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= 034039
(105 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 69.7 bits (169), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 35/69 (50%), Positives = 48/69 (69%), Gaps = 1/69 (1%)
Query: 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
+A+ KLFIGGL+ +TNE +LK FG+HG I EV +I DR T +SRG+ F+ F + A A
Sbjct: 3 EADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADA 61
Query: 82 GEAIKEMDG 90
A K+M+G
Sbjct: 62 KNAAKDMNG 70
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 66.6 bits (161), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/68 (48%), Positives = 47/68 (69%)
Query: 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
A+ KLF+GGLS+DTNE L+ F ++G+I EV V+ DR T +SRG+GFV F + A
Sbjct: 9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAK 68
Query: 83 EAIKEMDG 90
+A+ M+G
Sbjct: 69 DAMMAMNG 76
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/66 (48%), Positives = 42/66 (63%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
TK+F+GGL Y T + L+ F G+I E VI DR TG+SRGYGFV A AAA A K
Sbjct: 18 TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACK 77
Query: 87 EMDGLV 92
+ + ++
Sbjct: 78 DPNPII 83
>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 = 62.4 bits (150), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 47/68 (69%), Gaps = 3/68 (4%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
K+FIGGL++DT E L++ FG++G + ++K++ D TG+SRG+GF+ F ++ E +K
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 88 ---MDGLV 92
+DG V
Sbjct: 65 QHILDGKV 72
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Query: 19 LLSDANSRT-KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
+ D +T K+F+GG+ D ++ F Q G II+ +++ D+ TGQSRG+GFV + S
Sbjct: 79 IPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDS 138
Query: 78 EAAA 81
A
Sbjct: 139 ADAV 142
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/70 (42%), Positives = 43/70 (61%)
Query: 20 LSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEA 79
+S+ N +++GGL +E +L + F Q G ++ + DRVTGQ +GYGFV+F SE
Sbjct: 9 ISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEE 68
Query: 80 AAGEAIKEMD 89
A AIK MD
Sbjct: 69 DADYAIKIMD 78
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 59.7 bits (143), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 37/58 (63%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85
KLF+GGL + T + L+ F Q+GE+++ ++ D+ T QSRG+GFVKF G +
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVL 75
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 59.7 bits (143), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 46/78 (58%)
Query: 14 VRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFV 73
+ T++ + + L + + +E L+ F ++G I VK++CDR T QSRGYGFV
Sbjct: 30 IPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFV 89
Query: 74 KFASEAAAGEAIKEMDGL 91
KF S ++A +AI ++G
Sbjct: 90 KFQSGSSAQQAIAGLNGF 107
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/65 (41%), Positives = 42/65 (64%)
Query: 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
+S K+FIGGLS+ T + L++ FGQ GE+ E V+ D +T +SRG+GFV F +A
Sbjct: 22 GSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVD 81
Query: 83 EAIKE 87
+ + +
Sbjct: 82 KVLAQ 86
>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 = 57.0 bits (136), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 49/84 (58%), Gaps = 4/84 (4%)
Query: 7 SVRFSHSVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQ 66
+++ S++ + + DAN L++ GL + L+ F Q+G II +++ D+VTG
Sbjct: 73 TIKVSYARPSSASIRDAN----LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGV 128
Query: 67 SRGYGFVKFASEAAAGEAIKEMDG 90
SRG GF++F A EAIK ++G
Sbjct: 129 SRGVGFIRFDKRIEAEEAIKGLNG 152
Score = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 40/71 (56%)
Query: 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
S+T L + L + + + FG GEI K++ D++TGQS GYGFV + A +A
Sbjct: 1 SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKA 60
Query: 85 IKEMDGLVCRT 95
I ++GL +T
Sbjct: 61 INTLNGLRLQT 71
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 57.0 bits (136), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 40/60 (66%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
K+FIGGLS+ T + L++ FGQ GE+ E V+ D +T +SRG+GFV F +A + + +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
>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 = 56.2 bits (134), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 39/59 (66%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
+FIGGLS+DT + LKD F + GE+++ + D +TG+SRG+GFV F + + + +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQ 60
>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 = 55.1 bits (131), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 45/74 (60%), Gaps = 4/74 (5%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
K F+GGLS+DT++ LKD F + GE+++ + D TG+SRG+GF+ F A+ + + +
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 88 ----MDGLVCRTSK 97
+DG V K
Sbjct: 73 KEHRLDGRVIDPKK 86
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 42/72 (58%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
+S+T L + L + + K FG G+I K++ D++TGQS GYGFV ++ A +
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADK 61
Query: 84 AIKEMDGLVCRT 95
AI ++GL +T
Sbjct: 62 AINTLNGLKLQT 73
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 49/84 (58%), Gaps = 4/84 (4%)
Query: 7 SVRFSHSVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQ 66
+++ S++ + + DAN L++ GL ++ ++ F Q+G II +++ D+ TG
Sbjct: 75 TIKVSYARPSSASIRDAN----LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGV 130
Query: 67 SRGYGFVKFASEAAAGEAIKEMDG 90
SRG GF++F A EAIK ++G
Sbjct: 131 SRGVGFIRFDKRIEAEEAIKGLNG 154
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 42/72 (58%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
+S+T L + L + + K FG G+I K++ D++TGQS GYGFV ++ A +
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADK 61
Query: 84 AIKEMDGLVCRT 95
AI ++GL +T
Sbjct: 62 AINTLNGLKLQT 73
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 39/62 (62%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+F+G + Y+ E LKD F + G ++ +++ DR TG+ +GYGF ++ + A A++ +
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 89 DG 90
+G
Sbjct: 71 NG 72
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 44/81 (54%)
Query: 13 SVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
S+ + R D T L + L+Y T+ L+ F ++G + +V + DR T +SRG+ F
Sbjct: 34 SMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAF 93
Query: 73 VKFASEAAAGEAIKEMDGLVC 93
V+F + A +A+ MDG V
Sbjct: 94 VRFHDKRDAEDAMDAMDGAVL 114
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 53.1 bits (126), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 51/96 (53%), Gaps = 10/96 (10%)
Query: 1 MQWLNG------SVRFSHSVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEII 54
+ LNG +++ S++ + ++ DAN L+I GL + ++D F + G II
Sbjct: 61 INTLNGLRLQSKTIKVSYARPSSEVIKDAN----LYISGLPRTMTQKDVEDMFSRFGRII 116
Query: 55 EVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDG 90
+V+ D+ TG SRG F++F + A EAI +G
Sbjct: 117 NSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
Score = 48.5 bits (114), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 35/66 (53%)
Query: 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85
RT L + L + + L+ F GE+ K+I D+V G S GYGFV + + A AI
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 86 KEMDGL 91
++GL
Sbjct: 62 NTLNGL 67
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 52.8 bits (125), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 51/96 (53%), Gaps = 10/96 (10%)
Query: 1 MQWLNG------SVRFSHSVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEII 54
+ LNG +++ S++ + ++ DAN L+I GL + ++D F + G II
Sbjct: 61 INTLNGLRLQSKTIKVSYARPSSEVIKDAN----LYISGLPRTMTQKDVEDMFSRFGRII 116
Query: 55 EVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDG 90
+V+ D+ TG SRG F++F + A EAI +G
Sbjct: 117 NSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 35/66 (53%)
Query: 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85
RT L + L + + L+ F GE+ K+I D+V G S GYGFV + + A AI
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 86 KEMDGL 91
++GL
Sbjct: 62 NTLNGL 67
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 41/69 (59%), Gaps = 4/69 (5%)
Query: 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
DAN L++ GL ++ ++ F Q+G II +++ D+ TG SRG GF++F A
Sbjct: 1 DAN----LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEA 56
Query: 82 GEAIKEMDG 90
EAIK ++G
Sbjct: 57 EEAIKGLNG 65
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 44/74 (59%), Gaps = 4/74 (5%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS----EAAAGE 83
KLFIGGLS++T E L++ + Q G++ + V+ D + +SRG+GFV F+S +AA
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Query: 84 AIKEMDGLVCRTSK 97
+DG V +
Sbjct: 89 RPHSIDGRVVEPKR 102
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 52.0 bits (123), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 33/79 (41%), Positives = 48/79 (60%), Gaps = 12/79 (15%)
Query: 21 SDANSRTK----LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76
S N+R++ LF+ GLS DT E LK++F + +++ DR TG S+G+GFV F
Sbjct: 6 SGPNARSQPSKTLFVKGLSEDTTEETLKESFDGS---VRARIVTDRETGSSKGFGFVDFN 62
Query: 77 SE---AAAGEAIK--EMDG 90
SE AA EA++ E+DG
Sbjct: 63 SEEDAKAAKEAMEDGEIDG 81
>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 = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+FI L + L D F G I+ KV+CD S+GYGFV F ++ AA AI++M
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 158
Query: 89 DGLVCRTSK 97
+G++ K
Sbjct: 159 NGMLLNDRK 167
Score = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L++G L D E +L + F G I+ ++V D +T +S GY +V F A A A+ M
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 89 D 89
+
Sbjct: 73 N 73
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In
Cytotoxic Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 41/69 (59%)
Query: 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
D ++ +F+G LS + +K AF G I + +V+ D TG+S+GYGFV F ++ A
Sbjct: 11 DTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDA 70
Query: 82 GEAIKEMDG 90
AI++M G
Sbjct: 71 ENAIQQMGG 79
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+FI L + L D F G I+ KV+CD S+GYGFV F ++ AA AI++M
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 163
Query: 89 DGLVCRTSK 97
+G++ K
Sbjct: 164 NGMLLNDRK 172
Score = 45.4 bits (106), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L++G L D E +L + F G I+ ++V D +T +S GY +V F A A A+ M
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 77
Query: 89 D 89
+
Sbjct: 78 N 78
>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 = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 34/48 (70%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKF 75
K+F+GG+ DT E L+D F Q+G+I ++++ DR +G+ RG+ FV F
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 4/74 (5%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS----EAAAGE 83
KLFIGGLS++T + L+ F Q G + + V+ D T +SRG+GFV +A+ +AA
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 84 AIKEMDGLVCRTSK 97
++DG V +
Sbjct: 75 RPHKVDGRVVEPKR 88
>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 = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 34/48 (70%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKF 75
K+F+GG+ DT E L+D F Q+G+I ++++ DR +G+ RG+ FV F
Sbjct: 105 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 152
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 4/74 (5%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS----EAAAGE 83
KLFIGGLS++T + L+ F Q G + + V+ D T +SRG+GFV +A+ +AA
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 84 AIKEMDGLVCRTSK 97
++DG V +
Sbjct: 74 RPHKVDGRVVEPKR 87
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 40/69 (57%)
Query: 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
D ++ +F+G LS + +K AF G+I + +V+ D TG+S+GYGFV F ++ A
Sbjct: 11 DTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDA 70
Query: 82 GEAIKEMDG 90
AI M G
Sbjct: 71 ENAIVHMGG 79
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 34/48 (70%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKF 75
K+F+GG+ DT E L+D F Q+G+I ++++ DR +G+ RG+ FV F
Sbjct: 107 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 154
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 4/74 (5%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS----EAAAGE 83
KLFIGGLS++T + L+ F Q G + + V+ D T +SRG+GFV +A+ +AA
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 84 AIKEMDGLVCRTSK 97
++DG V +
Sbjct: 76 RPHKVDGRVVEPKR 89
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+FI L + L D F G I+ KV+CD S+GYGFV F ++ AA AI++M
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 71
Query: 89 DGLVCRTSK 97
+G++ K
Sbjct: 72 NGMLLNDRK 80
>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 = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 34/48 (70%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKF 75
K+F+GG+ DT E L+D F Q+G+I ++++ DR +G+ RG+ FV F
Sbjct: 99 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 146
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 4/74 (5%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS----EAAAGE 83
KLFIGGLS++T + L+ F Q G + + V+ D T +SRG+GFV +A+ +AA
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 84 AIKEMDGLVCRTSK 97
++DG V +
Sbjct: 68 RPHKVDGRVVEPKR 81
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 41/64 (64%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
+L++G L ++ E +L+ F G I ++++ D TG+S+GYGF+ F+ A +A+++
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 88 MDGL 91
++G
Sbjct: 88 LNGF 91
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 34/48 (70%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKF 75
K+F+GG+ DT E L+D F Q+G+I ++++ DR +G+ RG+ FV F
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 4/74 (5%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS----EAAAGE 83
KLFIGGLS++T + L+ F Q G + + V+ D T +SRG+GFV +A+ +AA
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 84 AIKEMDGLVCRTSK 97
++DG V +
Sbjct: 75 RPHKVDGRVVEPKR 88
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 40/72 (55%)
Query: 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
D T L + L+Y T+ L+ F ++G + +V + DR T +SRG+ FV+F + A
Sbjct: 66 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA 125
Query: 82 GEAIKEMDGLVC 93
+A+ MDG V
Sbjct: 126 EDAMDAMDGAVL 137
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 34/48 (70%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKF 75
K+F+GG+ DT E L+D F Q+G+I ++++ DR +G+ RG+ FV F
Sbjct: 104 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 151
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 4/74 (5%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS----EAAAGE 83
KLFIGGLS++T + L+ F Q G + + V+ D T +SRG+GFV +A+ +AA
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 84 AIKEMDGLVCRTSK 97
++DG V +
Sbjct: 73 RPHKVDGRVVEPKR 86
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human
Pabpc1 At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human
Pabpc1 A Ph 9.0
Length = 115
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+FI L + L D F G I+ KV+CD S+GYGFV F ++ AA AI++M
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 65
Query: 89 DGLVCRTSK 97
+G++ K
Sbjct: 66 NGMLLNDRK 74
>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 = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 35/63 (55%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
LF+G L+ + ++ L++AF + V+ D TG SRGYGFV F S+ A A+
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 88 MDG 90
M G
Sbjct: 63 MQG 65
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 48/94 (51%), Gaps = 4/94 (4%)
Query: 1 MQWLNGSVRFSHSVR----FTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEV 56
+Q LNG ++ V+ F S ++ LF+G L+ + ++ L++AF +
Sbjct: 58 LQTLNGKQIENNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSG 117
Query: 57 KVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDG 90
V+ D TG SRGYGFV F S+ A A+ M G
Sbjct: 118 HVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQG 151
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L++G L E +LK F G I +K++ D+ ++ Y FV++ A A++ +
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQTL 61
Query: 89 DG 90
+G
Sbjct: 62 NG 63
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEV-KVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
+FIG L + +E +L D F G I++ K++ D TG S+GY F+ FAS A+ AI+
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 88 MDG 90
M+G
Sbjct: 68 MNG 70
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 49.3 bits (116), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+++G L Y +K+ F Q G++ VK+I DR T + +G+GFV+ E+ + EAI ++
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVS-EAIAKL 62
Query: 89 DG 90
D
Sbjct: 63 DN 64
>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 = 48.5 bits (114), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 35/62 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ ++YDT E+ L+ F +G I + ++ + +G+ RGY F+++ E A K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 89 DG 90
DG
Sbjct: 165 DG 166
>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 = 48.5 bits (114), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 35/66 (53%)
Query: 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85
RT L + L + + L+ F GE+ K+I D+V G S GYGFV + + A AI
Sbjct: 4 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 63
Query: 86 KEMDGL 91
++GL
Sbjct: 64 NTLNGL 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 = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 35/51 (68%), Gaps = 1/51 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEA 79
+F+GG+ +ET ++ F ++G + EVK+I DR TG S+GYGFV F ++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDV 61
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 44/80 (55%), Gaps = 7/80 (8%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+++G + YD E + D G +I +K++ D TG+S+GY F++F ++ A++ +
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 89 DG-------LVCRTSKDTDM 101
+G L C S ++D+
Sbjct: 65 NGYQLGSRFLKCGYSSNSDI 84
>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 = 47.8 bits (112), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 44/80 (55%), Gaps = 7/80 (8%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+++G + YD E + D G +I +K++ D TG+S+GY F++F ++ A++ +
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 89 DG-------LVCRTSKDTDM 101
+G L C S ++D+
Sbjct: 66 NGYQLGSRFLKCGYSSNSDI 85
>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 = 47.8 bits (112), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 35/51 (68%), Gaps = 1/51 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEA 79
+F+GG+ +ET ++ F ++G + EVK+I DR TG S+GYGFV F ++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDV 61
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 35/51 (68%), Gaps = 1/51 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEA 79
+F+GG+ +ET ++ F ++G + EVK+I DR TG S+GYGFV F ++
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDV 62
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 50/94 (53%), Gaps = 2/94 (2%)
Query: 1 MQWLNG-SVRFSH-SVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKV 58
++ LNG +VR V + R ++ T L++ L + L FG++G I++ +
Sbjct: 62 IKVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNI 121
Query: 59 ICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLV 92
+ D++TG+ RG FV++ A EAI ++ ++
Sbjct: 122 LRDKLTGRPRGVAFVRYNKREEAQEAISALNNVI 155
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 35/73 (47%)
Query: 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
S T L + L D + L F G I +++ D TG S GY FV F SE + A
Sbjct: 2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 61
Query: 85 IKEMDGLVCRTSK 97
IK ++G+ R +
Sbjct: 62 IKVLNGITVRNKR 74
>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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 50/95 (52%), Gaps = 2/95 (2%)
Query: 1 MQWLNG-SVRFSH-SVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKV 58
++ LNG +VR V + R ++ T L++ L + L FG++G I++ +
Sbjct: 73 IKVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNI 132
Query: 59 ICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVC 93
+ D++TG+ RG FV++ A EAI ++ ++
Sbjct: 133 LRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIP 167
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 19 LLSDAN-SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
L++D S T L + L D + L F G I ++ D TG S GY FV F S
Sbjct: 6 LMNDPRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTS 65
Query: 78 EAAAGEAIKEMDGLVCRTSK 97
E + AIK ++G+ R +
Sbjct: 66 EXDSQRAIKVLNGITVRNKR 85
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 36/59 (61%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85
K+F+GG+ ++ ET L++ F + G + EV +I D + RG+GF+ F E + +A+
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV 69
>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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 37/62 (59%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+++G + YD E + D G +I +K++ D TG+S+GY F++F ++ A++ +
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 89 DG 90
+G
Sbjct: 67 NG 68
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 43/69 (62%), Gaps = 1/69 (1%)
Query: 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85
+ KLFI GL + + L++ HG + +++++ +R G+ +G +V++ +E+ A +A+
Sbjct: 17 KHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRA-GKPKGLAYVEYENESQASQAV 75
Query: 86 KEMDGLVCR 94
+MDG+ +
Sbjct: 76 MKMDGMTIK 84
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 39/67 (58%)
Query: 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
A ++ L++GGL+ + ++ VL AF G+I ++++ D T + RG+ FV+F A
Sbjct: 60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 119
Query: 83 EAIKEMD 89
AI M+
Sbjct: 120 AAIDNMN 126
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 40/65 (61%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
+ L++G L ++ E +L+ F G+I + ++ D TG+S+GYGF+ F+ A A++
Sbjct: 6 SGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65
Query: 87 EMDGL 91
+++G
Sbjct: 66 QLNGF 70
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 34/65 (52%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
T L + L + + L+ F GE+ K+I D+V G S GYGFV + + A AI
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 79
Query: 87 EMDGL 91
++GL
Sbjct: 80 TLNGL 84
>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 = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 37/67 (55%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
T L++ L + L FG++G I++ ++ D++TG+ RG FV++ A EAI
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 73
Query: 87 EMDGLVC 93
++ ++
Sbjct: 74 ALNNVIP 80
>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 = 46.2 bits (108), Expect = 5e-06, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 35/62 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ ++YDT E+ L+ F +G I + ++ + +G+ RGY F+++ E A K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 89 DG 90
DG
Sbjct: 165 DG 166
>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 = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 32/54 (59%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
K+F+GGLS DT E +++ FG GE+ +++ D T + RG+ F+ F E
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPV 56
>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 = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 40/69 (57%)
Query: 21 SDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80
S A ++ L++GGL+ + ++ VL AF G+I ++++ D T + RG+ FV+F
Sbjct: 2 SMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAED 61
Query: 81 AGEAIKEMD 89
A AI M+
Sbjct: 62 AAAAIDNMN 70
>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 = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 38/65 (58%)
Query: 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
S+ L++GGL+ + ++ VL AF G+I ++++ D T + RG+ FV+F A A
Sbjct: 1 SKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 60
Query: 85 IKEMD 89
I M+
Sbjct: 61 IDNMN 65
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 39/67 (58%)
Query: 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
A ++ L++GGL+ + ++ VL AF G+I ++++ D T + RG+ FV+F A
Sbjct: 9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 68
Query: 83 EAIKEMD 89
AI M+
Sbjct: 69 AAIDNMN 75
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 37/67 (55%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
+LF+ LSY ++E L+ F +G + E+ D +T + +G+ FV F A +A E
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 88 MDGLVCR 94
+DG V +
Sbjct: 70 VDGQVFQ 76
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 37/68 (54%), Gaps = 3/68 (4%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE- 87
L + GL + T E LK+ F GE++ V+V D TG S+G+GFV+F + + +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR 77
Query: 88 --MDGLVC 93
+DG C
Sbjct: 78 HMIDGRWC 85
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 39/67 (58%)
Query: 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
+ ++ L++GGL+ + ++ VL AF G+I ++++ D T + RG+ FV+F A
Sbjct: 2 STTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 61
Query: 83 EAIKEMD 89
AI M+
Sbjct: 62 AAIDNMN 68
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 34/60 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L+I GL T + L +G+I+ K I D+ T + +GYGFV F S +AA +A+ +
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 31/53 (58%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
+F+GGLS DT E +++ FG GE+ +++ D T + RG+ F+ F E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPV 54
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 35/73 (47%)
Query: 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
S T L + L D + L F G I +++ D TG S GY FV F SE + A
Sbjct: 2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 61
Query: 85 IKEMDGLVCRTSK 97
IK ++G+ R +
Sbjct: 62 IKVLNGITVRNKR 74
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 42/75 (56%), Gaps = 2/75 (2%)
Query: 19 LLSDANSRTKLFIG--GLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76
L S AN +G GLS T E L++ F ++G I +V ++ D+ + +SRG+ FV F
Sbjct: 3 LGSRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFE 62
Query: 77 SEAAAGEAIKEMDGL 91
+ A EA + +G+
Sbjct: 63 NVDDAKEAKERANGM 77
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 35/69 (50%)
Query: 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
A+ + + LS DT ET L++ F G I + + D+ TGQS+G+ F+ F A
Sbjct: 12 ADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAA 71
Query: 83 EAIKEMDGL 91
AI + G
Sbjct: 72 RAIAGVSGF 80
>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 = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 38/66 (57%)
Query: 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
S +F+G LS + + AF G I + +V+ D TG+S+GYGFV F ++ A A
Sbjct: 5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENA 64
Query: 85 IKEMDG 90
I++M G
Sbjct: 65 IQQMGG 70
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 33/63 (52%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LFI L + +T L F G +I KV D+ T S+ +GFV F + +A AIK M
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 89 DGL 91
+G
Sbjct: 103 NGF 105
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGE-IIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
L++G L +E + AF GE ++ VK+I +R+TG GY FV+FA A A + + +
Sbjct: 12 LWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71
Query: 88 MDG 90
++G
Sbjct: 72 ING 74
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 8/66 (12%)
Query: 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
S T+LF+ D E+ L + FG G + EVK++ G+ FV+F +A +A
Sbjct: 3 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKA 54
Query: 85 IKEMDG 90
I+E+ G
Sbjct: 55 IEEVHG 60
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76
R D N +F GLS T E L++ F ++G I +V ++ D+ + +SRG+ FV F
Sbjct: 8 NRANPDPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFE 65
Query: 77 SEAAAGEAIKEMDGL 91
+ A EA + +G+
Sbjct: 66 NVDDAKEAKERANGM 80
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 32/50 (64%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASE 78
+F+GGLS +T +K F Q G++ + ++ D+ T + RG+GFV F SE
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESE 51
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 8/66 (12%)
Query: 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
S T+LF+ D E+ L + FG G + EVK++ G+ FV+F +A +A
Sbjct: 30 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKA 81
Query: 85 IKEMDG 90
I+E+ G
Sbjct: 82 IEEVHG 87
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76
R D N +F GLS T E L++ F ++G I +V ++ D+ + +SRG+ FV F
Sbjct: 39 NRANPDPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFE 96
Query: 77 SEAAAGEAIKEMDGL 91
+ A EA + +G+
Sbjct: 97 NVDDAKEAKERANGM 111
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76
R D N +F GLS T E L++ F ++G I +V ++ D+ + +SRG+ FV F
Sbjct: 8 NRANPDPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFE 65
Query: 77 SEAAAGEAIKEMDGL 91
+ A EA + +G+
Sbjct: 66 NVDDAKEAKERANGM 80
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 36/71 (50%), Gaps = 6/71 (8%)
Query: 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
R +LF+G L D E K F ++GE EV + D RG+GF++ S A A
Sbjct: 21 QRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRLESRTLAEIA 74
Query: 85 IKEMDGLVCRT 95
E+DG + ++
Sbjct: 75 KAELDGTILKS 85
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 44/83 (53%), Gaps = 5/83 (6%)
Query: 4 LNGSVRFSHSVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV 63
L+G++ S +R + A L + LS + +L+ AF Q G + + V+ D
Sbjct: 78 LDGTILKSRPLR----IRFATHGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDD- 132
Query: 64 TGQSRGYGFVKFASEAAAGEAIK 86
G++ G GFV+FA++ A +A++
Sbjct: 133 RGRATGKGFVEFAAKPPARKALE 155
>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 = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 39/67 (58%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
+++++G + Y+ E ++ AF G I + + D VT + +G+ FV++ AA A++
Sbjct: 29 SRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 88
Query: 87 EMDGLVC 93
+M+ ++
Sbjct: 89 QMNSVML 95
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 39/72 (54%)
Query: 18 RLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
+L +A + ++++ + D ++ +K F G+I + D TG+ +GYGF+++
Sbjct: 117 QLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEK 176
Query: 78 EAAAGEAIKEMD 89
++ +A+ M+
Sbjct: 177 AQSSQDAVSSMN 188
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
KLFIG + + +E LK F + G+I E+ V+ DR TG +G F+ + +A +A
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKA 71
>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 = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 38/65 (58%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
++++G + Y+ E ++ AF G I + + D VT + +G+ FV++ AA A+++
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 88 MDGLV 92
M+ ++
Sbjct: 75 MNSVM 79
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 39/72 (54%)
Query: 18 RLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
+L +A + ++++ + D ++ +K F G+I + D TG+ +GYGF+++
Sbjct: 102 QLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEK 161
Query: 78 EAAAGEAIKEMD 89
++ +A+ M+
Sbjct: 162 AQSSQDAVSSMN 173
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L++ L ++ L+ AF G I KV+ + G+S+G+GFV F+S A +A+ EM
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 89 DGLVCRT 95
+G + T
Sbjct: 76 NGRIVAT 82
>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 = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+++G + Y + L+ F G I + ++CD+ +G +GY +++FA + A+ M
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVA-M 97
Query: 89 DGLVCR 94
D V R
Sbjct: 98 DETVFR 103
>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 = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 35/69 (50%)
Query: 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
+S KLFIGGL N+ +K+ G + ++ D TG S+GY F ++
Sbjct: 111 PDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTD 170
Query: 83 EAIKEMDGL 91
+AI ++G+
Sbjct: 171 QAIAGLNGM 179
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 35/63 (55%), Gaps = 5/63 (7%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
K+++G L + N+T L+ AFG +G + V V G+ FV+F A +A++E
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSV-----WVARNPPGFAFVEFEDPRDAADAVRE 129
Query: 88 MDG 90
+DG
Sbjct: 130 LDG 132
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 39/71 (54%), Gaps = 5/71 (7%)
Query: 26 RTKLFIGGLSYDTNETVLKDAFGQHG--EIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
R L+IG L++ T + L +A G +I+E+K +R GQS+G+ V SEA++
Sbjct: 1 RIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSK- 59
Query: 84 AIKEMDGLVCR 94
K MD L R
Sbjct: 60 --KLMDLLPKR 68
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
Length = 88
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV--TGQSRGYGFVKFASEAAAGEA 84
K+F+G + +E L++ F Q+G + E+ V+ DR QS+G FV F + AA EA
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/109 (21%), Positives = 58/109 (53%), Gaps = 14/109 (12%)
Query: 5 NGSVRFSHSVRFTRLLSDANSRT-KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV 63
+GS + +RF +++ ++ + ++ GG++ + +++ F G+I+E++V ++
Sbjct: 3 SGSSGNTKQLRFEDVVNQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK- 61
Query: 64 TGQSRGYGFVKFASEAAAGEAIKEMDG-------LVCRTSKDTDMLSTG 105
GY FV+F++ +A AI ++G + C K++ +++G
Sbjct: 62 -----GYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKESPDMTSG 105
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLFIGGL N+ +K+ G + ++ D TG S+GY F ++ +AI
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 155
Query: 88 MDGL 91
++G+
Sbjct: 156 LNGM 159
>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 = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 89 DG 90
+G
Sbjct: 70 NG 71
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 89 DG 90
+G
Sbjct: 70 NG 71
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV--TGQSRGYGFVKFASEAAAGEA 84
K+F+G + +E L++ F Q+G + E+ V+ DR QS+G FV F + AA EA
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 75
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 39/80 (48%), Gaps = 4/80 (5%)
Query: 12 HSVRFTRLLSDANSRT---KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSR 68
H ++ S+ N+ KLFIG +S E ++ F G+I E +++ G SR
Sbjct: 90 HPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRIL-RGPDGLSR 148
Query: 69 GYGFVKFASEAAAGEAIKEM 88
G FV F + A A AIK M
Sbjct: 149 GCAFVTFTTRAMAQTAIKAM 168
>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 = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLFIGGL N+ +K+ G + ++ D TG S+GY F ++ +AI
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 157
Query: 88 MDGL 91
++G+
Sbjct: 158 LNGM 161
>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 = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 89 DG 90
+G
Sbjct: 70 NG 71
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV--TGQSRGYGFVKFASEAAAGEA 84
K+F+G + +E L++ F Q+G + E+ V+ DR QS+G FV F + AA EA
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 39/80 (48%), Gaps = 4/80 (5%)
Query: 12 HSVRFTRLLSDANSRT---KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSR 68
H ++ S+ N+ KLFIG +S E ++ F G+I E +++ G SR
Sbjct: 78 HPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRIL-RGPDGLSR 136
Query: 69 GYGFVKFASEAAAGEAIKEM 88
G FV F + A A AIK M
Sbjct: 137 GCAFVTFTTRAMAQTAIKAM 156
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLFIGGL N+ +K+ G + ++ D TG S+GY F ++ +AI
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 88 MDGL 91
++G+
Sbjct: 63 LNGM 66
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 89 DG 90
+G
Sbjct: 72 NG 73
>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 = 3e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 89 DG 90
+G
Sbjct: 86 NG 87
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 38/65 (58%), Gaps = 1/65 (1%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQ-SRGYGFVKFASEAAAGEAI 85
TK+ IG L+ + + + + F +G+I + + +R+ S+GY +V+F + A +A+
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKAL 64
Query: 86 KEMDG 90
K MDG
Sbjct: 65 KHMDG 69
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 89 DG 90
+G
Sbjct: 85 NG 86
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1
In Complex With Ugcaugu
Length = 109
Score = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
+L + + + + L+ FGQ G+I++V++I + S+G+GFV F + A A A ++
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 88
Query: 88 MDGLVCRTSK 97
+ G V K
Sbjct: 89 LHGTVVEGRK 98
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
+L + + + + L+ FGQ G+I++V++I + S+G+GFV F + A A A ++
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 74
Query: 88 MDGLVCRTSK 97
+ G V K
Sbjct: 75 LHGTVVEGRK 84
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 5/63 (7%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
K+++G L + N+T L+ AFG +G + V V G+ FV+F A +A+++
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSV-----WVARNPPGFAFVEFEDPRDAADAVRD 129
Query: 88 MDG 90
+DG
Sbjct: 130 LDG 132
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 21 SDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80
S ++ ++F+ L +D +LKD F + G ++ + + G+S+G G VKF S
Sbjct: 3 SGSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEV 60
Query: 81 AGEAIKEMDGL 91
A A + M+G+
Sbjct: 61 AERACRMMNGM 71
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
28
Length = 111
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%)
Query: 19 LLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASE 78
L SD +FI LS+D+ E L + Q G++ V+V+ T S+G F +F ++
Sbjct: 8 LPSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQ 67
Query: 79 AAA 81
AA
Sbjct: 68 EAA 70
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 8/62 (12%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
KLFIG L + E ++ F Q+G+++E +I + YGFV + AA +AI+
Sbjct: 9 VKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIR 60
Query: 87 EM 88
+
Sbjct: 61 NL 62
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 33/57 (57%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
KLF+G + +E LK F + G I E+ V+ DR+TG +G F+ + + +A +A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKA 73
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain
In Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+F+ L +D +LKD F + G ++ + + G+S+G G VKF S A A + M
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACRMM 65
Query: 89 DGL 91
+G+
Sbjct: 66 NGM 68
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 29 LFIGGLSYDTNETVLKDAFGQ-HGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
LF+G L+ D ++ +L + F + + KV+ D+ TG S+GYGFVKF E A+ E
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFTDELEQKRALTE 70
Query: 88 MDGLVCRTSKDTDM 101
G V SK +
Sbjct: 71 CQGAVGLGSKPVRL 84
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 39/71 (54%), Gaps = 5/71 (7%)
Query: 26 RTKLFIGGLSYDTNETVLKDAFGQHG--EIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
R L+IG L++ T + L +A G +I+E+K +R GQS+G+ V SEA+
Sbjct: 68 RIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEAS--- 124
Query: 84 AIKEMDGLVCR 94
+ K MD L R
Sbjct: 125 SKKLMDLLPKR 135
>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 = 38.5 bits (88), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 35/64 (54%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
++++G + Y+ E ++ AF G I + D VT + +G+ FV++ AA A+++
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 88 MDGL 91
+ +
Sbjct: 74 XNSV 77
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 15/68 (22%), Positives = 37/68 (54%)
Query: 18 RLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
+L +A + ++++ + D ++ +K F G+I + D TG+ +GYGF+++
Sbjct: 101 QLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEK 160
Query: 78 EAAAGEAI 85
++ +A+
Sbjct: 161 AQSSQDAV 168
>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 = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV--TGQSRGYGFVKFASEAAAGEA 84
K F+G + +E L++ F Q+G + E+ V+ DR QS+G FV F + AA EA
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 38/78 (48%), Gaps = 4/78 (5%)
Query: 12 HSVRFTRLLSDANSRT---KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSR 68
H ++ S+ N+ KLFIG +S E ++ F G+I E +++ G SR
Sbjct: 78 HPIQXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQIEECRIL-RGPDGLSR 136
Query: 69 GYGFVKFASEAAAGEAIK 86
G FV F + A A AIK
Sbjct: 137 GCAFVTFTTRAXAQTAIK 154
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 36/70 (51%), Gaps = 6/70 (8%)
Query: 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
R++LF+G L D E ++ F ++G+ EV + D+ G+GF++ + A A
Sbjct: 21 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIA 74
Query: 85 IKEMDGLVCR 94
E+D + R
Sbjct: 75 KVELDNMPLR 84
>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 = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 32/63 (50%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LFI L + + L F G ++ KV D+ T S+ +GFV + + +A AI+ M
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 89 DGL 91
+G
Sbjct: 88 NGF 90
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ + + E +++ F +GEI + + DR TG S+GY V++ + A A + +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 89 DG 90
+G
Sbjct: 89 NG 90
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 36/69 (52%), Gaps = 6/69 (8%)
Query: 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85
R++LF+G L D E ++ F ++G+ EV + D+ G+GF++ + A A
Sbjct: 15 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEIAK 68
Query: 86 KEMDGLVCR 94
E+D + R
Sbjct: 69 VELDNMPLR 77
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ + + E +++ F +GEI + + DR TG S+GY V++ + A A + +
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 89 DG 90
+G
Sbjct: 135 NG 136
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+F+G L E +L + F Q G + +V + DR G+ + +GFV F + AI +
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDR-EGKPKSFGFVCFKHPESVSYAIALL 77
Query: 89 DGL 91
+G+
Sbjct: 78 NGI 80
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHG--EIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
N R +++G S+ T + L G +++E+K +R GQS+GY V ASE +
Sbjct: 53 NRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSV 112
Query: 82 GEAIKEMDGLVCRTSK 97
+ ++ + G V K
Sbjct: 113 HKLLELLPGKVLNGEK 128
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 34/70 (48%)
Query: 21 SDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80
D + L + L+Y T+ L+ F ++G + +V + + T RG+ FV+F
Sbjct: 8 PDVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRD 67
Query: 81 AGEAIKEMDG 90
A +A MDG
Sbjct: 68 AQDAEAAMDG 77
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 20 LSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEA 79
L S KLF+G L+ +E ++ F G I E ++ G S+G FVK++S A
Sbjct: 9 LRQPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTIL-RGPDGNSKGCAFVKYSSHA 67
Query: 80 AAGEAIKEMDG 90
A AI + G
Sbjct: 68 EAQAAINALHG 78
>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 = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 38/62 (61%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L++G LS+ T E + + F + G+I ++ + D++ + G+ FV++ S A A A++ +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 89 DG 90
+G
Sbjct: 102 NG 103
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76
+A++R+ +++G + Y L+ F G + V ++CD+ +G +G+ +++F+
Sbjct: 2 EADARS-IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFS 55
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of
Hypothetical Polyadenylate-Binding Protein (Pabpn1)
From Homo Sapiens At 1.95 A Resolution
Length = 89
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76
+A++R+ +++G + Y L+ F G + V ++CD+ +G +G+ +++F+
Sbjct: 3 EADARS-IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFS 56
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 9/71 (12%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI--- 85
L + LSY E L++ F + I+V G+S+GY F++FAS A EA+
Sbjct: 18 LVLSNLSYSATEETLQEVF-EKATFIKVP---QNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 86 --KEMDGLVCR 94
+E++G R
Sbjct: 74 NKREIEGRAIR 84
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 8/62 (12%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ L+ E +L+ AF Q G++ VK + D Y F+ F A +A++EM
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEEM 65
Query: 89 DG 90
+G
Sbjct: 66 NG 67
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 8/77 (10%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
K+F+G +S L+ F + G +IE V+ D Y FV EA A AI +
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIAQ 62
Query: 88 MDGLVCRTSKDTDMLST 104
++G + + LST
Sbjct: 63 LNGKEVKGKRINVELST 79
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 35.0 bits (79), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 8/62 (12%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ L+ E +L+ +F + G++ VK + D Y FV F AA +A+ EM
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVHFEDRGAAVKAMDEM 69
Query: 89 DG 90
+G
Sbjct: 70 NG 71
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 6/55 (10%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
T L++GGL ET L++ F Q GEI + V+ Q + F++FA+ AA
Sbjct: 13 TTLYVGGLGDTITETDLRNHFYQFGEIRTITVV------QRQQCAFIQFATRQAA 61
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 33.9 bits (76), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 1/71 (1%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
T L+I L +E L++ G++I +++ D +G SRG GF + S I
Sbjct: 26 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEAVIG 84
Query: 87 EMDGLVCRTSK 97
+G +T
Sbjct: 85 HFNGKFIKTPP 95
>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 = 33.5 bits (75), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L++G LS+ T E + + F + G+I ++ + D++ G+ FV++ S A A A++ +
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTAC-GFCFVEYYSRADAENAMRYI 79
Query: 89 DG 90
+G
Sbjct: 80 NG 81
>pdb|2U1A|A Chain A, Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20
Structures
Length = 88
Score = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 32/72 (44%), Gaps = 5/72 (6%)
Query: 20 LSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEA 79
LS+ LF+ L +TNE +L F Q EV+++ R FV+F +E
Sbjct: 7 LSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR-----HDIAFVEFDNEV 61
Query: 80 AAGEAIKEMDGL 91
AG A + G
Sbjct: 62 QAGAARDALQGF 73
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQ---SRGYGFVKFASEAAAGEAI 85
LFI L++ T E LK F + G I + + S G+GFV++ A +A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 86 KEMDG 90
K++ G
Sbjct: 68 KQLQG 72
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 33.1 bits (74), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 1/64 (1%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
+ +F+ L Y LK+ F G ++ ++ D+ G+SRG G V F A +AI
Sbjct: 16 STVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDK-DGKSRGIGTVTFEQSIEAVQAIS 74
Query: 87 EMDG 90
+G
Sbjct: 75 MFNG 78
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
AN T+L++GGL +T+ L F + G I + D V G S + ++++ S AA
Sbjct: 14 ANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTI----DHVKGDS--FAYIQYESLDAAQ 67
Query: 83 EAIKEMDGL 91
A +M G
Sbjct: 68 AACAKMRGF 76
>pdb|2B0G|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
pdb|2AYM|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
Length = 83
Score = 33.1 bits (74), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ L +TNE +L F Q EV+++ +R FV+F +E + A + +
Sbjct: 11 LFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNR-----HDIAFVEFTTELQSNAAKEAL 65
Query: 89 DGL 91
G
Sbjct: 66 QGF 68
>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 = 33.1 bits (74), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 32/72 (44%), Gaps = 5/72 (6%)
Query: 20 LSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEA 79
LS+ LF+ L +TNE +L F Q EV+++ R FV+F +E
Sbjct: 201 LSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR-----HDIAFVEFDNEV 255
Query: 80 AAGEAIKEMDGL 91
AG A + G
Sbjct: 256 QAGAARDALQGF 267
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 32.7 bits (73), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV-TGQSRGYGFVKFASEAAAGEAI 85
+K+ + + + N+ +++ F GE+ V++ TG RG+GFV F ++ A +A
Sbjct: 16 SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
Query: 86 KEM 88
+
Sbjct: 76 NAL 78
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 32.7 bits (73), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 8/63 (12%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
TKL +G +S L+ F ++G +IE ++ D Y FV A EAI+
Sbjct: 11 TKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIR 62
Query: 87 EMD 89
+D
Sbjct: 63 GLD 65
>pdb|3S8S|A Chain A, Crystal Structure Of The Rrm Domain Of Human Setd1a
Length = 110
Score = 32.3 bits (72), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 29/55 (52%)
Query: 34 LSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L+ + ET LKD ++GE+ EV+++ T + G V F S A E +K +
Sbjct: 14 LNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNL 68
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 32.3 bits (72), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLF+G L+ +E + F G I E V+ G S+G FVKF+S A AI
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVL-RGPDGSSKGCAFVKFSSHTEAQAAIHA 75
Query: 88 MDG 90
+ G
Sbjct: 76 LHG 78
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 32.0 bits (71), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
K+++G L + L+ AF +G + V + + G+ FV+F A +A++
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRG 56
Query: 88 MDGLVCRTSKDTDMLSTG 105
+DG V S+ LSTG
Sbjct: 57 LDGKVICGSRVRVELSTG 74
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 5/62 (8%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L LS++ E LK+ F + +E++++ G+S+G +++F SEA A + ++E
Sbjct: 19 LLAKNLSFNITEDELKEVFE---DALEIRLVSQ--DGKSKGIAYIEFKSEADAEKNLEEK 73
Query: 89 DG 90
G
Sbjct: 74 QG 75
>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 = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 5/62 (8%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L LS++ E LK+ F + +E++++ G+S+G +++F SEA A + ++E
Sbjct: 102 LLAKNLSFNITEDELKEVFE---DALEIRLVSQ--DGKSKGIAYIEFKSEADAEKNLEEK 156
Query: 89 DG 90
G
Sbjct: 157 QG 158
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 5/55 (9%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
+K+F+G + D L+ F Q+GE+++V + R + FV FA + A
Sbjct: 12 SKVFVGRCTEDMTAEELQQFFCQYGEVVDV-----FIPKPFRAFAFVTFADDKVA 61
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 3/69 (4%)
Query: 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
D RT L++G LS D E ++ F Q G K+I + + Y FV+F A
Sbjct: 12 DGQPRT-LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVEFYEHRDA 68
Query: 82 GEAIKEMDG 90
A+ M+G
Sbjct: 69 AAALAAMNG 77
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 20/26 (76%)
Query: 65 GQSRGYGFVKFASEAAAGEAIKEMDG 90
G+++GY F+++AS A A +A+K DG
Sbjct: 44 GKTKGYIFLEYASPAHAVDAVKNADG 69
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 5/74 (6%)
Query: 18 RLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
RL + N L+I L Y + D FG++G I +++V T ++RG +V +
Sbjct: 2 RLPPEVNR--ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGN---TPETRGTAYVVYED 56
Query: 78 EAAAGEAIKEMDGL 91
A A+ + G
Sbjct: 57 IFDAKNAVDHLSGF 70
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLF+G L + ++ F G I E V+ G S+G FVKF + A A AI
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVL-RGPDGTSKGCAFVKFQTHAEAQAAINT 72
Query: 88 M 88
+
Sbjct: 73 L 73
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 20/26 (76%)
Query: 65 GQSRGYGFVKFASEAAAGEAIKEMDG 90
G+++GY F+++AS A A +A+K DG
Sbjct: 58 GKTKGYIFLEYASPAHAVDAVKNADG 83
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 6/77 (7%)
Query: 18 RLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
RL + N L+I L Y + D FG++G I +++V T ++RG +V +
Sbjct: 6 RLPPEVNR--ILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYED 60
Query: 78 EAAAGEAIKEMDGL-VC 93
A A + G VC
Sbjct: 61 IFDAKNACDHLSGFNVC 77
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 6/77 (7%)
Query: 18 RLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
RL + N L+I L Y + D FG++G I +++V T ++RG +V +
Sbjct: 12 RLPPEVNR--ILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYED 66
Query: 78 EAAAGEAIKEMDGL-VC 93
A A + G VC
Sbjct: 67 IFDAKNACDHLSGFNVC 83
>pdb|1Z8D|A Chain A, Crystal Structure Of Human Muscle Glycogen Phosphorylase
A With Amp And Glucose
Length = 842
Score = 30.0 bits (66), Expect = 0.35, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
+R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 2 SRPLSDQEKRKQIXVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 54
>pdb|1C8L|A Chain A, Synergistic Inhibition Of Glycogen Phosphorylase A By A
Potential Antidiabetic Drug And Caffeine
pdb|1LWN|A Chain A, Crystal Structure Of Rabbit Muscle Glycogen
Phosphorylase A In Complex With A Potential
Hypoglycaemic Drug At 2.0 A Resolution
pdb|1LWO|A Chain A, Crystal Structure Of Rabbit Muscle Glycogen
Phosphorylase A In Complex With A Potential
Hypoglycaemic Drug At 2.0 A Resolution
pdb|3AMV|A Chain A, Allosteric Inhibition Of Glycogen Phosphorylase A By A
Potential Antidiabetic Drug
pdb|2GPA|A Chain A, Allosteric Inhibition Of Glycogen Phosphorylase A By A
Potential Antidiabetic Drug
Length = 842
Score = 30.0 bits (66), Expect = 0.35, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
+R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 1 SRPLSDQEKRKQIXVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 53
>pdb|1GPA|A Chain A, Structural Mechanism For Glycogen Phosphorylase Control
By Phosphorylation And Amp
pdb|1GPA|B Chain B, Structural Mechanism For Glycogen Phosphorylase Control
By Phosphorylation And Amp
pdb|1GPA|C Chain C, Structural Mechanism For Glycogen Phosphorylase Control
By Phosphorylation And Amp
pdb|1GPA|D Chain D, Structural Mechanism For Glycogen Phosphorylase Control
By Phosphorylation And Amp
Length = 842
Score = 30.0 bits (66), Expect = 0.35, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
+R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 1 SRPLSDQEKRKQIXVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 53
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 23/37 (62%)
Query: 55 EVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGL 91
+++I D+ T Q+RG+ FV+ +S A + ++ + L
Sbjct: 40 NIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSL 76
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 41 TVLKDA----FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDG 90
VLK A F + G+++ ++ D TG+++G+ FV+ S A + IK G
Sbjct: 23 PVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHG 76
>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 = 0.37, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 34 LSYDTNETVLKDAFGQHG-EIIEVKVICDRVTGQSRGYGFVKFA 76
L E ++ HG + EV+++ ++ +GQSRG+ FV+F+
Sbjct: 9 LPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFS 52
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 41 TVLKDA----FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDG 90
VLK A F + G+++ ++ D TG+++G+ FV+ S A + IK G
Sbjct: 23 PVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHG 76
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 29.6 bits (65), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 26/43 (60%)
Query: 43 LKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85
L+D F G++ +V++I DR + +S+G +V+F + AI
Sbjct: 42 LEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI 84
>pdb|1PYG|A Chain A, Structural Basis For The Activation Of Glycogen
Phosphorylase B By Adenosine Monophosphate
pdb|1PYG|B Chain B, Structural Basis For The Activation Of Glycogen
Phosphorylase B By Adenosine Monophosphate
pdb|1PYG|C Chain C, Structural Basis For The Activation Of Glycogen
Phosphorylase B By Adenosine Monophosphate
pdb|1PYG|D Chain D, Structural Basis For The Activation Of Glycogen
Phosphorylase B By Adenosine Monophosphate
pdb|2AMV|A Chain A, The Structure Of Glycogen Phosphorylase B With An Alkyl-
Dihydropyridine-Dicarboxylic Acid
pdb|1E1Y|A Chain A, Flavopiridol Inhibits Glycogen Phosphorylase By Binding
At The Inhibitor Site
pdb|1UZU|A Chain A, Glycogen Phosphorylase B In Complex With Indirubin-5'-
Sulphonate
pdb|1XC7|A Chain A, Binding Of Beta-D-Glucopyranosyl
Bismethoxyphosphoramidate To Glycogen Phosphorylase B:
Kinetic And Crystallographic Studies
pdb|1XKX|A Chain A, Kinetic And Crystallographic Studies On
2-(Beta-D-Glucopyranosyl)-5-
Methyl-1,3,4-Oxadiazole,-Benzothiazole,
And-Benzimidazole, Inhibitors Of Muscle Glycogen
Phosphorylase B. Evidence For A New Binding Site.
pdb|1XL0|A Chain A, Kinetic And Crystallographic Studies On
2-(Beta-D-Glucopyranosyl)-5-
Methyl-1,3,4-Oxadiazole,-Benzothiazole,
And-Benzimidazole, Inhibitors Of Muscle Glycogen
Phosphorylase B. Evidence For A New Binding Site.
pdb|1XL1|A Chain A, Kinetic And Crystallographic Studies On
2-(Beta-D-Glucopyranosyl)-5-
Methyl-1,3,4-Oxadiazole,-Benzothiazole,
And-Benzimidazole, Inhibitors Of Muscle Glycogen
Phosphorylase B. Evidence For A New Binding Site.
pdb|1Z62|A Chain A, Indirubin-3'-aminooxy-acetate Inhibits Glycogen
Phosphorylase By Binding At The Inhibitor And The
Allosteric Site. Broad Specificities Of The Two Sites
pdb|2F3P|A Chain A, Crystal Structure Of The Glycogen Phosphorylase B
N-(Beta-D- Glucopyranosyl)oxamic Acid Complex
pdb|2F3Q|A Chain A, Crystal Structure Of The Glycogen Phosphorylase B
METHYL-N-(Beta-D- Glucopyranosyl)oxamate Complex
pdb|2F3S|A Chain A, Crystal Structure Of The Glycogen Phosphorylase B
ETHYL-N- (Beta-D-Glucopyranosyl)oxamate Complex
pdb|2F3U|A Chain A, Crystal Structure Of The Glycogen Phosphorylase B
N-(Beta-D- Glucopyranosyl)-N'-Cyclopropyl Oxalamide
Complex
pdb|2FET|A Chain A, Synthesis Of C-D-Glycopyranosyl-Hydroquinones
And-Benzoquinones. Inhibition Of Ptp1b. Inhibition Of
And Binding To Glycogen Phosphorylase In The Crystal
pdb|2FF5|A Chain A, Synthesis Of C-D-Glycopyranosyl-Hydroquinones
And-Benzoquinones. Inhibition Of Ptp1b. Inhibition Of
And Binding To Glycogen Phosphorylase In The Crystal
pdb|1AXR|A Chain A, Cooperativity Between Hydrogen-Bonding And Charge-Dipole
Interactions In The Inhibition Of Beta-Glycosidases By
Azolopyridines: Evidence From A Study With Glycogen
Phosphorylase B
pdb|1GPY|A Chain A, Crystallographic Binding Studies On The Allosteric
Inhibitor Glucose- 6-Phosphate To T State Glycogen
Phosphorylase B
pdb|3BD7|A Chain A, Glycogen Phosphorylase Complex With 1(-D-Glucopyranosyl)
Thymine
pdb|3BD8|A Chain A, Glucogen Phosphorylase Complex With 1(-D-Glucopyranosyl)
Cytosine
pdb|3BDA|A Chain A, Glycogen Phosphorylase Complex With 1(-D-Glucopyranosyl)
Cyanuric Acid
Length = 842
Score = 29.6 bits (65), Expect = 0.46, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
+R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 1 SRPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 53
>pdb|7GPB|A Chain A, Structural Mechanism For Glycogen Phosphorylase Control
By Phosphorylation And Amp
pdb|7GPB|B Chain B, Structural Mechanism For Glycogen Phosphorylase Control
By Phosphorylation And Amp
pdb|7GPB|C Chain C, Structural Mechanism For Glycogen Phosphorylase Control
By Phosphorylation And Amp
pdb|7GPB|D Chain D, Structural Mechanism For Glycogen Phosphorylase Control
By Phosphorylation And Amp
pdb|9GPB|A Chain A, The Allosteric Transition Of Glycogen Phosphorylase
pdb|9GPB|B Chain B, The Allosteric Transition Of Glycogen Phosphorylase
pdb|9GPB|C Chain C, The Allosteric Transition Of Glycogen Phosphorylase
pdb|9GPB|D Chain D, The Allosteric Transition Of Glycogen Phosphorylase
pdb|1B4D|A Chain A, Amidocarbamate Inhibitor Of Glycogen Phosphorylase
pdb|1BX3|A Chain A, Effects Of Commonly Used Cryoprotectants On Glycogen
Phosphorylase Activity And Structure
pdb|2PRI|A Chain A, Binding Of 2-Deoxy-Glucose-6-Phosphate To Glycogen
Phosphorylase B
pdb|2PRJ|A Chain A, Binding Of N-Acetyl-Beta-D-Glucopyranosylamine To
Glycogen Phosphorylase B
pdb|2SKC|A Chain A, Pyridoxal Phosphorylase B In Complex With
Fluorophosphate, Glucose And Inosine-5'-Monophosphate
pdb|2SKD|A Chain A, Pyridoxal Phosphorylase B In Complex With Phosphate,
Glucose And Inosine-5'-Monophosphate
pdb|2SKE|A Chain A, Pyridoxal Phosphorylase B In Complex With Phosphite,
Glucose And Inosine-5'-monophosphate
pdb|1C8K|A Chain A, Flavopiridol Inhibits Glycogen Phosphorylase By Binding
At The Inhibitor Site
pdb|1GFZ|A Chain A, Flavopiridol Inhibits Glycogen Phosphorylase By Binding
At The Inhibitor Site
pdb|1GG8|A Chain A, Design Of Inhibitors Of Glycogen Phosphorylase: A Study
Of Alpha-And Beta-C-Glucosides And
1-Thio-Beta-D-Glucose Compounds
pdb|1FS4|A Chain A, Structures Of Glycogen Phosphorylase-Inhibitor Complexes
And The Implications For Structure-Based Drug Design
pdb|1FTQ|A Chain A, Structures Of Glycogen Phosphorylase-Inhibitor Complexes
And The Implications For Structure-Based Drug Design
pdb|1FTW|A Chain A, Structures Of Glycogen Phosphorylase-Inhibitor Complexes
And The Implications For Structure-Based Drug Design
pdb|1FTY|A Chain A, Structures Of Glycogen Phosphorylase-Inhibitor Complexes
And The Implications For Structure-Based Drug Design
pdb|1FU4|A Chain A, Structures Of Glycogen Phosphorylase-Inhibitor Complexes
And The Implications For Structure-Based Drug Design
pdb|1FU7|A Chain A, Structures Of Glycogen Phosphorylase-Inhibitor Complexes
And The Implications For Structure-Based Drug Design
pdb|1FU8|A Chain A, Structures Of Glycogen Phosphorylase-Inhibitor Complexes
And The Implications For Structure-Based Drug Design
pdb|1GGN|A Chain A, Structures Of Glycogen Phosphorylase-Inhibitor Complexes
And The Implications For Structure-Based Drug Design
pdb|1HLF|A Chain A, Binding Of Glucopyranosylidene-Spiro-Thiohydantoin To
Glycogen Phosphorylase B: Kinetic And Crystallographic
Stud
pdb|1H5U|A Chain A, The 1.76 A Resolution Crystal Structure Of Glycogen
Phosphorylase B Complexed With Glucose And Cp320626, A
Potential Antidiabetic Drug
pdb|1K06|A Chain A, Crystallographic Binding Study Of 100 Mm
N-Benzoyl-N'-Beta-D- Glucopyranosyl Urea To Glycogen
Phosphorylase B
pdb|1K08|A Chain A, Crystallographic Binding Study Of 10 Mm
N-Benzoyl-N'-Beta-D- Glucopyranosyl Urea To Glycogen
Phosphorylase B
pdb|1KTI|A Chain A, Binding Of 100 Mm N-Acetyl-N'-Beta-D-Glucopyranosyl Urea
To Glycogen Phosphorylase B: Kinetic And
Crystallographic Studies
pdb|1P29|A Chain A, Crystal Structure Of Glycogen Phosphorylase B In Complex
With Maltopentaose
pdb|1P2B|A Chain A, Crystal Structure Of Glycogen Phosphorylase B In Complex
With Maltoheptaose
pdb|1P2D|A Chain A, Crystal Structure Of Glycogen Phosphorylase B In Complex
With Beta Cyclodextrin
pdb|1P2G|A Chain A, Crystal Structure Of Glycogen Phosphorylase B In Complex
With Gamma Cyclodextrin
pdb|1P4G|A Chain A, Crystal Structure Of Glycogen Phosphorylase B In Complex
With C-(1- Azido-Alpha-D-Glucopyranosyl)formamide
pdb|1P4H|A Chain A, Crystal Structure Of Glycogen Phosphorylase B In Complex
With C-(1- Acetamido-alpha-d-glucopyranosyl) Formamide
pdb|1P4J|A Chain A, Crystal Structure Of Glycogen Phosphorylase B In Complex
With C-(1- Hydroxy-Beta-D-Glucopyranosyl)formamide
pdb|1WUT|A Chain A, Acyl Ureas As Human Liver Glycogen Phosphorylase
Inhibitors For The Treatment Of Type 2 Diabetes
pdb|1WUY|A Chain A, Crystallographic Studies On Acyl Ureas, A New Class Of
Inhibitors Of Glycogen Phosphorylase. Broad Specificity
Of The Allosteric Site
pdb|1WV0|A Chain A, Crystallographic Studies On Acyl Ureas, A New Class Of
Inhibitors Of Glycogen Phosphorylase. Broad Specificity
Of The Allosteric Site
pdb|1WV1|A Chain A, Crystallographic Studies On Acyl Ureas, A New Class Of
Inhibitors Of Glycogenphosphorylase. Broad Specificity
Of The Allosteric Site
pdb|1WW2|A Chain A, Crystallographic Studies On Two Bioisosteric Analogues,
N-Acetyl-Beta- D-Glucopyranosylamine And
N-Trifluoroacetyl-Beta-D- Glucopyranosylamine, Potent
Inhibitors Of Muscle Glycogen Phosphorylase
pdb|1WW3|A Chain A, Crystallographic Studies On Two Bioisosteric Analogues,
N-Acetyl-Beta- D-Glucopyranosylamine And
N-Trifluoroacetyl-Beta-D- Glucopyranosylamine, Potent
Inhibitors Of Muscle Glycogen Phosphorylase
pdb|2IEG|A Chain A, Crystal Structure Of Rabbit Muscle Glycogen
Phosphorylase In Complex With 3,4-Dihydro-2-Quinolone
pdb|2IEG|B Chain B, Crystal Structure Of Rabbit Muscle Glycogen
Phosphorylase In Complex With 3,4-Dihydro-2-Quinolone
pdb|2IEI|A Chain A, Crystal Structure Of Rabbit Muscle Glycogen
Phosphorylase In Complex With 3,4-Dihydro-2-Quinolone
pdb|2IEI|B Chain B, Crystal Structure Of Rabbit Muscle Glycogen
Phosphorylase In Complex With 3,4-Dihydro-2-Quinolone
pdb|1GPB|A Chain A, Glycogen Phosphorylase B: Description Of The Protein
Structure
pdb|2GPB|A Chain A, Comparison Of The Binding Of Glucose And
Glucose-1-Phosphate Derivatives To T-State Glycogen
Phosphorylase B
pdb|3GPB|A Chain A, Comparison Of The Binding Of Glucose And
Glucose-1-Phosphate Derivatives To T-State Glycogen
Phosphorylase B
pdb|4GPB|A Chain A, Comparison Of The Binding Of Glucose And
Glucose-1-Phosphate Derivatives To T-State Glycogen
Phosphorylase B
pdb|5GPB|A Chain A, Comparison Of The Binding Of Glucose And
Glucose-1-Phosphate Derivatives To T-State Glycogen
Phosphorylase B
pdb|6GPB|A Chain A, Refined Crystal Structure Of The Phosphorylase-Heptulose
2-Phosphate- Oligosaccharide-Amp Complex
pdb|8GPB|A Chain A, Structural Mechanism For Glycogen Phosphorylase Control
By Phosphorylation And Amp
pdb|2QN7|A Chain A, Glycogen Phosphorylase B In Complex With
N-4-Hydroxybenzoyl-N'-4-Beta- D-Glucopyranosyl Urea
pdb|2QN8|A Chain A, Glycogen Phosphorylase B In Complex With
N-4-nitrobenzoyl-n'-beta-d- Glucopyranosyl Urea
pdb|2QN9|A Chain A, Glycogen Phosphorylase In Complex With
N-4-Aminobenzoyl-N'-Beta-D- Glucopyranosyl Urea
Length = 842
Score = 29.6 bits (65), Expect = 0.46, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
+R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 1 SRPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 53
>pdb|1Z6P|A Chain A, Glycogen Phosphorylase Amp Site Inhibitor Complex
pdb|1Z6Q|A Chain A, Glycogen Phosphorylase With Inhibitor In The Amp Site
pdb|1A8I|A Chain A, Spirohydantoin Inhibitor Of Glycogen Phosphorylase
pdb|2GPN|A Chain A, 100 K Structure Of Glycogen Phosphorylase At 2.0
Angstroms Resolution
pdb|3E3O|A Chain A, Glycogen Phosphorylase R State-Imp Complex
pdb|3E3O|B Chain B, Glycogen Phosphorylase R State-Imp Complex
pdb|3E3O|C Chain C, Glycogen Phosphorylase R State-Imp Complex
pdb|3E3O|D Chain D, Glycogen Phosphorylase R State-Imp Complex
Length = 842
Score = 29.6 bits (65), Expect = 0.46, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
+R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 1 SRPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 53
>pdb|1NOI|A Chain A, Complex Of Glycogen Phosphorylase With A Transition
State Analogue Nojirimycin Tetrazole And Phosphate In
The T And R States
pdb|1NOI|B Chain B, Complex Of Glycogen Phosphorylase With A Transition
State Analogue Nojirimycin Tetrazole And Phosphate In
The T And R States
pdb|1NOI|C Chain C, Complex Of Glycogen Phosphorylase With A Transition
State Analogue Nojirimycin Tetrazole And Phosphate In
The T And R States
pdb|1NOI|D Chain D, Complex Of Glycogen Phosphorylase With A Transition
State Analogue Nojirimycin Tetrazole And Phosphate In
The T And R States
pdb|1NOJ|A Chain A, Complex Of Glycogen Phosphorylase With A Transition
State Analogue Nojirimycin Tetrazole And Phosphate In
The T State
pdb|1NOK|A Chain A, Complex Of Glycogen Phosphorylase With A Transition
State Analogue Nojirimycin Tetrazole And Phosphate In
The T State
Length = 842
Score = 29.6 bits (65), Expect = 0.46, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
+R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 1 SRPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 53
>pdb|2PYD|A Chain A, The Crystal Structure Of Glycogen Phosphorylase In
Complex With Glucose At 100 K
pdb|2PYI|A Chain A, Crystal Structure Of Glycogen Phosphorylase In Complex
With Glucosyl Triazoleacetamide
pdb|3L79|A Chain A, Crystal Structure Of Glycogen Phosphorylase Dk1 Complex
pdb|3L7A|A Chain A, Crystal Structure Of Glycogen Phosphorylase Dk2 Complex
pdb|3L7B|A Chain A, Crystal Structure Of Glycogen Phosphorylase Dk3 Complex
pdb|3L7C|A Chain A, Crystal Structure Of Glycogen Phosphorylase Dk4 Complex
pdb|3L7D|A Chain A, Crystal Structure Of Glycogen Phosphorylase Dk5 Complex
Length = 843
Score = 29.6 bits (65), Expect = 0.46, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
+R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 2 SRPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 54
>pdb|2G9Q|A Chain A, The Crystal Structure Of The Glycogen Phosphorylase B-
1ab Complex
pdb|2G9R|A Chain A, The Crystal Structure Of Glycogen Phosphorylase B In
Complex With (3r,
4r,5r)-5-Hydroxymethyl-1-(3-Phenylpropyl)-Piperidine-3,
4-Diol
pdb|2G9U|A Chain A, The Crystal Structure Of Glycogen Phosphorylase In
Complex With (3r,
4r,5r)-5-Hydroxymethyl-1-(3-Phenylpropyl)-Piperidine-3,
4-Diol And Phosphate
pdb|2G9V|A Chain A, The Crystal Structure Of Glycogen Phosphorylase In
Complex With (3r,
4r,5r)-5-Hydroxymethylpiperidine-3,4-Diol And Phosphate
pdb|2OFF|A Chain A, The Crystal Structure Of Glycogen Phosphorylase B In
Complex With A Potent Allosteric Inhibitor
pdb|2QN1|A Chain A, Glycogen Phosphorylase B In Complex With Asiatic Acid
pdb|2QN2|A Chain A, Glycogen Phosphorylase B In Complex With Maslinic Acid
pdb|2QLM|A Chain A, Glycogen Phosphorylase In Complex With Fn67
pdb|2QLN|A Chain A, Glycogen Phosphorylase B In Complex With
N-4-Phenylbenzoyl- N'-Beta-D-Glucopyranosyl Urea
pdb|2QN3|A Chain A, Glycogen Phosphorylase In Complex With
N-4-Chlorobenzoyl-N- Beta-D-Glucopyranosyl Urea
pdb|2QNB|A Chain A, Glycogen Phosphorylase B In Complex With
N-Benzoyl-N'-Beta- D-Glucopyranosyl Urea
pdb|2QRM|A Chain A, Glycogen Phosphorylase B In Complex With (1r)-3'-(4-
Nitrophenyl)-Spiro[1,5-Anhydro-D-Glucitol-1,
5'-Isoxazoline]
pdb|2QRP|A Chain A, Glycogen Phosphorylase B In Complex With (1r)-3'-(2-
Naphthyl)-Spiro[1,5-Anhydro-D-Glucitol-1,
5'-Isoxazoline]
pdb|2QRQ|A Chain A, Glycogen Phosphorylase B In Complex With (1r)-3'-(4-
Methylphenyl)-Spiro[1,5-Anhydro-D-Glucitol-1,5'-
Isoxazoline]
pdb|2QRG|A Chain A, Glycogen Phosphorylase B In Complex With (1r)-3'-(4-
Methoxyphenyl)-Spiro[1,5-Anhydro-D-Glucitol-1,5'-
Isoxazoline]
pdb|2QRH|A Chain A, Glycogen Phosphorylase B In Complex With (1r)-3'-
Phenylspiro[1,5-Anhydro-D-Glucitol-1,5'-Isoxazoline]
pdb|3BCR|A Chain A, Glycogen Phosphorylase B In Complex With Azt
pdb|3BCS|A Chain A, Glycogen Phosphorylase Complex With 1(-D-Glucopyranosyl)
Uracil
pdb|3BCU|A Chain A, Glucogen Phosphorylase Complex With Thymidine
pdb|3BD6|A Chain A, Glycogen Phosphorylase Complex With 1(-D-Ribofuranosyl)
Cyanuric Acid
pdb|3E3L|A Chain A, The R-state Glycogen Phosphorylase
pdb|3E3L|B Chain B, The R-state Glycogen Phosphorylase
pdb|3E3L|C Chain C, The R-state Glycogen Phosphorylase
pdb|3E3L|D Chain D, The R-state Glycogen Phosphorylase
pdb|3CUT|A Chain A, Crystal Structure Of Glycogen Phosphorylase B In Complex
With N-(-D-Glucopyranosyl)-N'-(2-Naphthyl)oxamide
pdb|3CUU|A Chain A, Crystal Structure Of Glycogen Phosphorylase B In Complex
With N-(-D-Glucopyranosyl)-N'-(2-Naphthyl)oxamides
pdb|3CUV|A Chain A, Tracking Structure Activity Relationships Of Glycogen
Phosphorylase Inhibitors: Synthesis, Kinetic And
Crystallographic Evaluation Of Analogues Of N-(-D-
Glucopyranosyl)-N'-Oxamides
pdb|3CUW|A Chain A, Crystal Structure Of Glycogen Phosphorylase B In Complex
With N-(-D-Glucopyranosyl)-N'-(2-Naphthyl)oxamides
pdb|3E3N|A Chain A, The Glycogen Phosphorylase B R State- Amp Complex
pdb|3E3N|B Chain B, The Glycogen Phosphorylase B R State- Amp Complex
pdb|3E3N|C Chain C, The Glycogen Phosphorylase B R State- Amp Complex
pdb|3E3N|D Chain D, The Glycogen Phosphorylase B R State- Amp Complex
pdb|3E3N|E Chain E, The Glycogen Phosphorylase B R State- Amp Complex
pdb|3E3N|F Chain F, The Glycogen Phosphorylase B R State- Amp Complex
pdb|3E3N|G Chain G, The Glycogen Phosphorylase B R State- Amp Complex
pdb|3E3N|H Chain H, The Glycogen Phosphorylase B R State- Amp Complex
pdb|3EBO|A Chain A, Glycogen Phosphorylase B/chrysin Complex
pdb|3EBP|A Chain A, Glycogen Phosphorylase B/flavopiridol Complex
pdb|3G2H|A Chain A, Crystal Structure Of 1-(Beta-D-Glucopyranosyl)-4-
Substituted-1,2,3-Triazoles In Complex With Glycogen
Phosphorylase
pdb|3G2I|A Chain A, Crystal Structure Of 1-(Beta-D-Glucopyranosyl)-4-
Substituted-1,2,3-Triazole
pdb|3G2J|A Chain A, Crystal Structure Of 1-(Beta-D-Glucopyranosyl)-4-
Substituted-1,2,3-Triazoles In Complex With Glycogen
Phosphorylase
pdb|3G2K|A Chain A, Crystal Structure Of 1-(Beta-D-Glucopyranosyl)-4-
Substituted-1,2,3-Triazole
pdb|3G2L|A Chain A, Crystal Structure Of 1-(Beta-D-Glucopyranosyl)-4-
Substituted-1,2,3-Triazoles In Complex With Glycogen
Phosphorylase
pdb|3G2N|A Chain A, Crystal Structure Of N-Acylglucosylamine With Glycogen
Phosphorylase
pdb|3MQF|A Chain A, Glycogen Phosphorylase Complexed With
4-Fluorobenzaldehyde-4-(Beta-D-
Glucopyranosyl)-Thiosemicarbazone
pdb|3MRT|A Chain A, Glycogen Phosphorylase Complexed With
4-Pyridinecarboxaldehyde-4- (Beta-D-Glucopyranosyl)
Thiosemicarbazone
pdb|3MRV|A Chain A, Glycogen Phosphorylase Complexed With
3-Hydroxybenzaldehyde-4-(Beta-D- Glucopyranosyl)
Thiosemicarbazone
pdb|3MRX|A Chain A, Glycogen Phosphorylase Complexed With
4-Methoxybenzaldehyde-4-(2,3,4,
6-Tetra-O-Acetyl-Beta-D-Glucopyranosyl)-
Thiosemicarbazone
pdb|3MS2|A Chain A, Glycogen Phosphorylase Complexed With
4-Methylbenzaldehyde-4-(Beta-D- Glucopyranosyl)
Thiosemicarbazone
pdb|3MS4|A Chain A, Glycogen Phosphorylase Complexed With
4-Trifluoromethylbenzaldehyde-4-
(Beta-D-Glucopyranosyl)-Thiosemicarbazone
pdb|3MS7|A Chain A, Glycogen Phosphorylase Complexed With
2-Chlorobenzaldehyde-4-(2,3,4,6-
Tetra-O-Acetyl-Beta-D-Glucopyranosyl) Thiosemicarbazone
pdb|3MT7|A Chain A, Glycogen Phosphorylase Complexed With
4-Bromobenzaldehyde-4-(Beta-D-
Glucopyranosyl)-Thiosemicarbazone
pdb|3MT8|A Chain A, Glycogen Phosphorylase Complexed With
4-Chlorobenzaldehyde-4-(Beta-D-
Glucopyranosyl)-Thiosemicarbazone
pdb|3MT9|A Chain A, Glycogen Phosphorylase Complexed With
4-Nitrobenzaldehyde-4-(Beta-D-
Glucopyranosyl)-Thiosemicarbazone
pdb|3MTA|A Chain A, Glycogen Phosphorylase Complexed With
3-Bromobenzaldehyde-4-(Beta-D-
Glucopyranosyl)-Thiosemicarbazone
pdb|3MTB|A Chain A, Glycogen Phosphorylase Complexed With
3-Chlorobenzaldehyde-4-(Beta-D-
Glucopyranosyl)-Thiosemicarbazone
pdb|3MTD|A Chain A, Glycogen Phosphorylase Complexed With
4-Hydroxybenzaldehyde-4-(Beta-D-
Glucopyranosyl)-Thiosemicarbazone
pdb|3MSC|A Chain A, Glycogen Phosphorylase Complexed With
2-Nitrobenzaldehyde-4-(Beta-D-
Glucopyranosyl)-Thiosemicarbazone
pdb|3NP7|A Chain A, Glycogen Phosphorylase Complexed With
2,5-Dihydroxy-3-(Beta-D- Glucopyranosyl)-Chlorobenzene
And 2,5-Dihydroxy-4-(Beta-D-
Glucopyranosyl)-Chlorobenzene
pdb|3NP9|A Chain A, Glycogen Phosphorylase Complexed With
3-(Beta-D-Glucopyranosyl)-2-
Hydroxy-5-Methoxy-Chlorobenzene
pdb|3NPA|A Chain A, Glycogen Phosphorylase Complexed With
2,5-Dihydroxy-4-(Beta-D- Glucopyranosyl)-Bromo-Benzene
pdb|3S0J|A Chain A, The Crystal Structure Of Glycogen Phosphorylase B In
Complex With 2,5-
Dihydroxy-4-(Beta-D-Glucopyranosyl)-Chlorobenzene
pdb|3SYM|A Chain A, Glycogen Phosphorylase B In Complex With 3
-C-(Hydroxymethyl)-Beta-D- Glucopyranonucleoside Of
5-Fluorouracil
pdb|3SYR|A Chain A, Glycogen Phosphorylase B In Complex With
Beta-D-Glucopyranonucleoside 5-Fluorouracil
pdb|3T3D|A Chain A, Glycogen Phosphorylase B In Complex With Glcu
pdb|3T3E|A Chain A, Glycogen Phosphorylase B In Complex With Glcclu
pdb|3T3G|A Chain A, Glycogen Phosphorylase B In Complex With Glcbru
pdb|3T3H|A Chain A, Glycogen Phosphorylase B In Complex With Glciu
pdb|3T3I|A Chain A, Glycogen Phosphorylase B In Complex With Glccf3u
Length = 842
Score = 29.6 bits (65), Expect = 0.46, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 17 TRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
+R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 1 SRPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 53
>pdb|3NC4|A Chain A, The Binding Of Beta-D-Glucopyranosyl-Thiosemicarbazone
Derivatives To Glycogen Phosphorylase: A New Class Of
Inhibitors
Length = 841
Score = 28.9 bits (63), Expect = 0.69, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 18 RLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 1 RPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 52
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
+F+G + D E L++ F Q+G++++V + R + FV FA + A
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDV-----FIPKPFRAFAFVTFADDQIA 55
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 28.5 bits (62), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 3/69 (4%)
Query: 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
N+ ++++G L D ++D F ++G I ++ + +R G + FV+F A
Sbjct: 19 GNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDID-LKNRRGGPP--FAFVEFEDPRDAE 75
Query: 83 EAIKEMDGL 91
+A+ DG
Sbjct: 76 DAVYGRDGY 84
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/62 (22%), Positives = 28/62 (45%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L + L + ++ G + ++ TGQS+GYGF ++ + +A A ++
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 89 DG 90
G
Sbjct: 158 LG 159
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/62 (22%), Positives = 28/62 (45%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L + L + ++ G + ++ TGQS+GYGF ++ + +A A ++
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 89 DG 90
G
Sbjct: 158 LG 159
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/62 (22%), Positives = 28/62 (45%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L + L + ++ G + ++ TGQS+GYGF ++ + +A A ++
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 155
Query: 89 DG 90
G
Sbjct: 156 LG 157
>pdb|2DNN|A Chain A, Solution Structure Of Rna Binding Domain In Rna-Binding
Protein 12
Length = 109
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 31 IGGLSYDTNETVLKDAFGQHG-EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
+ G+ + E ++D F HG + V ++ D V G++ G G VKF S EA+K
Sbjct: 21 VHGMPFSAMENDVRDFF--HGLRVDAVHLLKDHV-GRNNGNGLVKFLSPQDTFEALK 74
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 33/78 (42%), Gaps = 10/78 (12%)
Query: 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIE---------VKVICDRVTGQSRGYGF 72
D + +F+ GL + + D F Q G II+ + + DR TG+ +G
Sbjct: 3 DNSDNNTIFVQGLGENVTIESVADYFKQIG-IIKTNKKTGQPMINLYTDRETGKLKGEAT 61
Query: 73 VKFASEAAAGEAIKEMDG 90
V F +A AI DG
Sbjct: 62 VSFDDPPSAKAAIDWFDG 79
>pdb|1KZH|A Chain A, Structure Of A Pyrophosphate-dependent Phosphofructokinase
From The Lyme Disease Spirochete Borrelia Burgdorferi
pdb|1KZH|B Chain B, Structure Of A Pyrophosphate-dependent Phosphofructokinase
From The Lyme Disease Spirochete Borrelia Burgdorferi
pdb|2F48|A Chain A, Crystal Structure Of A Novel Fructose 1,6-Bisphosphate And
Alf3 Containing Pyrophosphate-Dependent
Phosphofructo-1-Kinase Complex From Borrelia Burgdorferi
pdb|2F48|B Chain B, Crystal Structure Of A Novel Fructose 1,6-Bisphosphate And
Alf3 Containing Pyrophosphate-Dependent
Phosphofructo-1-Kinase Complex From Borrelia Burgdorferi
Length = 555
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 2/77 (2%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRG-YGFVKFASEAAAG 82
N + IGG +TN +L + F ++GE I+V + + R + + F ++A
Sbjct: 166 NLNAIIIIGGDDSNTNAAILAEYFKKNGENIQVIGVPKTIDADLRNDHIEISFGFDSAT- 224
Query: 83 EAIKEMDGLVCRTSKDT 99
+ E+ G +CR + T
Sbjct: 225 KIYSELIGNLCRDAMST 241
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 6/72 (8%)
Query: 21 SDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80
S ++ KL+IG LS L+ FG + +V+ GY FV + +
Sbjct: 3 SGSSGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL------KSGYAFVDYPDQNW 56
Query: 81 AGEAIKEMDGLV 92
A AI+ + G V
Sbjct: 57 AIRAIETLSGKV 68
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 7/77 (9%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEII--EVKVICDRVTGQSRGYGFVKFASEA---AAG 82
K+F+GGL D +E + +F + G ++ + +GY F+ F E+ A
Sbjct: 10 KVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEESSVQALI 69
Query: 83 EAIKEMDG--LVCRTSK 97
+A E DG +C +S
Sbjct: 70 DACLEEDGKLYLCVSSP 86
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 29/70 (41%), Gaps = 8/70 (11%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEI--------IEVKVICDRVTGQSRGYGFVKFASEAA 80
+F+ GL + + D F Q G I + + DR TG+ +G V F +
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 81 AGEAIKEMDG 90
A AI DG
Sbjct: 76 AKAAIDWFDG 85
>pdb|2R9Z|A Chain A, Glutathione Amide Reductase From Chromatium Gracile
pdb|2R9Z|B Chain B, Glutathione Amide Reductase From Chromatium Gracile
pdb|2RAB|A Chain A, Structure Of Glutathione Amide Reductase From Chromatium
Gracile In Complex With Nad
pdb|2RAB|B Chain B, Structure Of Glutathione Amide Reductase From Chromatium
Gracile In Complex With Nad
Length = 463
Score = 25.8 bits (55), Expect = 7.2, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 4/63 (6%)
Query: 7 SVRFSHSVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVIC----DR 62
+V F+H LS+ +R +L Y+T+ T ++ A +HG +K++C R
Sbjct: 340 TVVFAHPPLSKVGLSEPEARERLGDVLTVYETSFTPMRYALNEHGPKTAMKLVCAGPEQR 399
Query: 63 VTG 65
V G
Sbjct: 400 VVG 402
>pdb|1JMT|A Chain A, X-Ray Structure Of A Core U2af65U2AF35 HETERODIMER
Length = 104
Score = 25.4 bits (54), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 40 ETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDG 90
E V + ++GE+ E+ V CD + G +VKF E A +A+ +++
Sbjct: 41 EEVFTEMEEKYGEVEEMNV-CDNLGDHLVGNVYVKFRREEDAEKAVIDLNN 90
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.134 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,972,435
Number of Sequences: 62578
Number of extensions: 103648
Number of successful extensions: 505
Number of sequences better than 100.0: 185
Number of HSP's better than 100.0 without gapping: 158
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 295
Number of HSP's gapped (non-prelim): 211
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)