EAVQ+I
Sbjct: 14 LGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAI 73
Query: 218 SMLNNQNLFERRITVRMDRVA 238
SM N Q LF+R + V+MD A
Sbjct: 74 SMFNGQLLFDRPMHVKMDERA 94
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 57.8 bits (138), Expect = 2e-08, Method: Composition-based stats.
Identities = 30/71 (42%), Positives = 42/71 (59%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISMLN 221
VFV NL+ +V E+ L E+F AG + V I D++GK + FG V F HP +I++LN
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLN 78
Query: 222 NQNLFERRITV 232
L+ R I V
Sbjct: 79 GIRLYGRPINV 89
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 57.8 bits (138), Expect = 2e-08, Method: Composition-based stats.
Identities = 30/70 (42%), Positives = 45/70 (64%), Gaps = 4/70 (5%)
Query: 519 VVVKNLPPTITWQELRDKFRNCGDIKFAEIK---GKGD-IGLVRFDSEWTAKRAIDMMDR 574
+ V+NLP TW+ L+DKF CG + +A+IK GK G+V+F+S A+RA MM+
Sbjct: 11 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNG 70
Query: 575 TRIDGKIIDV 584
++ G+ IDV
Sbjct: 71 MKLSGREIDV 80
Score = 50.4 bits (119), Expect = 3e-06, Method: Composition-based stats.
Identities = 29/78 (37%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
++FV NL + K L++ F G V +I ++ +GKS+G G V+F+ P A ++ M+
Sbjct: 10 QIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME-NGKSKGCGVVKFESPEVAERACRMM 68
Query: 221 NNQNLFERRITVRMDRVA 238
N L R I VR+DR A
Sbjct: 69 NGMKLSGREIDVRIDRNA 86
Score = 33.9 bits (76), Expect = 0.28, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 30/50 (60%), Gaps = 1/50 (2%)
Query: 56 GDVTYVEILNDDTGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIK 105
G V Y +I + GK +G +V+F+SP++ +A M+ + GR++ ++
Sbjct: 33 GHVLYADI-KMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVR 81
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 57.0 bits (136), Expect = 3e-08, Method: Composition-based stats.
Identities = 30/70 (42%), Positives = 45/70 (64%), Gaps = 4/70 (5%)
Query: 519 VVVKNLPPTITWQELRDKFRNCGDIKFAEIK---GKGD-IGLVRFDSEWTAKRAIDMMDR 574
+ V+NLP TW+ L+DKF CG + +A+IK GK G+V+F+S A+RA MM+
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNG 67
Query: 575 TRIDGKIIDV 584
++ G+ IDV
Sbjct: 68 MKLSGREIDV 77
Score = 49.7 bits (117), Expect = 5e-06, Method: Composition-based stats.
Identities = 29/77 (37%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISMLN 221
+FV NL + K L++ F G V +I ++ +GKS+G G V+F+ P A ++ M+N
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME-NGKSKGCGVVKFESPEVAERACRMMN 66
Query: 222 NQNLFERRITVRMDRVA 238
L R I VR+DR A
Sbjct: 67 GMKLSGREIDVRIDRNA 83
Score = 33.5 bits (75), Expect = 0.34, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 56 GDVTYVEILNDDTGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIK 105
G V Y +I ++ GK +G +V+F+SP++ +A M+ + GR++ ++
Sbjct: 30 GHVLYADIKMEN-GKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVR 78
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 47/78 (60%), Gaps = 1/78 (1%)
Query: 158 LINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGK-SRGFGTVEFDHPVEAVQS 216
++ + V + VDE +LR++F G +E+V+I D++ + SRG+G V+F A Q+
Sbjct: 41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQA 100
Query: 217 ISMLNNQNLFERRITVRM 234
I+ LN N+ +R+ V +
Sbjct: 101 IAGLNGFNILNKRLKVAL 118
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 51/84 (60%), Gaps = 2/84 (2%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISMLN 221
++V NLD +D+++LR+ F G + + ++ ++ G+S+GFG V F P EA ++++ +N
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME-GGRSKGFGFVCFSSPEEATKAVTEMN 76
Query: 222 NQNLFERRITVRM-DRVADRLDGP 244
+ + + + V + R +R GP
Sbjct: 77 GRIVATKPLYVALAQRKEERQSGP 100
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 48.9 bits (115), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 45/88 (51%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
K+F+ L+ + +EK L+ VF G + V + D+ KSRGF + F++P +A + +
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDM 68
Query: 221 NNQNLFERRITVRMDRVADRLDGPVRLP 248
N ++L + I V + G R P
Sbjct: 69 NGKSLHGKAIKVEQAKKPSFQSGGRRRP 96
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 47.0 bits (110), Expect = 3e-05, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 47/83 (56%), Gaps = 3/83 (3%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKD-GKSRGFGTVEFDHPVEAVQSISML 220
++V +L + + E LR +F GK++N+ + D D G+S+G+G + F A +++ L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 221 NNQNLFERRITVRMDRVADRLDG 243
N L R +R+ V +RLDG
Sbjct: 68 NGFELAGR--PMRVGHVTERLDG 88
Score = 32.7 bits (73), Expect = 0.56, Method: Composition-based stats.
Identities = 14/55 (25%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 56 GDVTYVEILND-DTGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIKEAVE 109
G + + ++ D DTG+ +G + F + R+A+ +++ FE GR + + E
Sbjct: 30 GKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVTE 84
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 48/95 (50%), Gaps = 8/95 (8%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDG-KSRGFGTVEFDHPVEAVQSISML 220
++V L +VD+K L F G + +++I LD + K RGF VEF+ +A +I +
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 221 NNQNLFERRITVRMDRVADRLDGPVRLPEGLKSIG 255
N LF R I V + + P+R+ E S G
Sbjct: 75 NESELFGRTIRVNLAK-------PMRIKESGPSSG 102
>pdb|1DUJ|A Chain A, Solution Structure Of The Spindle Assembly Checkpoint
Protein Human Mad2
Length = 187
Score = 46.2 bits (108), Expect = 5e-05, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 41/66 (62%), Gaps = 6/66 (9%)
Query: 265 LQDVANWLLQEKVQKLSLIISNRNTKEVLERWDFKLQYDKSSDENDAASVNTASKTDSTN 324
++ + +WL + VQKL ++ISN + EVLERW F ++ DK++ + ++A + S
Sbjct: 61 VEQLKDWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKTAKD------DSAPREKSQK 114
Query: 325 AEKDKI 330
A +D+I
Sbjct: 115 AIQDEI 120
>pdb|2V64|D Chain D, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2.
pdb|2V64|E Chain E, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2.
pdb|2V64|H Chain H, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2
Length = 207
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 32/51 (62%)
Query: 265 LQDVANWLLQEKVQKLSLIISNRNTKEVLERWDFKLQYDKSSDENDAASVN 315
++ + +WL + VQKL ++ISN + EVLERW F ++ DK S E ++
Sbjct: 77 VEQLKDWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKGSGEKSQKAIQ 127
>pdb|2VFX|A Chain A, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|B Chain B, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|C Chain C, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|D Chain D, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|E Chain E, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|F Chain F, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|G Chain G, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|H Chain H, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|I Chain I, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|J Chain J, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|K Chain K, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|L Chain L, Structure Of The Symmetric Mad2 Dimer
Length = 206
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 33/47 (70%)
Query: 265 LQDVANWLLQEKVQKLSLIISNRNTKEVLERWDFKLQYDKSSDENDA 311
++ + +WL + VQKL ++ISN + EVLERW F ++ DK++ ++ A
Sbjct: 70 VEQLKDWLYKSSVQKLVVVISNIESGEVLERWQFDIESDKTAKDDSA 116
>pdb|3GMH|A Chain A, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|B Chain B, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|C Chain C, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|D Chain D, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|E Chain E, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|F Chain F, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|G Chain G, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|H Chain H, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|I Chain I, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|J Chain J, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|K Chain K, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|L Chain L, Crystal Structure Of The Mad2 Dimer
Length = 207
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 33/47 (70%)
Query: 265 LQDVANWLLQEKVQKLSLIISNRNTKEVLERWDFKLQYDKSSDENDA 311
++ + +WL + VQKL ++ISN + EVLERW F ++ DK++ ++ A
Sbjct: 71 VEQLKDWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKTAKDDSA 117
>pdb|2QYF|A Chain A, Crystal Structure Of The Mad2P31(COMET)MAD2-Binding
Peptide Ternary Complex
pdb|2QYF|C Chain C, Crystal Structure Of The Mad2P31(COMET)MAD2-Binding
Peptide Ternary Complex
Length = 206
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 33/47 (70%)
Query: 265 LQDVANWLLQEKVQKLSLIISNRNTKEVLERWDFKLQYDKSSDENDA 311
++ + +WL + VQKL ++ISN + EVLERW F ++ DK++ ++ A
Sbjct: 70 VEQLKDWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKTAKDDSA 116
>pdb|1S2H|A Chain A, The Mad2 Spindle Checkpoint Protein Possesses Two Distinct
Natively Folded States
Length = 206
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 33/47 (70%)
Query: 265 LQDVANWLLQEKVQKLSLIISNRNTKEVLERWDFKLQYDKSSDENDA 311
++ + +WL + VQKL ++ISN + EVLERW F ++ DK++ ++ A
Sbjct: 70 VEQLKDWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKTAKDDSA 116
>pdb|2V64|A Chain A, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2.
pdb|2V64|C Chain C, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2.
pdb|2V64|F Chain F, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2
Length = 213
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 33/47 (70%)
Query: 265 LQDVANWLLQEKVQKLSLIISNRNTKEVLERWDFKLQYDKSSDENDA 311
++ + +WL + VQKL ++ISN + EVLERW F ++ DK++ ++ A
Sbjct: 77 VEQLKDWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKTAKDDSA 123
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 52/100 (52%), Gaps = 8/100 (8%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKD-GKSRGFGTVEFDHPVEAVQSI 217
+ VFV N+ Y+ E++L+++F G V + + D++ GK +G+G E+ A+ ++
Sbjct: 8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAM 67
Query: 218 SMLNNQNLFERRITVRMDRVADRLDGPVRLPEGLKSIGMG 257
LN + R +R+D A + E LKS+G G
Sbjct: 68 RNLNGREFSGR--ALRVDNAASEKN-----KEELKSLGTG 100
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 52 LSTVGDVTYVEILND-DTGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIKEAVED 110
S VG V ++ D +TGKP+G E+Q + A+ ++ E GR L + A +
Sbjct: 29 FSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAASE 88
Query: 111 K 111
K
Sbjct: 89 K 89
>pdb|1KLQ|A Chain A, The Mad2 Spindle Checkpoint Protein Undergoes Similar
Major Conformational Changes Upon Binding To Either Mad1
Or Cdc20
Length = 197
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 33/47 (70%)
Query: 265 LQDVANWLLQEKVQKLSLIISNRNTKEVLERWDFKLQYDKSSDENDA 311
++ + +WL + VQKL ++ISN + EVLERW F ++ DK++ ++ A
Sbjct: 61 VEQLKDWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKTAKDDSA 107
>pdb|1GO4|A Chain A, Crystal Structure Of Mad1-Mad2 Reveals A Conserved Mad2
Binding Motif In Mad1 And Cdc20.
pdb|1GO4|B Chain B, Crystal Structure Of Mad1-Mad2 Reveals A Conserved Mad2
Binding Motif In Mad1 And Cdc20.
pdb|1GO4|C Chain C, Crystal Structure Of Mad1-Mad2 Reveals A Conserved Mad2
Binding Motif In Mad1 And Cdc20.
pdb|1GO4|D Chain D, Crystal Structure Of Mad1-Mad2 Reveals A Conserved Mad2
Binding Motif In Mad1 And Cdc20
Length = 205
Score = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 33/47 (70%)
Query: 265 LQDVANWLLQEKVQKLSLIISNRNTKEVLERWDFKLQYDKSSDENDA 311
++ + +WL + VQKL ++ISN + EVLERW F ++ DK++ ++ A
Sbjct: 69 VEQLKDWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKTAKDDSA 115
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 152 LGINCPLINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPV 211
LG + N VFV +D ++DE ++R F G V+ V+I D+ G S+G+G V F + V
Sbjct: 3 LGSGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDV 62
Query: 212 EAVQSI 217
+ VQ I
Sbjct: 63 D-VQKI 67
>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 = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 47/86 (54%), Gaps = 6/86 (6%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSIS 218
+ +F+ NLD +D K L + F G + + ++ D++G S+G+G V F+ A ++I
Sbjct: 103 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIE 161
Query: 219 -----MLNNQNLFERRITVRMDRVAD 239
+LN++ +F R R +R A+
Sbjct: 162 KMNGMLLNDRKVFVGRFKSRKEREAE 187
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 26/74 (35%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDG-KSRGFGTVEFDHPVEAVQSISML 220
++V L +VD+K L F G + +++I LD + K RGF VEF+ +A +I +
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 221 NNQNLFERRITVRM 234
N LF R I V +
Sbjct: 126 NESELFGRTIRVNL 139
>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 = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
+FVA ++Y E KLR F + G ++ + + K GK RG+ +E++H + +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 221 NNQNLFERRITVRMDR 236
+ + + RR+ V ++R
Sbjct: 165 DGKKIDGRRVLVDVER 180
>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 = 1e-04, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 47/86 (54%), Gaps = 6/86 (6%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSIS 218
+ +F+ NLD +D K L + F G + + ++ D++G S+G+G V F+ A ++I
Sbjct: 98 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIE 156
Query: 219 -----MLNNQNLFERRITVRMDRVAD 239
+LN++ +F R R +R A+
Sbjct: 157 KMNGMLLNDRKVFVGRFKSRKEREAE 182
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 36/58 (62%), Gaps = 1/58 (1%)
Query: 160 NKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSI 217
N VFV +D ++DE ++R F G V+ V+I D+ G S+G+G V F + V+ VQ I
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVD-VQKI 66
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 47/86 (54%), Gaps = 6/86 (6%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSIS 218
+ +F+ NLD +D K L + F G + + ++ D++G S+G+G V F+ A ++I
Sbjct: 11 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIE 69
Query: 219 -----MLNNQNLFERRITVRMDRVAD 239
+LN++ +F R R +R A+
Sbjct: 70 KMNGMLLNDRKVFVGRFKSRKEREAE 95
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 36/58 (62%), Gaps = 1/58 (1%)
Query: 160 NKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSI 217
N VFV +D ++DE ++R F G V+ V+I D+ G S+G+G V F + V+ VQ I
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVD-VQKI 66
>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 = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
+FVA ++Y E KLR F + G ++ + + K GK RG+ +E++H + +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 221 NNQNLFERRITVRMDR 236
+ + + RR+ V ++R
Sbjct: 165 DGKKIDGRRVLVDVER 180
>pdb|2O3D|A Chain A, Structure Of Human Sf2ASF RNA RECOGNITION MOTIF 2 (RRM2)
Length = 113
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 41/78 (52%), Gaps = 9/78 (11%)
Query: 499 RAGLDSNRSMNQSSNIERDTVVVKNLPPTITWQELRDKFRNCGDIKFAEIKGKGDIGLVR 558
R G S RS N+ VVV LPP+ +WQ+L+D R GD+ +A++ G G+V
Sbjct: 6 RYGPPSRRSENR--------VVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDG-TGVVE 56
Query: 559 FDSEWTAKRAIDMMDRTR 576
F + A+ +D T+
Sbjct: 57 FVRKEDMTYAVRKLDNTK 74
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 50/86 (58%), Gaps = 2/86 (2%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDG-KSRGFGTVEFDHPVEAVQSISM 219
K+FV L + +E+ L +VF G++ V + D++ +SRGFG V F++ +A ++
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 220 LNNQNLFERRITV-RMDRVADRLDGP 244
+N +++ R+I V + + +D GP
Sbjct: 74 MNGKSVDGRQIRVDQAGKSSDNRSGP 99
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/76 (34%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDG-KSRGFGTVEFDHPVEAVQSISML 220
++V L +VD+K L F G + +++I LD + K RGF VEF+ +A +I +
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 221 NNQNLFERRITVRMDR 236
N LF R I V + +
Sbjct: 68 NESELFGRTIRVNLAK 83
>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 = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/76 (34%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDG-KSRGFGTVEFDHPVEAVQSISML 220
++V L +VD+K L F G + +++I LD + K RGF VEF+ +A +I +
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 221 NNQNLFERRITVRMDR 236
N LF R I V + +
Sbjct: 70 NESELFGRTIRVNLAK 85
>pdb|3BEG|B Chain B, Crystal Structure Of Sr Protein Kinase 1 Complexed To Its
Substrate AsfSF2
Length = 115
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 41/78 (52%), Gaps = 9/78 (11%)
Query: 499 RAGLDSNRSMNQSSNIERDTVVVKNLPPTITWQELRDKFRNCGDIKFAEIKGKGDIGLVR 558
R G S RS N+ VVV LPP+ +WQ+L+D R GD+ +A++ G G+V
Sbjct: 7 RYGPPSRRSENR--------VVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDG-TGVVE 57
Query: 559 FDSEWTAKRAIDMMDRTR 576
F + A+ +D T+
Sbjct: 58 FVRKEDMTYAVRKLDNTK 75
>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 = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/74 (35%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDG-KSRGFGTVEFDHPVEAVQSISML 220
++V L +VD+K L F G + +++I LD + K RGF VEF+ +A +I +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 221 NNQNLFERRITVRM 234
N LF R I V +
Sbjct: 65 NESELFGRTIRVNL 78
>pdb|1X4C|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 2
Length = 108
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 519 VVVKNLPPTITWQELRDKFRNCGDIKFAEIKGKGDIGLVRFDSEWTAKRAIDMMDRTRI 577
VVV LPP+ +WQ+L+D R GD+ +A++ G G+V F + A+ +D T+
Sbjct: 18 VVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDG-TGVVEFVRKEDMTYAVRKLDNTKF 75
>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 = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFD 208
+ K+FV + +E LR+ F GK+E +EI D+ GK RGF V FD
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 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 = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFD 208
+ K+FV + +E LR+ F GK+E +EI D+ GK RGF V FD
Sbjct: 103 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 153
>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 = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 46/83 (55%), Gaps = 6/83 (7%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSIS--- 218
+F+ NLD +D K L + F G + + ++ D++G S+G+G V F+ A ++I
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEKMN 66
Query: 219 --MLNNQNLFERRITVRMDRVAD 239
+LN++ +F R R +R A+
Sbjct: 67 GMLLNDRKVFVGRFKSRKEREAE 89
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFD 208
+ K+FV + +E LR+ F GK+E +EI D+ GK RGF V FD
Sbjct: 105 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 155
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 43/84 (51%), Gaps = 3/84 (3%)
Query: 506 RSMNQSSNIERD--TVVVKNLPPTITWQELRDKFRNCGDIKFAEIKGKGD-IGLVRFDSE 562
+ + S ERD T++ KNLP +T EL++ F + +I+ GK I + F +E
Sbjct: 81 KPKGKDSKKERDARTLLAKNLPYKVTQDELKEVFEDAAEIRLVSKDGKSKGIAYIEFKTE 140
Query: 563 WTAKRAIDMMDRTRIDGKIIDVTF 586
A++ + T IDG+ I + +
Sbjct: 141 ADAEKTFEEKQGTEIDGRSISLYY 164
Score = 35.8 bits (81), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 4/71 (5%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISMLN 221
+ NL YKV + +L+EVF A ++ V KDGKS+G +EF +A ++
Sbjct: 96 LLAKNLPYKVTQDELKEVFEDAAEIRLV----SKDGKSKGIAYIEFKTEADAEKTFEEKQ 151
Query: 222 NQNLFERRITV 232
+ R I++
Sbjct: 152 GTEIDGRSISL 162
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 45/85 (52%), Gaps = 2/85 (2%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
V+V LD KV E L E+F AG V N + D+ G+ +G+G VEF +A +I ++
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 221 NNQNLFERRITVRMDRVADR-LDGP 244
+ L+ + I V ++ L GP
Sbjct: 78 DMIKLYGKPIRVNKASAHNKNLSGP 102
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFD 208
+ K+FV + +E LR+ F GK+E +EI D+ GK RGF V FD
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 154
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFD 208
+ K+FV + +E LR+ F GK+E +EI D+ GK RGF V FD
Sbjct: 97 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 147
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 42.7 bits (99), Expect = 6e-04, Method: Composition-based stats.
Identities = 22/83 (26%), Positives = 48/83 (57%), Gaps = 3/83 (3%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKD-GKSRGFGTVEFDHPVEAVQSISM 219
+++V +L + + E LR +F G++E++++ +D + G+S+G+G + F A +++
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 220 LNNQNLFERRITVRMDRVADRLD 242
LN L R +++ V +R D
Sbjct: 88 LNGFELAGR--PMKVGHVTERTD 108
Score = 31.6 bits (70), Expect = 1.2, Method: Composition-based stats.
Identities = 11/47 (23%), Positives = 26/47 (55%)
Query: 63 ILNDDTGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIKEAVE 109
+++ +TG+ +G + F + +KA+ +++ FE GR + + E
Sbjct: 59 MMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVTE 105
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 38/64 (59%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISMLN 221
++V NLD + E L++ F++ G + N++I +DK+ K+ + VE+ +A ++ LN
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLN 62
Query: 222 NQNL 225
+ +
Sbjct: 63 GKQI 66
Score = 32.7 bits (73), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISML 220
+FV +L+ VD++ LR F+ + + D + G SRG+G V F +A ++ +
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 221 NNQNLFERRITV 232
Q+L R + +
Sbjct: 150 QGQDLNGRPLRI 161
>pdb|1WG4|A Chain A, Solution Structure Of Rrm Domain In Protein Bab31986
Length = 98
Score = 42.0 bits (97), Expect = 9e-04, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 37/58 (63%), Gaps = 1/58 (1%)
Query: 519 VVVKNLPPTITWQELRDKFRNCGDIKFAEIKGKGDIGLVRFDSEWTAKRAIDMMDRTR 576
V+V LPP+ +WQ+L+D R GD+ +A+++ G +G+V + + + A+ +D T+
Sbjct: 18 VLVSGLPPSGSWQDLKDHMREAGDVCYADVQKDG-MGMVEYLRKEDMEYALRKLDDTK 74
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFD 208
+ K+FV + +E LR+ F GK+E +EI D+ GK RGF V FD
Sbjct: 102 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 152
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKV-ENVEIALDKD-GKSRGFGTVEFDHPVEAVQSISM 219
+F+ NLD ++DEK L + F G + + +I D D G S+G+ + F + +I
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 220 LNNQNLFERRITV 232
+N Q L R ITV
Sbjct: 68 MNGQYLCNRPITV 80
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 37/176 (21%), Positives = 74/176 (42%), Gaps = 45/176 (25%)
Query: 50 SHLSTVGDVTYVEILNDD-TGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIKEAV 108
S ++GD+ +++ D TG+ G V + P+ KA+N ++ + + + + + A
Sbjct: 23 SLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKVSYA- 81
Query: 109 EDKXXXXXXXXXXXVDRDLSALLQNNSSKFGNTYGLSPQFLESLGINCPLINKVFVANLD 168
R SA +++ + ++V+ L
Sbjct: 82 ----------------RPSSASIRDAN--------------------------LYVSGLP 99
Query: 169 YKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISMLNNQ 223
+ +K++ ++F G++ I LD+ G SRG G + FD +EA ++I LN Q
Sbjct: 100 KTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQ 155
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
+ V L + + + + +F G +E+ ++ DK G+S G+G V + P +A ++I+ L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 221 NNQNLFERRITVRMDR 236
N L + I V R
Sbjct: 67 NGLKLQTKTIKVSYAR 82
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 41/74 (55%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
K+ V+NLD+ V + ++E+F G ++ + D+ G+S G V F+ +A++++
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY 89
Query: 221 NNQNLFERRITVRM 234
N L R + +++
Sbjct: 90 NGVPLDGRPMNIQL 103
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 43/185 (23%), Positives = 73/185 (39%), Gaps = 48/185 (25%)
Query: 51 HLSTVGDVTYVEILNDD-TGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIKEAVE 109
+ G VT ++I+ D TG+ RG + F+ P V + V H + K ++
Sbjct: 23 YFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQHILDGK--------VID 74
Query: 110 DKXXXXXXXXXXXVDRDLSALLQNNSSKFGNTYGLSPQFLESLGINCPLINKVFVANLDY 169
K A+ ++ K G K+FV +
Sbjct: 75 PK----------------RAIPRDEQDKTG---------------------KIFVGGIGP 97
Query: 170 KVDEKKLREVFRLAGKVENVEIALDKD-GKSRGFGTVEFDHPVEAVQSISMLNNQNLFER 228
V K+ E F G + + ++ LDKD G+SRGFG V +D +AV + + +R
Sbjct: 98 DVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDS-ADAVDRVCQNKFIDFKDR 156
Query: 229 RITVR 233
+I ++
Sbjct: 157 KIEIK 161
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPV---EAVQS 216
K+F+ L++ E LRE F G V +++I D G+SRGFG + F+ P E V++
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 217 ISMLNNQNLFERRITVR 233
+L+ + + +R R
Sbjct: 65 QHILDGKVIDPKRAIPR 81
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 44/73 (60%), Gaps = 4/73 (5%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKS-RGFGTVEFDHPVEAV-QSISM 219
++V NL Y ++++E+F GKV NV++ D++ K +GFG VE E+V ++I+
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE--ESVSEAIAK 61
Query: 220 LNNQNLFERRITV 232
L+N + R I V
Sbjct: 62 LDNTDFMGRTIRV 74
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 158 LINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQS 216
++++V+V ++ Y++ E +R+ F G +++++++ D K +GF VE++ P A +
Sbjct: 27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLA 86
Query: 217 ISMLNNQNLFERRITV 232
+ +N+ L R I V
Sbjct: 87 LEQMNSVMLGGRNIKV 102
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 32/161 (19%), Positives = 69/161 (42%), Gaps = 36/161 (22%)
Query: 68 TGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIKEAVEDKXXXXXXXXXXXVDRDL 127
T K +G A VE++ P+ + A+ +M+ GR + +
Sbjct: 66 TMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRP-------------------- 105
Query: 128 SALLQNNSSKFGNTYGLSPQFLESLGINCPLINKVFVANLDYKVDEKKLREVFRLAGKVE 187
+ G + ++ L N+++VA++ + + ++ VF GK++
Sbjct: 106 ------------SNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIK 153
Query: 188 NVEIALDK-DGKSRGFGTVEFDHPVEAVQSISMLNNQNLFE 227
+ +A D GK +G+G +E++ +A S +++ NLF+
Sbjct: 154 SATLARDPTTGKHKGYGFIEYE---KAQSSQDAVSSMNLFD 191
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 48/91 (52%), Gaps = 5/91 (5%)
Query: 143 GLSPQFLESLGINCPLINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRG 201
G Q +L I C +V+V ++ Y++ E +R+ F G +++++++ D K +G
Sbjct: 1 GAMAQRQRALAIMC----RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKG 56
Query: 202 FGTVEFDHPVEAVQSISMLNNQNLFERRITV 232
F VE++ P A ++ +N+ L R I V
Sbjct: 57 FAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 87
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 32/161 (19%), Positives = 69/161 (42%), Gaps = 36/161 (22%)
Query: 68 TGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIKEAVEDKXXXXXXXXXXXVDRDL 127
T K +G A VE++ P+ + A+ +M+ GR + +
Sbjct: 51 TMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRP-------------------- 90
Query: 128 SALLQNNSSKFGNTYGLSPQFLESLGINCPLINKVFVANLDYKVDEKKLREVFRLAGKVE 187
+ G + ++ L N+++VA++ + + ++ VF GK++
Sbjct: 91 ------------SNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIK 138
Query: 188 NVEIALDK-DGKSRGFGTVEFDHPVEAVQSISMLNNQNLFE 227
+ +A D GK +G+G +E++ +A S +++ NLF+
Sbjct: 139 SCTLARDPTTGKHKGYGFIEYE---KAQSSQDAVSSMNLFD 176
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
++V+ L + +K++ ++F G++ I LD+ G SRG G + FD +EA ++I L
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 221 NNQ 223
N Q
Sbjct: 64 NGQ 66
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 45/88 (51%), Gaps = 5/88 (5%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGK----SRGFGTVEFDHPVEAVQSI 217
+F+ NL++ E+ L+ VF G +++ I+ K+ S GFG VE+ P +A +++
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 218 SMLNNQNLFERRITVRM-DRVADRLDGP 244
L + ++ VR+ +R GP
Sbjct: 68 KQLQGHTVDGHKLEVRISERATKPASGP 95
>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 = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
++V+ L + +K+L ++F G++ I +D+ G SRG G + FD +EA ++I L
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 221 NNQ 223
N Q
Sbjct: 151 NGQ 153
Score = 35.4 bits (80), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
+ V L + +++ R +F G++E+ ++ DK G+S G+G V + P +A ++I+ L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 221 NNQNLFERRITVRMDR 236
N L + I V R
Sbjct: 65 NGLRLQTKTIKVSYAR 80
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 37/82 (45%), Gaps = 8/82 (9%)
Query: 511 SSNIERDTVVVKNLPPTITWQELRDKFRNCGDIKFAEI-------KGKGDIGLVRFDSEW 563
S++I + V LP T+T +EL F G I + I +G +G +RFD
Sbjct: 83 SASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRG-VGFIRFDKRI 141
Query: 564 TAKRAIDMMDRTRIDGKIIDVT 585
A+ AI ++ + G +T
Sbjct: 142 EAEEAIKGLNGQKPSGATEPIT 163
>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 = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 3/59 (5%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEF--DHPVEAV 214
+ K+FV L E+K+RE F G+VE++E+ +D K K RGF + F + PV+ +
Sbjct: 1 VKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKI 59
>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 = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 44/83 (53%), Gaps = 5/83 (6%)
Query: 151 SLGINCPLINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDH 209
+L I C +V+V ++ Y++ E +R+ F G +++++ + D K +GF VE++
Sbjct: 8 ALAIXC----RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEV 63
Query: 210 PVEAVQSISMLNNQNLFERRITV 232
P A ++ N+ L R I V
Sbjct: 64 PEAAQLALEQXNSVXLGGRNIKV 86
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 27/109 (24%), Positives = 54/109 (49%), Gaps = 13/109 (11%)
Query: 129 ALLQNNSSKFG---------NTYGLSPQFLESLGINCPLINKVFVANLDYKVDEKKLREV 179
AL Q NS G + G + ++ L N+++VA++ + + ++ V
Sbjct: 70 ALEQXNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSV 129
Query: 180 FRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISMLNNQNLFE 227
F GK+++ +A D GK +G+G +E++ +A S +++ NLF+
Sbjct: 130 FEAFGKIKSCTLARDPTTGKHKGYGFIEYE---KAQSSQDAVSSXNLFD 175
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 22/53 (41%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHP 210
I K+FV LD+ ++ LR F G+V + I DK +SRGFG V+F P
Sbjct: 16 IGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDP 68
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 45/82 (54%), Gaps = 2/82 (2%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
K+ V+NLD+ V + ++E+F G ++ + D+ G+S G V F+ +A++++
Sbjct: 90 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQY 149
Query: 221 NNQNLFERRITVRMDRVADRLD 242
L R + +++ VA ++D
Sbjct: 150 KGVPLDGRPMDIQL--VASQID 169
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISML 220
VFV +L ++ + ++ F GK+ + + D GKS+G+G V F + ++A +I +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 221 NNQNLFERRI 230
Q L R+I
Sbjct: 78 GGQWLGGRQI 87
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 39/74 (52%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
K+ V+NLD+ V + ++E+F G ++ + D+ G+S G V F+ +A+++
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAXKQY 90
Query: 221 NNQNLFERRITVRM 234
N L R +++
Sbjct: 91 NGVPLDGRPXNIQL 104
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 38.5 bits (88), Expect = 0.010, Method: Composition-based stats.
Identities = 21/82 (25%), Positives = 45/82 (54%), Gaps = 2/82 (2%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
K+ V+NLD+ V + ++E+F G ++ + D+ G+S G V F+ +A++++
Sbjct: 37 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQY 96
Query: 221 NNQNLFERRITVRMDRVADRLD 242
L R + +++ VA ++D
Sbjct: 97 KGVPLDGRPMDIQL--VASQID 116
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 44/72 (61%), Gaps = 1/72 (1%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
++ V+N+ ++ + LR++F GK+ +VEI ++ G S+GFG V F++ +A ++ L
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAREKL 75
Query: 221 NNQNLFERRITV 232
+ + R+I V
Sbjct: 76 HGTVVEGRKIEV 87
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 38.5 bits (88), Expect = 0.010, Method: Composition-based stats.
Identities = 21/82 (25%), Positives = 45/82 (54%), Gaps = 2/82 (2%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
K+ V+NLD+ V + ++E+F G ++ + D+ G+S G V F+ +A++++
Sbjct: 37 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQY 96
Query: 221 NNQNLFERRITVRMDRVADRLD 242
L R + +++ VA ++D
Sbjct: 97 KGVPLDGRPMDIQL--VASQID 116
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 38.5 bits (88), Expect = 0.011, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 42/86 (48%), Gaps = 4/86 (4%)
Query: 155 NCPLINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAV 214
+CPL KV+V NL ++ +L F G + +V +A + GF VEF+ P +A
Sbjct: 69 SCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPP----GFAFVEFEDPRDAA 124
Query: 215 QSISMLNNQNLFERRITVRMDRVADR 240
++ L+ + L R+ V + R
Sbjct: 125 DAVRELDGRTLCGCRVRVELSNGEKR 150
>pdb|4AEZ|B Chain B, Crystal Structure Of Mitotic Checkpoint Complex
pdb|4AEZ|E Chain E, Crystal Structure Of Mitotic Checkpoint Complex
pdb|4AEZ|H Chain H, Crystal Structure Of Mitotic Checkpoint Complex
Length = 203
Score = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 34/58 (58%), Gaps = 4/58 (6%)
Query: 271 WLLQEKVQKLSLIISNRNTKEVLERWDFKLQYDKSSDENDAASVNTASKTDSTNAEKD 328
W+ +K+QKL L+I+++ + E LERW F ++ ++D+ N +K D +K+
Sbjct: 74 WMFAKKIQKLILVITSKCSGEDLERWQFNVEMVDTADQFQ----NIGNKEDELRVQKE 127
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 44/72 (61%), Gaps = 1/72 (1%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
++ V+N+ ++ + LR++F GK+ +VEI ++ G S+GFG V F++ +A ++ L
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAREKL 89
Query: 221 NNQNLFERRITV 232
+ + R+I V
Sbjct: 90 HGTVVEGRKIEV 101
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 38/79 (48%), Gaps = 5/79 (6%)
Query: 155 NCPLINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGK-SRGFGTVEFDHPVEA 213
NC L V L E+ LREVF G + +V I D+ + SRGF V F++ +A
Sbjct: 15 NCCLG----VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDA 70
Query: 214 VQSISMLNNQNLFERRITV 232
++ N L RRI V
Sbjct: 71 KEAKERANGMELDGRRIRV 89
>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 = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 6/77 (7%)
Query: 516 RDTVVVKNLPPTITWQELRDKFRNCGDIKFAEI---KGKGD---IGLVRFDSEWTAKRAI 569
R ++V LP +T ELR F + G+++ A++ K G G V + + A+RAI
Sbjct: 4 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 63
Query: 570 DMMDRTRIDGKIIDVTF 586
+ ++ R+ K I V++
Sbjct: 64 NTLNGLRLQSKTIKVSY 80
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 157 PLINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDG-KSRGFGTVEFDHPVEAVQ 215
P + V+V+NL + + L +F GKV V I DKD KS+G + F A
Sbjct: 14 PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQN 73
Query: 216 SISMLNNQNLFERRI 230
+NN+ LF R I
Sbjct: 74 CTRAINNKQLFGRVI 88
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 38/85 (44%)
Query: 502 LDSNRSMNQSSNIERDTVVVKNLPPTITWQELRDKFRNCGDIKFAEIKGKGDIGLVRFDS 561
L + R + + +R + V NLPP IT +E+R F G I G +R ++
Sbjct: 8 LKNFRKPGEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLET 67
Query: 562 EWTAKRAIDMMDRTRIDGKIIDVTF 586
A+ A +D + GK + V F
Sbjct: 68 RTLAEIAKVELDNMPLRGKQLRVRF 92
Score = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 42/92 (45%), Gaps = 7/92 (7%)
Query: 164 VANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISMLNNQ 223
V NL V + L E F + G+VE + +D G+ G G VEF A +++ +
Sbjct: 101 VRNLPQYVSNELLEEAFSVFGQVERAVVIVDDRGRPSGKGIVEFSGKPAARKALDRCSEG 160
Query: 224 NL----FERRITVRMDRVADRLDGPVRLPEGL 251
+ F R +TV D+LD LPE L
Sbjct: 161 SFLLTTFPRPVTV---EPMDQLDDEEGLPEKL 189
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%)
Query: 52 LSTVGDVTYVEILNDDTGKPRGSAIVEFQSPDLVRKAVNK 91
S G V ++ DD G+P G IVEF RKA+++
Sbjct: 117 FSVFGQVERAVVIVDDRGRPSGKGIVEFSGKPAARKALDR 156
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 160 NKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISM 219
+++FV NL + E+++R++F GK V I DK GFG + + A +
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK-----GFGFIRLETRTLAEIAKVE 77
Query: 220 LNNQNLFERRITVRM 234
L+N L +++ VR
Sbjct: 78 LDNMPLRGKQLRVRF 92
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 48/94 (51%), Gaps = 10/94 (10%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISMLN 221
+ ++NL Y E+ L+EVF K +++ +++GKS+G+ +EF +A ++++ N
Sbjct: 18 LVLSNLSYSATEETLQEVFE---KATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSCN 74
Query: 222 NQNLFERRITVRMDRVADRLDGPVRLPEGLKSIG 255
+R I R R+ L GP P S G
Sbjct: 75 -----KREIEGRAIRL--ELQGPRGSPNSGPSSG 101
Score = 33.9 bits (76), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 30/48 (62%)
Query: 58 VTYVEILNDDTGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIK 105
T++++ + GK +G A +EF S + ++A+N ++ E +GR + ++
Sbjct: 39 ATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLE 86
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 38.1 bits (87), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 38/79 (48%), Gaps = 5/79 (6%)
Query: 155 NCPLINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGK-SRGFGTVEFDHPVEA 213
NC L V L E+ LREVF G + +V I D+ + SRGF V F++ +A
Sbjct: 46 NCCL----GVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDA 101
Query: 214 VQSISMLNNQNLFERRITV 232
++ N L RRI V
Sbjct: 102 KEAKERANGMELDGRRIRV 120
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 38/79 (48%), Gaps = 5/79 (6%)
Query: 155 NCPLINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGK-SRGFGTVEFDHPVEA 213
NC L V L E+ LREVF G + +V I D+ + SRGF V F++ +A
Sbjct: 15 NCCLG----VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDA 70
Query: 214 VQSISMLNNQNLFERRITV 232
++ N L RRI V
Sbjct: 71 KEAKERANGMELDGRRIRV 89
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 37.7 bits (86), Expect = 0.017, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 42/86 (48%), Gaps = 4/86 (4%)
Query: 155 NCPLINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAV 214
+CPL KV+V NL ++ +L F G + +V +A + GF VEF+ P +A
Sbjct: 69 SCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPP----GFAFVEFEDPRDAA 124
Query: 215 QSISMLNNQNLFERRITVRMDRVADR 240
++ L+ + L R+ V + R
Sbjct: 125 DAVRDLDGRTLCGCRVRVELSNGEKR 150
>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 = 37.7 bits (86), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 1/70 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISML 220
VFV +L ++ + ++ F G++ + + D GKS+G+G V F + +A +I +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 221 NNQNLFERRI 230
Q L R+I
Sbjct: 78 GGQWLGGRQI 87
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 37.4 bits (85), Expect = 0.023, Method: Composition-based stats.
Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 3/56 (5%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEF--DHPVEAV 214
+FV L E+K+RE F G+VE++E+ +D K K RGF + F + PV+ +
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKI 57
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 37.4 bits (85), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 38/84 (45%), Gaps = 7/84 (8%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
K+FV N+ ++LR +F G+V ++ D + V + +A +I+ L
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVKD-------YAFVHMEKEADAKAAIAQL 63
Query: 221 NNQNLFERRITVRMDRVADRLDGP 244
N + + +RI V + + GP
Sbjct: 64 NGKEVKGKRINVELSTKGQKKSGP 87
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 37.4 bits (85), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 38/79 (48%), Gaps = 5/79 (6%)
Query: 155 NCPLINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGK-SRGFGTVEFDHPVEA 213
NC L V L E+ LREVF G + +V I D+ + SRGF V F++ +A
Sbjct: 12 NCCLG----VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDA 67
Query: 214 VQSISMLNNQNLFERRITV 232
++ N L RRI V
Sbjct: 68 KEAKERANGMELDGRRIRV 86
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 37.4 bits (85), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 6/77 (7%)
Query: 516 RDTVVVKNLPPTITWQELRDKFRNCGDIKFAEI---KGKGD---IGLVRFDSEWTAKRAI 569
R ++V LP +T ELR F + G+++ A++ K G G V + + A+RAI
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 570 DMMDRTRIDGKIIDVTF 586
+ ++ R+ K I V++
Sbjct: 62 NTLNGLRLQSKTIKVSY 78
Score = 32.0 bits (71), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKD-GKSRGFGTVEFDHPVEAVQSISML 220
++++ L + +K + ++F G++ N + +D+ G SRG + FD EA ++I+
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 221 NNQ 223
N
Sbjct: 151 NGH 153
>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 = 37.4 bits (85), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 6/77 (7%)
Query: 516 RDTVVVKNLPPTITWQELRDKFRNCGDIKFAEI---KGKGD---IGLVRFDSEWTAKRAI 569
R ++V LP +T ELR F + G+++ A++ K G G V + + A+RAI
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 570 DMMDRTRIDGKIIDVTF 586
+ ++ R+ K I V++
Sbjct: 62 NTLNGLRLQSKTIKVSY 78
Score = 32.0 bits (71), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKD-GKSRGFGTVEFDHPVEAVQSISML 220
++++ L + +K + ++F G++ N + +D+ G SRG + FD EA ++I+
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 221 NNQ 223
N
Sbjct: 151 NGH 153
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 37.4 bits (85), Expect = 0.026, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 160 NKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDG-KSRGFGTVEFDHPVEAVQSIS 218
NK+FV + + E +LRE F+ G V V + D + + RGFG + F+ Q+++
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN 70
Query: 219 M 219
M
Sbjct: 71 M 71
Score = 30.0 bits (66), Expect = 3.8, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 51 HLSTVGDVTYVEILND-DTGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIKEA 107
+ G VT V ++ D + +PRG + F+ V +AVN MH + G+K+ +K A
Sbjct: 30 YFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVKRA 86
>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 = 37.0 bits (84), Expect = 0.028, Method: Composition-based stats.
Identities = 20/74 (27%), Positives = 39/74 (52%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISMLN 221
++V NL + E+++ E+F +G ++ + + LDK + GF VE+ +A ++ +N
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSRADAENAMRYIN 80
Query: 222 NQNLFERRITVRMD 235
L +R I D
Sbjct: 81 GTRLDDRIIRTDWD 94
>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 = 36.2 bits (82), Expect = 0.048, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
+FV + + E+ + + F G+++N+ + LD+ G +G+ VE++ EA ++ L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 221 NNQNLFERRITV 232
N Q+L + I+V
Sbjct: 72 NGQDLMGQPISV 83
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 36.2 bits (82), Expect = 0.049, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
+FV + + E+ + + F G+++N+ + LD+ G +G+ VE++ EA ++ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 221 NNQNLFERRITV 232
N Q+L + I+V
Sbjct: 70 NGQDLMGQPISV 81
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 36.2 bits (82), Expect = 0.049, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
+FV + + E+ + + F G+++N+ + LD+ G +G+ VE++ EA ++ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 221 NNQNLFERRITV 232
N Q+L + I+V
Sbjct: 70 NGQDLMGQPISV 81
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 36.2 bits (82), Expect = 0.050, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
+FV + + E+ + + F G+++N+ + LD+ G +G+ VE++ EA ++ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 221 NNQNLFERRITV 232
N Q+L + I+V
Sbjct: 70 NGQDLMGQPISV 81
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
Length = 99
Score = 35.8 bits (81), Expect = 0.061, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 33/72 (45%)
Query: 515 ERDTVVVKNLPPTITWQELRDKFRNCGDIKFAEIKGKGDIGLVRFDSEWTAKRAIDMMDR 574
+R + V NLPP IT +E+R F G I G +R ++ A+ A +D
Sbjct: 14 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDN 73
Query: 575 TRIDGKIIDVTF 586
+ GK + V F
Sbjct: 74 MPLRGKQLRVRF 85
Score = 31.6 bits (70), Expect = 1.3, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 5/74 (6%)
Query: 160 NKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISM 219
+++FV NL + E+++R++F GK V I DK GFG + + A +
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK-----GFGFIRLETRTLAEIAKVE 70
Query: 220 LNNQNLFERRITVR 233
L+N L +++ VR
Sbjct: 71 LDNMPLRGKQLRVR 84
>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 = 35.8 bits (81), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 39/74 (52%), Gaps = 6/74 (8%)
Query: 519 VVVKNLPPTITWQELRDKFRNCGDIKFAEI---KGKGD---IGLVRFDSEWTAKRAIDMM 572
++V LP T ELR F + G+++ A++ K G G V + + A+RAI+ +
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 573 DRTRIDGKIIDVTF 586
+ R+ K I V++
Sbjct: 82 NGLRLQSKTIKVSY 95
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 35.8 bits (81), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 36/70 (51%), Gaps = 1/70 (1%)
Query: 518 TVVVKNLPPTITWQELRDKFRNCGDIKFAEIKGKGD-IGLVRFDSEWTAKRAIDMMDRTR 576
T++ KNL IT EL++ F + +I+ GK I + F SE A++ ++
Sbjct: 101 TLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAE 160
Query: 577 IDGKIIDVTF 586
IDG+ + + +
Sbjct: 161 IDGRSVSLYY 170
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 32/57 (56%), Gaps = 6/57 (10%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIAL-DKDGKSRGFGTVEFDHPVEAVQSI 217
+ NL + + E +L+EVF A +EI L +DGKS+G +EF +A +++
Sbjct: 102 LLAKNLSFNITEDELKEVFEDA-----LEIRLVSQDGKSKGIAYIEFKSEADAEKNL 153
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 35.8 bits (81), Expect = 0.071, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISM 219
++FV NL Y E+ L ++F G + + +D K +GF V F P AV++ +
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 220 LNNQNLFERRI 230
++ Q +F+ R+
Sbjct: 70 VDGQ-VFQGRM 79
>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 = 35.4 bits (80), Expect = 0.089, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
+FV + + E+ + + F G+++N+ + LD+ G +G+ VE++ EA ++ L
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 221 NNQNLFERRITV 232
N Q+L + I+V
Sbjct: 86 NGQDLMGQPISV 97
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 35.4 bits (80), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 36/70 (51%), Gaps = 1/70 (1%)
Query: 518 TVVVKNLPPTITWQELRDKFRNCGDIKFAEIKGKGD-IGLVRFDSEWTAKRAIDMMDRTR 576
T++ KNL IT EL++ F + +I+ GK I + F SE A++ ++
Sbjct: 18 TLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAE 77
Query: 577 IDGKIIDVTF 586
IDG+ + + +
Sbjct: 78 IDGRSVSLYY 87
Score = 32.0 bits (71), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 32/57 (56%), Gaps = 6/57 (10%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIAL-DKDGKSRGFGTVEFDHPVEAVQSI 217
+ NL + + E +L+EVF A +EI L +DGKS+G +EF +A +++
Sbjct: 19 LLAKNLSFNITEDELKEVFEDA-----LEIRLVSQDGKSKGIAYIEFKSEADAEKNL 70
>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 = 35.4 bits (80), Expect = 0.094, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
+FV + + E+ + + F G+++N+ + LD+ G +G+ VE++ EA ++ L
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 221 NNQNLFERRITV 232
N Q+L + I+V
Sbjct: 85 NGQDLMGQPISV 96
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 35.0 bits (79), Expect = 0.12, Method: Composition-based stats.
Identities = 20/65 (30%), Positives = 32/65 (49%)
Query: 157 PLINKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQS 216
P K+FV L+ + E +R +F G +E I DG S+G V++ EA +
Sbjct: 13 PSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFVKYSSHAEAQAA 72
Query: 217 ISMLN 221
I+ L+
Sbjct: 73 INALH 77
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 35.0 bits (79), Expect = 0.12, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISML 220
+FV ++ + E +++E F G+++N+ + LD + G S+G+ VE++ +A+ + L
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 221 NNQNLFERRITV 232
N + + I V
Sbjct: 89 NGAEIMGQTIQV 100
>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 = 35.0 bits (79), Expect = 0.12, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSR-GFGTVEFDHPVEAVQSISML 220
++V NL + E+++ E+F +G ++ + + LDK K+ GF VE+ +A ++ +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 221 NNQNLFERRITVRMD 235
N L +R I D
Sbjct: 102 NGTRLDDRIIRTDWD 116
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 18/73 (24%), Positives = 41/73 (56%), Gaps = 2/73 (2%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK--DGKSRGFGTVEFDHPVEAVQSIS 218
KV + L V + + E+F GK++ +++ +++ S+G+ VEF++P EA +++
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
Query: 219 MLNNQNLFERRIT 231
++ + + IT
Sbjct: 66 HMDGGQIDGQEIT 78
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 29/64 (45%), Gaps = 2/64 (3%)
Query: 521 VKNLPPTITWQELRDKFRNCGDIKFAEIKGKGDIGLVRFDSEWTAKRAIDMMDRTRIDGK 580
V N+ PT T QELR KF G + +I D V + A AI +D T GK
Sbjct: 15 VGNISPTCTNQELRAKFEEYGPVIECDI--VKDYAFVHMERAEDAVEAIRGLDNTEFQGK 72
Query: 581 IIDV 584
+ V
Sbjct: 73 RMHV 76
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFDHPVEAVQSISML 220
+ V L + + + + +F G +E+ ++ DK G+S G+G V + P +A ++I+ L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 221 NNQNLFERRITVRMDR 236
N L + I V R
Sbjct: 67 NGLKLQTKTIKVSYAR 82
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 29/67 (43%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
K+F+ + K E +R +F G++E I DG SRG V F A +I +
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAM 156
Query: 221 NNQNLFE 227
+ E
Sbjct: 157 HQAQTME 163
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 29/67 (43%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
K+F+ + K E +R +F G++E I DG SRG V F A +I +
Sbjct: 109 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAM 168
Query: 221 NNQNLFE 227
+ E
Sbjct: 169 HQAQTME 175
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSR--GFGTVEFDHPVEAV 214
++++NL +DE++L + + G+V + I D G SR GF +E EAV
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAV 82
>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 = 33.9 bits (76), Expect = 0.28, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISML 220
+FV ++ + E +++E F G+++N+ + LD + G S+G+ VE++ +A+ + L
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 221 NNQNLFERRITV 232
N + + I V
Sbjct: 135 NGAEIMGQTIQV 146
>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 = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISML 220
+FV +L+ VD++ LR F+ + + D + G SRG+G V F +A ++ +
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 221 NNQNLFERRITV 232
Q+L R + +
Sbjct: 64 QGQDLNGRPLRI 75
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 159 INKVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGK-SRGFGTVEFDHPVE 212
K+F+ L ++ E+ LR + GK+ + + D K SRGFG V F E
Sbjct: 27 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAE 81
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 33.5 bits (75), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 39/91 (42%), Gaps = 14/91 (15%)
Query: 510 QSSNIERDTVVVKNLPPTITWQELRDKFRNCGDIKFAEIKGKGDIGL------------- 556
+ N + +T+ V+ L +T + + D F+ G IK + G+ I L
Sbjct: 1 EQDNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEA 60
Query: 557 -VRFDSEWTAKRAIDMMDRTRIDGKIIDVTF 586
V FD +AK AID D G I V+F
Sbjct: 61 TVSFDDPPSAKAAIDWFDGKEFSGNPIKVSF 91
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 33.1 bits (74), Expect = 0.40, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSIS 218
+ V L +K E+ L+E F G+V V++ D K G S+GFG V F V+ +S
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS 75
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 33.1 bits (74), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 173 EKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISMLNNQNLFERRIT 231
+++L +FR G + I D K G S G+ V+F +++ ++I +LN + +R+
Sbjct: 17 DRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLK 76
Query: 232 VRMDR 236
V R
Sbjct: 77 VSYAR 81
>pdb|1SJR|A Chain A, Nmr Structure Of Rrm2 From Human Polypyrimidine Tract
Binding Protein Isoform 1 (Ptb1)
Length = 164
Score = 32.7 bits (73), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
++ V NL Y V L ++F G V + I K+ + + +++ PV A + L
Sbjct: 48 RIIVENLFYPVTLDVLHQIFSKFGTVLKI-ITFTKNNQFQAL--LQYADPVSAQHAKLSL 104
Query: 221 NNQNLFERRITVRMD 235
+ QN++ T+R+D
Sbjct: 105 DGQNIYNACCTLRID 119
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 32.7 bits (73), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 38/76 (50%), Gaps = 1/76 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISML 220
+ V L + +++L +FR G + I D K G S G+ V+F +++ ++I +L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 221 NNQNLFERRITVRMDR 236
N + +R+ V R
Sbjct: 66 NGITVRNKRLKVSYAR 81
>pdb|3ZZY|A Chain A, Crystal Structure Of A Raver1 Pri3 Peptide In Complex With
Polypyrimidine Tract Binding Protein Rrm2
pdb|3ZZY|B Chain B, Crystal Structure Of A Raver1 Pri3 Peptide In Complex With
Polypyrimidine Tract Binding Protein Rrm2
pdb|3ZZZ|A Chain A, Crystal Structure Of A Raver1 Pri4 Peptide In Complex With
Polypyrimidine Tract Binding Protein Rrm2
pdb|3ZZZ|B Chain B, Crystal Structure Of A Raver1 Pri4 Peptide In Complex With
Polypyrimidine Tract Binding Protein Rrm2
Length = 130
Score = 32.3 bits (72), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
++ V NL Y V L ++F G V + I K+ + + +++ PV A + L
Sbjct: 30 RIIVENLFYPVTLDVLHQIFSKFGTVLKI-ITFTKNNQFQAL--LQYADPVSAQHAKLSL 86
Query: 221 NNQNLFERRITVRMD 235
+ QN++ T+R+D
Sbjct: 87 DGQNIYNACCTLRID 101
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 32.3 bits (72), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 37/86 (43%), Gaps = 14/86 (16%)
Query: 515 ERDTVVVKNLPPTITWQELRDKFRNCGDIKFAEIKGKGDIGL--------------VRFD 560
+ +T+ V+ L +T + + D F+ G IK + G+ I L V FD
Sbjct: 12 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFD 71
Query: 561 SEWTAKRAIDMMDRTRIDGKIIDVTF 586
+AK AID D G I V+F
Sbjct: 72 DPPSAKAAIDWFDGKEFSGNPIKVSF 97
>pdb|2JVR|A Chain A, Segmental Isotope Labeling Of Npl3p
Length = 111
Score = 32.3 bits (72), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 3/73 (4%)
Query: 515 ERDTVVVKNLPPTITWQELRDKFR-NCGDIKFAEIKGK--GDIGLVRFDSEWTAKRAIDM 571
+R + +KNLP +WQ+L+D R N + F+ + + G + F SE A++
Sbjct: 27 KRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALER 86
Query: 572 MDRTRIDGKIIDV 584
++ G +I V
Sbjct: 87 LNNIEFRGSVITV 99
>pdb|2DGX|A Chain A, Solution Structure Of The Rna Recognition Motif In
Kiaa0430 Protein
Length = 96
Score = 32.3 bits (72), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 45/77 (58%), Gaps = 6/77 (7%)
Query: 162 VFVANLDYKVDEKK----LREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSI 217
V V+N+DY++ K+ L+E F GKV++VE++ D + + V+ ++ +A+ ++
Sbjct: 12 VQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDYQLK--AVVQMENLQDAIGAV 69
Query: 218 SMLNNQNLFERRITVRM 234
+ L+ + ++I V +
Sbjct: 70 NSLHRYKIGSKKILVSL 86
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 32.0 bits (71), Expect = 0.92, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEF 207
K+F+ L ++ ++ LRE F G+V+ + D +SRGFG V F
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 49
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 32.0 bits (71), Expect = 0.98, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEF 207
K+F+ L ++ ++ LRE F G+V+ + D +SRGFG V F
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 74
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 35/74 (47%), Gaps = 4/74 (5%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
KV+V NL + +L F G + V IA + G F VEF+ P +A ++ L
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPG----FAFVEFEDPRDAEDAVRGL 57
Query: 221 NNQNLFERRITVRM 234
+ + + R+ V +
Sbjct: 58 DGKVICGSRVRVEL 71
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%)
Query: 64 LNDDTGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVIKEA 107
L+ +TGKP+G A V ++ P + AV + +G KL + A
Sbjct: 57 LDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLA 100
>pdb|2OSR|A Chain A, Nmr Structure Of Rrm-2 Of Yeast Npl3 Protein
Length = 87
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 3/73 (4%)
Query: 515 ERDTVVVKNLPPTITWQELRDKFR-NCGDIKFAEIKGK--GDIGLVRFDSEWTAKRAIDM 571
+R + +KNLP +WQ+L+D R N + F+ + + G + F SE A++
Sbjct: 5 KRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALER 64
Query: 572 MDRTRIDGKIIDV 584
++ G +I V
Sbjct: 65 LNNIEFRGSVITV 77
>pdb|2CPY|A Chain A, Solution Structure Of Rna Binding Domain 3 In Rna Binding
Motif Protein 12
Length = 114
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 57 DVTYVEILNDDTGKPRGSAIVEFQSPDLVRKAVNKMHRFETKGRKLVI 104
D V +L D+ G+ G A+V+F++ D RK+ ++HR + GR+ +
Sbjct: 42 DENAVHVLVDNNGQGLGQALVQFKNEDDARKS-ERLHRKKLNGREAFV 88
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 500 AGLDSNRSMNQ-SSNIERDTVVVKNLPPTITWQELRDKFRNCGDI 543
AGL S ++ + N E TV+VKNLP + ++ F++CG I
Sbjct: 24 AGLTSKKANEALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPI 68
>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 = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 173 EKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISMLNNQNLFERRIT 231
+++L +FR G + I D K G S G+ V+F ++ ++I +LN + +R+
Sbjct: 28 DRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVLNGITVRNKRLK 87
Query: 232 VRMDR 236
V R
Sbjct: 88 VSYAR 92
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 31.2 bits (69), Expect = 1.9, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 33/62 (53%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
K+FV L + ++ +R++F G ++ + DG S+G V+F EA +I+ L
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAAINTL 73
Query: 221 NN 222
++
Sbjct: 74 HS 75
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 162 VFVANLDYKVDEKKLREVF-RLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSIS 218
+FV +L VD+ L E F ++ ++ LD+ G S+G+G V+F +E ++++
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALT 69
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 25/57 (43%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSI 217
K+F+ + K E +R F G++E I DG SRG V F A +I
Sbjct: 97 KLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAXAQTAI 153
>pdb|1A2X|A Chain A, Complex Of Troponin C With A 47 Residue (1-47) Fragment Of
Troponin I
Length = 159
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 36/59 (61%), Gaps = 2/59 (3%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGK-VENVEI-ALDKDGKSRGFGTVEFDHPVEAVQSI 217
++F N D +D ++L E+FR +G+ V + EI +L KDG G ++FD ++ ++ +
Sbjct: 100 RIFDRNADGYIDAEELAEIFRASGEHVTDEEIESLMKDGDKNNDGRIDFDEFLKMMEGV 158
>pdb|1TCF|A Chain A, Crystal Structure Of Calcium-Saturated Rabbit Skeletal
Troponin C
pdb|1TN4|A Chain A, Four Calcium Tnc
pdb|2TN4|A Chain A, Four Calcium Tnc
Length = 159
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 36/59 (61%), Gaps = 2/59 (3%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGK-VENVEI-ALDKDGKSRGFGTVEFDHPVEAVQSI 217
++F N D +D ++L E+FR +G+ V + EI +L KDG G ++FD ++ ++ +
Sbjct: 100 RIFDRNADGYIDAEELAEIFRASGEHVTDEEIESLMKDGDKNNDGRIDFDEFLKMMEGV 158
>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 = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISML 220
V++ ++ Y E+++ ++ G V N+++ D + G+S+G+ +EF + ++ L
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 221 NNQNLFER 228
N L R
Sbjct: 67 NGYQLGSR 74
>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 = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISML 220
V++ ++ Y E+++ ++ G V N+++ D + G+S+G+ +EF + ++ L
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 221 NNQNLFER 228
N L R
Sbjct: 66 NGYQLGSR 73
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALD-KDGKSRGFGTVEFDHPVEAVQSISML 220
V++ ++ Y E+++ ++ G V N+++ D + G+S+G+ +EF + ++ L
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 221 NNQNLFER 228
N L R
Sbjct: 65 NGYQLGSR 72
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 176 LREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISMLNNQNLFERRITVRMD 235
+ ++F GK+ N + ++DGK++G+ +E+ P AV ++ + L +++ T R++
Sbjct: 38 IHKIFSKFGKITN-DFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKL-DKQHTFRVN 95
Query: 236 RVAD 239
D
Sbjct: 96 LFTD 99
>pdb|1ZU4|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group P21212
pdb|1ZU5|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group H32
pdb|1ZU5|B Chain B, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group H32
Length = 320
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 26/53 (49%)
Query: 21 MFQRIETGAPLEVPVVMDLIQGDASLYQISHLSTVGDVTYVEILNDDTGKPRG 73
+ Q++E AP EV +V+D G + Q S V DV+ + + D+ G
Sbjct: 219 IIQQVEKSAPHEVLLVIDATTGQNGVIQAEEFSKVADVSGIILTKMDSTSKGG 271
>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 = 30.0 bits (66), Expect = 3.7, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEF 207
V+V N+DY + L F G + + I DK G +G+ +EF
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEF 85
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 30.0 bits (66), Expect = 3.7, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 31/61 (50%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
K+FV L+ + E+ + +F+ G ++ + DG S+G V+F EA +I L
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHAL 76
Query: 221 N 221
+
Sbjct: 77 H 77
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 30.0 bits (66), Expect = 4.2, Method: Composition-based stats.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 171 VDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVE 206
V +K L +F AGKV N+E +D+ GK++GF VE
Sbjct: 24 VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVE 60
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 29.3 bits (64), Expect = 6.3, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVEFD 208
+FV L + ++ F GKV++ + DK + RGFG V F+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFE 49
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 29.3 bits (64), Expect = 6.6, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 162 VFVANLDYKVDEKKLREVFRLAGKVENVEIALDKD-GKSRGFGTVEFDHPVEAVQSISML 220
+++ L ++ L ++ + GK+ + + LDK K +G+G V+FD P A ++++ L
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 29.3 bits (64), Expect = 7.0, Method: Composition-based stats.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 171 VDEKKLREVFRLAGKVENVEIALDK-DGKSRGFGTVE 206
V +K L +F AGKV N+E +D+ GK++GF VE
Sbjct: 24 VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVE 60
>pdb|2ADB|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd2 Complexed With Cucucu Rna
Length = 148
Score = 28.9 bits (63), Expect = 7.3, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 161 KVFVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQSISML 220
++ V NL Y V L ++F G V + I K+ + + +++ PV A + L
Sbjct: 35 RIIVENLFYPVTLDVLHQIFSKFGTVLKI-ITFTKNNQFQAL--LQYADPVSAQHAKLSL 91
Query: 221 NNQNLFERRITVRMD 235
+ QN++ T+R+D
Sbjct: 92 DGQNIYNACCTLRID 106
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 28.9 bits (63), Expect = 8.0, Method: Composition-based stats.
Identities = 16/77 (20%), Positives = 39/77 (50%), Gaps = 3/77 (3%)
Query: 157 PLINKV-FVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQ 215
P +N++ ++ NL YK+ +++ ++F G + + + ++RG V ++ +A
Sbjct: 9 PEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG--NTPETRGTAYVVYEDIFDAKN 66
Query: 216 SISMLNNQNLFERRITV 232
+ L+ N+ R + V
Sbjct: 67 ACDHLSGFNVCNRYLVV 83
>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 = 28.9 bits (63), Expect = 8.2, Method: Composition-based stats.
Identities = 24/112 (21%), Positives = 52/112 (46%), Gaps = 7/112 (6%)
Query: 157 PLINKV-FVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQ 215
P +N++ ++ NL YK+ +++ ++F G + + + ++RG V ++ +A
Sbjct: 15 PEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG--NTPETRGTAYVVYEDIFDAKN 72
Query: 216 SISMLNNQNLFERRITV---RMDRVADRLDGPVRLPEGLKSIGMGLGANGAP 264
+ L+ N+ R + V +R ++D + E LK + G N P
Sbjct: 73 ACDHLSGFNVCNRYLVVLYYNANRAFQKMDTKKK-EEQLKLLKEKYGINTDP 123
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 28.9 bits (63), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 24/112 (21%), Positives = 53/112 (47%), Gaps = 7/112 (6%)
Query: 157 PLINKV-FVANLDYKVDEKKLREVFRLAGKVENVEIALDKDGKSRGFGTVEFDHPVEAVQ 215
P +N++ ++ NL YK+ +++ ++F G + + + ++RG V ++ +A
Sbjct: 5 PEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG--NTPETRGTAYVVYEDIFDAKN 62
Query: 216 SISMLNNQNLFERRITV---RMDRVADRLDGPVRLPEGLKSIGMGLGANGAP 264
++ L+ N+ R + V +R ++D + E LK + G N P
Sbjct: 63 AVDHLSGFNVSNRYLVVLYYNANRAFQKMDTKKK-EEQLKLLKEKYGINTDP 113
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 0.131 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,571,216
Number of Sequences: 62578
Number of extensions: 517501
Number of successful extensions: 1387
Number of sequences better than 100.0: 161
Number of HSP's better than 100.0 without gapping: 72
Number of HSP's successfully gapped in prelim test: 89
Number of HSP's that attempted gapping in prelim test: 1208
Number of HSP's gapped (non-prelim): 242
length of query: 587
length of database: 14,973,337
effective HSP length: 104
effective length of query: 483
effective length of database: 8,465,225
effective search space: 4088703675
effective search space used: 4088703675
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)