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= 032111
(147 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 82.8 bits (203), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 39/82 (47%), Positives = 60/82 (73%)
Query: 29 MSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESA 88
M+ + KLFVGGLS+ T++ SL++ FS +G I+E V+ +RE+ +SRGFGFVT+++ + A
Sbjct: 8 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDA 67
Query: 89 SSAQSAMDGQELNGRNIRVSFA 110
A AM+G+ ++GR IRV A
Sbjct: 68 KDAMMAMNGKSVDGRQIRVDQA 89
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 37/85 (43%), Positives = 55/85 (64%), Gaps = 7/85 (8%)
Query: 34 TKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSA-- 91
TK+FVGGL + T D+SL++ F FGDI EA VIT+R++GKSRG+GFVT +A A
Sbjct: 18 TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACK 77
Query: 92 --QSAMDGQELNGRNIRVSFANDRP 114
+DG++ N+ +++ +P
Sbjct: 78 DPNPIIDGRKA---NVNLAYLGAKP 99
>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 = 70.5 bits (171), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 35/82 (42%), Positives = 51/82 (62%)
Query: 29 MSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESA 88
M+ ++ L+VGGL+ DD L AF FGDIT+ ++ + E+ K RGF FV ++ E A
Sbjct: 3 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDA 62
Query: 89 SSAQSAMDGQELNGRNIRVSFA 110
++A M+ EL GR IRV+ A
Sbjct: 63 AAAIDNMNESELFGRTIRVNLA 84
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 69.7 bits (169), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 50/75 (66%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFVG L+ DD +L+ AF +F V+ + ++G SRG+GFV++ S + A +A +M
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 96 DGQELNGRNIRVSFA 110
GQ+LNGR +R+++A
Sbjct: 150 QGQDLNGRPLRINWA 164
Score = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L+VG L + LK+ F G I K++ ++ + K+ + FV Y + A+ A +
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQTL 61
Query: 96 DGQELNGRNIRVSFA 110
+G+++ +++++A
Sbjct: 62 NGKQIENNIVKINWA 76
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 69.3 bits (168), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 35/82 (42%), Positives = 51/82 (62%)
Query: 29 MSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESA 88
M+ ++ L+VGGL+ DD L AF FGDIT+ ++ + E+ K RGF FV ++ E A
Sbjct: 8 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDA 67
Query: 89 SSAQSAMDGQELNGRNIRVSFA 110
++A M+ EL GR IRV+ A
Sbjct: 68 AAAIDNMNESELFGRTIRVNLA 89
>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 = 69.3 bits (168), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 35/79 (44%), Positives = 49/79 (62%)
Query: 32 SQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSA 91
S+ L+VGGL+ DD L AF FGDIT+ ++ + E+ K RGF FV ++ E A++A
Sbjct: 1 SKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 60
Query: 92 QSAMDGQELNGRNIRVSFA 110
M+ EL GR IRV+ A
Sbjct: 61 IDNMNESELFGRTIRVNLA 79
>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 = 69.3 bits (168), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 50/75 (66%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFVG L+ DD +L+ AF +F V+ + ++G SRG+GFV++ S + A +A +M
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 96 DGQELNGRNIRVSFA 110
GQ+LNGR +R+++A
Sbjct: 64 QGQDLNGRPLRINWA 78
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 69.3 bits (168), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 35/81 (43%), Positives = 50/81 (61%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS 89
S ++ L+VGGL+ DD L AF FGDIT+ ++ + E+ K RGF FV ++ E A+
Sbjct: 2 STTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 61
Query: 90 SAQSAMDGQELNGRNIRVSFA 110
+A M+ EL GR IRV+ A
Sbjct: 62 AAIDNMNESELFGRTIRVNLA 82
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 68.6 bits (166), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 34/75 (45%), Positives = 47/75 (62%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L+VGGL+ DD L AF FGDIT+ ++ + E+ K RGF FV ++ E A++A M
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 96 DGQELNGRNIRVSFA 110
+ EL GR IRV+ A
Sbjct: 126 NESELFGRTIRVNLA 140
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 67.0 bits (162), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 51/80 (63%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+FVG LS +K AF+ FG I++A+V+ + +GKS+G+GFV++ + A +A M
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 96 DGQELNGRNIRVSFANDRPP 115
GQ L GR IR ++A +PP
Sbjct: 78 GGQWLGGRQIRTNWATRKPP 97
>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 = 66.2 bits (160), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 51/80 (63%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+FVG LS +K AF+ FG I++A+V+ + +GKS+G+GFV++ + A +A M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 96 DGQELNGRNIRVSFANDRPP 115
GQ L GR IR ++A +PP
Sbjct: 78 GGQWLGGRQIRTNWATRKPP 97
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 31/80 (38%), Positives = 50/80 (62%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L V GLS T + L+E FS +G I + ++ +++S +SRGF FV +++ + A A+
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 74
Query: 96 DGQELNGRNIRVSFANDRPP 115
+G EL+GR IRV F+ + P
Sbjct: 75 NGMELDGRRIRVDFSITKRP 94
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 31/80 (38%), Positives = 50/80 (62%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L V GLS T + L+E FS +G I + ++ +++S +SRGF FV +++ + A A+
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 108
Query: 96 DGQELNGRNIRVSFANDRPP 115
+G EL+GR IRV F+ + P
Sbjct: 109 NGMELDGRRIRVDFSITKRP 128
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 63.9 bits (154), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 53/84 (63%), Gaps = 3/84 (3%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS 89
SQ LFV GLS T + +LKE+F A+++T+RE+G S+GFGFV ++S E A
Sbjct: 12 SQPSKTLFVKGLSEDTTEETLKESFDG---SVRARIVTDRETGSSKGFGFVDFNSEEDAK 68
Query: 90 SAQSAMDGQELNGRNIRVSFANDR 113
+A+ AM+ E++G + + +A +
Sbjct: 69 AAKEAMEDGEIDGNKVTLDWAKPK 92
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 63.5 bits (153), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 31/80 (38%), Positives = 50/80 (62%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L V GLS T + L+E FS +G I + ++ +++S +SRGF FV +++ + A A+
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 96 DGQELNGRNIRVSFANDRPP 115
+G EL+GR IRV F+ + P
Sbjct: 78 NGMELDGRRIRVDFSITKRP 97
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 62.8 bits (151), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 49/82 (59%)
Query: 29 MSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESA 88
+ +S +FVG + + + LK+ FS G + +++ +RE+GK +G+GF Y E+A
Sbjct: 4 VDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETA 63
Query: 89 SSAQSAMDGQELNGRNIRVSFA 110
SA ++G+E +GR +RV A
Sbjct: 64 LSAMRNLNGREFSGRALRVDNA 85
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 62.8 bits (151), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 35/90 (38%), Positives = 52/90 (57%), Gaps = 10/90 (11%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+GGL+ T++ LK F G I+E +I +R S KSRGF F+T+++ A +A
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTS-KSRGFAFITFENPADAKNAAKD 67
Query: 95 MDGQELNGRNIRVSFAND---------RPP 115
M+G+ L+G+ I+V A RPP
Sbjct: 68 MNGKSLHGKAIKVEQAKKPSFQSGGRRRPP 97
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
++VG L + +KE FS FG + K+I +RE+ K +GFGFV ES S A + +
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAKL 62
Query: 96 DGQELNGRNIRVSFANDR 113
D + GR IRV+ AN +
Sbjct: 63 DNTDFMGRTIRVTEANPK 80
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 61.2 bits (147), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 49/78 (62%), Gaps = 2/78 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L+V L G DD L++AFS FG IT AKV+ E G+S+GFGFV + S E A+ A + M
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMM--EGGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 96 DGQELNGRNIRVSFANDR 113
+G+ + + + V+ A +
Sbjct: 76 NGRIVATKPLYVALAQRK 93
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 60.8 bits (146), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/73 (41%), Positives = 47/73 (64%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L V GLS T + L+E FS +G I + ++ +++S +SRGF FV +++ + A A+
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 96 DGQELNGRNIRVS 108
+G EL+GR IRVS
Sbjct: 78 NGMELDGRRIRVS 90
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 60.1 bits (144), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 45/86 (52%), Gaps = 1/86 (1%)
Query: 31 QSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASS 90
+ T L V L++ T +L+ F +G + + + +R + +SRGF FV + A
Sbjct: 45 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAED 104
Query: 91 AQSAMDGQELNGRNIRVSFAN-DRPP 115
A AMDG L+GR +RV A RPP
Sbjct: 105 AMDAMDGAVLDGRELRVQMARYGRPP 130
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 59.7 bits (143), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 48/84 (57%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS 89
S +L+VG L + + L+ F FG I +++ + E+G+S+G+GF+T+ +E A
Sbjct: 23 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAK 82
Query: 90 SAQSAMDGQELNGRNIRVSFANDR 113
A ++G EL GR ++V +R
Sbjct: 83 KALEQLNGFELAGRPMKVGHVTER 106
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 59.7 bits (143), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 51/99 (51%), Gaps = 10/99 (10%)
Query: 12 RQNGQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERES 71
R++ Q P A L + K+FVGG+ T++ L++ F +G I +++T+R S
Sbjct: 90 REDSQRPGAHL---------TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS 140
Query: 72 GKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFA 110
GK RGF FVT+D ++S +NG N V A
Sbjct: 141 GKKRGFAFVTFDDHDSVDKI-VIQKYHTVNGHNCEVRKA 178
Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 46/71 (64%), Gaps = 1/71 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+GGLS+ T D SL+ F +G +T+ V+ + + +SRGFGFVTY + E +A +A
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 95 MDGQELNGRNI 105
+++GR +
Sbjct: 73 R-PHKVDGRVV 82
>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 = 59.7 bits (143), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 51/99 (51%), Gaps = 10/99 (10%)
Query: 12 RQNGQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERES 71
R++ Q P A L + K+FVGG+ T++ L++ F +G I +++T+R S
Sbjct: 85 REDSQRPGAHL---------TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS 135
Query: 72 GKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFA 110
GK RGF FVT+D ++S +NG N V A
Sbjct: 136 GKKRGFAFVTFDDHDSVDKI-VIQKYHTVNGHNCEVRKA 173
Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 46/71 (64%), Gaps = 1/71 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+GGLS+ T D SL+ F +G +T+ V+ + + +SRGFGFVTY + E +A +A
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 95 MDGQELNGRNI 105
+++GR +
Sbjct: 68 R-PHKVDGRVV 77
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 59.3 bits (142), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 51/99 (51%), Gaps = 10/99 (10%)
Query: 12 RQNGQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERES 71
R++ Q P A L + K+FVGG+ T++ L++ F +G I +++T+R S
Sbjct: 92 REDSQRPGAHL---------TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS 142
Query: 72 GKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFA 110
GK RGF FVT+D ++S +NG N V A
Sbjct: 143 GKKRGFAFVTFDDHDSVDKI-VIQKYHTVNGHNCEVRKA 180
Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 46/71 (64%), Gaps = 1/71 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+GGLS+ T D SL+ F +G +T+ V+ + + +SRGFGFVTY + E +A +A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 95 MDGQELNGRNI 105
+++GR +
Sbjct: 75 R-PHKVDGRVV 84
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 59.3 bits (142), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 51/96 (53%), Gaps = 3/96 (3%)
Query: 22 LINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVT 81
L+ M S K+F+GGLSW T L+E F FG++ E V+ + + +SRGFGFVT
Sbjct: 14 LVPRGSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVT 73
Query: 82 YDSNESASSAQSAMDGQELNGRNI--RVSFANDRPP 115
+ +++ A EL+ + I +V+F P
Sbjct: 74 F-MDQAGVDKVLAQSRHELDSKTIDPKVAFPRRAQP 108
>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 = 59.3 bits (142), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 48/76 (63%), Gaps = 3/76 (3%)
Query: 31 QSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASS 90
+ K+F+GGL+W T + +L+E F +G +T+ K++ + +G+SRGFGF++++ S
Sbjct: 1 KESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDE 60
Query: 91 A---QSAMDGQELNGR 103
Q +DG+ ++ +
Sbjct: 61 VVKTQHILDGKVIDPK 76
Score = 52.4 bits (124), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 38/55 (69%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS 89
K+FVGG+ +E FS +G I +A+++ ++++G+SRGFGFVTYDS ++
Sbjct: 89 KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVD 143
>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 = 59.3 bits (142), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 51/99 (51%), Gaps = 10/99 (10%)
Query: 12 RQNGQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERES 71
R++ Q P A L + K+FVGG+ T++ L++ F +G I +++T+R S
Sbjct: 92 REDSQRPGAHL---------TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS 142
Query: 72 GKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFA 110
GK RGF FVT+D ++S +NG N V A
Sbjct: 143 GKKRGFAFVTFDDHDSVDKI-VIQKYHTVNGHNCEVRKA 180
Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 46/71 (64%), Gaps = 1/71 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+GGLS+ T D SL+ F +G +T+ V+ + + +SRGFGFVTY + E +A +A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 95 MDGQELNGRNI 105
+++GR +
Sbjct: 75 R-PHKVDGRVV 84
>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 = 58.9 bits (141), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 51/99 (51%), Gaps = 10/99 (10%)
Query: 12 RQNGQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERES 71
R++ Q P A L + K+FVGG+ T++ L++ F +G I +++T+R S
Sbjct: 91 REDSQRPGAHL---------TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS 141
Query: 72 GKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFA 110
GK RGF FVT+D ++S +NG N V A
Sbjct: 142 GKKRGFAFVTFDDHDSVDKI-VIQKYHTVNGHNCEVRKA 179
Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 46/71 (64%), Gaps = 1/71 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+GGLS+ T D SL+ F +G +T+ V+ + + +SRGFGFVTY + E +A +A
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 95 MDGQELNGRNI 105
+++GR +
Sbjct: 74 R-PHKVDGRVV 83
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 58.9 bits (141), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 45/86 (52%), Gaps = 1/86 (1%)
Query: 31 QSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASS 90
+ T L V L++ T +L+ F +G + + + +R + +SRGF FV + A
Sbjct: 68 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAED 127
Query: 91 AQSAMDGQELNGRNIRVSFAN-DRPP 115
A AMDG L+GR +RV A RPP
Sbjct: 128 AMDAMDGAVLDGRELRVQMARYGRPP 153
>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 = 58.9 bits (141), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 46/73 (63%), Gaps = 5/73 (6%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
K FVGGLSW T LK+ F+ FG++ + + + +G+SRGFGF+ + + A+S +
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILF---KDAASVEKV 69
Query: 95 MDGQE--LNGRNI 105
+D +E L+GR I
Sbjct: 70 LDQKEHRLDGRVI 82
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 58.9 bits (141), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 51/99 (51%), Gaps = 10/99 (10%)
Query: 12 RQNGQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERES 71
R++ Q P A L + K+FVGG+ T++ L++ F +G I +++T+R S
Sbjct: 93 REDSQRPGAHL---------TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS 143
Query: 72 GKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFA 110
GK RGF FVT+D ++S +NG N V A
Sbjct: 144 GKKRGFAFVTFDDHDSVDKI-VIQKYHTVNGHNCEVRKA 181
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 46/71 (64%), Gaps = 1/71 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+GGLS+ T D SL+ F +G +T+ V+ + + +SRGFGFVTY + E +A +A
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 95 MDGQELNGRNI 105
+++GR +
Sbjct: 76 RP-HKVDGRVV 85
>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 = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/72 (41%), Positives = 44/72 (61%), Gaps = 5/72 (6%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+F+GGLSW T LK+ FS FG++ + + + +G+SRGFGFV + +ES M
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVD---KVM 58
Query: 96 DGQE--LNGRNI 105
D +E LNG+ I
Sbjct: 59 DQKEHKLNGKVI 70
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 42/71 (59%), Gaps = 1/71 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLFVGGL W T +L+ FS +G++ + ++ ++ + +SRGFGFV + + ++
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 95 MDGQELNGRNI 105
L+GRNI
Sbjct: 78 RP-HTLDGRNI 87
>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 = 57.4 bits (137), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV +++ T +S L+ F +G I ++ + SGK RG+ F+ Y+ SA
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 96 DGQELNGRNIRVSFANDR 113
DG++++GR + V R
Sbjct: 165 DGKKIDGRRVLVDVERGR 182
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 57.0 bits (136), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 32/82 (39%), Positives = 44/82 (53%), Gaps = 1/82 (1%)
Query: 24 NAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYD 83
+ V KLFVG + G D+ LK F FG I E V+ +R +G +G F+TY
Sbjct: 6 SGVPMKDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYC 65
Query: 84 SNESASSAQSAMDGQE-LNGRN 104
+ +SA AQSA+ Q+ L G N
Sbjct: 66 ARDSALKAQSALHEQKTLPGMN 87
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 57.0 bits (136), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 40/76 (52%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L V L++ T SL+ F +G + + + E + RGF FV + A A++AM
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 96 DGQELNGRNIRVSFAN 111
DG EL+GR +RV A
Sbjct: 76 DGAELDGRELRVQVAR 91
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 57.0 bits (136), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
K+FVGG+ ++ L+E F FG +TE +I + E + RGFGF+T++ +S A +
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN- 70
Query: 95 MDGQELNGRNIRVSFANDR 113
M ++ G+ + V A R
Sbjct: 71 MHFHDIMGKKVEVKRAEPR 89
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 56.6 bits (135), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 46/78 (58%), Gaps = 3/78 (3%)
Query: 34 TKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQS 93
K+F+GGLSW T L+E F FG++ E V+ + + +SRGFGFVT+ +++
Sbjct: 1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF-MDQAGVDKVL 59
Query: 94 AMDGQELNGRNI--RVSF 109
A EL+ + I +V+F
Sbjct: 60 AQSRHELDSKTIDPKVAF 77
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 56.2 bits (134), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 52/83 (62%)
Query: 32 SQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSA 91
S +FVG LS +++ AF+ FG I++A+V+ + +GKS+G+GFV++ + A +A
Sbjct: 5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENA 64
Query: 92 QSAMDGQELNGRNIRVSFANDRP 114
M GQ L GR IR ++A +P
Sbjct: 65 IQQMGGQWLGGRQIRTNWATRKP 87
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 56.2 bits (134), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 45/80 (56%), Gaps = 3/80 (3%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+G + D+ LK F FG I E V+ +R +G +G F+TY ESA AQSA
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 95 MDGQE-LNG--RNIRVSFAN 111
+ Q+ L G R I+V A+
Sbjct: 75 LHEQKTLPGMNRPIQVKPAD 94
>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 = 7e-09, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 47/84 (55%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS 89
S + L+VG L + + L+ F FG I ++ + ++G+S+G+GF+T+ +E A
Sbjct: 2 SSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECAR 61
Query: 90 SAQSAMDGQELNGRNIRVSFANDR 113
A ++G EL GR +RV +R
Sbjct: 62 RALEQLNGFELAGRPMRVGHVTER 85
>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 = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV +++ T +S L+ F +G I ++ + SGK RG+ F+ Y+ SA
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 96 DGQELNGRNIRVSFANDR 113
DG++++GR + V R
Sbjct: 165 DGKKIDGRRVLVDVERGR 182
>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 = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 46/82 (56%), Gaps = 2/82 (2%)
Query: 33 QTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQ 92
+T L V L L+ FS+ G++ AK+I ++ +G S G+GFV Y + + A A
Sbjct: 4 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 63
Query: 93 SAMDGQELNGRNIRVSFANDRP 114
+ ++G L + I+VS+A RP
Sbjct: 64 NTLNGLRLQSKTIKVSYA--RP 83
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 54.3 bits (129), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 46/82 (56%), Gaps = 3/82 (3%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L V + D+ L++ F +G I K++ +RE+ +SRG+GFV + S SA A + +
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 96 DGQELNGRNIRVSFA---NDRP 114
+G + + ++V+ A + RP
Sbjct: 105 NGFNILNKRLKVALAASGHQRP 126
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 32 SQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSA 91
S+T L V L K F + GDI K++ ++ +G+S G+GFV Y A A
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
Query: 92 QSAMDGQELNGRNIRVSFANDRP 114
+ ++G +L + I+VS+A RP
Sbjct: 63 INTLNGLKLQTKTIKVSYA--RP 83
>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 = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 46/82 (56%), Gaps = 2/82 (2%)
Query: 33 QTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQ 92
+T L V L L+ FS+ G++ AK+I ++ +G S G+GFV Y + + A A
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 93 SAMDGQELNGRNIRVSFANDRP 114
+ ++G L + I+VS+A RP
Sbjct: 62 NTLNGLRLQSKTIKVSYA--RP 81
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 2/77 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L++ GL +++ FS FG I ++V+ ++ +G SRG F+ +D A A ++
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 96 DGQELNGRN--IRVSFA 110
+G + G + I V FA
Sbjct: 151 NGHKPPGSSEPITVKFA 167
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 46/82 (56%), Gaps = 2/82 (2%)
Query: 33 QTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQ 92
+T L V L L+ FS+ G++ AK+I ++ +G S G+GFV Y + + A A
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 93 SAMDGQELNGRNIRVSFANDRP 114
+ ++G L + I+VS+A RP
Sbjct: 62 NTLNGLRLQSKTIKVSYA--RP 81
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 2/77 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L++ GL +++ FS FG I ++V+ ++ +G SRG F+ +D A A ++
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 96 DGQELNGRN--IRVSFA 110
+G + G + I V FA
Sbjct: 151 NGHKPPGSSEPITVXFA 167
>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 = 53.5 bits (127), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 45/81 (55%), Gaps = 2/81 (2%)
Query: 34 TKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQS 93
T L V L L+ FS+ G++ AK+I ++ +G S G+GFV Y + + A A +
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 79
Query: 94 AMDGQELNGRNIRVSFANDRP 114
++G L + I+VS+A RP
Sbjct: 80 TLNGLRLQSKTIKVSYA--RP 98
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 53.5 bits (127), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 32 SQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSA 91
S+T L V L K F + GDI K++ ++ +G+S G+GFV Y A A
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
Query: 92 QSAMDGQELNGRNIRVSFANDRP 114
+ ++G +L + I+VS+A RP
Sbjct: 63 INTLNGLKLQTKTIKVSYA--RP 83
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L+V GL +++ FS +G I ++++ ++ +G SRG GF+ +D A A +
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 96 DGQELNG--RNIRVSFAND 112
+GQ+ G I V FAN+
Sbjct: 153 NGQKPLGAAEPITVKFANN 171
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 53.5 bits (127), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 47/95 (49%), Gaps = 2/95 (2%)
Query: 19 KASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFG--DITEAKVITERESGKSRG 76
K + N V + + L++G L+W T D L EA + G DI E K R +G+S+G
Sbjct: 54 KGAAPNVVYTYTGKRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKG 113
Query: 77 FGFVTYDSNESASSAQSAMDGQELNGRNIRVSFAN 111
F V S S+ + +EL+G+N V+ N
Sbjct: 114 FALVGVGSEASSKKLMDLLPKRELHGQNPVVTPVN 148
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 52.8 bits (125), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 44/71 (61%), Gaps = 1/71 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+GGLS+ T + SL+ + +G +T+ V+ + S +SRGFGFVT+ S +A +A
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Query: 95 MDGQELNGRNI 105
++GR +
Sbjct: 89 RP-HSIDGRVV 98
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 52.8 bits (125), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 49/82 (59%), Gaps = 1/82 (1%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEA-KVITERESGKSRGFGFVTYDSNESA 88
S + +F+G L D+ L + FS FG I + K++ + ++G S+G+ F+ + S +++
Sbjct: 2 SSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDAS 61
Query: 89 SSAQSAMDGQELNGRNIRVSFA 110
+A AM+GQ L R I VS+A
Sbjct: 62 DAAIEAMNGQYLCNRPITVSYA 83
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 52.8 bits (125), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 41/73 (56%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
+LFV LS+ + + L++ FS +G ++E + + K +GF FVT+ E A A +
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 95 MDGQELNGRNIRV 107
+DGQ GR + V
Sbjct: 70 VDGQVFQGRMLHV 82
>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 = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+F+ L D+ +L + FS FG+I KV+ + E+G S+G+GFV +++ E+A A M
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 158
Query: 96 DGQELNGRNIRV 107
+G LN R + V
Sbjct: 159 NGMLLNDRKVFV 170
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFG--DITEAKVITERESGKSRGFGFVTYDSNESASSAQS 93
L++G L+W T D L EA + G DI E K R +G+S+GF V S S+
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
Query: 94 AMDGQELNGRNIRVSFAN 111
+ +EL+G+N V+ +N
Sbjct: 64 LLPKRELHGQNPVVTPSN 81
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 43/72 (59%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LF+ L D+ L F FG++ AKV ++++ S+ FGFV++D+ +SA A AM
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 96 DGQELNGRNIRV 107
+G ++ + ++V
Sbjct: 103 NGFQVGTKRLKV 114
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 44/85 (51%), Gaps = 1/85 (1%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS 89
S + KLF+ GL + L+E G + + +++T R +GK +G +V Y++ AS
Sbjct: 14 SLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQAS 72
Query: 90 SAQSAMDGQELNGRNIRVSFANDRP 114
A MDG + I+V+ +N P
Sbjct: 73 QAVMKMDGMTIKENIIKVAISNSGP 97
>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 = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+F+ L D+ +L + FS FG+I KV+ + E+G S+G+GFV +++ E+A A M
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 163
Query: 96 DGQELNGRNIRV 107
+G LN R + V
Sbjct: 164 NGMLLNDRKVFV 175
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 51.2 bits (121), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 47/80 (58%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV + + ++E F ++G+I + +R +G S+G+ V Y++++ A +A+ A+
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 96 DGQELNGRNIRVSFANDRPP 115
+G E+ G+ I+V + + P
Sbjct: 89 NGAEIMGQTIQVDWCFVKGP 108
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+F+ L D+ +L + FS FG+I KV+ + E+G S+G+GFV +++ E+A A M
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 71
Query: 96 DGQELNGRNIRV 107
+G LN R + V
Sbjct: 72 NGMLLNDRKVFV 83
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 3/78 (3%)
Query: 24 NAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFV--- 80
+ V+ Q + L V GL W T + LKE FS FG++ +V + ++G S+GFGFV
Sbjct: 6 SGVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFT 65
Query: 81 TYDSNESASSAQSAMDGQ 98
Y++ S + +DG+
Sbjct: 66 EYETQVKVMSQRHMIDGR 83
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 41/78 (52%), Gaps = 1/78 (1%)
Query: 31 QSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASS 90
++ +FVG L + L E F G +T+ + +RE GK + FGFV + ES S
Sbjct: 14 EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESVSY 72
Query: 91 AQSAMDGQELNGRNIRVS 108
A + ++G L GR I VS
Sbjct: 73 AIALLNGIRLYGRPINVS 90
>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 = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+F+ L D+ +L + FS FG+I KV+ + E+G S+G+GFV +++ E+A A M
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 65
Query: 96 DGQELNGRNIRV 107
+G LN R + V
Sbjct: 66 NGMLLNDRKVFV 77
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 50.4 bits (119), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 34/100 (34%), Positives = 54/100 (54%), Gaps = 6/100 (6%)
Query: 15 GQAPKASLINAVRFMSQSQTK-LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGK 73
G P+ S +N ++SQ K L V + + D L++ F FG I + ++I E G
Sbjct: 13 GLVPRGSHMNT---ENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN-ERG- 67
Query: 74 SRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFANDR 113
S+GFGFVT++++ A A+ + G + GR I V+ A R
Sbjct: 68 SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATAR 107
>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 = 50.4 bits (119), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 43/80 (53%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
+++V + D +K F FG I A + + +GK +G+GF+ Y+ +S+ A S+
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 186
Query: 95 MDGQELNGRNIRVSFANDRP 114
M+ +L G+ +RV A P
Sbjct: 187 MNLFDLGGQYLRVGKAVTPP 206
Score = 50.1 bits (118), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 51/96 (53%), Gaps = 4/96 (4%)
Query: 12 RQNGQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERES 71
+Q G+ A A+ MS +++VG + + + ++++AF+ FG I + + +
Sbjct: 11 QQMGRGSAAQRQGALAIMS----RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVT 66
Query: 72 GKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRV 107
K +GF FV Y+ E+A A M+ L GRNI+V
Sbjct: 67 MKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 102
>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 = 50.1 bits (118), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 32 SQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSA 91
S+T L V L + F + G+I K++ ++ +G+S G+GFV Y + A A
Sbjct: 1 SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKA 60
Query: 92 QSAMDGQELNGRNIRVSFANDRP 114
+ ++G L + I+VS+A RP
Sbjct: 61 INTLNGLRLQTKTIKVSYA--RP 81
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 42/77 (54%), Gaps = 2/77 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L+V GL L++ FS +G I ++++ ++ +G SRG GF+ +D A A +
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 96 DGQELNGRN--IRVSFA 110
+GQ+ +G I V FA
Sbjct: 151 NGQKPSGATEPITVKFA 167
>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 = 50.1 bits (118), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 45/75 (60%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV + + ++E F ++G+I + +R +G S+G+ V Y++++ A +A+ A+
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 96 DGQELNGRNIRVSFA 110
+G E+ G+ I+V +
Sbjct: 135 NGAEIMGQTIQVDWC 149
>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 = 50.1 bits (118), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 42/73 (57%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
+++VG + + + ++++AF+ FG I + + + K +GF FV Y+ E+A A
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 95 MDGQELNGRNIRV 107
M+ L GRNI+V
Sbjct: 75 MNSVMLGGRNIKV 87
Score = 49.3 bits (116), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 42/80 (52%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
+++V + D +K F FG I + + +GK +G+GF+ Y+ +S+ A S+
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 171
Query: 95 MDGQELNGRNIRVSFANDRP 114
M+ +L G+ +RV A P
Sbjct: 172 MNLFDLGGQYLRVGKAVTPP 191
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 49.7 bits (117), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L+V GL +++ FS +G I ++++ ++ +G SRG GF+ +D A A +
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 96 DGQELNG--RNIRVSFAND 112
+GQ+ G I V FAN+
Sbjct: 64 NGQKPLGAAEPITVKFANN 82
>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 = 49.3 bits (116), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 44/78 (56%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LF+ L D L + F FG++ AKV ++++ S+ FGFV+YD+ SA +A +M
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 96 DGQELNGRNIRVSFANDR 113
+G ++ + ++V +
Sbjct: 88 NGFQIGMKRLKVQLKRSK 105
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 49.3 bits (116), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 45/85 (52%), Gaps = 6/85 (7%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS 89
S ++ GG++ G D +++ FS FG I E +V E +G+ FV + ++ESA+
Sbjct: 22 SPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAA 75
Query: 90 SAQSAMDGQELNGRNIRVSFANDRP 114
A +++G + G ++ + + P
Sbjct: 76 HAIVSVNGTTIEGHVVKCYWGKESP 100
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 48.9 bits (115), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+FVGGLS T +K F FG + +A ++ ++ + + RGFGFVT++S E +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFES-EDIVEKVCEI 60
Query: 96 DGQELNGRNIR 106
E+N + +
Sbjct: 61 HFHEINNKMVE 71
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 40/75 (53%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
++VGGL + L E F G + + +R +G+ +G+GFV + S E A A M
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 96 DGQELNGRNIRVSFA 110
D +L G+ IRV+ A
Sbjct: 78 DMIKLYGKPIRVNKA 92
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 39/80 (48%), Gaps = 6/80 (7%)
Query: 32 SQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSA 91
+ +LFVG L + K F +G+ +E + + RGFGF+ +S A A
Sbjct: 21 QRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEIA 74
Query: 92 QSAMDGQELNGRNIRVSFAN 111
++ +DG L R +R+ FA
Sbjct: 75 KAELDGTILKSRPLRIRFAT 94
Score = 33.5 bits (75), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 26 VRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSN 85
+RF + L V LS + L++AFS FG + +A V+ + + G++ G GFV + +
Sbjct: 90 IRFATHG-AALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRATGKGFVEFAAK 147
Query: 86 ESASSA 91
A A
Sbjct: 148 PPARKA 153
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 43/80 (53%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV G+ + + + F+ +G+I + +R +G +G+ V Y++ + A +A +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 96 DGQELNGRNIRVSFANDRPP 115
+GQ+L G+ I V + R P
Sbjct: 70 NGQDLMGQPISVDWCFVRGP 89
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 43/80 (53%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV G+ + + + F+ +G+I + +R +G +G+ V Y++ + A +A +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 96 DGQELNGRNIRVSFANDRPP 115
+GQ+L G+ I V + R P
Sbjct: 70 NGQDLMGQPISVDWCFVRGP 89
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 43/80 (53%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV G+ + + + F+ +G+I + +R +G +G+ V Y++ + A +A +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 96 DGQELNGRNIRVSFANDRPP 115
+GQ+L G+ I V + R P
Sbjct: 72 NGQDLMGQPISVDWCFVRGP 91
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 47.4 bits (111), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 10/80 (12%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV L+ + L++AFS FG + K K + + F+ +D + A A M
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVK--------KLKDYAFIHFDERDGAVKAMEEM 65
Query: 96 DGQELNGRNIRVSFANDRPP 115
+G++L G NI + FA +PP
Sbjct: 66 NGKDLEGENIEIVFA--KPP 83
>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 = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 43/80 (53%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV G+ + + + F+ +G+I + +R +G +G+ V Y++ + A +A +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 96 DGQELNGRNIRVSFANDRPP 115
+GQ+L G+ I V + R P
Sbjct: 86 NGQDLMGQPISVDWCFVRGP 105
>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 = 47.0 bits (110), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 40/73 (54%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
+++VG + + + ++++AF+ FG I + + K +GF FV Y+ E+A A
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 95 MDGQELNGRNIRV 107
+ L GRNI+V
Sbjct: 74 XNSVXLGGRNIKV 86
Score = 45.8 bits (107), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 41/80 (51%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
+++V + D +K F FG I + + +GK +G+GF+ Y+ +S+ A S+
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 170
Query: 95 MDGQELNGRNIRVSFANDRP 114
+ +L G+ +RV A P
Sbjct: 171 XNLFDLGGQYLRVGKAVTPP 190
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 47.0 bits (110), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 2/79 (2%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
+L V + + D L++ F FG I + ++I E G S+GFGFVT++++ A A+
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN-ERG-SKGFGFVTFENSADADRAREK 74
Query: 95 MDGQELNGRNIRVSFANDR 113
+ G + GR I V+ A R
Sbjct: 75 LHGTVVEGRKIEVNNATAR 93
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 34/60 (56%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L++ GL GT D L + +G I K I ++ + K +G+GFV +DS +A A +A+
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
>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 = 46.2 bits (108), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 41/75 (54%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV G+ + + + F+ +G+I + +R +G +G+ V Y++ + A +A +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 96 DGQELNGRNIRVSFA 110
+GQ+L G+ I V +
Sbjct: 70 NGQDLMGQPISVDWC 84
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 39/79 (49%), Gaps = 6/79 (7%)
Query: 32 SQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSA 91
+++LFVG L + +++ F +G E + K +GFGF+ ++ A A
Sbjct: 21 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI------HKDKGFGFIRLETRTLAEIA 74
Query: 92 QSAMDGQELNGRNIRVSFA 110
+ +D L G+ +RV FA
Sbjct: 75 KVELDNMPLRGKQLRVRFA 93
Score = 32.7 bits (73), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 26 VRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSN 85
VRF S + L V L + L+EAFS FG + A VI + + G+ G G V +
Sbjct: 90 VRFACHSAS-LTVRNLPQYVSNELLEEAFSVFGQVERAVVIVD-DRGRPSGKGIVEFSGK 147
Query: 86 ESASSA 91
+A A
Sbjct: 148 PAARKA 153
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 43/68 (63%), Gaps = 4/68 (5%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSN---ESASSAQ 92
+FVGG+ D++ ++ F+ +G + E K+IT+R +G S+G+GFV++ ++ + +Q
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 93 SAMDGQEL 100
G++L
Sbjct: 71 INFHGKKL 78
>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 = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 41/75 (54%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV G+ + + + F+ +G+I + +R +G +G+ V Y++ + A +A +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 96 DGQELNGRNIRVSFA 110
+GQ+L G+ I V +
Sbjct: 85 NGQDLMGQPISVDWC 99
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 43/86 (50%), Gaps = 8/86 (9%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAK--------VITERESGKSRGFGFVTYDSNES 87
+FV GL S+ + F G I K + T+RE+GK +G V++D S
Sbjct: 10 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 69
Query: 88 ASSAQSAMDGQELNGRNIRVSFANDR 113
A +A DG+E +G I+VSFA R
Sbjct: 70 AKAAIDWFDGKEFSGNPIKVSFATRR 95
>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 = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 32/56 (57%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASS 90
K+FVGGLS T + ++E F FG++ ++ + ++ K RGF F+T+ E
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKK 58
>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 = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 40/79 (50%)
Query: 29 MSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESA 88
+ S KLF+GGL +D +KE ++FG + ++ + +G S+G+ F Y
Sbjct: 110 VPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVT 169
Query: 89 SSAQSAMDGQELNGRNIRV 107
A + ++G +L + + V
Sbjct: 170 DQAIAGLNGMQLGDKKLLV 188
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 44/96 (45%), Gaps = 8/96 (8%)
Query: 15 GQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKS 74
G P+ S ++ + S T+LFV +S L E F FG + E K++
Sbjct: 13 GLVPRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN------- 65
Query: 75 RGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFA 110
GF FV ++ ESA+ A + G+ + + V ++
Sbjct: 66 -GFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYS 100
>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 = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 43/69 (62%), Gaps = 4/69 (5%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSN---ESASSAQ 92
+FVGG+ D++ ++ F+ +G + E K+IT+R +G S+G+GFV++ ++ + +Q
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 93 SAMDGQELN 101
G++L
Sbjct: 71 INFHGKKLK 79
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITER-ESGKSRGFGFVTYDSNESA 88
S TK+ +G L+ + E FS +G I + ER S+G+ +V +++ + A
Sbjct: 1 SMKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEA 60
Query: 89 SSAQSAMDGQELNGRNI 105
A MDG +++G+ I
Sbjct: 61 EKALKHMDGGQIDGQEI 77
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 42/83 (50%), Gaps = 8/83 (9%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAK--------VITERESGKSRGFGFVTYDSNES 87
+FV GL S+ + F G I K + T+RE+GK +G V++D S
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 88 ASSAQSAMDGQELNGRNIRVSFA 110
A +A DG+E +G I+VSFA
Sbjct: 76 AKAAIDWFDGKEFSGNPIKVSFA 98
>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 = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 39/76 (51%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+GGL +D +KE ++FG + ++ + +G S+G+ F Y A +
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 157
Query: 95 MDGQELNGRNIRVSFA 110
++G +L + + V A
Sbjct: 158 LNGMQLGDKKLLVQRA 173
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 36/77 (46%), Gaps = 2/77 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFG--DITEAKVITERESGKSRGFGFVTYDSNESASSAQS 93
++VG SW T D L + + G D+ E K R +G+S+G+ V S S
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 94 AMDGQELNGRNIRVSFA 110
+ G+ LNG + V A
Sbjct: 118 LLPGKVLNGEKVDVRPA 134
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 43/68 (63%), Gaps = 4/68 (5%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSN---ESASSAQ 92
+FVGG+ D++ ++ F+ +G + E K+IT+R +G S+G+GFV++ ++ + +Q
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 93 SAMDGQEL 100
G++L
Sbjct: 72 INFHGKKL 79
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 38/73 (52%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+GGL +D +KE ++FG + ++ + +G S+G+ F Y A +
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 155
Query: 95 MDGQELNGRNIRV 107
++G +L + + V
Sbjct: 156 LNGMQLGDKKLLV 168
>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 = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 33 QTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQ 92
+++LFVG L + +++ F +G E + K +GFGF+ ++ A A+
Sbjct: 15 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI------HKDKGFGFIRLETRTLAEIAK 68
Query: 93 SAMDGQELNGRNIRVSFA 110
+D L G+ +RV FA
Sbjct: 69 VELDNMPLRGKQLRVRFA 86
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 38/73 (52%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+GGL +D +KE ++FG + ++ + +G S+G+ F Y A +
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 95 MDGQELNGRNIRV 107
++G +L + + V
Sbjct: 63 LNGMQLGDKKLLV 75
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 31/55 (56%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASS 90
+FVGGLS T + ++E F FG++ ++ + ++ K RGF F+T+ E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKK 56
>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 = 43.5 bits (101), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 16/77 (20%), Positives = 46/77 (59%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+++G + + + + + SN G + K++ + ++G+S+G+ F+ + ES++SA +
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 96 DGQELNGRNIRVSFAND 112
+G +L R ++ ++++
Sbjct: 67 NGYQLGSRFLKCGYSSN 83
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 43.5 bits (101), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS 89
S ++FV L + LK+ F+ G + A + + E+GKS+G G V ++S E A
Sbjct: 5 SSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVAE 62
Query: 90 SAQSAMDGQELNGRNIRV 107
A M+G +L+GR I V
Sbjct: 63 RACRMMNGMKLSGREIDV 80
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 43.5 bits (101), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KL V L +G D+ ++E F+ FG + +A V +R SG+S G V ++ A A
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQ 88
Query: 95 MDGQELNGRNIRVSFA 110
+G L+GR + +
Sbjct: 89 YNGVPLDGRPMNIQLV 104
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 43.1 bits (100), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/107 (25%), Positives = 48/107 (44%), Gaps = 10/107 (9%)
Query: 7 LGMLVRQNGQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVI 66
+G+ + N QA + + +R T ++G + ++ L F NFG I + K
Sbjct: 5 IGLPPQVNPQA----VDHIIRSAPPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHY 60
Query: 67 TERESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFANDR 113
E+ G F+ YD++E A+ A+ GRN+R + +R
Sbjct: 61 PEK------GCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGKER 101
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 43.1 bits (100), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 43/84 (51%), Gaps = 6/84 (7%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+F+ LS+ +++ +L E FGD+ +V+ ++ S+G F + + E+A +A
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77
Query: 96 D------GQELNGRNIRVSFANDR 113
G +L+GR ++V A R
Sbjct: 78 SLEAEGGGLKLDGRQLKVDLAVTR 101
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 43.1 bits (100), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 34 TKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQS 93
+ +FV L + LKE FS G + A ++ +++ GKSRG G VT++ + A A S
Sbjct: 16 STVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVTFEQSIEAVQAIS 74
Query: 94 AMDGQELNGRNIRV 107
+GQ L R + V
Sbjct: 75 MFNGQLLFDRPMHV 88
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 43.1 bits (100), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 8/79 (10%)
Query: 32 SQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSA 91
S T+LFV +S L E F FG + E K++ GF FV ++ ESA+ A
Sbjct: 3 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKA 54
Query: 92 QSAMDGQELNGRNIRVSFA 110
+ G+ + + V ++
Sbjct: 55 IEEVHGKSFANQPLEVVYS 73
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 42.7 bits (99), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 16/77 (20%), Positives = 46/77 (59%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+++G + + + + + SN G + K++ + ++G+S+G+ F+ + ES++SA +
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 96 DGQELNGRNIRVSFAND 112
+G +L R ++ ++++
Sbjct: 65 NGYQLGSRFLKCGYSSN 81
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 42.7 bits (99), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+G +S ++ ++ FS+FG I E +++ G SRG FVT+ + A +A A
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRIL-RGPDGLSRGCAFVTFTTRAMAQTAIKA 155
Query: 95 MD-GQELNG 102
M Q + G
Sbjct: 156 MHQAQTMEG 164
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESG--KSRGFGFVTYDSNESASSAQ 92
K+FVG + + L+E F +G + E V+ +R +S+G FVT+ + ++A AQ
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 93 SAMDGQEL 100
+A+ ++
Sbjct: 65 NALHNMKV 72
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 42.7 bits (99), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
++VG + +G+ L+ FS+ G I ++ ++ SG +G+ ++ + S +A AM
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAA-VAM 97
Query: 96 DGQELNGRNIRV 107
D GR I+V
Sbjct: 98 DETVFRGRTIKV 109
>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 = 42.7 bits (99), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 16/77 (20%), Positives = 46/77 (59%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+++G + + + + + SN G + K++ + ++G+S+G+ F+ + ES++SA +
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 96 DGQELNGRNIRVSFAND 112
+G +L R ++ ++++
Sbjct: 66 NGYQLGSRFLKCGYSSN 82
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 42.7 bits (99), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+G +S ++ ++ FS+FG I E +++ G SRG FVT+ + A +A A
Sbjct: 109 KLFIGMISKKCTENDIRVMFSSFGQIEECRIL-RGPDGLSRGCAFVTFTTRAMAQTAIKA 167
Query: 95 MD-GQELNG 102
M Q + G
Sbjct: 168 MHQAQTMEG 176
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESG--KSRGFGFVTYDSNESASSAQ 92
K+FVG + + L+E F +G + E V+ +R +S+G FVT+ + ++A AQ
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 76
Query: 93 SAMDGQEL 100
+A+ ++
Sbjct: 77 NALHNMKV 84
>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 = 42.7 bits (99), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 30/84 (35%), Positives = 45/84 (53%), Gaps = 4/84 (4%)
Query: 27 RFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSR-GFGFVTYDSN 85
+ + +S T L+VG LS+ T + + E FS GDI K+I + K+ GF FV Y S
Sbjct: 13 KLLKKSCT-LYVGNLSFYTTEEQIYELFSKSGDI--KKIIMGLDKMKTACGFCFVEYYSR 69
Query: 86 ESASSAQSAMDGQELNGRNIRVSF 109
A +A ++G L+ R IR +
Sbjct: 70 ADAENAMRYINGTRLDDRIIRTDW 93
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 42.4 bits (98), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS 89
S + +FV L + LK+ F+ G + A + + E+GKS+G G V ++S E A
Sbjct: 2 SSGSSGIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVAE 59
Query: 90 SAQSAMDGQELNGRNIRV 107
A M+G +L+GR I V
Sbjct: 60 RACRMMNGMKLSGREIDV 77
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 42.4 bits (98), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 41/83 (49%), Gaps = 8/83 (9%)
Query: 34 TKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQS 93
T+L+VGGL T ++L F FG I + K F ++ Y+S ++A +A +
Sbjct: 18 TRLWVGGLGPNTSLAALAREFDRFGSIRTIDHV------KGDSFAYIQYESLDAAQAACA 71
Query: 94 AMDGQELNG--RNIRVSFANDRP 114
M G L G R +RV FA P
Sbjct: 72 KMRGFPLGGPDRRLRVDFAKSGP 94
>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 = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 39/74 (52%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L+VG LS+ T + + E FS GDI + + ++ + GF FV Y S A +A +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 96 DGQELNGRNIRVSF 109
+G L+ R IR +
Sbjct: 102 NGTRLDDRIIRTDW 115
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 31 QSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASS 90
++ KL V L +G D+ ++E F+ FG + +A V +R SG+S G V ++ A
Sbjct: 86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALK 144
Query: 91 AQSAMDGQELNGRNIRVSF 109
A G L+GR + +
Sbjct: 145 AMKQYKGVPLDGRPMDIQL 163
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGK---SRGFGFVTYDSNESASSAQ 92
LF+ L++ T + +LK FS G I + ++ S GFGFV Y E A A
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 93 SAMDGQELNGRN--IRVSFANDRP 114
+ G ++G +R+S +P
Sbjct: 68 KQLQGHTVDGHKLEVRISERATKP 91
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 3/75 (4%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KL V L +G D+ ++E F+ FG + +A V +R SG+S G V ++ A A
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAXKQ 89
Query: 95 MDGQELNGR--NIRV 107
+G L+GR NI++
Sbjct: 90 YNGVPLDGRPXNIQL 104
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 13/89 (14%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
K++VG L G L+ AFS +G + + + GF FV ++ A A
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWI-----ARNPPGFAFVEFEDPRDAEDAVRG 56
Query: 95 MDGQELNGRNIRVSFAN--------DRPP 115
+DG+ + G +RV + DRPP
Sbjct: 57 LDGKVICGSRVRVELSTGMPRRSRFDRPP 85
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 4/78 (5%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L + LS+ + +L+E F I + + ++GKS+G+ F+ + S E A A ++
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 96 DGQELNGRNIRVSFANDR 113
+ +E+ GR IR+ R
Sbjct: 74 NKREIEGRAIRLELQGPR 91
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 37/79 (46%), Gaps = 1/79 (1%)
Query: 29 MSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESA 88
M ++VG + +G L+ F G + ++ ++ SG +GF ++ + ES
Sbjct: 1 MEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESV 60
Query: 89 SSAQSAMDGQELNGRNIRV 107
++ A+D GR I+V
Sbjct: 61 RTSL-ALDESLFRGRQIKV 78
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 36/76 (47%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L V L +E FG + ++ +G+S+G+GF Y +SA+ A+S +
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 96 DGQELNGRNIRVSFAN 111
G+ L R + V + +
Sbjct: 158 LGKPLGPRTLYVHWTD 173
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 26/46 (56%)
Query: 70 ESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFANDRPP 115
+ G+ +GF + Y++ E A AQ DG L G ++RVSF PP
Sbjct: 221 QDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCAPGPP 266
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 36/76 (47%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L V L +E FG + ++ +G+S+G+GF Y +SA+ A+S +
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 96 DGQELNGRNIRVSFAN 111
G+ L R + V + +
Sbjct: 158 LGKPLGPRTLYVHWTD 173
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 26/46 (56%)
Query: 70 ESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFANDRPP 115
+ G+ +GF + Y++ E A AQ DG L G ++RVSF PP
Sbjct: 221 QDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCAPGPP 266
>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 = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 36/76 (47%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L V L +E FG + ++ +G+S+G+GF Y +SA+ A+S +
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 155
Query: 96 DGQELNGRNIRVSFAN 111
G+ L R + V + +
Sbjct: 156 LGKPLGPRTLYVHWTD 171
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 26/46 (56%)
Query: 70 ESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFANDRPP 115
+ G+ +GF + Y++ E A AQ DG L G ++RVSF PP
Sbjct: 219 QDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCAPGPP 264
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 50/100 (50%), Gaps = 12/100 (12%)
Query: 14 NGQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERE-SG 72
+GQ PK Q+ +K+ V + + + ++E FS FG++ ++ + +G
Sbjct: 6 SGQVPK----------KQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTG 55
Query: 73 KSRGFGFVTYDSNESASSAQSAM-DGQELNGRNIRVSFAN 111
RGFGFV + + + A A +A+ L GR + + +A+
Sbjct: 56 AHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWAD 95
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 31 QSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASS 90
++ KL V L +G D+ ++E F+ FG + +A V +R SG+S G V ++ A
Sbjct: 33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALK 91
Query: 91 AQSAMDGQELNGRNIRVSF 109
A G L+GR + +
Sbjct: 92 AMKQYKGVPLDGRPMDIQL 110
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 1/68 (1%)
Query: 32 SQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSA 91
S KLFVG L+ + ++ F FG+I E ++ + G S+G FV Y S+ A +A
Sbjct: 14 SHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPD-GNSKGCAFVKYSSHAEAQAA 72
Query: 92 QSAMDGQE 99
+A+ G +
Sbjct: 73 INALHGSQ 80
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical
Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens
At 1.95 A Resolution
Length = 89
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
++VG + +G L+ F G + ++ ++ SG +GF ++ + ES ++ A+
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 67
Query: 96 DGQELNGRNIRV 107
D GR I+V
Sbjct: 68 DESLFRGRQIKV 79
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 31 QSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASS 90
++ KL V L +G D+ ++E F+ FG + +A V +R SG+S G V ++ A
Sbjct: 33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALK 91
Query: 91 AQSAMDGQELNGRNIRVSF 109
A G L+GR + +
Sbjct: 92 AMKQYKGVPLDGRPMDIQL 110
>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 = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESG--KSRGFGFVTYDSNESASSAQ 92
K+FVG + + L+E F +G + E V+ +R +S+G FVT+ + ++A AQ
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 93 SAMDGQEL 100
+A+ ++
Sbjct: 65 NALHNMKV 72
>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 = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
KLF+G +S ++ ++ FS+FG I E +++ G SRG FVT+ + A +A A
Sbjct: 97 KLFIGXISKKCTENDIRVXFSSFGQIEECRIL-RGPDGLSRGCAFVTFTTRAXAQTAIKA 155
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESG--KSRGFGFVTYDSNESASSAQ 92
K FVG + + L+E F +G + E V+ +R +S+G FVT+ + ++A AQ
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 93 SAMDGQEL 100
+A+ ++
Sbjct: 65 NALHNXKV 72
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 30/51 (58%)
Query: 65 VITERESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSFANDRPP 115
+ ++E+GK +G V+Y+ +A +A DG++ G ++VS A +PP
Sbjct: 55 IYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLARKKPP 105
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 35/60 (58%)
Query: 38 VGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAMDG 97
V LS T ++ L+E F FG I+ + ++ +G+S+GF F+++ E A+ A + + G
Sbjct: 20 VTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG 79
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 43/75 (57%), Gaps = 2/75 (2%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L+VG LS + + + FS G K+ITE S + FV + + A++A +AM
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVEFYEHRDAAAALAAM 75
Query: 96 DGQELNGRNIRVSFA 110
+G+++ G+ ++V++A
Sbjct: 76 NGRKILGKEVKVNWA 90
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 5/77 (6%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
K++VG L + + L+ AF +G + V + GF FV ++ A+ A
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWV-----ARNPPGFAFVEFEDPRDAADAVRE 129
Query: 95 MDGQELNGRNIRVSFAN 111
+DG+ L G +RV +N
Sbjct: 130 LDGRTLCGCRVRVELSN 146
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 37/82 (45%), Gaps = 3/82 (3%)
Query: 19 KASLINAVRFMSQSQ--TKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRG 76
KAS + A Q Q T L++ L D+ L+ FG + +++ + SG SRG
Sbjct: 9 KASGVQAQMAKQQEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRG 67
Query: 77 FGFVTYDSNESASSAQSAMDGQ 98
GF +S E + +G+
Sbjct: 68 VGFARMESTEKCEAVIGHFNGK 89
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 37/84 (44%), Gaps = 8/84 (9%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS 89
S KLF+G L + ++ F +G + E +I + +GFV + +A
Sbjct: 5 SSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAE 56
Query: 90 SAQSAMDGQELNGRNIRVSFANDR 113
A + +L+G NI V + ++
Sbjct: 57 DAIRNLHHYKLHGVNINVEASKNK 80
>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 = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 8/74 (10%)
Query: 43 WGTD--DSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAMDGQEL 100
+G D + L+ AFS FG+I + + R FVTY+ ESA A + ++G ++
Sbjct: 45 YGEDMTPTLLRGAFSPFGNIIDLSM------DPPRNCAFVTYEKMESADQAVAELNGTQV 98
Query: 101 NGRNIRVSFANDRP 114
++V+ A +P
Sbjct: 99 ESVQLKVNIARKQP 112
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 5/77 (6%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSA 94
K++VG L + + L+ AF +G + V + GF FV ++ A+ A
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWV-----ARNPPGFAFVEFEDPRDAADAVRD 129
Query: 95 MDGQELNGRNIRVSFAN 111
+DG+ L G +RV +N
Sbjct: 130 LDGRTLCGCRVRVELSN 146
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 36.2 bits (82), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 6/65 (9%)
Query: 50 LKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVSF 109
L+ AFS FG+I + + R FVTY+ ESA A + ++G ++ ++V+
Sbjct: 30 LRGAFSPFGNIIDLSM------DPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNI 83
Query: 110 ANDRP 114
A +P
Sbjct: 84 ARKQP 88
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 35.4 bits (80), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L LS+ + LKE F D E +++++ GKS+G ++ + S A
Sbjct: 102 LLAKNLSFNITEDELKEVFE---DALEIRLVSQ--DGKSKGIAYIEFKSEADAEKNLEEK 156
Query: 96 DGQELNGRNIRVSFANDR 113
G E++GR++ + + ++
Sbjct: 157 QGAEIDGRSVSLYYTGEK 174
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 35.4 bits (80), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L LS+ + LKE F D E +++++ GKS+G ++ + S A
Sbjct: 19 LLAKNLSFNITEDELKEVFE---DALEIRLVSQ--DGKSKGIAYIEFKSEADAEKNLEEK 73
Query: 96 DGQELNGRNIRVSFANDR 113
G E++GR++ + + ++
Sbjct: 74 QGAEIDGRSVSLYYTGEK 91
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 34.3 bits (77), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSA 91
KLFVG L D +++ F FG I E V+ G S+G FV + ++ A +A
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVL-RGPDGTSKGCAFVKFQTHAEAQAA 69
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 34.3 bits (77), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 3/80 (3%)
Query: 31 QSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASS 90
+ +++VG L +++ F +G I + + R G F FV ++ A
Sbjct: 20 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDID-LKNRRGGPP--FAFVEFEDPRDAED 76
Query: 91 AQSAMDGQELNGRNIRVSFA 110
A DG + +G +RV F
Sbjct: 77 AVYGRDGYDYDGYRLRVEFP 96
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 33.5 bits (75), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 9/85 (10%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS 89
S + +FVG + + L+E FS +GD+ + + R F FVT+ ++ A
Sbjct: 2 SSGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFI-----PKPFRAFAFVTFADDQIAQ 56
Query: 90 SAQSAMDGQELNGRNIRVSFANDRP 114
S + G++L + I V +N P
Sbjct: 57 S----LCGEDLIIKGISVHISNAEP 77
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 33.1 bits (74), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 1/82 (1%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTY-DSNESA 88
S + LFVG L+ DD L E F + ++G S+G+GFV + D E
Sbjct: 6 SGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQK 65
Query: 89 SSAQSAMDGQELNGRNIRVSFA 110
+ L + +R+S A
Sbjct: 66 RALTECQGAVGLGSKPVRLSVA 87
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 32.7 bits (73), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 3/64 (4%)
Query: 50 LKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRN-IRVS 108
+ + FS FG IT E GK++G+ F+ Y S A A DG +L+ ++ RV+
Sbjct: 38 IHKIFSKFGKITND--FYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVN 95
Query: 109 FAND 112
D
Sbjct: 96 LFTD 99
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 32.7 bits (73), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 35/77 (45%), Gaps = 5/77 (6%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
L L + LKE F D E +++++ GKS+G ++ + + A
Sbjct: 96 LLAKNLPYKVTQDELKEVFE---DAAEIRLVSK--DGKSKGIAYIEFKTEADAEKTFEEK 150
Query: 96 DGQELNGRNIRVSFAND 112
G E++GR+I + + +
Sbjct: 151 QGTEIDGRSISLYYTGE 167
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 32.3 bits (72), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 50 LKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRN 104
+ + FS FG IT E GK++G+ F+ Y S A A DG +L+ ++
Sbjct: 24 IHKIFSKFGKITND--FYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQH 76
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 32.0 bits (71), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 39/77 (50%), Gaps = 7/77 (9%)
Query: 34 TKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESAS-SAQ 92
T L+VGGL ++ L+ F FG+I V+ ++ F+ + + ++A +A+
Sbjct: 13 TTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQFATRQAAEVAAE 66
Query: 93 SAMDGQELNGRNIRVSF 109
+ + +NGR + V +
Sbjct: 67 KSFNKLIVNGRRLNVKW 83
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/86 (19%), Positives = 37/86 (43%), Gaps = 3/86 (3%)
Query: 26 VRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSN 85
+R + L++ L + + + F +G I + +V + ++RG +V Y+
Sbjct: 5 IRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDI 61
Query: 86 ESASSAQSAMDGQELNGRNIRVSFAN 111
A +A + G + R + V + N
Sbjct: 62 FDAKNACDHLSGFNVCNRYLVVLYYN 87
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 31.6 bits (70), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/86 (19%), Positives = 38/86 (44%), Gaps = 3/86 (3%)
Query: 26 VRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSN 85
+R + L++ L + + + F +G I + +V + ++RG +V Y+
Sbjct: 1 IRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDI 57
Query: 86 ESASSAQSAMDGQELNGRNIRVSFAN 111
A +A + G ++ R + V + N
Sbjct: 58 FDAKNAVDHLSGFNVSNRYLVVLYYN 83
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 39/78 (50%), Gaps = 9/78 (11%)
Query: 34 TKLFVGGL-SWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQ 92
+++F+G L + S ++ FS +G I V +GF FV Y + +A +A
Sbjct: 16 SRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV--------HKGFAFVQYVNERNARAAV 67
Query: 93 SAMDGQELNGRNIRVSFA 110
+ DG+ + G+ + ++ A
Sbjct: 68 AGEDGRMIAGQVLDINLA 85
>pdb|2DIS|A Chain A, Solution Structure Of The Rrm Domain Of Unnamed Protein
Product
Length = 109
Score = 31.6 bits (70), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 42/89 (47%), Gaps = 10/89 (11%)
Query: 30 SQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEA--KVITERESG---KSRGFGFVTYDS 84
S +LF+GG+ +E +TE VI + K+RGF FV Y+S
Sbjct: 5 SSGNCRLFIGGI---PKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYES 61
Query: 85 NESASSA-QSAMDGQ-ELNGRNIRVSFAN 111
+ +A+ A + M G+ +L G I V +A
Sbjct: 62 HRAAAMARRKLMPGRIQLWGHQIAVDWAE 90
>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 = 31.2 bits (69), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 17/86 (19%), Positives = 37/86 (43%), Gaps = 3/86 (3%)
Query: 26 VRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSN 85
+R + L++ L + + + F +G I + +V + ++RG +V Y+
Sbjct: 11 IRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDI 67
Query: 86 ESASSAQSAMDGQELNGRNIRVSFAN 111
A +A + G + R + V + N
Sbjct: 68 FDAKNACDHLSGFNVCNRYLVVLYYN 93
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 30.0 bits (66), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 39/81 (48%), Gaps = 6/81 (7%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGD--ITEAKVITERESGKSRGFGFVTYDSNESASS--- 90
+ + ++ T S+ A S + + ++I ++++ ++RGF FV S AS
Sbjct: 12 IILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQ 71
Query: 91 -AQSAMDGQELNGRNIRVSFA 110
QS +++G+ I V FA
Sbjct: 72 ILQSLHPPLKIDGKTIGVDFA 92
>pdb|2K3K|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd1
Length = 104
Score = 30.0 bits (66), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 49 SLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVS 108
SL FS FG I + I ++ K RG FV + SAS+A M G + ++++
Sbjct: 26 SLYAIFSQFGQILD---IVALKTLKMRGQAFVIFKEIGSASNALRTMQGFPFYDKPMQIA 82
Query: 109 FA 110
++
Sbjct: 83 YS 84
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 30.0 bits (66), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 62 EAKVITERESGKSRGFGFVTYDSNESASSAQSAMDGQELN--GRNIRVSFANDRP 114
E +++ + SG+SRGF FV + + A+ A + LN G+ + + +++ +P
Sbjct: 31 EVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEA-NQHSLNILGQKVSMHYSDPKP 84
>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 = 28.9 bits (63), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 5/65 (7%)
Query: 49 SLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVS 108
SL F +GD+ K++ ++ V A A S ++G +L+G+ IR++
Sbjct: 51 SLFILFGVYGDVQRVKILFNKKEN-----ALVQMADGNQAQLAMSHLNGHKLHGKPIRIT 105
Query: 109 FANDR 113
+ +
Sbjct: 106 LSKHQ 110
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 5/65 (7%)
Query: 49 SLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRNIRVS 108
SL F +GD+ K++ ++ V A A S ++G +L+G+ IR++
Sbjct: 20 SLFILFGVYGDVQRVKILFNKKEN-----ALVQMADGNQAQLAMSHLNGHKLHGKPIRIT 74
Query: 109 FANDR 113
+ +
Sbjct: 75 LSKHQ 79
>pdb|4G1K|A Chain A, Crystal Structure Of Triosephosphate Isomerase From
Burkholderia Thailandensis
pdb|4G1K|B Chain B, Crystal Structure Of Triosephosphate Isomerase From
Burkholderia Thailandensis
pdb|4G1K|C Chain C, Crystal Structure Of Triosephosphate Isomerase From
Burkholderia Thailandensis
pdb|4G1K|D Chain D, Crystal Structure Of Triosephosphate Isomerase From
Burkholderia Thailandensis
Length = 272
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 22/38 (57%)
Query: 28 FMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDITEAKV 65
+++Q+Q +L G +SWG+ D S E + G++ V
Sbjct: 71 YLAQAQAQLQGGRVSWGSQDVSAHEQGAYTGEVAAGMV 108
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 8/63 (12%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
LFV L+ + L+++FS FG + K K + + FV ++ +A A M
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVK--------KLKDYAFVHFEDRGAAVKAMDEM 69
Query: 96 DGQ 98
+G+
Sbjct: 70 NGK 72
>pdb|2CPI|A Chain A, Solution Structure Of The Rna Recognition Motif Of Cnot4
Length = 111
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 6/84 (7%)
Query: 36 LFVGGLSWGTDDSSL---KEAFSNFGDITEAKVITERESGKSRG---FGFVTYDSNESAS 89
+FV GLS D + E F FG I + + S+G +VTY +E A
Sbjct: 18 VFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDAL 77
Query: 90 SAQSAMDGQELNGRNIRVSFANDR 113
A ++ ++GR ++ S +
Sbjct: 78 RAIQCVNNVVVDGRTLKASLGTTK 101
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 46 DDSSLKEAFSNFGDITEAKVIT-ERESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRN 104
D++ L+E+F FG I + + ++E + F +++ +SA A + L R
Sbjct: 224 DENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFXVFENKDSAERALQX-NRSLLGNRE 282
Query: 105 IRVSFANDRP 114
I VS A+ +P
Sbjct: 283 ISVSLADKKP 292
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 27.3 bits (59), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 26/56 (46%)
Query: 49 SLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRN 104
+L FS G + + + +GK++GF FV S A + G+ L+ ++
Sbjct: 28 ALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKH 83
>pdb|3KSM|A Chain A, Crystal Structure Of Abc-Type Sugar Transport System,
Periplasmic Component From Hahella Chejuensis
pdb|3KSM|B Chain B, Crystal Structure Of Abc-Type Sugar Transport System,
Periplasmic Component From Hahella Chejuensis
Length = 276
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 65 VITERESGKSRGFGFVTYDSNESASSAQSA 94
++ R+SG S+ FGF+ +D E +A A
Sbjct: 203 LVAIRQSGXSKQFGFIGFDQTEELEAAXYA 232
>pdb|2E5G|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 21
Length = 94
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESG 72
+FV G G D + L E F FG + A V+ +++ G
Sbjct: 11 VFVSGFPRGVDSAQLSEYFLAFGPV--ASVVMDKDKG 45
>pdb|3NAP|B Chain B, Structure Of Triatoma Virus (Trv)
Length = 255
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 7/63 (11%)
Query: 11 VRQNGQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFS-NFGDITEAKVITER 69
VR A S+I+ F+ + Q F+G W T D KE FS D + +I E+
Sbjct: 69 VRSVSDARTHSIID---FLERPQ---FIGSFLWNTSDIENKEIFSLKLPDALMSPMIREK 122
Query: 70 ESG 72
SG
Sbjct: 123 LSG 125
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 26.9 bits (58), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 36 LFVGGLSWGTDDSSLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAM 95
+++ GL + ++ + + F + ++ I +GK+ G GFV + NE+ A
Sbjct: 28 VYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEF-RNEADYKAALCR 86
Query: 96 DGQELNGRNIRVS 108
Q + R I+V
Sbjct: 87 HKQYMGNRFIQVH 99
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 26.9 bits (58), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 5/65 (7%)
Query: 35 KLFVGGLSWGTDDSSLKEAFSNFGD-ITEAKVITERESG-KSRGFGFVTYDSNESASSAQ 92
K+FVGGL D+ + +F FG + + E +S +G+ F+ + + SS Q
Sbjct: 10 KVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLF---QEESSVQ 66
Query: 93 SAMDG 97
+ +D
Sbjct: 67 ALIDA 71
>pdb|3HT4|A Chain A, Crystal Structure Of The Q81a77_baccr Protein From
Bacillus Cereus. Northeast Structural Genomics
Consortium Target Bcr213
pdb|3HT4|B Chain B, Crystal Structure Of The Q81a77_baccr Protein From
Bacillus Cereus. Northeast Structural Genomics
Consortium Target Bcr213
pdb|3HT4|C Chain C, Crystal Structure Of The Q81a77_baccr Protein From
Bacillus Cereus. Northeast Structural Genomics
Consortium Target Bcr213
pdb|3HT4|D Chain D, Crystal Structure Of The Q81a77_baccr Protein From
Bacillus Cereus. Northeast Structural Genomics
Consortium Target Bcr213
pdb|3HT4|E Chain E, Crystal Structure Of The Q81a77_baccr Protein From
Bacillus Cereus. Northeast Structural Genomics
Consortium Target Bcr213
pdb|3HT4|F Chain F, Crystal Structure Of The Q81a77_baccr Protein From
Bacillus Cereus. Northeast Structural Genomics
Consortium Target Bcr213
pdb|3HT4|G Chain G, Crystal Structure Of The Q81a77_baccr Protein From
Bacillus Cereus. Northeast Structural Genomics
Consortium Target Bcr213
pdb|3HT4|H Chain H, Crystal Structure Of The Q81a77_baccr Protein From
Bacillus Cereus. Northeast Structural Genomics
Consortium Target Bcr213
Length = 431
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 29/65 (44%)
Query: 2 AFCGKLGMLVRQNGQAPKASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKEAFSNFGDIT 61
AF KLG AP+ LI +V+F + + F + + + +S ++N+
Sbjct: 302 AFLEKLGXNTSPAWNAPRTDLIQSVQFDDKDRXIAFCQAIQYASPINSHFTPYANYXPGY 361
Query: 62 EAKVI 66
E VI
Sbjct: 362 EDDVI 366
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 26.6 bits (57), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 26/56 (46%)
Query: 49 SLKEAFSNFGDITEAKVITERESGKSRGFGFVTYDSNESASSAQSAMDGQELNGRN 104
+L FS G + + + +GK++GF FV S A + G+ L+ ++
Sbjct: 28 ALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKH 83
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 26.6 bits (57), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 64 KVITERESGKSRGFGFVTYDSNESA---SSAQSAMDGQELNGRNIRVSFA 110
+VI ++++ +RGF F+ + E+A Q+ ++G+ I V FA
Sbjct: 56 RVIKDKQTQLNRGFAFIQLSTIEAAQLLQILQALHPPLTIDGKTINVEFA 105
>pdb|2CG9|A Chain A, Crystal Structure Of An Hsp90-Sba1 Closed Chaperone
Complex
pdb|2CG9|B Chain B, Crystal Structure Of An Hsp90-Sba1 Closed Chaperone
Complex
Length = 677
Score = 25.8 bits (55), Expect = 8.3, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 19 KASLINAVRFMSQSQTKLFVGGLSWGTDDSSLKE 52
KA LIN + +++S TK F+ LS G D S + +
Sbjct: 86 KAELINNLGTIAKSGTKAFMEALSAGADVSMIGQ 119
>pdb|3RY3|A Chain A, Putative Solute-Binding Protein From Yersinia Pestis.
pdb|3RY3|B Chain B, Putative Solute-Binding Protein From Yersinia Pestis
Length = 528
Score = 25.8 bits (55), Expect = 8.7, Method: Composition-based stats.
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 5/32 (15%)
Query: 38 VGGLSWGTDDSSLKEAFSNFGDITEAKVITER 69
V GL W DS++K+ GDI +AK I E+
Sbjct: 316 VQGLPWNNPDSAIKD-----GDIDKAKQILEQ 342
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
0.315 0.130 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,058,376
Number of Sequences: 62578
Number of extensions: 98676
Number of successful extensions: 538
Number of sequences better than 100.0: 192
Number of HSP's better than 100.0 without gapping: 164
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 320
Number of HSP's gapped (non-prelim): 215
length of query: 147
length of database: 14,973,337
effective HSP length: 90
effective length of query: 57
effective length of database: 9,341,317
effective search space: 532455069
effective search space used: 532455069
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)