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= psy13319
(117 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CPZ|A Chain A, Solution Structure Of Rna Binding Domain 3 In Cug Triplet
Repeat Rna-Binding Protein 1
pdb|2RQ4|A Chain A, Refinement Of Rna Binding Domain 3 In Cug Triplet Repeat
Rna-Binding Protein 1
pdb|2RQC|A Chain A, Solution Structure Of Rna-Binding Domain 3 Of Cugbp1 In
Complex With Rna (Ug)3
Length = 115
Score = 68.6 bits (166), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 37/81 (45%), Positives = 49/81 (60%)
Query: 33 GWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAI 92
G +F+Y+L E + L Q+F PFG V S KV D QTN K FGFV+ N A AI
Sbjct: 25 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAI 84
Query: 93 QSLNGYALGNRILQVSFKTNK 113
QS+NG+ +G + L+V K +K
Sbjct: 85 QSMNGFQIGMKRLKVQLKRSK 105
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 65.9 bits (159), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 51/83 (61%), Gaps = 4/83 (4%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAV-QSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
IF+ NL PE +E +L+ F FG + Q+ K++RD T KG+ F+ ++D + AI++
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 95 LNGYALGNRILQVSF---KTNKG 114
+NG L NR + VS+ K +KG
Sbjct: 68 MNGQYLCNRPITVSYAFKKDSKG 90
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 65.1 bits (157), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 34/78 (43%), Positives = 48/78 (61%)
Query: 33 GWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAI 92
G +F+Y+L E ++ L F PFG V S KV D QT+ K FGFV+ N D A VAI
Sbjct: 40 GCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAI 99
Query: 93 QSLNGYALGNRILQVSFK 110
+++NG+ +G + L+V K
Sbjct: 100 KAMNGFQVGTKRLKVQLK 117
>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 = 62.8 bits (151), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 46/78 (58%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV +L+PE + F PFG + +V++D+ T K KG+GFV+ N +A AIQ +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 96 NGYALGNRILQVSFKTNK 113
G LG R ++ ++ T K
Sbjct: 78 GGQWLGGRQIRTNWATRK 95
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 46/72 (63%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV L+ +T E L Q+F +G + V V++D +T + +GFGFVT N D+A A+ ++
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 96 NGYALGNRILQV 107
NG ++ R ++V
Sbjct: 75 NGKSVDGRQIRV 86
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 50/83 (60%)
Query: 31 GSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVV 90
GS + +FV +L+PE + + F PFG + +V++D+ T K KG+GFV+ N +A
Sbjct: 4 GSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAEN 63
Query: 91 AIQSLNGYALGNRILQVSFKTNK 113
AIQ + G LG R ++ ++ T K
Sbjct: 64 AIQQMGGQWLGGRQIRTNWATRK 86
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 45/78 (57%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV +L+PE + F PFG + +V++D+ T K KG+GFV+ N +A AI +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 96 NGYALGNRILQVSFKTNK 113
G LG R ++ ++ T K
Sbjct: 78 GGQWLGGRQIRTNWATRK 95
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 49/78 (62%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V +L E +L +F PFG ++S++++ D +T + KG+GF+T ++ + A A++ L
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 96 NGYALGNRILQVSFKTNK 113
NG+ L R ++V T +
Sbjct: 89 NGFELAGRPMKVGHVTER 106
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 57.8 bits (138), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 49/86 (56%), Gaps = 3/86 (3%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
I V NL+ +T E+ L +LF PFG++ + + +D T + KGF F++ ++A AI
Sbjct: 17 TIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAG 76
Query: 95 LNGYALGNRILQVSF---KTNKGKTS 117
++G+ + IL V + TN G +S
Sbjct: 77 VSGFGYDHLILNVEWAKPSTNSGPSS 102
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 55.8 bits (133), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
C+ V+ L+ T E L ++F +G + V ++ D Q+ + +GF FV N D+A A +
Sbjct: 48 CLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKER 107
Query: 95 LNGYALGNRILQVSFKTNK 113
NG L R ++V F K
Sbjct: 108 ANGMELDGRRIRVDFSITK 126
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 55.8 bits (133), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 47/78 (60%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V +L E +L +F PFG + ++ +++D T + KG+GF+T ++ + A A++ L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 96 NGYALGNRILQVSFKTNK 113
NG+ L R ++V T +
Sbjct: 68 NGFELAGRPMRVGHVTER 85
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 55.8 bits (133), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
C+ V+ L+ T E L ++F +G + V ++ D Q+ + +GF FV N D+A A +
Sbjct: 17 CLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKER 76
Query: 95 LNGYALGNRILQVSFKTNK 113
NG L R ++V F K
Sbjct: 77 ANGMELDGRRIRVDFSITK 95
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 55.5 bits (132), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
C+ V+ L+ T E L ++F +G + V ++ D Q+ + +GF FV N D+A A +
Sbjct: 14 CLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKER 73
Query: 95 LNGYALGNRILQVSFKTNK 113
NG L R ++V F K
Sbjct: 74 ANGMELDGRRIRVDFSITK 92
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 41/74 (55%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
C+ V+ L+ T E L ++F +G + V ++ D Q+ + +GF FV N D+A A +
Sbjct: 17 CLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKER 76
Query: 95 LNGYALGNRILQVS 108
NG L R ++VS
Sbjct: 77 ANGMELDGRRIRVS 90
>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 = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 44/81 (54%)
Query: 28 TMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDE 87
+M + ++V LA E ++ VL F PFG + +++ D +T K +GF FV ++
Sbjct: 2 SMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAED 61
Query: 88 AVVAIQSLNGYALGNRILQVS 108
A AI ++N L R ++V+
Sbjct: 62 AAAAIDNMNESELFGRTIRVN 82
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 49/89 (55%), Gaps = 3/89 (3%)
Query: 24 LPANTMNGSGWCI--FVYNLAPET-EESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFV 80
+P MN + + N P T +E L QLF +G ++SVK++ D +T + +G+GFV
Sbjct: 30 IPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFV 89
Query: 81 TMTNYDEAVVAIQSLNGYALGNRILQVSF 109
+ A AI LNG+ + N+ L+V+
Sbjct: 90 KFQSGSSAQQAIAGLNGFNILNKRLKVAL 118
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 43/81 (53%)
Query: 29 MNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEA 88
M + ++V LA E ++ VL F PFG + +++ D +T K +GF FV ++A
Sbjct: 8 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDA 67
Query: 89 VVAIQSLNGYALGNRILQVSF 109
AI ++N L R ++V+
Sbjct: 68 AAAIDNMNESELFGRTIRVNL 88
>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 = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 42/77 (54%)
Query: 32 SGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVA 91
S ++V LA E ++ VL F PFG + +++ D +T K +GF FV ++A A
Sbjct: 1 SKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 60
Query: 92 IQSLNGYALGNRILQVS 108
I ++N L R ++V+
Sbjct: 61 IDNMNESELFGRTIRVN 77
>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 = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 43/69 (62%), Gaps = 1/69 (1%)
Query: 44 ETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNGYALGNR 103
+TEE +L L G V ++K++ D QT + KG+ F+ + + + A+++LNGY LG+R
Sbjct: 16 QTEEQIL-DLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSR 74
Query: 104 ILQVSFKTN 112
L+ + +N
Sbjct: 75 FLKCGYSSN 83
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 43/72 (59%), Gaps = 1/72 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L ET E +L +FG G + V +I+D +T+K +GF F+T N +A A + +
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKD-RTSKSRGFAFITFENPADAKNAAKDM 68
Query: 96 NGYALGNRILQV 107
NG +L + ++V
Sbjct: 69 NGKSLHGKAIKV 80
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 43/69 (62%), Gaps = 1/69 (1%)
Query: 44 ETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNGYALGNR 103
+TEE +L L G V ++K++ D QT + KG+ F+ + + + A+++LNGY LG+R
Sbjct: 15 QTEEQIL-DLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSR 73
Query: 104 ILQVSFKTN 112
L+ + +N
Sbjct: 74 FLKCGYSSN 82
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 43/69 (62%), Gaps = 1/69 (1%)
Query: 44 ETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNGYALGNR 103
+TEE +L L G V ++K++ D QT + KG+ F+ + + + A+++LNGY LG+R
Sbjct: 14 QTEEQIL-DLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSR 72
Query: 104 ILQVSFKTN 112
L+ + +N
Sbjct: 73 FLKCGYSSN 81
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V NL ++ L + F PFG + S KV+ ++ + KGFGFV ++ +EA A+ +
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVM--MEGGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 96 NGYALGNRILQVSFKTNK 113
NG + + L V+ K
Sbjct: 76 NGRIVATKPLYVALAQRK 93
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 41/74 (55%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
++V LA E ++ VL F PFG + +++ D +T K +GF FV ++A AI +
Sbjct: 7 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66
Query: 95 LNGYALGNRILQVS 108
+N L R ++V+
Sbjct: 67 MNESELFGRTIRVN 80
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 40/73 (54%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV N+ E E L +F G V S +++ D +T K KG+GF + + A+ A+++L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 96 NGYALGNRILQVS 108
NG R L+V
Sbjct: 71 NGREFSGRALRVD 83
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 41/74 (55%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V LA E ++ VL F PFG + +++ D +T K +GF FV ++A AI ++
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 96 NGYALGNRILQVSF 109
N L R ++V+
Sbjct: 126 NESELFGRTIRVNL 139
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 49.3 bits (116), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 34/61 (55%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+++ L P T + L +L P+G + S K I D TNKCKG+GFV + A A+ +L
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 96 N 96
Sbjct: 68 K 68
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 48.5 bits (114), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 44/81 (54%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V ++ E E + Q F PFG ++S+ + D T K KGF FV + A +A++ +
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 96 NGYALGNRILQVSFKTNKGKT 116
N LG R ++V +N G+
Sbjct: 91 NSVMLGGRNIKVGRPSNIGQA 111
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 39/72 (54%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
I+V ++ + + + +F FG ++S + RD T K KG+GF+ + A+ S+
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 187
Query: 96 NGYALGNRILQV 107
N + LG + L+V
Sbjct: 188 NLFDLGGQYLRV 199
>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 = 48.5 bits (114), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 46/89 (51%)
Query: 21 SSILPANTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFV 80
+ P + GW +FV ++ E +E + + F +G ++++ + D +T KG+ V
Sbjct: 60 DELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALV 119
Query: 81 TMTNYDEAVVAIQSLNGYALGNRILQVSF 109
+ +A+ A ++LNG + + +QV +
Sbjct: 120 EYETHKQALAAKEALNGAEIMGQTIQVDW 148
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 44/81 (54%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V ++ E E + Q F PFG ++S+ + D T K KGF FV + A +A++ +
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 96 NGYALGNRILQVSFKTNKGKT 116
N LG R ++V +N G+
Sbjct: 76 NSVMLGGRNIKVGRPSNIGQA 96
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 39/72 (54%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
I+V ++ + + + +F FG ++S + RD T K KG+GF+ + A+ S+
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 172
Query: 96 NGYALGNRILQV 107
N + LG + L+V
Sbjct: 173 NLFDLGGQYLRV 184
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 1/74 (1%)
Query: 37 FVYNLAPET-EESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+ N P+ + LFG G ++S K++RD T + G+GFV ++ ++A AI +L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 96 NGYALGNRILQVSF 109
NG L + ++VS+
Sbjct: 67 NGLKLQTKTIKVSY 80
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 43/83 (51%), Gaps = 3/83 (3%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
IF+ NL + L+ F FG + S KV+ D N KG+GFV + A AI+ +
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKM 71
Query: 96 NGYALGNRILQV-SFKTNKGKTS 117
NG L +R + V FK+ K + +
Sbjct: 72 NGMLLNDRKVFVGRFKSRKEREA 94
>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 = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 31 GSGWCIFVYNLAPET-EESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAV 89
G G + N P+ + L LF G V+S K+IRD G+GFV +A
Sbjct: 1 GPGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAE 60
Query: 90 VAIQSLNGYALGNRILQVSF 109
AI +LNG L ++ ++VS+
Sbjct: 61 RAINTLNGLRLQSKTIKVSY 80
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 48/94 (51%)
Query: 21 SSILPANTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFV 80
+ P + GW +FV ++ E +E + + F +G ++++ + D +T KG+ V
Sbjct: 14 DELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALV 73
Query: 81 TMTNYDEAVVAIQSLNGYALGNRILQVSFKTNKG 114
+ +A+ A ++LNG + + +QV + KG
Sbjct: 74 EYETHKQALAAKEALNGAEIMGQTIQVDWCFVKG 107
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 37/57 (64%)
Query: 53 LFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNGYALGNRILQVSF 109
LFG G ++S K++RD T + G+GFV ++ ++A AI +LNG L + ++VS+
Sbjct: 24 LFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKVSY 80
Score = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 31/62 (50%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V L + + QLF +G + + +++ D T +G GF+ EA AI+ L
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 96 NG 97
NG
Sbjct: 153 NG 154
>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 = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/88 (36%), Positives = 46/88 (52%), Gaps = 4/88 (4%)
Query: 31 GSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVV 90
GSG IF+ NL + L+ F FG + S KV+ D N KG+GFV + A
Sbjct: 4 GSGN-IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAER 60
Query: 91 AIQSLNGYALGNRILQV-SFKTNKGKTS 117
AI+ +NG L +R + V FK+ K + +
Sbjct: 61 AIEKMNGMLLNDRKVFVGRFKSRKEREA 88
>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 = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 43/83 (51%), Gaps = 3/83 (3%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
IF+ NL + L+ F FG + S KV+ D N KG+GFV + A AI+ +
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKM 158
Query: 96 NGYALGNRILQV-SFKTNKGKTS 117
NG L +R + V FK+ K + +
Sbjct: 159 NGMLLNDRKVFVGRFKSRKEREA 181
Score = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 37/61 (60%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V +L P+ E++L++ F P G + S++V RD+ T + G+ +V +A A+ ++
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 96 N 96
N
Sbjct: 73 N 73
>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 = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 43/83 (51%), Gaps = 3/83 (3%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
IF+ NL + L+ F FG + S KV+ D N KG+GFV + A AI+ +
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKM 163
Query: 96 NGYALGNRILQV-SFKTNKGKTS 117
NG L +R + V FK+ K + +
Sbjct: 164 NGMLLNDRKVFVGRFKSRKEREA 186
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 42/77 (54%), Gaps = 5/77 (6%)
Query: 25 PANTMNGSG-----WCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGF 79
P +MN S ++V +L P+ E++L++ F P G + S++V RD+ T + G+ +
Sbjct: 2 PLGSMNPSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAY 61
Query: 80 VTMTNYDEAVVAIQSLN 96
V +A A+ ++N
Sbjct: 62 VNFQQPADAERALDTMN 78
>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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 42/74 (56%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV +L ++ L F F + S V+ D+QT +G+GFV+ T+ D+A A+ S+
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 96 NGYALGNRILQVSF 109
G L R L++++
Sbjct: 64 QGQDLNGRPLRINW 77
>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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
IFV L+P+T E + + FG FG V+S+++ D +TNK +GF F+T +E V I
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKE-EEPVKKIMEK 62
Query: 96 NGYALG 101
+ +G
Sbjct: 63 KYHNVG 68
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 42/81 (51%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V ++ E E + Q F PFG ++S+ D T K KGF FV + A +A++
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 96 NGYALGNRILQVSFKTNKGKT 116
N LG R ++V +N G+
Sbjct: 75 NSVXLGGRNIKVGRPSNIGQA 95
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 38/72 (52%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
I+V ++ + + + +F FG ++S + RD T K KG+GF+ + A+ S
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSX 171
Query: 96 NGYALGNRILQV 107
N + LG + L+V
Sbjct: 172 NLFDLGGQYLRV 183
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 47.0 bits (110), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
IFV L+P+T E + + FG FG V+S+++ D +TNK +GF F+T +E V I
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKE-EEPVKKIMEK 60
Query: 96 NGYALG 101
+ +G
Sbjct: 61 KYHNVG 66
>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 = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 42/75 (56%), Gaps = 3/75 (4%)
Query: 37 FVYNLAPE--TEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
+ N P+ T+E LFG G ++S K++RD T + G+GFV + +A AI +
Sbjct: 5 LIVNYLPQNMTQEE-FRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINT 63
Query: 95 LNGYALGNRILQVSF 109
LNG L + ++VS+
Sbjct: 64 LNGLRLQTKTIKVSY 78
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V L + L QLF +G + + +++ D T +G GF+ EA AI+ L
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 96 NG 97
NG
Sbjct: 151 NG 152
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 33 GWCIFVYNLAPET-EESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVA 91
G + N P+ + L LF G V+S K+IRD G+GFV +A A
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 92 IQSLNGYALGNRILQVSF 109
I +LNG L ++ ++VS+
Sbjct: 61 INTLNGLRLQSKTIKVSY 78
Score = 32.0 bits (71), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 29/63 (46%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+++ L + + +F FG + + +V+ D T +G F+ EA AI S
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 96 NGY 98
NG+
Sbjct: 151 NGH 153
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 42/74 (56%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV +L ++ L F F + S V+ D+QT +G+GFV+ T+ D+A A+ S+
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 96 NGYALGNRILQVSF 109
G L R L++++
Sbjct: 150 QGQDLNGRPLRINW 163
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
++V NL E +L Q F G + ++K++ D + NK + FV +A +A+Q+
Sbjct: 2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMID-KNNKNVNYAFVEYHQSHDANIALQT 60
Query: 95 LNGYALGNRILQVSF 109
LNG + N I+++++
Sbjct: 61 LNGKQIENNIVKINW 75
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 33 GWCIFVYNLAPET-EESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVA 91
G + N P+ + L LF G V+S K+IRD G+GFV +A A
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 92 IQSLNGYALGNRILQVSF 109
I +LNG L ++ ++VS+
Sbjct: 61 INTLNGLRLQSKTIKVSY 78
Score = 32.0 bits (71), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 29/63 (46%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+++ L + + +F FG + + +V+ D T +G F+ EA AI S
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 96 NGY 98
NG+
Sbjct: 151 NGH 153
>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 = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 38/77 (49%)
Query: 33 GWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAI 92
G + V L + L LF G V+S K+IRD G+GFV +A AI
Sbjct: 19 GTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 78
Query: 93 QSLNGYALGNRILQVSF 109
+LNG L ++ ++VS+
Sbjct: 79 NTLNGLRLQSKTIKVSY 95
>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 = 45.8 bits (107), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 40/85 (47%)
Query: 25 PANTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTN 84
P + GW +FV + E E + F +G ++++ + D +T KG+ V
Sbjct: 15 PGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 74
Query: 85 YDEAVVAIQSLNGYALGNRILQVSF 109
Y EA A++ LNG L + + V +
Sbjct: 75 YKEAQAAMEGLNGQDLMGQPISVDW 99
>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 = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 40/85 (47%)
Query: 25 PANTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTN 84
P + GW +FV + E E + F +G ++++ + D +T KG+ V
Sbjct: 14 PGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 73
Query: 85 YDEAVVAIQSLNGYALGNRILQVSF 109
Y EA A++ LNG L + + V +
Sbjct: 74 YKEAQAAMEGLNGQDLMGQPISVDW 98
>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 = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 40/85 (47%)
Query: 25 PANTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTN 84
P + GW +FV + E E + F +G ++++ + D +T KG+ V
Sbjct: 1 PGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 60
Query: 85 YDEAVVAIQSLNGYALGNRILQVSF 109
Y EA A++ LNG L + + V +
Sbjct: 61 YKEAQAAMEGLNGQDLMGQPISVDW 85
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 23 ILPANTMNGSGWC-IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVT 81
++P + GS C +F+ L+ +T + L + FG FG V+ V+RD T + +GFGFVT
Sbjct: 14 LVPRGSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVT 73
Query: 82 MTN 84
+
Sbjct: 74 FMD 76
>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 = 45.8 bits (107), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 45/90 (50%)
Query: 27 NTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYD 86
N S + V L + + L+ LF G + + ++ RD +T G+ FV T+
Sbjct: 8 NDPRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEX 67
Query: 87 EAVVAIQSLNGYALGNRILQVSFKTNKGKT 116
++ AI+ LNG + N+ L+VS+ G++
Sbjct: 68 DSQRAIKVLNGITVRNKRLKVSYARPGGES 97
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 2/82 (2%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V NL + L +FG +G++ ++RD T + +G FV +EA AI +L
Sbjct: 103 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 162
Query: 96 NGYAL--GNRILQVSFKTNKGK 115
N G++ L V GK
Sbjct: 163 NNVIPEGGSQPLSVRLAEEHGK 184
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 45.8 bits (107), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 33/61 (54%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
IFV L T ++ L + F FG ++ VI D QT K +G+GFVTM + A A +
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP 79
Query: 96 N 96
N
Sbjct: 80 N 80
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 45.8 bits (107), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 8/78 (10%)
Query: 32 SGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVA 91
S +FV + +ES L ++FGPFG ++ VK++ GF FV + A A
Sbjct: 30 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKA 81
Query: 92 IQSLNGYALGNRILQVSF 109
I+ ++G + N+ L+V +
Sbjct: 82 IEEVHGKSFANQPLEVVY 99
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 45.4 bits (106), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 41/83 (49%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
+++ NL+P E L LF F + + + T + +G F+T N + A A+
Sbjct: 27 VLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHL 86
Query: 95 LNGYALGNRILQVSFKTNKGKTS 117
+NGY L +IL + F NK + S
Sbjct: 87 VNGYKLYGKILVIEFGKNKKQRS 109
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 45.4 bits (106), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 40/82 (48%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV NL+ + E L +LF +G + + D T K KGF FVT + AV A +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 96 NGYALGNRILQVSFKTNKGKTS 117
+G R+L V T K + S
Sbjct: 71 DGQVFQGRMLHVLPSTIKKEAS 92
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 45.4 bits (106), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 45/86 (52%)
Query: 31 GSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVV 90
S + V L + + L+ LF G + + +++RD +T G+ FV T+ ++
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 91 AIQSLNGYALGNRILQVSFKTNKGKT 116
AI+ LNG + N+ L+VS+ G++
Sbjct: 61 AIKVLNGITVRNKRLKVSYARPGGES 86
Score = 38.9 bits (89), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V NL + L +FG +G++ ++RD T + +G FV +EA AI +L
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 151
Query: 96 N 96
N
Sbjct: 152 N 152
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 45.4 bits (106), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 38/78 (48%)
Query: 32 SGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVA 91
GW +FV + E E + F +G ++++ + D +T KG+ V Y EA A
Sbjct: 6 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 65
Query: 92 IQSLNGYALGNRILQVSF 109
++ LNG L + + V +
Sbjct: 66 MEGLNGQDLMGQPISVDW 83
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 45.1 bits (105), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 42/76 (55%)
Query: 41 LAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNGYAL 100
L + + L+ LF G + + +++RD +T G+ FV T+ ++ AI+ LNG +
Sbjct: 11 LPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITV 70
Query: 101 GNRILQVSFKTNKGKT 116
N+ L+VS+ G++
Sbjct: 71 RNKRLKVSYARPGGES 86
>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 = 45.1 bits (105), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 38/78 (48%)
Query: 32 SGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVA 91
GW +FV + E E + F +G ++++ + D +T KG+ V Y EA A
Sbjct: 6 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 65
Query: 92 IQSLNGYALGNRILQVSF 109
++ LNG L + + V +
Sbjct: 66 MEGLNGQDLMGQPISVDW 83
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 8/78 (10%)
Query: 32 SGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVA 91
S +FV + +ES L ++FGPFG ++ VK++ GF FV + A A
Sbjct: 3 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKA 54
Query: 92 IQSLNGYALGNRILQVSF 109
I+ ++G + N+ L+V +
Sbjct: 55 IEEVHGKSFANQPLEVVY 72
>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 = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 38/78 (48%)
Query: 32 SGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVA 91
GW +FV + E E + F +G ++++ + D +T KG+ V Y EA A
Sbjct: 6 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 65
Query: 92 IQSLNGYALGNRILQVSF 109
++ LNG L + + V +
Sbjct: 66 MEGLNGQDLMGQPISVDW 83
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 41/74 (55%), Gaps = 3/74 (4%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVV-AIQS 94
I+V NL + +LF FG V +VK+I D +T K KGFGFV M +E+V AI
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQ--EESVSEAIAK 61
Query: 95 LNGYALGNRILQVS 108
L+ R ++V+
Sbjct: 62 LDNTDFMGRTIRVT 75
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV NL E +L++LF G + V + +D + K K FGFV + + AI L
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKD-REGKPKSFGFVCFKHPESVSYAIALL 77
Query: 96 NGYALGNRILQVS 108
NG L R + VS
Sbjct: 78 NGIRLYGRPINVS 90
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 30/54 (55%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAV 89
+ V L +T E L + F FG V V+V +DL+T KGFGFV T Y+ V
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQV 71
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 39/80 (48%), Gaps = 1/80 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+ V NL P + +L PFG+++ ++ +T + KG+GF D A A L
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 96 NGYALGNRILQVSFKTNKGK 115
G LG R L V + T+ G+
Sbjct: 158 LGKPLGPRTLYVHW-TDAGQ 176
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 39/80 (48%), Gaps = 1/80 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+ V NL P + +L PFG+++ ++ +T + KG+GF D A A L
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 155
Query: 96 NGYALGNRILQVSFKTNKGK 115
G LG R L V + T+ G+
Sbjct: 156 LGKPLGPRTLYVHW-TDAGQ 174
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 8/75 (10%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
+FV NLA E +L + F FG ++ VK ++D + F+ D AV A++
Sbjct: 13 VLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEE 64
Query: 95 LNGYALGNRILQVSF 109
+NG L +++ F
Sbjct: 65 MNGKDLEGENIEIVF 79
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+ V N+ + L Q+FG FG + V++I KGFGFVT N +A A + L
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEII--FNERGSKGFGFVTFENSADADRAREKL 75
Query: 96 NGYALGNRILQVS 108
+G + R ++V+
Sbjct: 76 HGTVVEGRKIEVN 88
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+ V N+ + L Q+FG FG + V++I KGFGFVT N +A A + L
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEII--FNERGSKGFGFVTFENSADADRAREKL 89
Query: 96 NGYALGNRILQVS 108
+G + R ++V+
Sbjct: 90 HGTVVEGRKIEVN 102
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 39/80 (48%), Gaps = 1/80 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+ V NL P + +L PFG+++ ++ +T + KG+GF D A A L
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 96 NGYALGNRILQVSFKTNKGK 115
G LG R L V + T+ G+
Sbjct: 158 LGKPLGPRTLYVHW-TDAGQ 176
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDE----AVVA 91
IFV + +TEE L F +G ++ ++++ D + K +GF FVT ++D +
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 167
Query: 92 IQSLNGY 98
++NG+
Sbjct: 168 YHTVNGH 174
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L+ ET + L F +G + V+RD T + +GFGFVT +E V A +
Sbjct: 17 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE-VDAAMNA 75
Query: 96 NGYALGNRILQ 106
+ + R+++
Sbjct: 76 RPHKVDGRVVE 86
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDE----AVVA 91
IFV + +TEE L F +G ++ ++++ D + K +GF FVT ++D +
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 165
Query: 92 IQSLNGY 98
++NG+
Sbjct: 166 YHTVNGH 172
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L+ ET + L F +G + V+RD T + +GFGFVT +E V A +
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE-VDAAMNA 73
Query: 96 NGYALGNRILQ 106
+ + R+++
Sbjct: 74 RPHKVDGRVVE 84
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDE----AVVA 91
IFV + +TEE L F +G ++ ++++ D + K +GF FVT ++D +
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 166
Query: 92 IQSLNGY 98
++NG+
Sbjct: 167 YHTVNGH 173
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L+ ET + L F +G + V+RD T + +GFGFVT +E V A +
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE-VDAAMNA 74
Query: 96 NGYALGNRILQ 106
+ + R+++
Sbjct: 75 RPHKVDGRVVE 85
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDE----AVVA 91
IFV + +TEE L F +G ++ ++++ D + K +GF FVT ++D +
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 159
Query: 92 IQSLNGY 98
++NG+
Sbjct: 160 YHTVNGH 166
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L+ ET + L F +G + V+RD T + +GFGFVT +E A+ +
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA- 67
Query: 96 NGYALGNRILQ 106
+ + R+++
Sbjct: 68 RPHKVDGRVVE 78
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDE----AVVA 91
IFV + +TEE L F +G ++ ++++ D + K +GF FVT ++D +
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 164
Query: 92 IQSLNGY 98
++NG+
Sbjct: 165 YHTVNGH 171
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L+ ET + L F +G + V+RD T + +GFGFVT +E A+ +
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA- 72
Query: 96 NGYALGNRILQ 106
+ + R+++
Sbjct: 73 RPHKVDGRVVE 83
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDE----AVVA 91
IFV + +TEE L F +G ++ ++++ D + K +GF FVT ++D +
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 166
Query: 92 IQSLNGY 98
++NG+
Sbjct: 167 YHTVNGH 173
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L+ ET + L F +G + V+RD T + +GFGFVT +E A+ +
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA- 74
Query: 96 NGYALGNRILQ 106
+ + R+++
Sbjct: 75 RPHKVDGRVVE 85
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 41/71 (57%), Gaps = 4/71 (5%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
+FV L+ +T E L + F G+V+ +++ D +T KGFGFV + ++A A ++
Sbjct: 17 TLFVKGLSEDTTEETLKESFD--GSVR-ARIVTDRETGSSKGFGFVDFNSEEDAKAAKEA 73
Query: 95 L-NGYALGNRI 104
+ +G GN++
Sbjct: 74 MEDGEIDGNKV 84
>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex
With Rna
pdb|2KM8|C Chain C, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 167
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 38/68 (55%), Gaps = 3/68 (4%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTM---TNYDEAVVAI 92
+F+ L +T E L + FG +G V +K+++D T + +GFGF++ ++ DE V
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQ 65
Query: 93 QSLNGYAL 100
L+G +
Sbjct: 66 HILDGKVI 73
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 24 LPANTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMT 83
+P + + +G IFV + P+ + F +G + +++ D T + +GFGFVT
Sbjct: 79 IPRDEQDKTG-KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYD 137
Query: 84 NYD 86
+ D
Sbjct: 138 SAD 140
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 30/49 (61%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTN 84
+F+ L+ +T + L + FG FG V+ V+RD T + +GFGFVT +
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMD 51
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 43/94 (45%), Gaps = 6/94 (6%)
Query: 19 LASSILPANTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFG 78
+ S + P +FV NL + E +LF +G V + RD +GFG
Sbjct: 8 IKSFLKPGEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFG 61
Query: 79 FVTMTNYDEAVVAIQSLNGYALGNRILQVSFKTN 112
F+ + + A +A L+G L +R L++ F T+
Sbjct: 62 FIRLESRTLAEIAKAELDGTILKSRPLRIRFATH 95
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 33/80 (41%), Gaps = 2/80 (2%)
Query: 14 LTGDLLASSILPANTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNK 73
L G +L S L G + V NL+P +L Q F FG V+ V+ D +
Sbjct: 78 LDGTILKSRPLRIR-FATHGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGR 135
Query: 74 CKGFGFVTMTNYDEAVVAIQ 93
G GFV A A++
Sbjct: 136 ATGKGFVEFAAKPPARKALE 155
>pdb|2ADC|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd34 Complexed With Cucucu Rna
pdb|2EVZ|A Chain A, Structure Of Rna Binding Domains 3 And 4 Of Polypyrimidine
Tract Binding Protein
Length = 229
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 46/81 (56%), Gaps = 8/81 (9%)
Query: 35 CIFVYNLAPE--TEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAI 92
+ V NL PE T +S L+ LFG +G VQ VK++ + + N V M + ++A +A+
Sbjct: 36 VLLVSNLNPERVTPQS-LFILFGVYGDVQRVKILFNKKEN-----ALVQMADGNQAQLAM 89
Query: 93 QSLNGYALGNRILQVSFKTNK 113
LNG+ L + ++++ ++
Sbjct: 90 SHLNGHKLHGKPIRITLSKHQ 110
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 2/82 (2%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V NL + L +FG +G++ ++RD T + +G FV +EA AI +L
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 96 NGYAL--GNRILQVSFKTNKGK 115
N G++ L V GK
Sbjct: 76 NNVIPEGGSQPLSVRLAEEHGK 97
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 46/81 (56%), Gaps = 8/81 (9%)
Query: 35 CIFVYNLAPE--TEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAI 92
+ V NL PE T +S L+ LFG +G VQ VK++ + + N V M + ++A +A+
Sbjct: 5 VLLVSNLNPERVTPQS-LFILFGVYGDVQRVKILFNKKEN-----ALVQMADGNQAQLAM 58
Query: 93 QSLNGYALGNRILQVSFKTNK 113
LNG+ L + ++++ ++
Sbjct: 59 SHLNGHKLHGKPIRITLSKHQ 79
>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 = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV NL P+ E + +LF +G V + +D KGFGF+ + A +A L
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVEL 71
Query: 96 NGYALGNRILQVSF 109
+ L + L+V F
Sbjct: 72 DNMPLRGKQLRVRF 85
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 35/65 (53%), Gaps = 2/65 (3%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFG--AVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAI 92
I + N+AP T + P+ AV ++++I+D QT + +GF FV +++ +A +
Sbjct: 11 TIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLL 70
Query: 93 QSLNG 97
Q L
Sbjct: 71 QILQS 75
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 47/86 (54%), Gaps = 3/86 (3%)
Query: 30 NGSGWCIFVYNLAPETEESVLWQLF-GPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEA 88
+G + +FV +L P+ ++ +L++ F + + + KV+ D QT KG+GFV T+ E
Sbjct: 6 SGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLD-QTGVSKGYGFVKFTDELEQ 64
Query: 89 VVAIQSLNG-YALGNRILQVSFKTNK 113
A+ G LG++ +++S K
Sbjct: 65 KRALTECQGAVGLGSKPVRLSVAIPK 90
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 41/74 (55%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
++V L + E +LW+LF G V + + +D T + +G+GFV + ++A AI+
Sbjct: 17 TVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKI 76
Query: 95 LNGYALGNRILQVS 108
++ L + ++V+
Sbjct: 77 MDMIKLYGKPIRVN 90
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV NL P+ E + +LF +G V + +D KGFGF+ + A +A L
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVEL 78
Query: 96 NGYALGNRILQVSF 109
+ L + L+V F
Sbjct: 79 DNMPLRGKQLRVRF 92
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV L + E + +LF PFG + V+R + KG FV +++ EA AI +L
Sbjct: 18 LFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSS-KGCAFVKFSSHTEAQAAIHAL 76
Query: 96 NG 97
+G
Sbjct: 77 HG 78
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L+ ET E L + +G + V+RD + + +GFGFVT ++ E V A +
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAE-VDAAMAA 88
Query: 96 NGYALGNRILQ 106
+++ R+++
Sbjct: 89 RPHSIDGRVVE 99
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+++ NL +E L + PFG V S +++RD + +G GF M + ++ I
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAVIGHF 86
Query: 96 NG 97
NG
Sbjct: 87 NG 88
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 34 WCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQ 93
+ +V NL T + + +F +++SV+++RD T+K KGF +V D A+
Sbjct: 16 YTAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL- 73
Query: 94 SLNGYALGNRILQVS 108
+ +G LG+R L+V
Sbjct: 74 TYDGALLGDRSLRVD 88
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 37/88 (42%), Gaps = 8/88 (9%)
Query: 30 NGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAV 89
+G+ W IFV N++ L LF G V V++D + FV M +A
Sbjct: 6 SGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAK 57
Query: 90 VAIQSLNGYALGNRILQVSFKTNKGKTS 117
AI LNG + + + V T K S
Sbjct: 58 AAIAQLNGKEVKGKRINVELSTKGQKKS 85
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 8/100 (8%)
Query: 24 LPANTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMT 83
LP++ G +F+ NL+ ++EE L ++ FG ++ V+V+ T KG F
Sbjct: 8 LPSDVTEGK--TVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFM 65
Query: 84 NYDEA--VVAIQSLN----GYALGNRILQVSFKTNKGKTS 117
+ A +A SL G L R L+V + + +
Sbjct: 66 TQEAAQKCLAAASLEAEGGGLKLDGRQLKVDLAVTRDEAA 105
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 8/63 (12%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
+FV NLA E +L + F FG ++ VK ++D + FV + AV A+
Sbjct: 17 VLFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVHFEDRGAAVKAMDE 68
Query: 95 LNG 97
+NG
Sbjct: 69 MNG 71
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 36/71 (50%), Gaps = 6/71 (8%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++ +A + ++ Q F PFG + ++V + KG+ FV + ++ A AI S+
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVSV 81
Query: 96 NGYALGNRILQ 106
NG + +++
Sbjct: 82 NGTTIEGHVVK 92
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 37.0 bits (84), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 37/82 (45%), Gaps = 8/82 (9%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ NL E E + LF +G V +I K +GFV + + A AI++L
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRNL 62
Query: 96 NGYALGNRILQVSFKTNKGKTS 117
+ Y L + V NK K S
Sbjct: 63 HHYKLHGVNINVEASKNKSKAS 84
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
IFV L+ T + F FG V ++ D TN+ +GFGFVT + D V + +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESED-IVEKVCEI 60
Query: 96 NGYALGNRILQ 106
+ + + N++++
Sbjct: 61 HFHEINNKMVE 71
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 38/77 (49%), Gaps = 7/77 (9%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCK-----GFGFVTMTNYDEAVV 90
+F+ NL T E L +F GA++S + + + NK GFGFV ++A
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISK--KKNKAGVLLSMGFGFVEYKKPEQAQK 65
Query: 91 AIQSLNGYALGNRILQV 107
A++ L G+ + L+V
Sbjct: 66 ALKQLQGHTVDGHKLEV 82
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V NL+ T E +++LF G ++ + + D C GF FV + +A A++ +
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTAC-GFCFVEYYSRADAENAMRYI 79
Query: 96 NGYALGNRILQVSF 109
NG L +RI++ +
Sbjct: 80 NGTRLDDRIIRTDW 93
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 31/62 (50%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V L + + QLF +G + + +++ D T +G GF+ EA AI+ L
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 96 NG 97
NG
Sbjct: 64 NG 65
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 9/69 (13%)
Query: 16 GDLLASSILPANTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCK 75
G L + I+P NT +FV + +E+ + F +G+V+ VK+I D +T K
Sbjct: 1 GPLGSGKIMP-NT-------VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSK 51
Query: 76 GFGFVTMTN 84
G+GFV+ N
Sbjct: 52 GYGFVSFYN 60
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 33 GWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAI 92
G +FV NL + L ++F G V ++ D + K +G G VT EAV AI
Sbjct: 15 GSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILED-KDGKSRGIGTVTFEQSIEAVQAI 73
Query: 93 QSLNGYALGNRILQV 107
NG L +R + V
Sbjct: 74 SMFNGQLLFDRPMHV 88
>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 = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTN 84
+FV + +E+ + F +G+V+ VK+I D +T KG+GFV+ N
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYN 59
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTN---YDEAV 89
IFV + E+ L + F FG V V +I D + + +GFGF+T + D+AV
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV 69
>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 = 0.010, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 39/74 (52%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V NL+ T E +++LF G ++ + + D GF FV + +A A++ +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 96 NGYALGNRILQVSF 109
NG L +RI++ +
Sbjct: 102 NGTRLDDRIIRTDW 115
>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 = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTN 84
+FV + +E+ + F +G+V+ VK+I D +T KG+GFV+ N
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYN 59
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10
From Homo Sapiens
Length = 131
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQS--VKVIRDLQTNKCKGFGFVTMTNYDEA 88
I + NL P + + P+ + S V+VI+D QT +GF F+ ++ + A
Sbjct: 25 TIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTIEAA 80
>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 = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 41/85 (48%), Gaps = 4/85 (4%)
Query: 25 PANTMNGSG---WCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVT 81
P N N G +FV + +T ES L + F +G ++ + ++ ++ K +G+ F+
Sbjct: 91 PHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIE 150
Query: 82 MTNYDEAVVAIQSLNGYAL-GNRIL 105
+ + A + +G + G R+L
Sbjct: 151 YEHERDMHSAYKHADGKKIDGRRVL 175
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 42/89 (47%), Gaps = 5/89 (5%)
Query: 19 LASSILPANTMNGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFG 78
+ S+++P S +F+ L + + +L FG +++ +++D T KG+
Sbjct: 105 VVSTVVP-----DSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYA 159
Query: 79 FVTMTNYDEAVVAIQSLNGYALGNRILQV 107
F + + AI LNG LG++ L V
Sbjct: 160 FCEYVDINVTDQAIAGLNGMQLGDKKLLV 188
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 35 CIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQS 94
+++ NL + ++ +FG +G ++ ++V T + +G +V + +A A+
Sbjct: 10 ILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNAVDH 66
Query: 95 LNGYALGNRILQVSF 109
L+G+ + NR L V +
Sbjct: 67 LSGFNVSNRYLVVLY 81
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 35/72 (48%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L + + +L FG +++ +++D T KG+ F + + AI L
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 96 NGYALGNRILQV 107
NG LG++ L V
Sbjct: 64 NGMQLGDKKLLV 75
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 8/76 (10%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V L P T + L + F FG+++++ + K F ++ + D A A +
Sbjct: 20 LWVGGLGPNTSLAALAREFDRFGSIRTIDHV------KGDSFAYIQYESLDAAQAACAKM 73
Query: 96 NGYALG--NRILQVSF 109
G+ LG +R L+V F
Sbjct: 74 RGFPLGGPDRRLRVDF 89
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 40 NLAPETEESVLWQLFGPFG-AVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNGY 98
+L P +E+ + + F G V SVK+IR+ T G+ FV + A + +NG
Sbjct: 16 DLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGK 75
Query: 99 ALGNRILQVSFKTN 112
L FK N
Sbjct: 76 PLPGATPAKRFKLN 89
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 3/83 (3%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+FV + +E L LF FG + + V++D T KG F+T D A+ A +L
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSAL 77
Query: 96 NGYAL---GNRILQVSFKTNKGK 115
+ NR +QV ++G+
Sbjct: 78 HEQKTLPGMNRPIQVKPAASEGR 100
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 35/72 (48%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L + + +L FG +++ +++D T KG+ F + + AI L
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 158
Query: 96 NGYALGNRILQV 107
NG LG++ L V
Sbjct: 159 NGMQLGDKKLLV 170
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 35/72 (48%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L + + +L FG +++ +++D T KG+ F + + AI L
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 156
Query: 96 NGYALGNRILQV 107
NG LG++ L V
Sbjct: 157 NGMQLGDKKLLV 168
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 33.1 bits (74), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 6/84 (7%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNK-CKGFGFVTMTNYDEAVVAIQS 94
I+V NL P+ + +F +GA++ + DL+ + F FV + +A A+
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDI----DLKNRRGGPPFAFVEFEDPRDAEDAVYG 80
Query: 95 LNGYALGNRILQVSF-KTNKGKTS 117
+GY L+V F ++ +G S
Sbjct: 81 RDGYDYDGYRLRVEFPRSGRGTGS 104
>pdb|2E44|A Chain A, Solution Structure Of Rna Binding Domain In Insulin-Like
Growth Factor 2 Mrna Binding Protein 3
Length = 96
Score = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 3/72 (4%)
Query: 38 VYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNG 97
+ N+ P + VL L +G V+S + + T+ VT ++ D+A A+ LNG
Sbjct: 20 IRNIPPHLQWEVLDSLLVQYGVVESCEQVN---TDSETAVVNVTYSSKDQARQALDKLNG 76
Query: 98 YALGNRILQVSF 109
+ L N L+V++
Sbjct: 77 FQLENFTLKVAY 88
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 32.7 bits (73), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 1/67 (1%)
Query: 30 NGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAV 89
G +FV L + + + ++F PFG + V+R KG FV + EA
Sbjct: 9 RGEDRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAEAQ 67
Query: 90 VAIQSLN 96
AI +L+
Sbjct: 68 AAINTLH 74
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 32.7 bits (73), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTN 84
+FV L T + L F +G V +++D TN+ +GFGFV +
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKD 67
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 32.3 bits (72), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQ-TNKCKGFGFVTMTNYDEAVVAIQS 94
I V N+ + + + +LF FG +++V++ + + T +GFGFV +A A +
Sbjct: 18 ILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNA 77
Query: 95 L--NGYALGNRIL 105
L + + G R++
Sbjct: 78 LCHSTHLYGRRLV 90
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 32.0 bits (71), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 44/82 (53%), Gaps = 2/82 (2%)
Query: 30 NGSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAV 89
+G ++V NL+ + E ++ QLF G +S K+I + +N + FV + +A
Sbjct: 12 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSN--DPYCFVEFYEHRDAA 69
Query: 90 VAIQSLNGYALGNRILQVSFKT 111
A+ ++NG + + ++V++ T
Sbjct: 70 AALAAMNGRKILGKEVKVNWAT 91
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 32.0 bits (71), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+++ NL + ++ +FG +G ++ ++V T + +G +V + +A A L
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 77
Query: 96 NGYALGNRILQVSF 109
+G+ + NR L V +
Sbjct: 78 SGFNVCNRYLVVLY 91
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 32.0 bits (71), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+++ NL + ++ +FG +G ++ ++V T + +G +V + +A A L
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 71
Query: 96 NGYALGNRILQVSF 109
+G+ + NR L V +
Sbjct: 72 SGFNVCNRYLVVLY 85
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ + +E L LF FG + + V++D T KG F+T + A+ A +L
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSAL 75
Query: 96 N 96
+
Sbjct: 76 H 76
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 11/49 (22%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 50 LWQLFGPFGAVQSVKV-IRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNG 97
+ ++F +G ++ + + + + + KG+ +V N DEA A++ ++G
Sbjct: 21 IMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDG 69
>pdb|3EGN|A Chain A, C-Terminal Rna Recognition Motif Of The U11U12 65K PROTEIN
Length = 143
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 38/79 (48%), Gaps = 5/79 (6%)
Query: 36 IFVYNLAPETEESVLWQLFGPF----GAVQSVKV-IRDLQTNKCKGFGFVTMTNYDEAVV 90
I+V NLA +E L +FG + Q + IR ++ + KG F+ + N A
Sbjct: 48 IYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAK 107
Query: 91 AIQSLNGYALGNRILQVSF 109
A++ NGY L + + V F
Sbjct: 108 ALKEANGYVLFGKPMVVQF 126
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 2/63 (3%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTN--KCKGFGFVTMTNYDEAVVAIQ 93
+FV + E L +LF +GAV + V+RD N + KG FVT A+ A
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 94 SLN 96
+L+
Sbjct: 66 ALH 68
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ ++ + E+ + +F FG ++ +++R +G FVT T A AI+++
Sbjct: 98 LFIGMISKKCTENDIRVMFSSFGQIEECRILRG-PDGLSRGCAFVTFTTRAMAQTAIKAM 156
Query: 96 N 96
+
Sbjct: 157 H 157
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 2/63 (3%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTN--KCKGFGFVTMTNYDEAVVAIQ 93
+FV + E L +LF +GAV + V+RD N + KG FVT A+ A
Sbjct: 18 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 77
Query: 94 SLN 96
+L+
Sbjct: 78 ALH 80
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ ++ + E+ + +F FG ++ +++R +G FVT T A AI+++
Sbjct: 110 LFIGMISKKCTENDIRVMFSSFGQIEECRILRG-PDGLSRGCAFVTFTTRAMAQTAIKAM 168
Query: 96 N 96
+
Sbjct: 169 H 169
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
Length = 88
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 47 ESVLWQLFGPFGAVQSVKVIRDLQTN--KCKGFGFVTMTNYDEAVVAIQSLN 96
E L +LF +GAV + V+RD N + KG FVT A+ A +L+
Sbjct: 17 EKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALH 68
>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 = 0.22, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 47 ESVLWQLFGPFGAVQSVKVIRDLQTN--KCKGFGFVTMTNYDEAVVAIQSLN 96
E L +LF +GAV + V+RD N + KG FVT A+ A +L+
Sbjct: 17 EKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALH 68
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 37/74 (50%), Gaps = 3/74 (4%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+ + NL + ++ +FG +G ++ ++V T + +G +V + +A A L
Sbjct: 21 LMIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKNACDHL 77
Query: 96 NGYALGNRILQVSF 109
+G+ + NR L V +
Sbjct: 78 SGFNVCNRYLVVLY 91
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 1/70 (1%)
Query: 37 FVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLN 96
FV L+ +T + L F FG V + D T + +GFGF+ + +V +
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDA-ASVEKVLDQK 73
Query: 97 GYALGNRILQ 106
+ L R++
Sbjct: 74 EHRLDGRVID 83
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 29.6 bits (65), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 47/103 (45%), Gaps = 14/103 (13%)
Query: 16 GDLLASSILPANTMNGSGWCIFVYNLAPETEE---SVLWQLFGPFGAVQSVKVIRDL--- 69
GD+L A+ ++ V + P+ E +V+ ++F FG K+ D
Sbjct: 1 GDVLKDRPQEADGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFG-----KITNDFYPE 55
Query: 70 QTNKCKGFGFVTMTNYDEAVVAIQSLNGYALGNRILQVSFKTN 112
+ K KG+ F+ + AV A+++ +GY L Q +F+ N
Sbjct: 56 EDGKTKGYIFLEYASPAHAVDAVKNADGYKLDK---QHTFRVN 95
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 33/71 (46%), Gaps = 1/71 (1%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
+F+ L+ +T + L F FG V + D T + +GFGFV + E+V +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFV-LFKESESVDKVMDQ 60
Query: 96 NGYALGNRILQ 106
+ L +++
Sbjct: 61 KEHKLNGKVID 71
>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 = 29.3 bits (64), Expect = 0.54, Method: Composition-based stats.
Identities = 21/95 (22%), Positives = 44/95 (46%), Gaps = 5/95 (5%)
Query: 25 PANTMNGSG---WCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVT 81
P N N G +FV + +T ES L + F +G ++ + ++ ++ K +G+ F+
Sbjct: 91 PHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIE 150
Query: 82 MTNYDEAVVAIQSLNGYALGNRILQVSFKTNKGKT 116
+ + A + +G + R +V +G+T
Sbjct: 151 YEHERDMHSAYKHADGKKIDGR--RVLVDVERGRT 183
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 11/72 (15%)
Query: 44 ETEESVLWQLFGPFGAVQSVKVIRDL---QTNKCKGFGFVTMTNYDEAVVAIQSLNGYAL 100
E ++V+ ++F FG K+ D + K KG+ F+ + AV A+++ +GY L
Sbjct: 18 EKLKNVIHKIFSKFG-----KITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKL 72
Query: 101 GNRILQVSFKTN 112
Q +F+ N
Sbjct: 73 DK---QHTFRVN 81
>pdb|2CPI|A Chain A, Solution Structure Of The Rna Recognition Motif Of Cnot4
Length = 111
Score = 28.5 bits (62), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 3/65 (4%)
Query: 52 QLFGPFGAVQSVKVIRDLQTNKCKG---FGFVTMTNYDEAVVAIQSLNGYALGNRILQVS 108
+ FG FG + V + +G +VT ++A+ AIQ +N + R L+ S
Sbjct: 37 EYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKAS 96
Query: 109 FKTNK 113
T K
Sbjct: 97 LGTTK 101
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 28.5 bits (62), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 39/96 (40%), Gaps = 12/96 (12%)
Query: 16 GDLLASSILPANTMNGSGWCIFVY--NLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNK 73
G S P G ++VY ++ P ++L F PFG I DL +
Sbjct: 22 GPFRRSDSFPERRAPRKGNTLYVYGEDMTP----TLLRGAFSPFGN------IIDLSMDP 71
Query: 74 CKGFGFVTMTNYDEAVVAIQSLNGYALGNRILQVSF 109
+ FVT + A A+ LNG + + L+V+
Sbjct: 72 PRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNI 107
>pdb|1T1E|A Chain A, High Resolution Crystal Structure Of The Intact Pro-
Kumamolisin, A Sedolisin Type Proteinase (Previously
Called Kumamolysin Or Kscp)
Length = 552
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 11 FSPLTGDLLASSILPANTMNGSGWCIFVYNLAPETEESVLWQLFGPFG--AVQSVKVIRD 68
++PL D+ + P ++G G CI + L +E+ L Q F G A Q V V D
Sbjct: 194 YTPL--DVAQAYQFPEG-LDGQGQCIAIIELGGGYDETSLAQYFASLGVSAPQVVSVSVD 250
Query: 69 LQTNKCKG 76
TN+ G
Sbjct: 251 GATNQPTG 258
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 38/82 (46%), Gaps = 5/82 (6%)
Query: 36 IFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSL 95
++V NL + L + F +G +++V + R+ GF FV + +A A++ L
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRGL 57
Query: 96 NGYALGNRILQVSFKTNKGKTS 117
+G + ++V T + S
Sbjct: 58 DGKVICGSRVRVELSTGMPRRS 79
>pdb|1T1I|A Chain A, High Resolution Crystal Structure Of Mutant W129a Of
Kumamolisin, A Sedolisin Type Proteinase (Previously
Called Kumamolysin Or Kscp)
Length = 364
Score = 27.3 bits (59), Expect = 2.3, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 29 MNGSGWCIFVYNLAPETEESVLWQLFGPFG--AVQSVKVIRDLQTNKCKG 76
++G G CI + L +E+ L Q F G A Q V V D TN+ G
Sbjct: 21 LDGQGQCIAIIELGGGYDETSLAQYFASLGVSAPQVVSVSVDGATNQPTG 70
>pdb|1GT9|1 Chain 1, High Resolution Crystal Structure Of A Thermostable
Serine-Carboxyl Type Proteinase, Kumamolisin (Kscp)
pdb|1GT9|2 Chain 2, High Resolution Crystal Structure Of A Thermostable
Serine-Carboxyl Type Proteinase, Kumamolisin (Kscp)
pdb|1GTG|1 Chain 1, Crystal Structure Of The Thermostable Serine-Carboxyl
Type Proteinase, Kumamolysin
pdb|1GTJ|1 Chain 1, Crystal Structure Of The Thermostable Serine-Carboxyl
Type Proteinase, Kumamolisin (Kscp) - Complex With
Ac-Ile-Ala-Phe-Cho
pdb|1GTJ|2 Chain 2, Crystal Structure Of The Thermostable Serine-Carboxyl
Type Proteinase, Kumamolisin (Kscp) - Complex With
Ac-Ile-Ala-Phe-Cho
pdb|1GTL|1 Chain 1, The Thermostable Serine-Carboxyl Type Proteinase,
Kumamolisin (Kscp) - Complex With Ac-Ile-Pro-Phe-Cho
pdb|1GTL|2 Chain 2, The Thermostable Serine-Carboxyl Type Proteinase,
Kumamolisin (Kscp) - Complex With Ac-Ile-Pro-Phe-Cho
Length = 357
Score = 27.3 bits (59), Expect = 2.3, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 29 MNGSGWCIFVYNLAPETEESVLWQLFGPFG--AVQSVKVIRDLQTNKCKG 76
++G G CI + L +E+ L Q F G A Q V V D TN+ G
Sbjct: 21 LDGQGQCIAIIELGGGYDETSLAQYFASLGVSAPQVVSVSVDGATNQPTG 70
>pdb|3I9W|A Chain A, Crystal Structure Of The E. Coli Histidine Kinase Sensor
Tors Sensor Domain
Length = 290
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/59 (22%), Positives = 24/59 (40%)
Query: 31 GSGWCIFVYNLAPETEESVLWQLFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAV 89
S W +F + +WQ G QS+K+ LQ + +GF + ++ +
Sbjct: 28 ASAWELFAAQNLTSADNEKMWQAQGRMLTAQSLKINALLQALREQGFDTTAIEQQEQEI 86
>pdb|3RN4|A Chain A, Crystal Structure Of Iron-Substituted Sod2 From
Saccharomyces Cerevisiae
Length = 215
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 15/57 (26%)
Query: 4 INKGLQRFSPLTGDLLASSILPANT-----------MNGSGW---CIFVYNLAPETE 46
N + +F L+ DLLA PAN +G G+ C+F NLAPE++
Sbjct: 46 FNTAVDQFQELS-DLLAKEPSPANARKMIAIQQNIKFHGGGFTNHCLFWENLAPESQ 101
>pdb|3BFR|A Chain A, The Crystal Structure Of Sod2 From Saccharomyces
Cerevisiae
Length = 215
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 15/57 (26%)
Query: 4 INKGLQRFSPLTGDLLASSILPANT-----------MNGSGW---CIFVYNLAPETE 46
N + +F L+ DLLA PAN +G G+ C+F NLAPE++
Sbjct: 46 FNTAVDQFQELS-DLLAKEPSPANARKMIAIQQNIKFHGGGFTNHCLFWENLAPESQ 101
>pdb|1T1G|A Chain A, High Resolution Crystal Structure Of Mutant E23a Of
Kumamolisin, A Sedolisin Type Proteinase (Previously
Called Kumamolysin Or Kscp)
Length = 364
Score = 26.6 bits (57), Expect = 3.4, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 29 MNGSGWCIFVYNLAPETEESVLWQLFGPFG--AVQSVKVIRDLQTNKCKG 76
++G G CI + L +E+ L Q F G A Q V V D TN+ G
Sbjct: 21 LDGQGQCIAIIALGGGYDETSLAQYFASLGVSAPQVVSVSVDGATNQPTG 70
>pdb|1WDE|A Chain A, Crystal Structure Of The Conserved Hypothetical Protein
Ape0931 From Aeropyrum Pernix K1
Length = 294
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 21/48 (43%)
Query: 53 LFGPFGAVQSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNGYAL 100
L GP+ V + V R + N C G + + DE V + G +L
Sbjct: 143 LPGPWRGVTPISVARRIYLNLCAGLHTTALLDVDERGVQLSPGQGVSL 190
>pdb|1QGU|A Chain A, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae,
Dithionite-Reduced State
pdb|1QGU|C Chain C, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae,
Dithionite-Reduced State
pdb|1QH8|A Chain A, Nitrogenase Mofe Protein From Klebsiella Pneumoniae, As-
Crystallized (Mixed Oxidation) State
pdb|1QH8|C Chain C, Nitrogenase Mofe Protein From Klebsiella Pneumoniae, As-
Crystallized (Mixed Oxidation) State
pdb|1QH1|A Chain A, Nitrogenase Mofe Protein From Klebsiella Pneumoniae,
Phenosafranin Oxidized State
pdb|1QH1|C Chain C, Nitrogenase Mofe Protein From Klebsiella Pneumoniae,
Phenosafranin Oxidized State
Length = 478
Score = 25.8 bits (55), Expect = 7.2, Method: Composition-based stats.
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 65 VIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNGYALGNRIL 105
V+RD N +G F T T YD A++ ++ G A +RIL
Sbjct: 200 VVRDWILNNREGQPFET-TPYDVAIIGDYNIGGDAWASRIL 239
>pdb|1HF2|A Chain A, Crystal Structure Of The Bacterial Cell-Division Inhibitor
Minc From T. Maritima
pdb|1HF2|B Chain B, Crystal Structure Of The Bacterial Cell-Division Inhibitor
Minc From T. Maritima
pdb|1HF2|C Chain C, Crystal Structure Of The Bacterial Cell-Division Inhibitor
Minc From T. Maritima
pdb|1HF2|D Chain D, Crystal Structure Of The Bacterial Cell-Division Inhibitor
Minc From T. Maritima
Length = 210
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 9/58 (15%)
Query: 61 QSVKVIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNGYALGNRIL-----QVSFKTNK 113
Q+V DLQT+ + GF+T + +E V +I + GNRI+ +VSF+ ++
Sbjct: 157 QAVVAALDLQTSLIQIAGFITHSKGEENVPSI----AHVKGNRIVIEPFDKVSFERSE 210
>pdb|1H1L|A Chain A, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae, Nifv
Mutant
pdb|1H1L|C Chain C, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae, Nifv
Mutant
Length = 481
Score = 25.8 bits (55), Expect = 7.2, Method: Composition-based stats.
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 65 VIRDLQTNKCKGFGFVTMTNYDEAVVAIQSLNGYALGNRIL 105
V+RD N +G F T T YD A++ ++ G A +RIL
Sbjct: 200 VVRDWILNNREGQPFET-TPYDVAIIGDYNIGGDAWASRIL 239
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
0.319 0.135 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,330,594
Number of Sequences: 62578
Number of extensions: 118151
Number of successful extensions: 497
Number of sequences better than 100.0: 153
Number of HSP's better than 100.0 without gapping: 122
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 330
Number of HSP's gapped (non-prelim): 180
length of query: 117
length of database: 14,973,337
effective HSP length: 80
effective length of query: 37
effective length of database: 9,967,097
effective search space: 368782589
effective search space used: 368782589
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)