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= 042948
(192 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 44/74 (59%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L+I +P+ F + ++ + F FG + ++ +K+T SK FGF+ F +PD A+V AM
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 116 HGYLLFEHILQVHL 129
+G+ + L+V L
Sbjct: 103 NGFQVGTKRLKVQL 116
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 50.1 bits (118), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 40/81 (49%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L + +P+ + E + F G I ++ R+K TG+S +GF+ +SDP+ A+ + +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 116 HGYLLFEHILQVHLIPPEHVH 136
+G L ++V P
Sbjct: 67 NGLKLQTKTIKVSYARPSSAS 87
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 49.7 bits (117), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 40/81 (49%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L + +P+ + E + F G I ++ R+K TG+S +GF+ +SDP+ A+ + +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 116 HGYLLFEHILQVHLIPPEHVH 136
+G L ++V P
Sbjct: 67 NGLKLQTKTIKVSYARPSSAS 87
Score = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 34/64 (53%)
Query: 54 AVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVAD 113
A LY+ +P+ +KEM FSQ+G I RI ++ TG S+ GFI F AE
Sbjct: 91 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 150
Query: 114 AMHG 117
++G
Sbjct: 151 GLNG 154
>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 = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 39 PRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFG 98
P+R +P ++ +K +++G I KE FFSQ+GTI ++ +K TG+S+ FG
Sbjct: 75 PKRAIPRDEQ--DKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFG 132
Query: 99 FIEFSDPDVAEVVA 112
F+ + D + V
Sbjct: 133 FVTYDSADAVDRVC 146
Score = 46.6 bits (109), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 44/87 (50%), Gaps = 7/87 (8%)
Query: 52 KAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVV 111
++ ++IG + E + +F ++GT+ L+I ++ TG+S+ FGF+ F P + V
Sbjct: 2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEV 61
Query: 112 ADAMHGYLLFEHILQVHLIPPEHVHPK 138
+HIL +I P+ P+
Sbjct: 62 VKT-------QHILDGKVIDPKRAIPR 81
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 34/64 (53%)
Query: 54 AVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVAD 113
A LY+ +P+ +KEM FSQ+G I RI ++ TG S+ GFI F AE
Sbjct: 2 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Query: 114 AMHG 117
++G
Sbjct: 62 GLNG 65
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 39/81 (48%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L + +P+ ++E + F G I ++ R+K TG+S +GF+ + DP AE + +
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 116 HGYLLFEHILQVHLIPPEHVH 136
+G L ++V P
Sbjct: 65 NGLRLQTKTIKVSYARPSSAS 85
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 34/64 (53%)
Query: 54 AVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVAD 113
A LY+ +P+ +KE+ FSQ+G I RI ++ TG S+ GFI F AE
Sbjct: 89 ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK 148
Query: 114 AMHG 117
++G
Sbjct: 149 GLNG 152
>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 = 47.0 bits (110), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 49/92 (53%), Gaps = 7/92 (7%)
Query: 38 GPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHF 97
G +++ PE A L+I +P+ F ++++ F FG + ++ +K+T SK F
Sbjct: 17 GSQKEGPE-------GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCF 69
Query: 98 GFIEFSDPDVAEVVADAMHGYLLFEHILQVHL 129
GF+ + +P A+ +M+G+ + L+V L
Sbjct: 70 GFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQL 101
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 47.0 bits (110), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 41/76 (53%)
Query: 54 AVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVAD 113
+ +Y+ +P +++ FS++G + ++ I ++K T KSK FI F D D A+
Sbjct: 17 STVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTR 76
Query: 114 AMHGYLLFEHILQVHL 129
A++ LF +++ +
Sbjct: 77 AINNKQLFGRVIKASI 92
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 46.6 bits (109), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 37/65 (56%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
LY+G + E + F FG I +++ + +TG+SK +GFI FSD + A+ + +
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 116 HGYLL 120
+G+ L
Sbjct: 89 NGFEL 93
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 46.6 bits (109), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 42/81 (51%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
VLY+G + +K +HA F FG I ++I + +T K + F F+EF + A D
Sbjct: 14 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 73
Query: 115 MHGYLLFEHILQVHLIPPEHV 135
M+ LF ++V+L P +
Sbjct: 74 MNESELFGRTIRVNLAKPMRI 94
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 46/92 (50%), Gaps = 5/92 (5%)
Query: 51 NKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEV 110
+ ++ LY+G + E + F FG I + + ++ TG+SK +GFI FSD + A
Sbjct: 3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARR 62
Query: 111 VADAMHGYLLFEHILQVHLIPPEHVHPKLWRG 142
+ ++G+ L ++V HV +L G
Sbjct: 63 ALEQLNGFELAGRPMRVG-----HVTERLDGG 89
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 42/83 (50%), Gaps = 6/83 (7%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L++G + ++ + ++FSQ+G + I ++K T +S+ FGF++F DP+ V +
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASR 78
Query: 116 HGYLLFEHILQVHLIPPEHVHPK 138
H L I P+ P+
Sbjct: 79 ------PHTLDGRNIDPKPCTPR 95
>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 = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 56/109 (51%), Gaps = 6/109 (5%)
Query: 16 VSSQLPVSSDRK-DTADFLPLEGGPRRKL-PEEKPLVNKAAV--LYIGRIPRWFYEKEMH 71
V+ Q P ++R DT +F ++G P R + + P + K+ V ++I + + K ++
Sbjct: 57 VNFQQPADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALY 116
Query: 72 AFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLL 120
FS FG I ++ ++ SK +GF+ F + AE + M+G LL
Sbjct: 117 DTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKMNGMLL 163
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 40/75 (53%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
VLY+G + +K +HA F FG I ++I + +T K + F F+EF + A D
Sbjct: 65 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 124
Query: 115 MHGYLLFEHILQVHL 129
M+ LF ++V+L
Sbjct: 125 MNESELFGRTIRVNL 139
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 47/75 (62%), Gaps = 5/75 (6%)
Query: 43 LPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEF 102
LPE K + N +++G I E E+ +FF+++G+++ ++I + +TG SK +GF+ F
Sbjct: 2 LPEGKIMPN---TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 57
Query: 103 -SDPDVAEVVADAMH 116
+D DV ++V ++
Sbjct: 58 YNDVDVQKIVESQIN 72
>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 = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 56/109 (51%), Gaps = 6/109 (5%)
Query: 16 VSSQLPVSSDRK-DTADFLPLEGGPRRKL-PEEKPLVNKAAV--LYIGRIPRWFYEKEMH 71
V+ Q P ++R DT +F ++G P R + + P + K+ V ++I + + K ++
Sbjct: 62 VNFQQPADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALY 121
Query: 72 AFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLL 120
FS FG I ++ ++ SK +GF+ F + AE + M+G LL
Sbjct: 122 DTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKMNGMLL 168
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRL-RIARNKKTGKSKHFGFIEFSDPDVAEVV 111
++ ++IG + EK ++ FS FG I + +I R+ TG SK + FI F+ D ++
Sbjct: 5 SSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAA 64
Query: 112 ADAMHGYLLFEHILQVH 128
+AM+G L + V
Sbjct: 65 IEAMNGQYLCNRPITVS 81
>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 = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 39/73 (53%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
V+Y+G IP E+++ S G + L++ + +TG+SK + FIEF D + +
Sbjct: 6 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 65
Query: 115 MHGYLLFEHILQV 127
++GY L L+
Sbjct: 66 LNGYQLGSRFLKC 78
>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 = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 47/75 (62%), Gaps = 5/75 (6%)
Query: 43 LPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEF 102
LPE K + N +++G I E E+ +FF+++G+++ ++I + +TG SK +GF+ F
Sbjct: 2 LPEGKIMPN---TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 57
Query: 103 -SDPDVAEVVADAMH 116
+D DV ++V ++
Sbjct: 58 YNDVDVQKIVESQIN 72
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 48/103 (46%), Gaps = 5/103 (4%)
Query: 31 DFLPLEG---GPRRKLPEEKPLV--NKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRI 85
D+ PL G P +P V + A L+IG +P + + ++ + FG ++ +
Sbjct: 87 DYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNL 146
Query: 86 ARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEHILQVH 128
++ TG SK + F E+ D +V + ++G L + L V
Sbjct: 147 VKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQ 189
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 35/64 (54%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVA 112
A L+IG+IPR EK++ F +FG I L + +++ TG K F+ + + + A
Sbjct: 13 AIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQ 72
Query: 113 DAMH 116
A+H
Sbjct: 73 SALH 76
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L+IG +P + + ++ + FG ++ + ++ TG SK + F E+ D +V + +
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 116 HGYLLFEHILQVH 128
+G L + L V
Sbjct: 64 NGMQLGDKKLLVQ 76
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 36/69 (52%)
Query: 50 VNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAE 109
V K A LYI +PR +K++ FS+FG I R+ ++ TG S+ FI F AE
Sbjct: 85 VIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAE 144
Query: 110 VVADAMHGY 118
+ +G+
Sbjct: 145 EAITSFNGH 153
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 36/78 (46%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L + +P+ + E+ + FS G + ++ R+K G S +GF+ + AE + +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 116 HGYLLFEHILQVHLIPPE 133
+G L ++V P
Sbjct: 65 NGLRLQSKTIKVSYARPS 82
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 36/69 (52%)
Query: 50 VNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAE 109
V K A LYI +PR +K++ FS+FG I R+ ++ TG S+ FI F AE
Sbjct: 85 VIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAE 144
Query: 110 VVADAMHGY 118
+ +G+
Sbjct: 145 EAITSFNGH 153
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 36/78 (46%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L + +P+ + E+ + FS G + ++ R+K G S +GF+ + AE + +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 116 HGYLLFEHILQVHLIPPE 133
+G L ++V P
Sbjct: 65 NGLRLQSKTIKVSYARPS 82
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 40/75 (53%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
VLY+G + +K +HA F FG I ++I + +T K + F F+EF + A D
Sbjct: 7 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66
Query: 115 MHGYLLFEHILQVHL 129
M+ LF ++V+L
Sbjct: 67 MNESELFGRTIRVNL 81
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 41/84 (48%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
+++G IP E+++ FS+ G + R+ +++TGK K +GF E+ D + A +
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 116 HGYLLFEHILQVHLIPPEHVHPKL 139
+G L+V E +L
Sbjct: 71 NGREFSGRALRVDNAASEKNKEEL 94
>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 = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 40/75 (53%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
VLY+G + +K +HA F FG I ++I + +T K + F F+EF + A D
Sbjct: 4 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 63
Query: 115 MHGYLLFEHILQVHL 129
M+ LF ++V+L
Sbjct: 64 MNESELFGRTIRVNL 78
>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 = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 40/75 (53%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
VLY+G + +K +HA F FG I ++I + +T K + F F+EF + A D
Sbjct: 9 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 68
Query: 115 MHGYLLFEHILQVHL 129
M+ LF ++V+L
Sbjct: 69 MNESELFGRTIRVNL 83
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 39/73 (53%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
V+Y+G IP E+++ S G + L++ + +TG+SK + FIEF D + +
Sbjct: 4 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 63
Query: 115 MHGYLLFEHILQV 127
++GY L L+
Sbjct: 64 LNGYQLGSRFLKC 76
>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 = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 47/93 (50%), Gaps = 5/93 (5%)
Query: 42 KLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIE 101
+L EE N+ +Y+ + + + ++ + F FG I+ +AR+ TGK K +GFIE
Sbjct: 102 QLAEEARAFNR---IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIE 158
Query: 102 FSDPDVAEVVADAMHGYLLFEHILQV--HLIPP 132
+ ++ +M+ + L L+V + PP
Sbjct: 159 YEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTPP 191
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 35/65 (53%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
+Y+G I E + F+ FG I+ + ++ + T K K F F+E+ P+ A++ + M
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 116 HGYLL 120
+ +L
Sbjct: 76 NSVML 80
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 39/73 (53%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
V+Y+G IP E+++ S G + L++ + +TG+SK + FIEF D + +
Sbjct: 5 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 64
Query: 115 MHGYLLFEHILQV 127
++GY L L+
Sbjct: 65 LNGYQLGSRFLKC 77
>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 = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L+IG +P + + ++ + FG ++ + ++ TG SK + F E+ D +V + +
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 158
Query: 116 HGYLLFEHILQVH 128
+G L + L V
Sbjct: 159 NGMQLGDKKLLVQ 171
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 34/64 (53%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVA 112
A L++G+IPR E+++ F +FG I L + +++ TG K F+ + D A
Sbjct: 15 AIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQ 74
Query: 113 DAMH 116
A+H
Sbjct: 75 SALH 78
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 37/73 (50%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L+IG +P + + ++ + FG ++ + ++ TG SK + F E+ D +V + +
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 156
Query: 116 HGYLLFEHILQVH 128
+G L + L V
Sbjct: 157 NGMQLGDKKLLVQ 169
>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 = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 47/93 (50%), Gaps = 5/93 (5%)
Query: 42 KLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIE 101
+L EE N+ +Y+ + + + ++ + F FG I+ +AR+ TGK K +GFIE
Sbjct: 117 QLAEEARAFNR---IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIE 173
Query: 102 FSDPDVAEVVADAMHGYLLFEHILQV--HLIPP 132
+ ++ +M+ + L L+V + PP
Sbjct: 174 YEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTPP 206
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 35/65 (53%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
+Y+G I E + F+ FG I+ + ++ + T K K F F+E+ P+ A++ + M
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 116 HGYLL 120
+ +L
Sbjct: 91 NSVML 95
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 6/81 (7%)
Query: 42 KLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIE 101
+L EE N+ +Y+ + + + ++ + F FG I+ +AR+ TGK K +GFIE
Sbjct: 101 QLAEEARAFNR---IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIE 157
Query: 102 FSDPDVAEVVADAMHGYLLFE 122
+ + A+ DA+ LF+
Sbjct: 158 Y---EKAQSSQDAVSSXNLFD 175
Score = 33.5 bits (75), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 32/65 (49%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
+Y+G I E + F+ FG I+ + + + T K K F F+E+ P+ A++ +
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 116 HGYLL 120
+ L
Sbjct: 75 NSVXL 79
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/145 (22%), Positives = 59/145 (40%), Gaps = 22/145 (15%)
Query: 54 AVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVAD 113
A+L + +P +++ FG++ R + +++TG+SK +GF E+ D A
Sbjct: 94 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKS 153
Query: 114 AMHGYLLFEHILQVH-----LIPPEHVHPK----------------LWRGFNHGYKPLDW 152
+ G L L VH + P +H + L R + + P +
Sbjct: 154 DLLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSP-TF 212
Query: 153 VQVECKRQNKRIEAASIEYECPEIV 177
Q+ C + + A +EYE E+
Sbjct: 213 CQLACGQDGQLKGFAVLEYETAEMA 237
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/145 (22%), Positives = 59/145 (40%), Gaps = 22/145 (15%)
Query: 54 AVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVAD 113
A+L + +P +++ FG++ R + +++TG+SK +GF E+ D A
Sbjct: 96 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKS 155
Query: 114 AMHGYLLFEHILQVH-----LIPPEHVHPK----------------LWRGFNHGYKPLDW 152
+ G L L VH + P +H + L R + + P +
Sbjct: 156 DLLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSP-TF 214
Query: 153 VQVECKRQNKRIEAASIEYECPEIV 177
Q+ C + + A +EYE E+
Sbjct: 215 CQLACGQDGQLKGFAVLEYETAEMA 239
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/145 (22%), Positives = 59/145 (40%), Gaps = 22/145 (15%)
Query: 54 AVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVAD 113
A+L + +P +++ FG++ R + +++TG+SK +GF E+ D A
Sbjct: 96 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKS 155
Query: 114 AMHGYLLFEHILQVH-----LIPPEHVHPK----------------LWRGFNHGYKPLDW 152
+ G L L VH + P +H + L R + + P +
Sbjct: 156 DLLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSP-TF 214
Query: 153 VQVECKRQNKRIEAASIEYECPEIV 177
Q+ C + + A +EYE E+
Sbjct: 215 CQLACGQDGQLKGFAVLEYETAEMA 239
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 44/97 (45%), Gaps = 9/97 (9%)
Query: 38 GPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHF 97
GP R+ + A + + + E ++ F FG+I R+ +A++K TG+SK F
Sbjct: 7 GPNRRADDN-------ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGF 59
Query: 98 GFIEF-SDPDVAEVVADAMHGYLLFEHILQVHLIPPE 133
FI F D A +A + G+ IL V P
Sbjct: 60 AFISFHRREDAARAIA-GVSGFGYDHLILNVEWAKPS 95
>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 = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 40/69 (57%), Gaps = 1/69 (1%)
Query: 36 EGGPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSK 95
EG P+ EEK ++K +V Y+G + +++ A FS G+I R+ I +K +G K
Sbjct: 20 EGPPQPLSAEEKKEIDKRSV-YVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPK 78
Query: 96 HFGFIEFSD 104
+ +IEF++
Sbjct: 79 GYAYIEFAE 87
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 38/70 (54%)
Query: 47 KPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPD 106
K V K + L + +P E+++ +FS FG + +++ ++ KTG SK FGF+ F++ +
Sbjct: 9 KRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYE 68
Query: 107 VAEVVADAMH 116
V H
Sbjct: 69 TQVKVMSQRH 78
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L+IG + R EK + A F + G I + + +++ T KS+ F FI F +P A+ A M
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKDM 68
Query: 116 HGYLLFEHILQV 127
+G L ++V
Sbjct: 69 NGKSLHGKAIKV 80
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 44/99 (44%), Gaps = 10/99 (10%)
Query: 48 PLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDV 107
P N +Y+G +P K++ F ++G IR + + +N++ G F F+EF DP
Sbjct: 17 PAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL-KNRRGGPP--FAFVEFEDPRD 73
Query: 108 AEVVADAMHGYLLFEHILQVHLIPPEHVHPKLWRGFNHG 146
AE GY + L+V P+ RG G
Sbjct: 74 AEDAVYGRDGYDYDGYRLRVEF-------PRSGRGTGSG 105
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 41/63 (65%), Gaps = 2/63 (3%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEF-SDPDVAEVVAD 113
+++G I E E+ +FF+++G+++ ++I + +TG SK +GF+ F +D DV ++V
Sbjct: 12 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVES 70
Query: 114 AMH 116
++
Sbjct: 71 QIN 73
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 46/93 (49%), Gaps = 7/93 (7%)
Query: 37 GGPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKH 96
G ++LP E P Y+G +P + ++ A F +IR +R+ R+K T K K
Sbjct: 4 GSSGKELPTEPPYT-----AYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKG 57
Query: 97 FGFIEFSDPDVAEVVADAMHGYLLFEHILQVHL 129
F ++EF + D + A G LL + L+V +
Sbjct: 58 FCYVEFDEVDSLK-EALTYDGALLGDRSLRVDI 89
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 34/57 (59%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVA 112
+Y+G + +++ FSQFG + +++ +++T K K FGF+E + V+E +A
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIA 60
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 37/62 (59%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L++G + E+ + FS++G I + + ++++T +S+ FGF+ F + D A+ AM
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 116 HG 117
+G
Sbjct: 75 NG 76
>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 = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 6/81 (7%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVA 112
A ++G + +K++ +F++FG + I + TG+S+ FGFI F D E V
Sbjct: 11 AGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVL 70
Query: 113 DAMHGYLLFEHILQVHLIPPE 133
D EH L +I P+
Sbjct: 71 DQK------EHRLDGRVIDPK 85
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L+IG I + E ++ FS FG I RI R G S+ F+ F+ +A+ AM
Sbjct: 110 LFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAMAQTAIKAM 168
Query: 116 H 116
H
Sbjct: 169 H 169
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 35/67 (52%), Gaps = 2/67 (2%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTG--KSKHFGFIEFSDPDVAEV 110
A +++G++PR + EK++ F Q+G + + + R++ +SK F+ F A
Sbjct: 15 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 74
Query: 111 VADAMHG 117
+A+H
Sbjct: 75 AQNALHN 81
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L+IG I + E ++ FS FG I RI R G S+ F+ F+ +A+ AM
Sbjct: 98 LFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAMAQTAIKAM 156
Query: 116 H 116
H
Sbjct: 157 H 157
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 35/67 (52%), Gaps = 2/67 (2%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTG--KSKHFGFIEFSDPDVAEV 110
A +++G++PR + EK++ F Q+G + + + R++ +SK F+ F A
Sbjct: 3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 62
Query: 111 VADAMHG 117
+A+H
Sbjct: 63 AQNALHN 69
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/105 (23%), Positives = 48/105 (45%), Gaps = 8/105 (7%)
Query: 23 SSDRKDTADFLPLEGGPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRR 82
S +R D LE GP+R + + +L++ I E E+ F +G I+
Sbjct: 4 SYERVRNEDDDELEPGPQRSV--------EGWILFVTSIHEEAQEDEIQEKFCDYGEIKN 55
Query: 83 LRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEHILQV 127
+ + +++TG SK + +E+ A +A++G + +QV
Sbjct: 56 IHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQV 100
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 40.4 bits (93), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 38/77 (49%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L + +P+ ++E++A F G I RI R+ KTG S + F++F+ ++ +
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 116 HGYLLFEHILQVHLIPP 132
+G + L+V P
Sbjct: 66 NGITVRNKRLKVSYARP 82
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 36/68 (52%)
Query: 52 KAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVV 111
K LY+ +PR + ++ F ++G+I + I R+K TG+ + F+ ++ + A+
Sbjct: 88 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 147
Query: 112 ADAMHGYL 119
A++ +
Sbjct: 148 ISALNNVI 155
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 38/77 (49%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L + +P+ ++E++A F G I RI R+ KTG S + F++F+ ++ +
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 116 HGYLLFEHILQVHLIPP 132
+G + L+V P
Sbjct: 77 NGITVRNKRLKVSYARP 93
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 36/68 (52%)
Query: 52 KAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVV 111
K LY+ +PR + ++ F ++G+I + I R+K TG+ + F+ ++ + A+
Sbjct: 99 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 158
Query: 112 ADAMHGYL 119
A++ +
Sbjct: 159 ISALNNVI 166
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 43 LPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEF 102
+P + + ++IG + ++ + +F QFG ++ + R+ T +S+ FGF+ F
Sbjct: 15 VPRGSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 74
Query: 103 SD-PDVAEVVADAMH 116
D V +V+A + H
Sbjct: 75 MDQAGVDKVLAQSRH 89
>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 = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 45/84 (53%)
Query: 44 PEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFS 103
E++ L+ K+ LY+G + + E++++ FS+ G I+++ + +K + F F+E+
Sbjct: 30 EEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYY 89
Query: 104 DPDVAEVVADAMHGYLLFEHILQV 127
AE ++G L + I++
Sbjct: 90 SRADAENAMRYINGTRLDDRIIRT 113
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 40.0 bits (92), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 38/77 (49%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L + +P+ ++E++A F G I RI R+ KTG S + F++F+ ++ +
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 116 HGYLLFEHILQVHLIPP 132
+G + L+V P
Sbjct: 66 NGITVRNKRLKVSYARP 82
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 40.0 bits (92), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L+IG +PR E+E+ + F Q+G + I +N +GF+ D AE +
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--------YGFVHIEDKTAAEDAIRNL 62
Query: 116 HGYLL 120
H Y L
Sbjct: 63 HHYKL 67
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 36/68 (52%)
Query: 52 KAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVV 111
K LY+ +PR + ++ F ++G+I + I R+K TG+ + F+ ++ + A+
Sbjct: 12 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 71
Query: 112 ADAMHGYL 119
A++ +
Sbjct: 72 ISALNNVI 79
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 2/74 (2%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
LY+ + ++ + FS FGTI ++ + G+SK FGF+ FS P+ A M
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVM--MEGGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 116 HGYLLFEHILQVHL 129
+G ++ L V L
Sbjct: 76 NGRIVATKPLYVAL 89
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 36/78 (46%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L + +P+ + E+ + FS G + ++ R+K G S +GF+ + AE + +
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 116 HGYLLFEHILQVHLIPPE 133
+G L ++V P
Sbjct: 67 NGLRLQSKTIKVSYARPS 84
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/105 (23%), Positives = 48/105 (45%), Gaps = 8/105 (7%)
Query: 23 SSDRKDTADFLPLEGGPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRR 82
S +R D LE GP+R + + +L++ I E E+ F +G I+
Sbjct: 50 SYERVRNEDDDELEPGPQRSV--------EGWILFVTSIHEEAQEDEIQEKFCDYGEIKN 101
Query: 83 LRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEHILQV 127
+ + +++TG SK + +E+ A +A++G + +QV
Sbjct: 102 IHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQV 146
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 35/67 (52%), Gaps = 2/67 (2%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTG--KSKHFGFIEFSDPDVAEV 110
A +++G++PR + EK++ F Q+G + + + R++ +SK F+ F A
Sbjct: 3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 62
Query: 111 VADAMHG 117
+A+H
Sbjct: 63 AQNALHN 69
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAE 109
+++G +P + + +F FG I + +++TGKS+ +GF+ +D AE
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAE 73
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 40/83 (48%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
+++G + +++ A F+ FG I R+ ++ TGKSK +GF+ F + AE M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 116 HGYLLFEHILQVHLIPPEHVHPK 138
G L ++ + + PK
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPK 100
>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 = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 36/78 (46%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L + +P+ + E+ + FS G + ++ R+K G S +GF+ + AE + +
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 116 HGYLLFEHILQVHLIPPE 133
+G L ++V P
Sbjct: 82 NGLRLQSKTIKVSYARPS 99
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L++ IP F + ++ F QFG I + I N++ SK FGF+ F + A+ + +
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER--GSKGFGFVTFENSADADRAREKL 75
Query: 116 HGYLLFEHILQVH 128
HG ++ ++V+
Sbjct: 76 HGTVVEGRKIEVN 88
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 74 FSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEHILQVHLI--- 130
F ++G + + I R++ T +S+ F F+ F D AE DAM G +L L+V +
Sbjct: 91 FEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYG 150
Query: 131 -PPEHVHP 137
PP+ H
Sbjct: 151 RPPDSHHS 158
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L++ IP F + ++ F QFG I + I N++ SK FGF+ F + A+ + +
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKL 89
Query: 116 HGYLLFEHILQVH 128
HG ++ ++V+
Sbjct: 90 HGTVVEGRKIEVN 102
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 4/67 (5%)
Query: 74 FSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEHILQVHLI--- 130
F ++G + + I R++ T +S+ F F+ F D AE DAM G +L L+V +
Sbjct: 68 FEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYG 127
Query: 131 -PPEHVH 136
PP+ H
Sbjct: 128 RPPDSHH 134
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSD-PDVAEVVADA 114
++IG + ++ + +F QFG ++ + R+ T +S+ FGF+ F D V +V+A +
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 62
Query: 115 MH 116
H
Sbjct: 63 RH 64
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPD 106
A +Y+G + +E+ A F G++ R+ I +K +G K F +IEFSD +
Sbjct: 5 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 58
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 40/79 (50%), Gaps = 6/79 (7%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
++IG + +K++ +FS+FG + + + TG+S+ FGF+ F + + + V D
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 116 HGYLLFEHILQVHLIPPEH 134
EH L +I P+
Sbjct: 62 ------EHKLNGKVIDPKR 74
>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 = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPD 106
A +Y+G + +E+ A F G++ R+ I +K +G K F +IEFSD +
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 59
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGK---SKHFGFIEFSDPDVAE 109
++ L+I + E+ + FS+ G I+ I++ K S FGF+E+ P+ A+
Sbjct: 5 SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQ 64
Query: 110 VVADAMHGYLLFEHILQVHL 129
+ G+ + H L+V +
Sbjct: 65 KALKQLQGHTVDGHKLEVRI 84
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 57 YIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTG--KSKHFGFIEFSDPDVAEVVADA 114
++G++PR + EK++ F Q+G + + + R++ +SK F+ F A +A
Sbjct: 7 FVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNA 66
Query: 115 MHG 117
+H
Sbjct: 67 LHN 69
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L+IG I + E ++ FS FG I RI R G S+ F+ F+ A+ A
Sbjct: 98 LFIGXISKKCTENDIRVXFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAXAQTAIKAX 156
Query: 116 H 116
H
Sbjct: 157 H 157
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 37/74 (50%), Gaps = 1/74 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L+I +P ++E+ GT++ LR+ N+ GK K ++E+ + A M
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMKM 78
Query: 116 HGYLLFEHILQVHL 129
G + E+I++V +
Sbjct: 79 DGMTIKENIIKVAI 92
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 5/74 (6%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
+Y+G + + E+ FS +G +R + IARN F F+EF DP AE +
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRGL 57
Query: 116 HGYLLFEHILQVHL 129
G ++ ++V L
Sbjct: 58 DGKVICGSRVRVEL 71
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 46/85 (54%), Gaps = 3/85 (3%)
Query: 44 PEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNK-KTGKSKHFGFIEF 102
E++ L+ K+ LY+G + + E++++ FS+ G I+++ + +K KT F F+E+
Sbjct: 9 EEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACG--FCFVEY 66
Query: 103 SDPDVAEVVADAMHGYLLFEHILQV 127
AE ++G L + I++
Sbjct: 67 YSRADAENAMRYINGTRLDDRIIRT 91
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPD-VAEVVADA 114
+++G I E + +F Q+G I + I ++ +GK + F F+ F D D V ++V
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 164
Query: 115 MH 116
H
Sbjct: 165 YH 166
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 32/59 (54%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
L+IG + ++ + + F Q+GT+ + R+ T +S+ FGF+ ++ + + +A
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPD-VAEVVADA 114
+++G I E + +F Q+G I + I ++ +GK + F F+ F D D V ++V
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 166
Query: 115 MH 116
H
Sbjct: 167 YH 168
Score = 33.1 bits (74), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 32/59 (54%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
L+IG + ++ + + F Q+GT+ + R+ T +S+ FGF+ ++ + + +A
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
+++G + +++ + F+ FG I R+ ++ TGKSK +GF+ F + AE M
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 116 HGYLL 120
G L
Sbjct: 78 GGQWL 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 = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPD-VAEVVADA 114
+++G I E + +F Q+G I + I ++ +GK + F F+ F D D V ++V
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 159
Query: 115 MH 116
H
Sbjct: 160 YH 161
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 32/59 (54%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
L+IG + ++ + + F Q+GT+ + R+ T +S+ FGF+ ++ + + +A
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
>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 = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPD-VAEVVADA 114
+++G I E + +F Q+G I + I ++ +GK + F F+ F D D V ++V
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 166
Query: 115 MH 116
H
Sbjct: 167 YH 168
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 32/59 (54%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
L+IG + ++ + + F Q+GT+ + R+ T +S+ FGF+ ++ + + +A
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPD-VAEVVADA 114
+++G I E + +F Q+G I + I ++ +GK + F F+ F D D V ++V
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 167
Query: 115 MH 116
H
Sbjct: 168 YH 169
Score = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 37 GGPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKH 96
GG + + P+E + K L+IG + ++ + + F Q+GT+ + R+ T +S+
Sbjct: 1 GGSKSESPKEPEQLRK---LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRG 57
Query: 97 FGFIEFSDPDVAEVVADA 114
FGF+ ++ + + +A
Sbjct: 58 FGFVTYATVEEVDAAMNA 75
>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 = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPD-VAEVVADA 114
+++G I E + +F Q+G I + I ++ +GK + F F+ F D D V ++V
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 165
Query: 115 MH 116
H
Sbjct: 166 YH 167
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 32/59 (54%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
L+IG + ++ + + F Q+GT+ + R+ T +S+ FGF+ ++ + + +A
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 35.8 bits (81), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 38/75 (50%), Gaps = 4/75 (5%)
Query: 48 PLVNKAAV--LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDP 105
P + K+ V ++I + + K ++ FS FG I ++ ++ SK +GF+ F
Sbjct: 4 PSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQ 61
Query: 106 DVAEVVADAMHGYLL 120
+ AE + M+G LL
Sbjct: 62 EAAERAIEKMNGMLL 76
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 38/79 (48%), Gaps = 7/79 (8%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDP-DVAEVVADA 114
+Y+G + + E+ F +G +R + +ARN F F+EF DP D A+ V D
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRD- 129
Query: 115 MHGYLLFEHILQVHLIPPE 133
+ G L ++V L E
Sbjct: 130 LDGRTLCGCRVRVELSNGE 148
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 35.4 bits (80), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L++G + + E ++ F FG I I R G SK F+++S A+ +A+
Sbjct: 18 LFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPD-GNSKGCAFVKYSSHAEAQAAINAL 76
Query: 116 HG 117
HG
Sbjct: 77 HG 78
>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 = 35.4 bits (80), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 5/80 (6%)
Query: 48 PLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDV 107
P VN+ +LYI +P +EM+ F ++G IR++R+ T +++ ++ + D
Sbjct: 15 PEVNR--ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFD 69
Query: 108 AEVVADAMHGYLLFEHILQV 127
A+ D + G+ + L V
Sbjct: 70 AKNACDHLSGFNVCNRYLVV 89
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFG-TIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVV 111
AA L++G + + E + F+ G T+ ++I RN+ TG + F+EF+D AE
Sbjct: 9 AASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKC 68
Query: 112 ADAMHG 117
++G
Sbjct: 69 LHKING 74
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 3/71 (4%)
Query: 51 NKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEF---SDPDV 107
N+ A +Y+G + E + F Q G + + +++ TG+ + +GF+EF D D
Sbjct: 13 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADY 72
Query: 108 AEVVADAMHGY 118
A + D + Y
Sbjct: 73 AIKIMDMIKLY 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 = 34.7 bits (78), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 18/92 (19%), Positives = 45/92 (48%), Gaps = 8/92 (8%)
Query: 36 EGGPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSK 95
E GP+R + + +L++ + E+++H F+++G I+ + + +++TG K
Sbjct: 14 EPGPQRSV--------EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLK 65
Query: 96 HFGFIEFSDPDVAEVVADAMHGYLLFEHILQV 127
+ +E+ A+ + ++G L + V
Sbjct: 66 GYTLVEYETYKEAQAAMEGLNGQDLMGQPISV 97
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 34.7 bits (78), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 9/84 (10%)
Query: 52 KAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVV 111
K VL++ + E+ + FSQFG + R++ K K + FI F + D A
Sbjct: 10 KVKVLFVRNLANTVTEEILEKAFSQFGKLERVK--------KLKDYAFIHFDERDGAVKA 61
Query: 112 ADAMHGY-LLFEHILQVHLIPPEH 134
+ M+G L E+I V PP+
Sbjct: 62 MEEMNGKDLEGENIEIVFAKPPDQ 85
>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 = 34.7 bits (78), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 49 LVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVA 108
+VN A V+ ++P +K + + FS+ G + + ++ TGK+K F F+E + A
Sbjct: 10 VVNGAPVIPSAKVP--VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDA 67
Query: 109 EVVADAMHG 117
+ + + HG
Sbjct: 68 KKIIKSFHG 76
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 34.7 bits (78), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 82 RLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMH 116
R RI +++TG SK FGF++F+ + A+ +AM
Sbjct: 41 RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAME 75
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 34.7 bits (78), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 5/80 (6%)
Query: 48 PLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDV 107
P VN+ +LYI +P +EM+ F ++G IR++R+ T +++ ++ + D
Sbjct: 5 PEVNR--ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFD 59
Query: 108 AEVVADAMHGYLLFEHILQV 127
A+ D + G+ + L V
Sbjct: 60 AKNAVDHLSGFNVSNRYLVV 79
>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 = 34.7 bits (78), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 49 LVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVA 108
+VN A V+ ++P +K + + FS+ G + + ++ TGK+K F F+E + A
Sbjct: 10 VVNGAPVIPSAKVP--VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDA 67
Query: 109 EVVADAMHG 117
+ + + HG
Sbjct: 68 KKIIKSFHG 76
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 34.7 bits (78), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 5/80 (6%)
Query: 48 PLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDV 107
P VN+ +LYI +P +EM+ F ++G IR++R+ T +++ ++ + D
Sbjct: 9 PEVNR--ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFD 63
Query: 108 AEVVADAMHGYLLFEHILQV 127
A+ D + G+ + L V
Sbjct: 64 AKNACDHLSGFNVCNRYLVV 83
>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 = 34.7 bits (78), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 16/84 (19%), Positives = 42/84 (50%), Gaps = 8/84 (9%)
Query: 38 GPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHF 97
GP+R + + +L++ + E+++H F+++G I+ + + +++TG K +
Sbjct: 15 GPQRSV--------EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGY 66
Query: 98 GFIEFSDPDVAEVVADAMHGYLLF 121
+E+ A+ + ++G L
Sbjct: 67 TLVEYETYKEAQAAMEGLNGQDLM 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 = 34.7 bits (78), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
++I + + K ++ FS FG I ++ ++ SK +GF+ F + AE + M
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 65
Query: 116 HGYLL 120
+G LL
Sbjct: 66 NGMLL 70
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 33.9 bits (76), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 27/49 (55%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSD 104
+++G IP E E+ +F +FG + + + + + + + FGFI F D
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFED 61
>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 = 33.9 bits (76), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 28/48 (58%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEF 102
L++ R+ E ++ F +G I+R+ + +K++GK + + FIE+
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEY 151
>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 = 33.9 bits (76), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 17/90 (18%), Positives = 44/90 (48%), Gaps = 8/90 (8%)
Query: 38 GPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHF 97
GP+R + + +L++ + E+++H F+++G I+ + + +++TG K +
Sbjct: 2 GPQRSV--------EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGY 53
Query: 98 GFIEFSDPDVAEVVADAMHGYLLFEHILQV 127
+E+ A+ + ++G L + V
Sbjct: 54 TLVEYETYKEAQAAMEGLNGQDLMGQPISV 83
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 33.9 bits (76), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 1/65 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
LYI +P E+E+ FG + RI R+ +G S+ GF + E V
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAVIGHF 86
Query: 116 HGYLL 120
+G +
Sbjct: 87 NGKFI 91
>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 = 33.9 bits (76), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGT-IRRLRIARNKKTGKSKHFGFIEFS 103
+ ++ + +P+ E ++ G R +R+ RNK +G+S+ F F+EFS
Sbjct: 1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFS 52
>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 = 33.5 bits (75), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 28/48 (58%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEF 102
L++ R+ E ++ F +G I+R+ + +K++GK + + FIE+
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEY 151
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 33.5 bits (75), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 38/79 (48%), Gaps = 7/79 (8%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDP-DVAEVVADA 114
+Y+G + + E+ F +G +R + +ARN F F+EF DP D A+ V +
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRE- 129
Query: 115 MHGYLLFEHILQVHLIPPE 133
+ G L ++V L E
Sbjct: 130 LDGRTLCGCRVRVELSNGE 148
>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 = 33.5 bits (75), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 14/73 (19%), Positives = 38/73 (52%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
+L++ + E+++H F+++G I+ + + +++TG K + +E+ A+ +
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 115 MHGYLLFEHILQV 127
++G L + V
Sbjct: 69 LNGQDLMGQPISV 81
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 33.5 bits (75), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 30/58 (51%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVAD 113
+++G + +++ +F QFG + + +K T + + FGF+ F D+ E V +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE 59
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 33.5 bits (75), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 23/44 (52%)
Query: 77 FGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLL 120
FG I R+ ++ TGKSK +GF+ F + AE M G L
Sbjct: 30 FGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWL 73
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 33.5 bits (75), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L++G + + E+++ F FG I + R G SK F++FS A+ A+
Sbjct: 18 LFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD-GSSKGCAFVKFSSHTEAQAAIHAL 76
Query: 116 HG 117
HG
Sbjct: 77 HG 78
>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 = 33.5 bits (75), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 12/63 (19%), Positives = 35/63 (55%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
+L++ + E+++H F+++G I+ + + +++TG K + +E+ A+ +
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 115 MHG 117
++G
Sbjct: 69 LNG 71
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 33.5 bits (75), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 12/63 (19%), Positives = 35/63 (55%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
+L++ + E+++H F+++G I+ + + +++TG K + +E+ A+ +
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 115 MHG 117
++G
Sbjct: 69 LNG 71
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 33.1 bits (74), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 44 PEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFS 103
PEE+ A ++ ++ +++ FFS G +R +RI ++ + +SK ++EF
Sbjct: 20 PEER----DARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFC 75
Query: 104 D 104
+
Sbjct: 76 E 76
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 33.1 bits (74), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 31/62 (50%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L++G + ++ + F F + + + +TG S+ +GF+ F+ D A+ D+M
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 116 HG 117
G
Sbjct: 150 QG 151
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 33.1 bits (74), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 47/90 (52%), Gaps = 10/90 (11%)
Query: 23 SSDRKDTADFLPLEGGPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRR 82
SS + T + +PLE R+K EK K L+IG + E+ + ++ Q+G +
Sbjct: 5 SSGMEKTLETVPLE---RKK--REKEQFRK---LFIGGLSFETTEESLRNYYEQWGKLTD 56
Query: 83 LRIARNKKTGKSKHFGFIEFSDPDVAEVVA 112
+ R+ + +S+ FGF+ FS +AEV A
Sbjct: 57 CVVMRDPASKRSRGFGFVTFS--SMAEVDA 84
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 33.1 bits (74), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 52 KAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGK-SKHFGFIEFSDPDVAEV 110
K ++IGR+ R + + FS +G I+ + + + SK + ++EF +PD AE
Sbjct: 3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEK 62
Query: 111 VADAMHG 117
M G
Sbjct: 63 ALKHMDG 69
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 33.1 bits (74), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 31/62 (50%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L++G + ++ + F F + + + +TG S+ +GF+ F+ D A+ D+M
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 116 HG 117
G
Sbjct: 64 QG 65
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 33.1 bits (74), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 10/83 (12%)
Query: 38 GPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHF 97
G E+K + LY+G + E ++ F QFG IR + + + ++
Sbjct: 1 GSSGSSGEDKTIT----TLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------ 50
Query: 98 GFIEFSDPDVAEVVADAMHGYLL 120
FI+F+ AEV A+ L+
Sbjct: 51 AFIQFATRQAAEVAAEKSFNKLI 73
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 39/84 (46%), Gaps = 9/84 (10%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
+++GR +E+ FF Q+G + + I + + F F+ F+D VA+ ++
Sbjct: 14 VFVGRCTEDMTAEELQQFFCQYGEVVDVFIPK-----PFRAFAFVTFADDKVAQ----SL 64
Query: 116 HGYLLFEHILQVHLIPPEHVHPKL 139
G L + VH+ E H KL
Sbjct: 65 CGEDLIIKGISVHISNAEPKHNKL 88
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 9/86 (10%)
Query: 51 NKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEV 110
+ ++ +++GR E E+ FFSQ+G + + I + + F F+ F+D +A+
Sbjct: 3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPK-----PFRAFAFVTFADDQIAQ- 56
Query: 111 VADAMHGYLLFEHILQVHLIPPEHVH 136
++ G L + VH+ E H
Sbjct: 57 ---SLCGEDLIIKGISVHISNAEPKH 79
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 32.0 bits (71), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 28/60 (46%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
LYI + ++++ +G I + +K T K K +GF++F P A+ A+
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 31.6 bits (70), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 8/69 (11%)
Query: 49 LVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVA 108
++ K VL++ + E+ + FS+FG + R++ K K + F+ F D A
Sbjct: 11 VMAKVKVLFVRNLATTVTEEILEKSFSEFGKLERVK--------KLKDYAFVHFEDRGAA 62
Query: 109 EVVADAMHG 117
D M+G
Sbjct: 63 VKAMDEMNG 71
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 31.6 bits (70), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 3/70 (4%)
Query: 48 PLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKH--FGFIEFSDP 105
P + + + IP ++E+ FS FG ++ +R+ + K TG H FGF++F
Sbjct: 10 PKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPK-KMTGTGAHRGFGFVDFITK 68
Query: 106 DVAEVVADAM 115
A+ +A+
Sbjct: 69 QDAKKAFNAL 78
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 31.6 bits (70), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 2/77 (2%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVA 112
A +++ +P F K + F++ G + I + GKSK G ++F P+VAE
Sbjct: 8 ACQIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVAERAC 65
Query: 113 DAMHGYLLFEHILQVHL 129
M+G L + V +
Sbjct: 66 RMMNGMKLSGREIDVRI 82
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 31.2 bits (69), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 37/86 (43%), Gaps = 7/86 (8%)
Query: 44 PEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFS 103
P EK + L++G +P E++ F ++G + I R++ FGFI
Sbjct: 14 PGEKTYTQRCR-LFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR------GFGFIRLE 66
Query: 104 DPDVAEVVADAMHGYLLFEHILQVHL 129
+AE+ + G +L L++
Sbjct: 67 SRTLAEIAKAELDGTILKSRPLRIRF 92
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 31.2 bits (69), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 32/57 (56%)
Query: 64 WFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLL 120
+ E+++ FS++G I + I ++++ +S+ F F+ F + D A+ + +G L
Sbjct: 23 YTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMEL 79
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 7/68 (10%)
Query: 44 PEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFS 103
P EK ++ L++G +P E+EM F ++G + I K K FGFI
Sbjct: 14 PGEKTFTQRSR-LFVGNLPPDITEEEMRKLFEKYGKAGEVFIH------KDKGFGFIRLE 66
Query: 104 DPDVAEVV 111
+AE+
Sbjct: 67 TRTLAEIA 74
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 30.8 bits (68), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 34/77 (44%), Gaps = 6/77 (7%)
Query: 52 KAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVV 111
K +Y G I ++ M FS FG I +R+ K + F+ FS + A
Sbjct: 24 KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKG------YSFVRFSTHESAAHA 77
Query: 112 ADAMHGYLLFEHILQVH 128
+++G + H+++ +
Sbjct: 78 IVSVNGTTIEGHVVKCY 94
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 30.8 bits (68), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 37/73 (50%)
Query: 64 WFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEH 123
+ E+++ FS++G I + I ++++ +S+ F F+ F + D A+ + +G L
Sbjct: 26 YTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGR 85
Query: 124 ILQVHLIPPEHVH 136
++V + H
Sbjct: 86 RIRVDFSITKRPH 98
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 30.8 bits (68), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 35/65 (53%)
Query: 64 WFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEH 123
+ E+++ FS++G I + I ++++ +S+ F F+ F + D A+ + +G L
Sbjct: 26 YTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGR 85
Query: 124 ILQVH 128
++V
Sbjct: 86 RIRVS 90
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 30.4 bits (67), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 2/77 (2%)
Query: 53 AAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVA 112
++ +++ +P F K + F++ G + I + GKSK G ++F P+VAE
Sbjct: 5 SSGIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVAERAC 62
Query: 113 DAMHGYLLFEHILQVHL 129
M+G L + V +
Sbjct: 63 RMMNGMKLSGREIDVRI 79
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 30.4 bits (67), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 32/57 (56%)
Query: 64 WFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLL 120
+ E+++ FS++G I + I ++++ +S+ F F+ F + D A+ + +G L
Sbjct: 57 YTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMEL 113
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 30.0 bits (66), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 36/75 (48%)
Query: 55 VLYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADA 114
VLY+ + E+++ + F++F + I TG+ + FI F + ++A
Sbjct: 27 VLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHL 86
Query: 115 MHGYLLFEHILQVHL 129
++GY L+ IL +
Sbjct: 87 VNGYKLYGKILVIEF 101
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 30.0 bits (66), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L++G + + ++++ F FGTI + R G SK F++F A+ + +
Sbjct: 15 LFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAEAQAAINTL 73
Query: 116 H 116
H
Sbjct: 74 H 74
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 67 EKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEHILQ 126
+K ++A FSQFG I + ++R+ K + F+ F + A +M G+ ++ ++
Sbjct: 27 KKSLYAIFSQFGQILDILVSRSLKM---RGQAFVIFKEVSSATNALRSMQGFPFYDKPMR 83
Query: 127 VH 128
+
Sbjct: 84 IQ 85
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
Length = 99
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVV 111
L++G +P E+EM F ++G + I K K FGFI +AE+
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIH------KDKGFGFIRLETRTLAEIA 67
>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 = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/75 (21%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPD-VAEVVADA 114
+++G + E+++ +F FG + + + + KT K + F FI F + + V +++
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 63
Query: 115 MHGYLLFEHILQVHL 129
H L + ++V +
Sbjct: 64 YHNVGLSKCEIKVAM 78
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 11/90 (12%)
Query: 43 LPEEKPLVNKAAVLYIG----RIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFG 98
+PE +P +YI +I + +K ++A FSQFG I + ++R + K +
Sbjct: 2 VPETRP----NHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSR---SLKMRGQA 54
Query: 99 FIEFSDPDVAEVVADAMHGYLLFEHILQVH 128
F+ F + A +M G+ ++ +++
Sbjct: 55 FVIFKEVSSATNALRSMQGFPFYDKPMRIQ 84
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 11/90 (12%)
Query: 43 LPEEKPLVNKAAVLYIG----RIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFG 98
+PE +P +YI +I + +K +HA FS+FG I + ++R+ K +
Sbjct: 2 VPETRP----NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKM---RGQA 54
Query: 99 FIEFSDPDVAEVVADAMHGYLLFEHILQVH 128
F+ F + A +M G+ ++ +++
Sbjct: 55 FVIFKEVSSATNALRSMQGFPFYDKPMRIQ 84
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 11/90 (12%)
Query: 43 LPEEKPLVNKAAVLYIG----RIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFG 98
+PE +P +YI +I + +K +HA FS+FG I + ++R+ K +
Sbjct: 3 VPETRP----NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKM---RGQA 55
Query: 99 FIEFSDPDVAEVVADAMHGYLLFEHILQVH 128
F+ F + A +M G+ ++ +++
Sbjct: 56 FVIFKEVSSATNALRSMQGFPFYDKPMRIQ 85
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 11/90 (12%)
Query: 43 LPEEKPLVNKAAVLYIG----RIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFG 98
+PE +P +YI +I + +K +HA FS+FG I + ++R + K +
Sbjct: 2 VPETRP----NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR---SLKMRGQA 54
Query: 99 FIEFSDPDVAEVVADAMHGYLLFEHILQVH 128
F+ F + A +M G+ ++ +++
Sbjct: 55 FVIFKEVSSATNALRSMQGFPFYDKPMRIQ 84
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 11/90 (12%)
Query: 43 LPEEKPLVNKAAVLYIG----RIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFG 98
+PE +P +YI +I + +K +HA FS+FG I + ++R+ K +
Sbjct: 3 VPETRP----NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKM---RGQA 55
Query: 99 FIEFSDPDVAEVVADAMHGYLLFEHILQVH 128
F+ F + A +M G+ ++ +++
Sbjct: 56 FVIFKEVSSATNALRSMQGFPFYDKPMRIQ 85
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPD-VAEVVADA 114
+++G + E+++ +F FG + + + + KT K + F FI F + + V +++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 115 MHGYLLFEHILQV 127
H L + ++V
Sbjct: 62 YHNVGLSKCEIKV 74
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 11/90 (12%)
Query: 43 LPEEKPLVNKAAVLYIG----RIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFG 98
+PE +P +YI +I + +K +HA FS+FG I + ++R+ K +
Sbjct: 2 VPETRP----NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKM---RGQA 54
Query: 99 FIEFSDPDVAEVVADAMHGYLLFEHILQVH 128
F+ F + A +M G+ ++ +++
Sbjct: 55 FVIFKEVSSATNALRSMQGFPFYDKPMRIQ 84
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 42/89 (47%), Gaps = 11/89 (12%)
Query: 44 PEEKPLVNKAAVLYIG----RIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGF 99
PE +P +YI +I + +K +HA FS+FG I + ++R + K + F
Sbjct: 1 PETRP----NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR---SLKMRGQAF 53
Query: 100 IEFSDPDVAEVVADAMHGYLLFEHILQVH 128
+ F + A +M G+ ++ +++
Sbjct: 54 VIFKEVSSATNALRSMQGFPFYDKPMRIQ 82
>pdb|1OIA|A Chain A, U1a Rnp Domain 1-95
pdb|1OIA|B Chain B, U1a Rnp Domain 1-95
Length = 95
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 11/90 (12%)
Query: 43 LPEEKPLVNKAAVLYIG----RIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFG 98
+PE +P +YI +I + +K ++A FSQFG I + ++R+ K +
Sbjct: 3 VPETRP----NHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKM---RGQA 55
Query: 99 FIEFSDPDVAEVVADAMHGYLLFEHILQVH 128
F+ F + A +M G+ ++ +++
Sbjct: 56 FVIFKEVSSATNALRSMQGFPFYDKPMRIQ 85
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 67 EKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEHILQ 126
+K +HA FS+FG I + ++R+ K + F+ F + A +M G+ ++ ++
Sbjct: 22 KKSLHAIFSRFGQILDILVSRSLKM---RGQAFVIFKEVSSATNALRSMQGFPFYDKPMR 78
Query: 127 VH 128
+
Sbjct: 79 IQ 80
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 3/71 (4%)
Query: 68 KEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEHILQV 127
K++ FS G + R I +K GKS+ G + F A +G LLF+ + V
Sbjct: 30 KKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHV 88
Query: 128 HLIPPEHVHPK 138
+ E PK
Sbjct: 89 KM--DERALPK 97
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 67 EKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEHILQ 126
+K +HA FS+FG I + ++R + K + F+ F + A +M G+ ++ ++
Sbjct: 23 KKSLHAIFSRFGQILDILVSR---SLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMR 79
Query: 127 VH 128
+
Sbjct: 80 IQ 81
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 67 EKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLFEHILQ 126
+K +HA FS+FG I + ++R+ K + F+ F + A +M G+ ++ ++
Sbjct: 21 KKSLHAIFSRFGQILDILVSRSLKM---RGQAFVIFKEVSSATNALRSMQGFPFYDKPMR 77
Query: 127 VH 128
+
Sbjct: 78 IQ 79
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 8/72 (11%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L++ P E E++ F FG ++ ++I F F+EF + + A + +
Sbjct: 34 LFVRPFPLDVQESELNEIFGPFGPMKEVKILNG--------FAFVEFEEAESAAKAIEEV 85
Query: 116 HGYLLFEHILQV 127
HG L+V
Sbjct: 86 HGKSFANQPLEV 97
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 8/72 (11%)
Query: 56 LYIGRIPRWFYEKEMHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAM 115
L++ P E E++ F FG ++ ++I F F+EF + + A + +
Sbjct: 7 LFVRPFPLDVQESELNEIFGPFGPMKEVKILNG--------FAFVEFEEAESAAKAIEEV 58
Query: 116 HGYLLFEHILQV 127
HG L+V
Sbjct: 59 HGKSFANQPLEV 70
>pdb|1AOV|A Chain A, Apo Duck Ovotransferrin
pdb|1DOT|A Chain A, Crystallographic Structure Of Duck Ovotransferrin At 2.3
Angstroms Resolution
Length = 686
Score = 27.3 bits (59), Expect = 4.9, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 28 DTADFLPLEGGPRRKLPEEKPLVNKAAVLYIGRIPRWFYEKEMHAFFSQFGTIRRLR 84
DT L G P +K P K L+ K + + + R+P + +++ F + I+ LR
Sbjct: 277 DTTSDFHLFGPPGKKDPVLKDLLFKDSAIMLKRVPE-LMDSQLYLGFEYYSAIQSLR 332
>pdb|3GAA|A Chain A, The Crystal Structure Of The Protein With Unknown Function
From Thermoplasma Acidophilum
pdb|3GAA|B Chain B, The Crystal Structure Of The Protein With Unknown Function
From Thermoplasma Acidophilum
pdb|3GAA|C Chain C, The Crystal Structure Of The Protein With Unknown Function
From Thermoplasma Acidophilum
pdb|3GAA|D Chain D, The Crystal Structure Of The Protein With Unknown Function
From Thermoplasma Acidophilum
pdb|3GAA|E Chain E, The Crystal Structure Of The Protein With Unknown Function
From Thermoplasma Acidophilum
Length = 252
Score = 26.6 bits (57), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 21/35 (60%)
Query: 15 EVSSQLPVSSDRKDTADFLPLEGGPRRKLPEEKPL 49
E+S+ L D+ ++ + +EG P +PEE+P+
Sbjct: 105 EISNTLMNWIDQVGASEIVIMEGSPANGIPEERPV 139
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 26.6 bits (57), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 70 MHAFFSQFGTIRRLRIARNKKTGKSKHFGFIEFSDPDVAEVVADAMHGYLLF-EHILQVH 128
+H FS+FG I ++ GK+K + F+E++ P A GY L +H +V+
Sbjct: 38 IHKIFSKFGKITNDFYP--EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVN 95
Query: 129 L 129
L
Sbjct: 96 L 96
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
0.322 0.140 0.439
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,824,418
Number of Sequences: 62578
Number of extensions: 239386
Number of successful extensions: 542
Number of sequences better than 100.0: 158
Number of HSP's better than 100.0 without gapping: 113
Number of HSP's successfully gapped in prelim test: 45
Number of HSP's that attempted gapping in prelim test: 398
Number of HSP's gapped (non-prelim): 180
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)