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= 037458
(196 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 79.3 bits (194), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 38/84 (45%), Positives = 55/84 (65%), Gaps = 3/84 (3%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGE-IASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
++W+GDL +MDEN++ FA+ GE + S+K+IRN+ TG+ GY FVEF ATAEK L
Sbjct: 11 SLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLH 70
Query: 153 SYTSILMPNTD--QPFRLNWATFS 174
+P + F+LN+AT+S
Sbjct: 71 KINGKPLPGATPAKRFKLNYATYS 94
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 42/68 (61%), Gaps = 1/68 (1%)
Query: 86 GSGGGENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHA 145
GSG T++VG + MDE + S FA G + +K+I ++ TG+S+GYGFV F+
Sbjct: 4 GSGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDV 62
Query: 146 TAEKVLQS 153
+K+++S
Sbjct: 63 DVQKIVES 70
>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 = 53.1 bits (126), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 39/60 (65%), Gaps = 1/60 (1%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
T++VG + MDE + S FA G + +K+I ++ TG+S+GYGFV F+ +K+++S
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES 69
>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 = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 39/60 (65%), Gaps = 1/60 (1%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
T++VG + MDE + S FA G + +K+I ++ TG+S+GYGFV F+ +K+++S
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES 69
>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 = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/100 (32%), Positives = 53/100 (53%), Gaps = 5/100 (5%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
+++VGDLH + E L+ F+ G I SI+V R+ T S GY +V F A AE+ L +
Sbjct: 17 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 76
Query: 154 YTSILMPNTDQPFRLNWATFSTGDKRSDNGPDLSIFVGDL 193
++ +P R+ W+ ++S G +IF+ +L
Sbjct: 77 MNFDVI--KGKPVRIMWSQRDPSLRKSGVG---NIFIKNL 111
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 37/65 (56%), Gaps = 2/65 (3%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
I++ +L +D L+ F++ G I S KV+ ++ S+GYGFV F T AE+ ++
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 163
Query: 155 TSILM 159
+L+
Sbjct: 164 NGMLL 168
>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|B Chain B, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|C Chain C, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|D Chain D, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|E Chain E, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|F Chain F, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|G Chain G, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|H Chain H, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
Length = 190
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 32/100 (32%), Positives = 53/100 (53%), Gaps = 5/100 (5%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
+++VGDLH + E L+ F+ G I SI+V R+ T S GY +V F A AE+ L +
Sbjct: 12 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 71
Query: 154 YTSILMPNTDQPFRLNWATFSTGDKRSDNGPDLSIFVGDL 193
++ +P R+ W+ ++S G +IF+ +L
Sbjct: 72 MNFDVI--KGKPVRIMWSQRDPSLRKSGVG---NIFIKNL 106
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 37/65 (56%), Gaps = 2/65 (3%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
I++ +L +D L+ F++ G I S KV+ ++ S+GYGFV F T AE+ ++
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 158
Query: 155 TSILM 159
+L+
Sbjct: 159 NGMLL 163
>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 = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++VGDL + + + FA G I+ +V+++ TG S+GYGFV FF AE +Q
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 155 TSILMPNTDQPFRLNWAT 172
+ + R NWAT
Sbjct: 78 GGQWL--GGRQIRTNWAT 93
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 37/65 (56%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
+ V L M ++ L S F+S GE+ S K+IR+K G S GYGFV + T AE+ + +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 155 TSILM 159
+ +
Sbjct: 65 NGLRL 69
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 37/65 (56%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
+ V L M ++ L S F+S GE+ S K+IR+K G S GYGFV + T AE+ + +
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 155 TSILM 159
+ +
Sbjct: 67 NGLRL 71
>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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 37/65 (56%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
+ V L M ++ L S F+S GE+ S K+IR+K G S GYGFV + T AE+ + +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 155 TSILM 159
+ +
Sbjct: 65 NGLRL 69
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 2/81 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++VG LH + E+ L F G I SI+++ + +TG S+GYGF+ F A+K L+
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 155 TSILMPNTDQPFRLNWATFST 175
+ +P ++ T T
Sbjct: 89 NGFELAG--RPMKVGHVTERT 107
>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 = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 44/88 (50%), Gaps = 2/88 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
+ V L M + S F S GEI S K++R+K TG S GYGFV + AEK + +
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 155 TSILMPNTDQPFRLNWATFSTGDKRSDN 182
+ + + ++++A S+ R N
Sbjct: 65 NGLRLQT--KTIKVSYARPSSASIRDAN 90
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 36/77 (46%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++V L M + L F+ G I + +++ ++ TG+S G GF+ F AE+ ++
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 155 TSILMPNTDQPFRLNWA 171
+P + +A
Sbjct: 151 NGQKPSGATEPITVKFA 167
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++VGDL + + S FA G+I+ +V+++ TG S+GYGFV F+ AE +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 155 TSILMPNTDQPFRLNWAT 172
+ + R NWAT
Sbjct: 78 GGQWL--GGRQIRTNWAT 93
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++VG LH + E+ L F G+I +I ++++ TG S+GYGF+ F A + L+
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 155 TSILMPNTDQPFRLNWAT 172
+ +P R+ T
Sbjct: 68 NGFELAG--RPMRVGHVT 83
>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 = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 36/65 (55%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
+ V L ++ L S F+S GE+ S K+IR+K G S GYGFV + T AE+ + +
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 155 TSILM 159
+ +
Sbjct: 82 NGLRL 86
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 51/100 (51%), Gaps = 8/100 (8%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
+ + V + +DE L F G I S+K++ +++T S GYGFV+F + ++A++ +
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIA 102
Query: 153 SYTSILMPNTDQPFRLNWATFSTGDKRSDNGPDLSIFVGD 192
+ N RL A ++G +R P ++ VGD
Sbjct: 103 GLNGFNILNK----RLKVALAASGHQR----PGIAGAVGD 134
>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 = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
++VGDL+ +D+ L + F S V+ + QTG S GYGFV F + A+ + S
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 154 YTSILMPNTDQPFRLNWA 171
+ +P R+NWA
Sbjct: 63 MQGQDL--NGRPLRINWA 78
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 43/82 (52%), Gaps = 2/82 (2%)
Query: 91 ENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKV 150
++ T++VG L + E L F G + + + +++ TG +GYGFVEF + A+
Sbjct: 14 QDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYA 73
Query: 151 LQSYTSILMPNTDQPFRLNWAT 172
++ I + +P R+N A+
Sbjct: 74 IKIMDMIKL--YGKPIRVNKAS 93
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 45/88 (51%), Gaps = 2/88 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
+ V L M ++ S F S G+I S K++R+K TG S GYGFV + A+K + +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 155 TSILMPNTDQPFRLNWATFSTGDKRSDN 182
+ + + ++++A S+ R N
Sbjct: 67 NGLKLQT--KTIKVSYARPSSASIRDAN 92
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 31/58 (53%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
++V L M + + F+ G I + +++ ++ TG+S G GF+ F AE+ ++
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 150
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 41/81 (50%), Gaps = 8/81 (9%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
++VGDL+ +D+ L + F S V+ + QTG S GYGFV F + A+ + S
Sbjct: 89 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 148
Query: 154 YTSILMPNTD---QPFRLNWA 171
M D +P R+NWA
Sbjct: 149 -----MQGQDLNGRPLRINWA 164
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 31/101 (30%), Positives = 51/101 (50%), Gaps = 6/101 (5%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
+ ++VG+L + E+ L F G IA+IK++ +K + Y FVE+ A LQ
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNK-NVNYAFVEYHQSHDANIALQ 59
Query: 153 SYTSILMPNTDQPFRLNWATFSTGDKRSDNGPDLSIFVGDL 193
+ + N ++NWA F + SD+ ++FVGDL
Sbjct: 60 TLNGKQIENN--IVKINWA-FQSQQSSSDDT--FNLFVGDL 95
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 33/55 (60%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATA 147
++++VG++ + E L F+ G + S +++ +++TG +GYGF E+ TA
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETA 63
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 32/64 (50%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
I+VG L + + L F G+I VI ++QTG S GYGFV A AE+ +
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP 79
Query: 155 TSIL 158
I+
Sbjct: 80 NPII 83
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 33/59 (55%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
+ V L M ++ S F S G+I S K++R+K TG S GYGFV + A+K + +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINT 65
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 37/66 (56%), Gaps = 2/66 (3%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
I++ +L +D L+ F++ G I S KV+ ++ S+GYGFV F T AE+ ++
Sbjct: 7 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEK 64
Query: 154 YTSILM 159
+L+
Sbjct: 65 MNGMLL 70
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 37/66 (56%), Gaps = 2/66 (3%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
I++ +L +D L+ F++ G I S KV+ ++ S+GYGFV F T AE+ ++
Sbjct: 13 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEK 70
Query: 154 YTSILM 159
+L+
Sbjct: 71 MNGMLL 76
>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 = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 43/83 (51%), Gaps = 2/83 (2%)
Query: 90 GENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEK 149
G + ++VGDL + + + FA G I+ +V+++ TG S+GYGFV FF AE
Sbjct: 4 GSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAEN 63
Query: 150 VLQSYTSILMPNTDQPFRLNWAT 172
+Q + + R NWAT
Sbjct: 64 AIQQMGGQWL--GGRQIRTNWAT 84
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 45/78 (57%), Gaps = 3/78 (3%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEI-ASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
I++G+L +DE L+ F++ G I + K++R+ TG S+GY F+ F + ++ +++
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 154 YTSILMPNTDQPFRLNWA 171
+ N +P +++A
Sbjct: 68 MNGQYLCN--RPITVSYA 83
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 44/84 (52%), Gaps = 3/84 (3%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
T++VG+L + E ++ F+ +G+I I + +K + G+ FVE+++ A AE ++
Sbjct: 41 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRY 100
Query: 154 YTSILMPNTDQPFRLNW-ATFSTG 176
+ D+ R +W A F G
Sbjct: 101 INGTRLD--DRIIRTDWDAGFKEG 122
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 38/70 (54%)
Query: 92 NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVL 151
N + V L M + L++ F + G I + +++R+ +TG S GY FV+F + +++ +
Sbjct: 3 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAI 62
Query: 152 QSYTSILMPN 161
+ I + N
Sbjct: 63 KVLNGITVRN 72
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 40/86 (46%), Gaps = 3/86 (3%)
Query: 89 GGE---NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHA 145
GGE + ++V +L + ++ L + F G I ++R+K TG G FV +
Sbjct: 83 GGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKRE 142
Query: 146 TAEKVLQSYTSILMPNTDQPFRLNWA 171
A++ + + +++ QP + A
Sbjct: 143 EAQEAISALNNVIPEGGSQPLSVRLA 168
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEK-VL 151
K I+VG + +E++L F G+I I+++ ++ +G G+ FV F H + +K V+
Sbjct: 106 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 165
Query: 152 QSYTSI 157
Q Y ++
Sbjct: 166 QKYHTV 171
>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 = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEK-VL 151
K I+VG + +E++L F G+I I+++ ++ +G G+ FV F H + +K V+
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 164
Query: 152 QSYTSI 157
Q Y ++
Sbjct: 165 QKYHTV 170
>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 = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEK-VL 151
K I+VG + +E++L F G+I I+++ ++ +G G+ FV F H + +K V+
Sbjct: 104 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 163
Query: 152 QSYTSI 157
Q Y ++
Sbjct: 164 QKYHTV 169
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 38/72 (52%)
Query: 90 GENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEK 149
N + V L M + L++ F + G I + +++R+ +TG S GY FV+F + +++
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 150 VLQSYTSILMPN 161
++ I + N
Sbjct: 61 AIKVLNGITVRN 72
>pdb|1HL6|A Chain A, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|C Chain C, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1RK8|A Chain A, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|A Chain A, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|C Chain C, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 165
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 42/85 (49%), Gaps = 3/85 (3%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++V +H E+ + F GEI +I + +++TG S+GY VE+ TH A ++
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 155 TSILMPNTDQPFRLNWATFSTGDKR 179
+ Q +++W F G KR
Sbjct: 135 NGAEIMG--QTIQVDWC-FVKGPKR 156
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEK-VL 151
K I+VG + +E++L F G+I I+++ ++ +G G+ FV F H + +K V+
Sbjct: 103 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 162
Query: 152 QSYTSI 157
Q Y ++
Sbjct: 163 QKYHTV 168
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEK-VL 151
K I+VG + +E++L F G+I I+++ ++ +G G+ FV F H + +K V+
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 164
Query: 152 QSYTSI 157
Q Y ++
Sbjct: 165 QKYHTV 170
>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 = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEK-VL 151
K I+VG + +E++L F G+I I+++ ++ +G G+ FV F H + +K V+
Sbjct: 98 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 157
Query: 152 QSYTSI 157
Q Y ++
Sbjct: 158 QKYHTV 163
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 42/85 (49%), Gaps = 3/85 (3%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++V +H E+ + F GEI +I + +++TG S+GY VE+ TH A ++
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 155 TSILMPNTDQPFRLNWATFSTGDKR 179
+ Q +++W F G KR
Sbjct: 89 NGAEI--MGQTIQVDWC-FVKGPKR 110
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 45/91 (49%), Gaps = 4/91 (4%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS- 153
++VG + +DE L F G I + V++++ TGL +G F+ + +A K +
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSAL 77
Query: 154 YTSILMPNTDQPFRLNWATFSTGDKRSDNGP 184
+ +P ++P ++ A + R ++GP
Sbjct: 78 HEQKTLPGMNRPIQVKPA---ASEGRGESGP 105
>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 = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 34/59 (57%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
I+V +H + ++ + S F + G+I S + R+ TG +GYGF+E+ +++ + S
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 186
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 40/86 (46%), Gaps = 3/86 (3%)
Query: 89 GGE---NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHA 145
GGE + ++V +L + ++ L + F G I ++R+K TG G FV +
Sbjct: 7 GGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKRE 66
Query: 146 TAEKVLQSYTSILMPNTDQPFRLNWA 171
A++ + + +++ QP + A
Sbjct: 67 EAQEAISALNNVIPEGGSQPLSVRLA 92
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 34/59 (57%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
I+V +H + ++ + S F + G+I S + R+ TG +GYGF+E+ +++ + S
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 170
>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 = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 34/59 (57%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
I+V +H + ++ + S F + G+I S + R+ TG +GYGF+E+ +++ + S
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 171
>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 = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 40/86 (46%), Gaps = 3/86 (3%)
Query: 89 GGE---NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHA 145
GGE + ++V +L + ++ L + F G I ++R+K TG G FV +
Sbjct: 94 GGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKRE 153
Query: 146 TAEKVLQSYTSILMPNTDQPFRLNWA 171
A++ + + +++ QP + A
Sbjct: 154 EAQEAISALNNVIPEGGSQPLSVRLA 179
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 36/70 (51%)
Query: 92 NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVL 151
N + V L + L++ F + G I + ++ R+ +TG S GY FV+F + +++ +
Sbjct: 14 NTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAI 73
Query: 152 QSYTSILMPN 161
+ I + N
Sbjct: 74 KVLNGITVRN 83
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 40.4 bits (93), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 91 ENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKV 150
E++ +++G + EN + F+S G+I +++R GLS G FV F T A A+
Sbjct: 94 EDRKLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAXAQTA 152
Query: 151 LQS 153
+++
Sbjct: 153 IKA 155
>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 = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 30/56 (53%)
Query: 86 GSGGGENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF 141
GS + ++VG L +D+ LH+ F G+I I++ + +T G+ FVEF
Sbjct: 1 GSMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 56
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 29/47 (61%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF 141
++VG L +E L F+ G+I+ + V+++++T S G+GFV F
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTF 61
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 42/82 (51%), Gaps = 2/82 (2%)
Query: 91 ENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKV 150
E++ +++G + EN + F+S G+I +++R GLS G FV F T A A+
Sbjct: 94 EDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAMAQTA 152
Query: 151 LQS-YTSILMPNTDQPFRLNWA 171
+++ + + M P + +A
Sbjct: 153 IKAMHQAQTMEGCSSPMVVKFA 174
Score = 31.2 bits (69), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 9/101 (8%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTG--LSEGYGFVEFFTHATAEKVLQ 152
++VG + E L F G + I V+R++ S+G FV F+T A +
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 153 SYTSI-LMPNTDQPFRLNWATFSTGDKRSDNG-PDLSIFVG 191
+ ++ ++P P ++ A D +N D +F+G
Sbjct: 66 ALHNMKVLPGMHHPIQMKPA-----DSEKNNAVEDRKLFIG 101
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 42/82 (51%), Gaps = 2/82 (2%)
Query: 91 ENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKV 150
E++ +++G + EN + F+S G+I +++R GLS G FV F T A A+
Sbjct: 106 EDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAMAQTA 164
Query: 151 LQS-YTSILMPNTDQPFRLNWA 171
+++ + + M P + +A
Sbjct: 165 IKAMHQAQTMEGCSSPMVVKFA 186
Score = 31.2 bits (69), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 9/101 (8%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTG--LSEGYGFVEFFTHATAEKVLQ 152
++VG + E L F G + I V+R++ S+G FV F+T A +
Sbjct: 18 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 77
Query: 153 SYTSI-LMPNTDQPFRLNWATFSTGDKRSDNG-PDLSIFVG 191
+ ++ ++P P ++ A D +N D +F+G
Sbjct: 78 ALHNMKVLPGMHHPIQMKPA-----DSEKNNAVEDRKLFIG 113
>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 = 40.0 bits (92), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++V +H E +H FA GEI +I + +++TG +GY VE+ T+ A+ ++
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 155 TSILMPNTDQPFRLNWA 171
+ QP ++W
Sbjct: 86 NGQDL--MGQPISVDWC 100
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 40.0 bits (92), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 42/91 (46%), Gaps = 6/91 (6%)
Query: 92 NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVL 151
+ ++VG L +D+ LH+ F G+I I++ + +T G+ FVEF A +
Sbjct: 12 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 71
Query: 152 QS------YTSILMPNTDQPFRLNWATFSTG 176
+ + + N +P R+ + S+G
Sbjct: 72 DNMNESELFGRTIRVNLAKPMRIKESGPSSG 102
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++V +H E +H FA GEI +I + +++TG +GY VE+ T+ A+ ++
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 155 TSILMPNTDQPFRLNWA 171
+ QP ++W
Sbjct: 85 NGQDLMG--QPISVDWC 99
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 7/96 (7%)
Query: 90 GENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEK 149
GE++ ++VG L + + F G I V+R G S+G FV+F THA A+
Sbjct: 10 GEDRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAEAQA 68
Query: 150 VLQS-YTSILMPNTDQPFRLNWATFSTGDKRSDNGP 184
+ + ++S +P + +A D ++GP
Sbjct: 69 AINTLHSSRTLPGASSSLVVKFA-----DTEKESGP 99
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++V +H E +H FA GEI +I + +++TG +GY VE+ T+ A+ ++
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 155 TSILMPNTDQPFRLNWA 171
+ QP ++W
Sbjct: 72 NGQDL--MGQPISVDWC 86
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%)
Query: 88 GGGENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF 141
G + ++VG L +D+ LH+ F G+I I++ + +T G+ FVEF
Sbjct: 1 GSTTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 54
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++V +H E +H FA GEI +I + +++TG +GY VE+ T+ A+ ++
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 155 TSILMPNTDQPFRLNWA 171
+ QP ++W
Sbjct: 70 NGQDL--MGQPISVDWC 84
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++V +H E +H FA GEI +I + +++TG +GY VE+ T+ A+ ++
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 155 TSILMPNTDQPFRLNWA 171
+ QP ++W
Sbjct: 70 NGQDL--MGQPISVDWC 84
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++V +H E +H FA GEI +I + +++TG +GY VE+ T+ A+ ++
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 155 TSILMPNTDQPFRLNWA 171
+ QP ++W
Sbjct: 70 NGQDL--MGQPISVDWC 84
>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 = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 92 NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF 141
+ ++VG L +D+ LH+ F G+I I++ + +T G+ FVEF
Sbjct: 2 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 51
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 31/58 (53%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
++V L M + + F+ G I + +++ ++ TG+S G GF+ F AE+ ++
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 30/47 (63%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF 141
+++G L ++++++ + S G + + ++++ TGLS+GY F E+
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 163
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 90 GENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFF---THAT 146
G ++ +++G + + E + ++ G + ++K++ + QTG S+GY F+EF + A+
Sbjct: 1 GPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSAS 60
Query: 147 AEKVLQSY 154
A + L Y
Sbjct: 61 AVRNLNGY 68
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 30/47 (63%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF 141
+++G L ++++++ + S G + + ++++ TGLS+GY F E+
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 145
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 30/47 (63%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF 141
+++G L ++++++ + S G + + ++++ TGLS+GY F E+
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 143
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 32/77 (41%)
Query: 89 GGENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAE 148
G +++G L + L F GE+ V+R+ T S G+GFV F A +
Sbjct: 22 GSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVD 81
Query: 149 KVLQSYTSILMPNTDQP 165
KVL L T P
Sbjct: 82 KVLAQSRHELDSKTIDP 98
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 39/71 (54%), Gaps = 6/71 (8%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
+ I+VG+L + + F+ G++ ++K+I +++T +G+GFVE + +E + +
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAK 61
Query: 153 SYTSILMPNTD 163
+ NTD
Sbjct: 62 ------LDNTD 66
>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 = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 45/90 (50%), Gaps = 2/90 (2%)
Query: 91 ENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKV 150
+ ++++VG++ + L + F+S G I I ++ +K +G +GY ++EF + +
Sbjct: 35 DKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAA 94
Query: 151 LQSYTSILMPNTDQ--PFRLNWATFSTGDK 178
+ ++ T + P R N S+ D+
Sbjct: 95 VAMDETVFRGRTIKVLPKRTNMPGISSTDR 124
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 30/47 (63%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF 141
+++G L ++++++ + S G + + ++++ TGLS+GY F E+
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 50
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 7/66 (10%)
Query: 106 ENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS-------YTSIL 158
E L F++ GE+ ++V ++ +TG S+G+GFV F + T KV+ +
Sbjct: 29 EQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQRHMIDGRWCDCK 88
Query: 159 MPNTDQ 164
+PN+ Q
Sbjct: 89 LPNSKQ 94
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 28/49 (57%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF 141
+ ++VG L +D+ LH+ F G+I I++ + +T G+ FVEF
Sbjct: 64 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 112
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 31/71 (43%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
+++G L + L F GE+ V+R+ T S G+GFV F A +KVL
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 62
Query: 155 TSILMPNTDQP 165
L T P
Sbjct: 63 RHELDSKTIDP 73
>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 = 20/77 (25%), Positives = 40/77 (51%), Gaps = 3/77 (3%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
T++VG+L + E ++ F+ +G+I I + +K G+ FVE+++ A AE ++
Sbjct: 20 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTAC-GFCFVEYYSRADAENAMRY 78
Query: 154 YTSILMPNTDQPFRLNW 170
+ D+ R +W
Sbjct: 79 INGTRLD--DRIIRTDW 93
>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 = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 39/94 (41%), Gaps = 9/94 (9%)
Query: 89 GGENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAE 148
G E +++ L + L F G + S KV +KQT LS+ +GFV + +A+
Sbjct: 22 GPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQ 81
Query: 149 KVLQSYTSILMPNTDQPFRLNWATFSTGDKRSDN 182
+QS F++ KRS N
Sbjct: 82 AAIQSMNG---------FQIGMKRLKVQLKRSKN 106
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 1/82 (1%)
Query: 90 GENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEK 149
G +++VGDL +D+ L+ F + QTG+S+GYGFV+F ++
Sbjct: 7 GPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKR 66
Query: 150 VLQSYTSILMPNTDQPFRLNWA 171
L + + +P RL+ A
Sbjct: 67 ALTECQGAVGLGS-KPVRLSVA 87
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 31/64 (48%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
++VG L + L S F+ GE+ ++++K T S G+GFV+F VL S
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASR 78
Query: 155 TSIL 158
L
Sbjct: 79 PHTL 82
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 38/66 (57%), Gaps = 3/66 (4%)
Query: 92 NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFF---THATAE 148
++ +++G + + E + ++ G + ++K++ + QTG S+GY F+EF + A+A
Sbjct: 4 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 63
Query: 149 KVLQSY 154
+ L Y
Sbjct: 64 RNLNGY 69
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 17/78 (21%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS- 153
+++G + +DE L F G+I + V++++ TG+ +G F+ + +A K +
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSAL 75
Query: 154 YTSILMPNTDQPFRLNWA 171
+ +P ++P ++ A
Sbjct: 76 HEQKTLPGMNRPIQVKPA 93
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 38/66 (57%), Gaps = 3/66 (4%)
Query: 92 NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFF---THATAE 148
++ +++G + + E + ++ G + ++K++ + QTG S+GY F+EF + A+A
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61
Query: 149 KVLQSY 154
+ L Y
Sbjct: 62 RNLNGY 67
>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 = 36.2 bits (82), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 9/67 (13%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF---------FT 143
KT++V +++ E+ L F G I I ++ +K++G GY F+E+ +
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 144 HATAEKV 150
HA +K+
Sbjct: 163 HADGKKI 169
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 35.8 bits (81), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 33/65 (50%)
Query: 89 GGENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAE 148
G E +++ L + L S F G + S KV +KQT LS+ +GFV F +A+
Sbjct: 37 GPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQ 96
Query: 149 KVLQS 153
+++
Sbjct: 97 VAIKA 101
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 31/61 (50%)
Query: 91 ENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKV 150
E KT+++ +L +E L G++ ++V+ + T S+G F +F T A+K
Sbjct: 14 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKC 73
Query: 151 L 151
L
Sbjct: 74 L 74
>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 = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 9/67 (13%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF---------FT 143
KT++V +++ E+ L F G I I ++ +K++G GY F+E+ +
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 144 HATAEKV 150
HA +K+
Sbjct: 163 HADGKKI 169
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 35.4 bits (80), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 36/64 (56%), Gaps = 6/64 (9%)
Query: 91 ENKTIWVGDLHHWMDENYLHSCFASTGEIAS-IKVIRNKQTGLSEGYGFVEFFTHATAEK 149
E+KT+ + +L + E L F E A+ IKV +N Q G S+GY F+EF + A++
Sbjct: 14 ESKTLVLSNLSYSATEETLQEVF----EKATFIKVPQN-QNGKSKGYAFIEFASFEDAKE 68
Query: 150 VLQS 153
L S
Sbjct: 69 ALNS 72
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 45/94 (47%), Gaps = 7/94 (7%)
Query: 92 NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVL 151
++ ++VG L+ E+ + F + G I ++R G S+G FV++ +HA A+ +
Sbjct: 15 HRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPD-GNSKGCAFVKYSSHAEAQAAI 73
Query: 152 QS-YTSILMPNTDQPFRLNWATFSTGDKRSDNGP 184
+ + S MP + +A D ++GP
Sbjct: 74 NALHGSQTMPGASSSLVVKFA-----DTDKESGP 102
>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 = 34.7 bits (78), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 27/56 (48%)
Query: 96 WVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVL 151
+VG L + L F GE+ + + TG S G+GF+ F A+ EKVL
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVL 70
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 34.7 bits (78), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 105 DENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVL 151
D++ + C G+I S K I +K T +GYGFV+F + + A+K +
Sbjct: 19 DQDLVKLC-QPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 34.3 bits (77), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 6/63 (9%)
Query: 91 ENKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKV 150
+N T++ G + + + + F+ G+I I+V K GY FV F TH +A
Sbjct: 24 KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK------GYSFVRFSTHESAAHA 77
Query: 151 LQS 153
+ S
Sbjct: 78 IVS 80
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 33.9 bits (76), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 11/81 (13%)
Query: 86 GSGG--GENKTI---WVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVE 140
GS G GE+KTI +VG L + E L + F GEI +I V++ +Q F++
Sbjct: 1 GSSGSSGEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQ 54
Query: 141 FFTHATAEKVLQSYTSILMPN 161
F T AE + + L+ N
Sbjct: 55 FATRQAAEVAAEKSFNKLIVN 75
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 33.5 bits (75), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 47/92 (51%), Gaps = 8/92 (8%)
Query: 92 NKTIWVGDL--HHWMDENYLHSCFASTGEIAS--IKVIRNKQTGLSEGYGFVEFFTHATA 147
N TI + +L H MD + A ++S ++VI++KQT L+ G+ F++ T A
Sbjct: 23 NDTIILRNLNPHSTMDS--ILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLST-IEA 79
Query: 148 EKVLQSYTSILMPNTDQPFRLNWATFSTGDKR 179
++LQ ++ P T +N F+ G KR
Sbjct: 80 AQLLQILQALHPPLTIDGKTINV-EFAKGSKR 110
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 33.5 bits (75), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVL 151
+++ +L MDE L + G++ S +++R+ +G S G GF + E V+
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEAVI 83
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 33.1 bits (74), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 3/61 (4%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTG---LSEGYGFVEFFTHATAEKVL 151
+++ +L+ E L F+ G I S + + K LS G+GFVE+ A+K L
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 152 Q 152
+
Sbjct: 68 K 68
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 92 NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAE 148
+KT++V L E L F + +++ +++TG S+G+GFV+F + A+
Sbjct: 15 SKTLFVKGLSEDTTEETLKESFDGS---VRARIVTDRETGSSKGFGFVDFNSEEDAK 68
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
K I+VG L E + F GE+ SI++ + +T G+ F+ F +K+++
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
Query: 153 S 153
Sbjct: 62 K 62
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 42/94 (44%), Gaps = 7/94 (7%)
Query: 92 NKTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVL 151
++ ++VG L+ E + F G I V+R G S+G FV+F +H A+ +
Sbjct: 15 DRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD-GSSKGCAFVKFSSHTEAQAAI 73
Query: 152 QS-YTSILMPNTDQPFRLNWATFSTGDKRSDNGP 184
+ + S MP + +A D ++GP
Sbjct: 74 HALHGSQTMPGASSSLVVKFA-----DTDKESGP 102
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 32.3 bits (72), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQ-TGLSEGYGFVEFFTHATAEKVL 151
I V ++ ++ + F++ GE+ ++++ + TG G+GFV+F T A+K
Sbjct: 18 ILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 32.3 bits (72), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKV-IRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
+ +G L + ++++ F++ G+I I + + LS+GY +VEF AEK L+
Sbjct: 7 VHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 31.6 bits (70), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 11/49 (22%), Positives = 27/49 (55%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEF 141
+T++ L + L F++ G++ +++I ++ + S+G +VEF
Sbjct: 26 RTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEF 74
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 28/59 (47%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
I+VG L E + F GE+ SI++ + +T G+ F+ F +K+++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 31.2 bits (69), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 30/50 (60%), Gaps = 1/50 (2%)
Query: 111 SCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSYTSILMP 160
S +AS + +I++I++KQT + G+ FV+ + A ++LQ S+ P
Sbjct: 31 SPYASLA-VNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPP 79
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 31.2 bits (69), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
+T+ +L + + ++ L F EI + + G S+G ++EF T A AEK +
Sbjct: 94 RTLLAKNLPYKVTQDELKEVFEDAAEIRLVS-----KDGKSKGIAYIEFKTEADAEKTFE 148
Query: 153 S 153
Sbjct: 149 E 149
>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 = 30.8 bits (68), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 30/59 (50%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
I+VG + + F+ G I +++ +K TG S G+GFV + + ++V Q+
Sbjct: 90 IFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQN 148
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 47/91 (51%), Gaps = 7/91 (7%)
Query: 94 TIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQS 153
T +VG+L + + + F I S++++R+K T +G+ +VEF + ++ L +
Sbjct: 17 TAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-T 74
Query: 154 YTSILMPNTDQPFRLNWATFSTGDKRSDNGP 184
Y L+ D+ R++ A G K+ +GP
Sbjct: 75 YDGALL--GDRSLRVDIA---EGRKQDKSGP 100
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 30.4 bits (67), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 5/60 (8%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
+T+ +L + E+ L F EI + Q G S+G ++EF + A AEK L+
Sbjct: 100 RTLLAKNLSFNITEDELKEVFEDALEIRLVS-----QDGKSKGIAYIEFKSEADAEKNLE 154
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 30.0 bits (66), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 122 IKVIRNKQTGLSEGYGFVEF 141
++++RNK +G S G+ FVEF
Sbjct: 32 VRLMRNKSSGQSRGFAFVEF 51
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 31/73 (42%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
+++G L + L F+ GE+ + + TG S G+GFV F + +KV+
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 155 TSILMPNTDQPFR 167
L P R
Sbjct: 62 EHKLNGKVIDPKR 74
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 5/60 (8%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
+T+ +L + E+ L F EI + Q G S+G ++EF + A AEK L+
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALEIRLVS-----QDGKSKGIAYIEFKSEADAEKNLE 71
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
K + V ++ + L F G+I +++I N++ S+G+GFV F A A++ +
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRARE 73
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 31/61 (50%), Gaps = 2/61 (3%)
Query: 93 KTIWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQ 152
K + V ++ + L F G+I +++I N++ S+G+GFV F A A++ +
Sbjct: 30 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRARE 87
Query: 153 S 153
Sbjct: 88 K 88
>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 = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 36/80 (45%), Gaps = 3/80 (3%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTG--LSEGYGFVEFFTHATAEKVLQ 152
++VG + E L F G + I V+R++ S+G FV F+T A +
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 153 SYTSI-LMPNTDQPFRLNWA 171
+ ++ ++P P ++ A
Sbjct: 66 ALHNMKVLPGMHHPIQMKPA 85
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/65 (21%), Positives = 29/65 (44%)
Query: 95 IWVGDLHHWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATAEKVLQSY 154
I+VG + H E L F G + + +I + + G+GF+ F + ++ + +
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMH 72
Query: 155 TSILM 159
+M
Sbjct: 73 FHDIM 77
>pdb|1QA3|A Chain A, Tailspike Protein, Mutant A334i
Length = 554
Score = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 19/83 (22%), Positives = 38/83 (45%), Gaps = 2/83 (2%)
Query: 89 GGENKTIWVGDLH-HWMDENYLHSCFASTGEIASIKVIRNKQTGLSEGYGFVEFFTHATA 147
GG++ I +L W NY+ S G ++SI+ +RN G G + F ++
Sbjct: 188 GGKDGIITFENLSGDWGKGNYVIGGRTSYGSVSSIQFLRN-NGGFERDGGVIGFTSYRAG 246
Query: 148 EKVLQSYTSILMPNTDQPFRLNW 170
E ++++ + T + + L +
Sbjct: 247 ESGVKTWQGTVGSTTSRNYNLQF 269
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
0.318 0.132 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,119,823
Number of Sequences: 62578
Number of extensions: 135814
Number of successful extensions: 382
Number of sequences better than 100.0: 115
Number of HSP's better than 100.0 without gapping: 90
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 275
Number of HSP's gapped (non-prelim): 126
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)