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= 003717
(800 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 38.5 bits (88), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 4/75 (5%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKGRSFGYVDFFPSSHKSLSKLFSTYNG 75
+Y GG+ +TD + + FS G++ + + KG SF V F S+H+S + + NG
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSF--VRF--STHESAAHAIVSVNG 83
Query: 76 CVWKGGRLRLERAKE 90
+G ++ KE
Sbjct: 84 TTIEGHVVKCYWGKE 98
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 37.7 bits (86), Expect = 0.027, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 2/45 (4%)
Query: 14 TRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKGRSFGYVDF 58
TR++VGGLG + LA+ F G ++ +D V KG SF Y+ +
Sbjct: 18 TRLWVGGLGPNTSLAALAREFDRFGSIRTIDHV--KGDSFAYIQY 60
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 37.7 bits (86), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 50/105 (47%), Gaps = 11/105 (10%)
Query: 13 QTRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK--GRSFGYVDFFPSSHKSLSKLF 70
+T + V L + +T D+L +FSS+GEV++ ++R K G S GY + K +
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 71 STYNGCVWKGGRLRLERAK---------EHYLARLKREWAEDDAQ 106
+T NG + +++ A+ Y++ L R + D +
Sbjct: 62 NTLNGLRLQSKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVE 106
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 37.4 bits (85), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 50/105 (47%), Gaps = 11/105 (10%)
Query: 13 QTRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK--GRSFGYVDFFPSSHKSLSKLF 70
+T + V L + +T D+L +FSS+GEV++ ++R K G S GY + K +
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 71 STYNGCVWKGGRLRLERAK---------EHYLARLKREWAEDDAQ 106
+T NG + +++ A+ Y++ L R + D +
Sbjct: 62 NTLNGLRLQSKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVE 106
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 37.0 bits (84), Expect = 0.042, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 26/40 (65%)
Query: 14 TRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKGRSF 53
T +YVGGLG+ +T+ DL F GE++ + +V+ + +F
Sbjct: 13 TTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAF 52
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 37.0 bits (84), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 4/86 (4%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVKAVDIV----RTKGRSFGYVDFFPSSHKSLSKLFS 71
+YVG TD L +V S+G V++ R G+S GY + +S S+ KL
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 72 TYNGCVWKGGRLRLERAKEHYLARLK 97
G V G ++ + A L++ +
Sbjct: 118 LLPGKVLNGEKVDVRPATRQNLSQFE 143
>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 = 36.6 bits (83), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 42/79 (53%), Gaps = 2/79 (2%)
Query: 13 QTRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK--GRSFGYVDFFPSSHKSLSKLF 70
+T + V L + +T D+L +FSS+GEV++ ++R K G S GY + K +
Sbjct: 4 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 63
Query: 71 STYNGCVWKGGRLRLERAK 89
+T NG + +++ A+
Sbjct: 64 NTLNGLRLQSKTIKVSYAR 82
>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 = 36.2 bits (82), Expect = 0.071, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 30/48 (62%), Gaps = 4/48 (8%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRT----KGRSFGYVDF 58
RIYV + + ++DDD+ VF + G++K+ + R K + +G++++
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEY 159
>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 = 35.8 bits (81), Expect = 0.088, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 27/43 (62%), Gaps = 2/43 (4%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR--TKGRSFGY 55
RIYV + + ++DDD+ VF + G++K+ + R T G+ GY
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGY 169
>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 = 35.8 bits (81), Expect = 0.11, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 27/43 (62%), Gaps = 2/43 (4%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR--TKGRSFGY 55
RIYV + + ++DDD+ VF + G++K+ + R T G+ GY
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGY 153
>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 = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 10/69 (14%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKG----RSFGYVDFFPSSHKSLSKL- 69
+I+VGG+ E + L F G+++ ++I+ +G R F +V F H S+ K+
Sbjct: 105 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF--DDHDSVDKIV 162
Query: 70 ---FSTYNG 75
+ T NG
Sbjct: 163 IQKYHTVNG 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 = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 10/69 (14%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKG----RSFGYVDFFPSSHKSLSKL- 69
+I+VGG+ E + L F G+++ ++I+ +G R F +V F H S+ K+
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF--DDHDSVDKIV 163
Query: 70 ---FSTYNG 75
+ T NG
Sbjct: 164 IQKYHTVNG 172
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 10/69 (14%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKG----RSFGYVDFFPSSHKSLSKL- 69
+I+VGG+ E + L F G+++ ++I+ +G R F +V F H S+ K+
Sbjct: 104 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF--DDHDSVDKIV 161
Query: 70 ---FSTYNG 75
+ T NG
Sbjct: 162 IQKYHTVNG 170
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 10/69 (14%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKG----RSFGYVDFFPSSHKSLSKL- 69
+I+VGG+ E + L F G+++ ++I+ +G R F +V F H S+ K+
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF--DDHDSVDKIV 163
Query: 70 ---FSTYNG 75
+ T NG
Sbjct: 164 IQKYHTVNG 172
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 10/69 (14%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKG----RSFGYVDFFPSSHKSLSKL- 69
+I+VGG+ E + L F G+++ ++I+ +G R F +V F H S+ K+
Sbjct: 107 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF--DDHDSVDKIV 164
Query: 70 ---FSTYNG 75
+ T NG
Sbjct: 165 IQKYHTVNG 173
>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 = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 10/69 (14%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKG----RSFGYVDFFPSSHKSLSKL- 69
+I+VGG+ E + L F G+++ ++I+ +G R F +V F H S+ K+
Sbjct: 99 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF--DDHDSVDKIV 156
Query: 70 ---FSTYNG 75
+ T NG
Sbjct: 157 IQKYHTVNG 165
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 35.0 bits (79), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 14 TRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK--GRSFGYVDFFPSSHKSLSKLFS 71
T + V L + T D+L +FSS+GEV++ ++R K G S GY + K + +
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 79
Query: 72 TYNGCVWKGGRLRLERAK 89
T NG + +++ A+
Sbjct: 80 TLNGLRLQSKTIKVSYAR 97
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 34.7 bits (78), Expect = 0.19, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 4/48 (8%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR----TKGRSFGYVDF 58
++++GGL + T + L + F GEVK ++R + R FG+V F
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 49
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 34.3 bits (77), Expect = 0.30, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 4/48 (8%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR----TKGRSFGYVDF 58
++++GGL + T + L + F GEVK ++R + R FG+V F
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 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 = 33.9 bits (76), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 45/96 (46%), Gaps = 9/96 (9%)
Query: 16 IYVGGLGEKVTDDDLAK----VFSSLGEVKAVDIVRT-KGRSFGYVDFFPSSHKSLSKLF 70
IY+ L EK+ D+L K +FS G++ + + R+ K R +V F S +
Sbjct: 12 IYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIF--KEVSSATNAL 69
Query: 71 STYNGCVWKGGRLRLERAK--EHYLARLKREWAEDD 104
+ G + +R++ AK +A++K + E D
Sbjct: 70 RSMQGFPFYDKPMRIQYAKTDSDIIAKMKGTFVERD 105
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 33.5 bits (75), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 13 QTRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR----TKGRSFGYVDF 58
+ +++VGGL + L +VFS G++ V +V+ + R FG+V F
Sbjct: 12 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTF 61
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 42/86 (48%), Gaps = 12/86 (13%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKGRS--FGYVDFFPSSHKSLSKLFSTY 73
+YV L + + D+ L K FS G + + ++ GRS FG+V F SS + +K +
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCF--SSPEEATKAVTEM 75
Query: 74 NGCVWKGGRLRLERAKEHYLARLKRE 99
NG R+ K Y+A +R+
Sbjct: 76 NG--------RIVATKPLYVALAQRK 93
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 33.1 bits (74), Expect = 0.54, Method: Composition-based stats.
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 14 TRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIV--RTKGRSFGY 55
T+I+VGGL TD L K F G+++ ++ R G+S GY
Sbjct: 18 TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGY 61
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 33.1 bits (74), Expect = 0.58, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 3/73 (4%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIV-RTKGRSFGYVDFFPSSHKSLSKLFSTY 73
RIYVG L + D+ VF G ++ +D+ R G F +V+F +
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEF--EDPRDAEDAVYGR 81
Query: 74 NGCVWKGGRLRLE 86
+G + G RLR+E
Sbjct: 82 DGYDYDGYRLRVE 94
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 32.7 bits (73), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 40/79 (50%), Gaps = 2/79 (2%)
Query: 13 QTRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK--GRSFGYVDFFPSSHKSLSKLF 70
+T + V L + +T D+ +F S+G++++ +VR K G+S GY S K
Sbjct: 4 KTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
Query: 71 STYNGCVWKGGRLRLERAK 89
+T NG + +++ A+
Sbjct: 64 NTLNGLKLQTKTIKVSYAR 82
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 32.7 bits (73), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK----GRSFGYVDF 58
+++VGGL T + L FS GEV I++ K R FG+V F
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF 65
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 32.7 bits (73), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 28/47 (59%), Gaps = 3/47 (6%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK---GRSFGYVDF 58
++++G + +K T++D+ +FSS G+++ I+R R +V F
Sbjct: 109 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTF 155
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 32.7 bits (73), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 28/47 (59%), Gaps = 3/47 (6%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK---GRSFGYVDF 58
++++G + +K T++D+ +FSS G+++ I+R R +V F
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTF 143
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 32.7 bits (73), Expect = 0.89, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 30/50 (60%), Gaps = 5/50 (10%)
Query: 14 TRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK-----GRSFGYVDF 58
T++++G L VT D + ++FS+ G++K +D+ + + + YV+F
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEF 54
>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 = 32.7 bits (73), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 4/82 (4%)
Query: 14 TRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK--GRSFGYVDFFPSSHKSLSKLFS 71
T +YV L +TDD L +F G + +I+R K GR G + + + S
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 73
Query: 72 TYNGCVWKGGR--LRLERAKEH 91
N + +GG L + A+EH
Sbjct: 74 ALNNVIPEGGSQPLSVRLAEEH 95
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With
The Au-Rich Element
Length = 174
Score = 32.3 bits (72), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 40/79 (50%), Gaps = 2/79 (2%)
Query: 13 QTRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK--GRSFGYVDFFPSSHKSLSKLF 70
+T + V L + +T D+ +F S+G++++ +VR K G+S GY S K
Sbjct: 4 KTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
Query: 71 STYNGCVWKGGRLRLERAK 89
+T NG + +++ A+
Sbjct: 64 NTLNGLKLQTKTIKVSYAR 82
>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 = 32.0 bits (71), Expect = 1.3, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 4/82 (4%)
Query: 14 TRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK--GRSFGYVDFFPSSHKSLSKLFS 71
T +YV L +TDD L +F G + +I+R K GR G + + + S
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 160
Query: 72 TYNGCVWKGGR--LRLERAKEH 91
N + +GG L + A+EH
Sbjct: 161 ALNNVIPEGGSQPLSVRLAEEH 182
Score = 30.4 bits (67), Expect = 3.6, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 37/80 (46%), Gaps = 6/80 (7%)
Query: 14 TRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR--TKGRSFGY--VDFFPSSHKSLSKL 69
T + V L + TD +L +F ++G + I R G SFGY VDF +S +
Sbjct: 15 TNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDF--TSEXDSQRA 72
Query: 70 FSTYNGCVWKGGRLRLERAK 89
NG + RL++ A+
Sbjct: 73 IKVLNGITVRNKRLKVSYAR 92
>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 = 32.0 bits (71), Expect = 1.3, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVKAV----DIVRTKGRSFGYVDF 58
+YVGGL E+V D L F G++ + D K R F +V+F
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 51
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 32.0 bits (71), Expect = 1.4, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIV--RTKGRSFGYVDFFPSSHKSLSKLFST 72
R+YVG L +T+D L +F G ++++ ++ GRS GY S + K
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 73 YNGCVWKGGRLRLERAKE 90
NG G +++ E
Sbjct: 88 LNGFELAGRPMKVGHVTE 105
>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 = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 27/47 (57%), Gaps = 3/47 (6%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK---GRSFGYVDF 58
++++G + +K T++D+ FSS G+++ I+R R +V F
Sbjct: 97 KLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPDGLSRGCAFVTF 143
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 32.0 bits (71), Expect = 1.5, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 31/50 (62%), Gaps = 7/50 (14%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR------TKGRSF-GYVD 57
++++GGL + DD + ++ +S G +KA ++V+ +KG +F YVD
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 145
>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 = 32.0 bits (71), Expect = 1.5, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 31/50 (62%), Gaps = 7/50 (14%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR------TKGRSF-GYVD 57
++++GGL + DD + ++ +S G +KA ++V+ +KG +F YVD
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 147
>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 = 31.6 bits (70), Expect = 1.6, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVKAV----DIVRTKGRSFGYVDF 58
+YVGGL E+V D L F G++ + D K R F +V+F
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 56
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 6/75 (8%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEV----KAVDIVRTKGRSFGYVDFFPSSHKSLSKLF 70
R++V L +++DL K+FS+ G + +D + K + F +V F H K +
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHA--VKAY 67
Query: 71 STYNGCVWKGGRLRL 85
+ +G V++G L +
Sbjct: 68 AEVDGQVFQGRMLHV 82
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 31.6 bits (70), Expect = 1.7, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVKAV----DIVRTKGRSFGYVDF 58
+YVGGL E+V D L F G++ + D K R F +V+F
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 54
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVKAV----DIVRTKGRSFGYVDF 58
+YVGGL E+V D L F G++ + D K R F +V+F
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 112
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 31/50 (62%), Gaps = 7/50 (14%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR------TKGRSF-GYVD 57
++++GGL + DD + ++ +S G +KA ++V+ +KG +F YVD
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 52
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 46/96 (47%), Gaps = 9/96 (9%)
Query: 16 IYVGGLGEKVTDDDLAK----VFSSLGEVKAVDIVRT-KGRSFGYVDFFPSSHKSLSKLF 70
IY+ L EK+ D+L K +FS G++ + + R+ K R +V F S S +
Sbjct: 11 IYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVS--SATNAL 68
Query: 71 STYNGCVWKGGRLRLERAK--EHYLARLKREWAEDD 104
+ G + +R++ AK +A++K + E D
Sbjct: 69 RSMQGFPFYDKPMRIQYAKTDSDIIAKMKGTFVERD 104
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVKAV----DIVRTKGRSFGYVDF 58
+ V GL K T+ DL + FS+ GEV V D+ + FG+V F
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRF 64
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 27/44 (61%), Gaps = 5/44 (11%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR-----TKGRSF 53
+++VG LG++ TD+D+ K+F G + ++R +KG +F
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAF 57
>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 = 31.2 bits (69), Expect = 2.1, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 31/50 (62%), Gaps = 7/50 (14%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR------TKGRSF-GYVD 57
++++GGL + DD + ++ +S G +KA ++V+ +KG +F YVD
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 165
>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 = 30.8 bits (68), Expect = 2.7, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVK----AVDIVRTKGRSFGYVDF 58
+++GGL T DL FS GEV +D + + R FG+V F
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF 48
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 4/48 (8%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVKAV----DIVRTKGRSFGYVDFF 59
+YVGGL EKV++ L ++F G V D V + + +G+V+F
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFL 65
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 30.8 bits (68), Expect = 3.3, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 2/70 (2%)
Query: 14 TRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK--GRSFGYVDFFPSSHKSLSKLFS 71
T +YV L +TDD L +F G + +I+R K GR G + + + S
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 149
Query: 72 TYNGCVWKGG 81
N + +GG
Sbjct: 150 ALNNVIPEGG 159
>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 = 30.8 bits (68), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 28/45 (62%), Gaps = 2/45 (4%)
Query: 13 QTRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTK--GRSFGY 55
+T + V L + +T ++ +F S+GE+++ +VR K G+S GY
Sbjct: 2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGY 46
>pdb|2B1E|A Chain A, The Structures Of Exocyst Subunit Exo70p And The Exo84p C-
Terminal Domains Reveal A Common Motif
Length = 564
Score = 30.4 bits (67), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%)
Query: 81 GRLRLERAKEHYLARLKREWAEDDAQLVNPPVTDSVAPDNKDATRL 126
G RLER K+ Y++ + +W + A L++ DS +KD ++
Sbjct: 441 GHSRLERLKKRYISYMVSDWRDLTANLMDSVFIDSSGKKSKDKEQI 486
>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 = 30.4 bits (67), Expect = 3.8, Method: Composition-based stats.
Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 5/68 (7%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRT----KGRSFGYVDF-FPSSHKSLSKL 69
++++GGL T+D+L + F G V + I++ + R FG++ F PSS + K
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 70 FSTYNGCV 77
+G V
Sbjct: 65 QHILDGKV 72
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 30.4 bits (67), Expect = 3.9, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVKAV----DIVRTKGRSFGYVDF 58
+YVGGL E+V D L F G++ + D K R F +V+F
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 61
>pdb|2PFV|A Chain A, S. Cerevisiae Exo70 With Additional Residues To 2.1
Angrstrom Resolution
Length = 563
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%)
Query: 81 GRLRLERAKEHYLARLKREWAEDDAQLVNPPVTDSVAPDNKDATRL 126
G RLER K+ Y++ + +W + A L++ DS +KD ++
Sbjct: 440 GHSRLERLKKRYISYMVSDWRDLTANLMDSVFIDSSGKKSKDKEQI 485
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 16/26 (61%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVK 41
IYV GL + VT DDLA F G VK
Sbjct: 18 IYVQGLNDSVTLDDLADFFKQCGVVK 43
>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 = 30.0 bits (66), Expect = 5.4, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 28/44 (63%), Gaps = 2/44 (4%)
Query: 13 QTRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKGRSFGYV 56
++R++VG L +T++++ K+F G+ V I + KG FG++
Sbjct: 15 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG--FGFI 56
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 29.6 bits (65), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 26/46 (56%), Gaps = 2/46 (4%)
Query: 16 IYVGGLGEKVTDDDLAKVFSSLGEVKAVDIV--RTKGRSFGYVDFF 59
+YVG L VT+ + ++FS +G K+ ++ T + +V+F+
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFY 63
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 29.6 bits (65), Expect = 7.1, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 28/44 (63%), Gaps = 2/44 (4%)
Query: 13 QTRIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVRTKGRSFGYV 56
++R++VG L +T++++ K+F G+ V I + KG FG++
Sbjct: 22 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG--FGFI 63
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 29.6 bits (65), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 28/44 (63%), Gaps = 5/44 (11%)
Query: 15 RIYVGGLGEKVTDDDLAKVFSSLGEVKAVDIVR-----TKGRSF 53
+++VG L ++ ++DD+ ++F + G ++ I+R +KG +F
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAF 60
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
0.307 0.124 0.346
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,962,814
Number of Sequences: 62578
Number of extensions: 939326
Number of successful extensions: 2238
Number of sequences better than 100.0: 72
Number of HSP's better than 100.0 without gapping: 34
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 2186
Number of HSP's gapped (non-prelim): 89
length of query: 800
length of database: 14,973,337
effective HSP length: 107
effective length of query: 693
effective length of database: 8,277,491
effective search space: 5736301263
effective search space used: 5736301263
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 55 (25.8 bits)