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= 034004
(106 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 79.7 bits (195), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 40/78 (51%), Positives = 55/78 (70%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLF+GGLS+DTNE L+ F ++G+I EV V+ DR T +SRG+GFV F + A +A+
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 88 MDGLLLDGRNIRVNYAHK 105
M+G +DGR IRV+ A K
Sbjct: 74 MNGKSVDGRQIRVDQAGK 91
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 77.0 bits (188), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 40/79 (50%), Positives = 53/79 (67%), Gaps = 1/79 (1%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLFIGGL+ +TNE +LK FG+HG I EV +I DR T +SRG+ F+ F + A A A K+
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 88 MDGLLLDGRNIRVNYAHKD 106
M+G L G+ I+V A K
Sbjct: 68 MNGKSLHGKAIKVEQAKKP 86
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 37/84 (44%), Positives = 52/84 (61%)
Query: 20 LSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEA 79
+S+ N +++GGL +E +L + F Q G ++ + DRVTGQ +GYGFV+F SE
Sbjct: 9 ISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEE 68
Query: 80 AAGEAIKEMDGLLLDGRNIRVNYA 103
A AIK MD + L G+ IRVN A
Sbjct: 69 DADYAIKIMDMIKLYGKPIRVNKA 92
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 38/78 (48%), Positives = 49/78 (62%), Gaps = 1/78 (1%)
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 EMDGLLLDGRNIRVNYAH 104
+ + ++DGR VN A+
Sbjct: 78 DPN-PIIDGRKANVNLAY 94
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 66.2 bits (160), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/82 (40%), Positives = 50/82 (60%)
Query: 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
D+++ +F+G LS + +K AF G I + +V+ D TG+S+GYGFV F ++ A
Sbjct: 11 DTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDA 70
Query: 82 GEAIKEMDGLLLDGRNIRVNYA 103
AI++M G L GR IR N+A
Sbjct: 71 ENAIQQMGGQWLGGRQIRTNWA 92
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 65.5 bits (158), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 39/109 (35%), Positives = 59/109 (54%), Gaps = 4/109 (3%)
Query: 1 MQWLNGSVRFSHSVR----FIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEV 56
+Q LNG ++ V+ F S S+ LF+G L+ + ++ L++AF +
Sbjct: 58 LQTLNGKQIENNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSG 117
Query: 57 KVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAHK 105
V+ D TG SRGYGFV F S+ A A+ M G L+GR +R+N+A K
Sbjct: 118 HVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK 166
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 41/77 (53%), Gaps = 1/77 (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 DGLLLDGRNIRVNYAHK 105
+G ++ +++N+A +
Sbjct: 62 NGKQIENNIVKINWAFQ 78
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 65.1 bits (157), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 30/71 (42%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLF+GGL + T + L+ F Q+GE+++ ++ D+ T QSRG+GFVKF G +
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 88 MDGLLLDGRNI 98
LDGRNI
Sbjct: 78 RP-HTLDGRNI 87
>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 = 65.1 bits (157), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 33/91 (36%), Positives = 52/91 (57%)
Query: 13 SVRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
S+ + R D T L + L+Y T+ L+ F ++G + +V + DR T +SRG+ F
Sbjct: 34 SMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAF 93
Query: 73 VKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103
V+F + A +A+ MDG +LDGR +RV A
Sbjct: 94 VRFHDKRDAEDAMDAMDGAVLDGRELRVQMA 124
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 33/82 (40%), Positives = 49/82 (59%)
Query: 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
D+++ +F+G LS + +K AF G+I + +V+ D TG+S+GYGFV F ++ A
Sbjct: 11 DTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDA 70
Query: 82 GEAIKEMDGLLLDGRNIRVNYA 103
AI M G L GR IR N+A
Sbjct: 71 ENAIVHMGGQWLGGRQIRTNWA 92
>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 = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 28/72 (38%), Positives = 50/72 (69%), Gaps = 3/72 (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 ---MDGLLLDGR 96
+DG ++D +
Sbjct: 65 QHILDGKVIDPK 76
Score = 50.1 bits (118), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 19 LLSDSNSRT-KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
+ D +T K+F+GG+ D ++ F Q G II+ +++ D+ TGQSRG+GFV + S
Sbjct: 79 IPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDS 138
Query: 78 EAA 80
A
Sbjct: 139 ADA 141
>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 = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 46/78 (58%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
LF+G L+ + ++ L++AF + V+ D TG SRGYGFV F S+ A A+
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 88 MDGLLLDGRNIRVNYAHK 105
M G L+GR +R+N+A K
Sbjct: 63 MQGQDLNGRPLRINWAAK 80
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 62.8 bits (151), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 48/82 (58%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
+S+T L + L + + K FG G+I K++ D++TGQS GYGFV ++ A +
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADK 61
Query: 84 AIKEMDGLLLDGRNIRVNYAHK 105
AI ++GL L + I+V+YA
Sbjct: 62 AINTLNGLKLQTKTIKVSYARP 83
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 62.4 bits (150), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 48/82 (58%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
+S+T L + L + + K FG G+I K++ D++TGQS GYGFV ++ A +
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADK 61
Query: 84 AIKEMDGLLLDGRNIRVNYAHK 105
AI ++GL L + I+V+YA
Sbjct: 62 AINTLNGLKLQTKTIKVSYARP 83
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 43/77 (55%)
Query: 14 VRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFV 73
V + R S S L++ GL ++ ++ F Q+G II +++ D+ TG SRG GF+
Sbjct: 78 VSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFI 137
Query: 74 KFASEAAAGEAIKEMDG 90
+F A EAIK ++G
Sbjct: 138 RFDKRIEAEEAIKGLNG 154
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 62.0 bits (149), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 48/82 (58%)
Query: 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
D T L + L+Y T+ L+ F ++G + +V + DR T +SRG+ FV+F + A
Sbjct: 66 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA 125
Query: 82 GEAIKEMDGLLLDGRNIRVNYA 103
+A+ MDG +LDGR +RV A
Sbjct: 126 EDAMDAMDGAVLDGRELRVQMA 147
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 47/78 (60%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+F+G + Y+ E LKD F + G ++ +++ DR TG+ +GYGF ++ + A A++ +
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 89 DGLLLDGRNIRVNYAHKD 106
+G GR +RV+ A +
Sbjct: 71 NGREFSGRALRVDNAASE 88
>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 = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 46/81 (56%)
Query: 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
S+T L + L + + + FG GEI K++ D++TGQS GYGFV + A +A
Sbjct: 1 SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKA 60
Query: 85 IKEMDGLLLDGRNIRVNYAHK 105
I ++GL L + I+V+YA
Sbjct: 61 INTLNGLRLQTKTIKVSYARP 81
Score = 55.8 bits (133), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 33/92 (35%), Positives = 48/92 (52%), Gaps = 2/92 (2%)
Query: 14 VRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFV 73
V + R S S L++ GL + L+ F Q+G II +++ D+VTG SRG GF+
Sbjct: 76 VSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFI 135
Query: 74 KFASEAAAGEAIKEMDGLLLDG--RNIRVNYA 103
+F A EAIK ++G G I V +A
Sbjct: 136 RFDKRIEAEEAIKGLNGQKPSGATEPITVKFA 167
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 34/84 (40%), Positives = 50/84 (59%), Gaps = 1/84 (1%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEV-KVICDRVTGQSRGYGFVKFASEAAA 81
S+ + +FIG L + +E +L D F G I++ K++ D TG S+GY F+ FAS A+
Sbjct: 2 SSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDAS 61
Query: 82 GEAIKEMDGLLLDGRNIRVNYAHK 105
AI+ M+G L R I V+YA K
Sbjct: 62 DAAIEAMNGQYLCNRPITVSYAFK 85
>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 = 4e-10, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 46/75 (61%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L + + +E L+ F ++G I VK++CDR T QSRGYGFVKF S ++A +AI +
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 89 DGLLLDGRNIRVNYA 103
+G + + ++V A
Sbjct: 105 NGFNILNKRLKVALA 119
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 58.5 bits (140), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 32/76 (42%), Positives = 48/76 (63%), Gaps = 1/76 (1%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
K F+GGLS+DT++ LKD F + GE+++ + D TG+SRG+GF+ F +AA+ E + +
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILF-KDAASVEKVLD 71
Query: 88 MDGLLLDGRNIRVNYA 103
LDGR I A
Sbjct: 72 QKEHRLDGRVIDPKKA 87
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 58.5 bits (140), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 57/103 (55%)
Query: 1 MQWLNGSVRFSHSVRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVIC 60
M + G + R + ++ + L + GLS T E L++ F ++G I +V ++
Sbjct: 21 MASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVY 80
Query: 61 DRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103
D+ + +SRG+ FV F + A EA + +G+ LDGR IRV+++
Sbjct: 81 DQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFS 123
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 32/88 (36%), Positives = 51/88 (57%), Gaps = 7/88 (7%)
Query: 21 SDSNSRTK----LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76
S N+R++ LF+ GLS DT E LK++F + +++ DR TG S+G+GFV F
Sbjct: 6 SGPNARSQPSKTLFVKGLSEDTTEETLKESFDGS---VRARIVTDRETGSSKGFGFVDFN 62
Query: 77 SEAAAGEAIKEMDGLLLDGRNIRVNYAH 104
SE A A + M+ +DG + +++A
Sbjct: 63 SEEDAKAAKEAMEDGEIDGNKVTLDWAK 90
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 50/84 (59%)
Query: 19 LLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASE 78
L S +L++G L ++ E +L+ F G I ++++ D TG+S+GYGF+ F+
Sbjct: 19 LQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDS 78
Query: 79 AAAGEAIKEMDGLLLDGRNIRVNY 102
A +A+++++G L GR ++V +
Sbjct: 79 ECAKKALEQLNGFELAGRPMKVGH 102
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 43/80 (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 KEMDGLLLDGRNIRVNYAHK 105
++GL L + I+V+YA
Sbjct: 62 NTLNGLRLQSKTIKVSYARP 81
Score = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 49/90 (54%), Gaps = 4/90 (4%)
Query: 1 MQWLNGSVRFSHSVRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVIC 60
++ + +++ S++ ++ D+N L+I GL + ++D F + G II +V+
Sbjct: 67 LRLQSKTIKVSYARPSSEVIKDAN----LYISGLPRTMTQKDVEDMFSRFGRIINSRVLV 122
Query: 61 DRVTGQSRGYGFVKFASEAAAGEAIKEMDG 90
D+ TG SRG F++F + A EAI +G
Sbjct: 123 DQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
>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 = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 43/80 (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 KEMDGLLLDGRNIRVNYAHK 105
++GL L + I+V+YA
Sbjct: 62 NTLNGLRLQSKTIKVSYARP 81
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 49/90 (54%), Gaps = 4/90 (4%)
Query: 1 MQWLNGSVRFSHSVRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVIC 60
++ + +++ S++ ++ D+N L+I GL + ++D F + G II +V+
Sbjct: 67 LRLQSKTIKVSYARPSSEVIKDAN----LYISGLPRTMTQKDVEDMFSRFGRIINSRVLV 122
Query: 61 DRVTGQSRGYGFVKFASEAAAGEAIKEMDG 90
D+ TG SRG F++F + A EAI +G
Sbjct: 123 DQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 57.8 bits (138), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 47/77 (61%), Gaps = 4/77 (5%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
+S K+FIGGLS+ T + L++ FGQ GE+ E V+ D +T +SRG+GFV F +A +
Sbjct: 23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDK 82
Query: 84 AIK----EMDGLLLDGR 96
+ E+D +D +
Sbjct: 83 VLAQSRHELDSKTIDPK 99
>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 = 57.8 bits (138), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 43/80 (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 KEMDGLLLDGRNIRVNYAHK 105
++GL L + I+V+YA
Sbjct: 64 NTLNGLRLQSKTIKVSYARP 83
>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 = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 42/72 (58%), Gaps = 2/72 (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 DGLLLDGRNIRV 100
+G+LL+ R + V
Sbjct: 159 NGMLLNDRKVFV 170
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 46/86 (53%)
Query: 21 SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80
+ S L++G L D E +L + F G I+ ++V D +T +S GY +V F A
Sbjct: 5 APSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPAD 64
Query: 81 AGEAIKEMDGLLLDGRNIRVNYAHKD 106
A A+ M+ ++ G+ +R+ ++ +D
Sbjct: 65 AERALDTMNFDVIKGKPVRIMWSQRD 90
>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 = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/81 (39%), Positives = 47/81 (58%)
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 IKEMDGLLLDGRNIRVNYAHK 105
I++M G L GR IR N+A +
Sbjct: 65 IQQMGGQWLGGRQIRTNWATR 85
>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 = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 42/72 (58%), Gaps = 2/72 (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 DGLLLDGRNIRV 100
+G+LL+ R + V
Sbjct: 164 NGMLLNDRKVFV 175
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 46/86 (53%)
Query: 21 SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80
+ S L++G L D E +L + F G I+ ++V D +T +S GY +V F A
Sbjct: 10 APSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPAD 69
Query: 81 AGEAIKEMDGLLLDGRNIRVNYAHKD 106
A A+ M+ ++ G+ +R+ ++ +D
Sbjct: 70 AERALDTMNFDVIKGKPVRIMWSQRD 95
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 45/73 (61%), Gaps = 4/73 (5%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK- 86
K+FIGGLS+ T + L++ FGQ GE+ E V+ D +T +SRG+GFV F +A + +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 87 ---EMDGLLLDGR 96
E+D +D +
Sbjct: 62 SRHELDSKTIDPK 74
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 57.0 bits (136), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 45/76 (59%), Gaps = 1/76 (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 DGLLLDGRNIRVNYAH 104
D GR IRV A+
Sbjct: 63 DNTDFMGRTIRVTEAN 78
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 57.0 bits (136), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/86 (37%), Positives = 51/86 (59%), Gaps = 2/86 (2%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
R D N +F GLS T E L++ F ++G I +V ++ D+ + +SRG+ FV F +
Sbjct: 6 RANPDPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 63
Query: 78 EAAAGEAIKEMDGLLLDGRNIRVNYA 103
A EA + +G+ LDGR IRV+++
Sbjct: 64 VDDAKEAKERANGMELDGRRIRVDFS 89
>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 = 57.0 bits (136), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 46/72 (63%), Gaps = 4/72 (5%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE- 87
+FIGGLS+DT + LKD F + GE+++ + D +TG+SRG+GFV F + + + +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 88 ---MDGLLLDGR 96
++G ++D +
Sbjct: 62 EHKLNGKVIDPK 73
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 57.0 bits (136), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 32/86 (37%), Positives = 51/86 (59%), Gaps = 2/86 (2%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
R D N +F GLS T E L++ F ++G I +V ++ D+ + +SRG+ FV F +
Sbjct: 9 RANPDPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 66
Query: 78 EAAAGEAIKEMDGLLLDGRNIRVNYA 103
A EA + +G+ LDGR IRV+++
Sbjct: 67 VDDAKEAKERANGMELDGRRIRVDFS 92
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 42/72 (58%), Gaps = 2/72 (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 DGLLLDGRNIRV 100
+G+LL+ R + V
Sbjct: 72 NGMLLNDRKVFV 83
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 56.2 bits (134), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 47/81 (58%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
S ++ L++GGL+ + ++ VL AF G+I ++++ D T + RG+ FV+F A
Sbjct: 2 STTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 61
Query: 83 EAIKEMDGLLLDGRNIRVNYA 103
AI M+ L GR IRVN A
Sbjct: 62 AAIDNMNESELFGRTIRVNLA 82
>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 = 56.2 bits (134), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 42/72 (58%), Gaps = 2/72 (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 DGLLLDGRNIRV 100
+G+LL+ R + V
Sbjct: 66 NGMLLNDRKVFV 77
>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 = 55.8 bits (133), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 46/79 (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 IKEMDGLLLDGRNIRVNYA 103
I M+ L GR IRVN A
Sbjct: 61 IDNMNESELFGRTIRVNLA 79
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 55.8 bits (133), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 49/80 (61%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
S+ + L++G L ++ E +L+ F G+I + ++ D TG+S+GYGF+ F+ A
Sbjct: 2 SSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECAR 61
Query: 83 EAIKEMDGLLLDGRNIRVNY 102
A+++++G L GR +RV +
Sbjct: 62 RALEQLNGFELAGRPMRVGH 81
>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 = 55.5 bits (132), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 42/79 (53%)
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 EMDGLLLDGRNIRVNYAHK 105
++GL L + I+V+YA
Sbjct: 80 TLNGLRLQSKTIKVSYARP 98
>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 = 55.5 bits (132), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 48/83 (57%)
Query: 21 SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80
S + ++ L++GGL+ + ++ VL AF G+I ++++ D T + RG+ FV+F
Sbjct: 2 SMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAED 61
Query: 81 AGEAIKEMDGLLLDGRNIRVNYA 103
A AI M+ L GR IRVN A
Sbjct: 62 AAAAIDNMNESELFGRTIRVNLA 84
>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 = 55.5 bits (132), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 42/73 (57%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ ++YDT E+ L+ F +G I + ++ + +G+ RGY F+++ E A K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 89 DGLLLDGRNIRVN 101
DG +DGR + V+
Sbjct: 165 DGKKIDGRRVLVD 177
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 55.1 bits (131), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 47/81 (58%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
+ ++ L++GGL+ + ++ VL AF G+I ++++ D T + RG+ FV+F A
Sbjct: 60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 119
Query: 83 EAIKEMDGLLLDGRNIRVNYA 103
AI M+ L GR IRVN A
Sbjct: 120 AAIDNMNESELFGRTIRVNLA 140
>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 = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 46/74 (62%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
+++++G + Y+ E ++ AF G I + + D VT + +G+ FV++ AA A++
Sbjct: 29 SRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 88
Query: 87 EMDGLLLDGRNIRV 100
+M+ ++L GRNI+V
Sbjct: 89 QMNSVMLGGRNIKV 102
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 46/86 (53%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
+L ++ + ++++ + D ++ +K F G+I + D TG+ +GYGF+++
Sbjct: 117 QLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEK 176
Query: 78 EAAAGEAIKEMDGLLLDGRNIRVNYA 103
++ +A+ M+ L G+ +RV A
Sbjct: 177 AQSSQDAVSSMNLFDLGGQYLRVGKA 202
>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 = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 45/73 (61%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
++++G + Y+ E ++ AF G I + + D VT + +G+ FV++ AA A+++
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 88 MDGLLLDGRNIRV 100
M+ ++L GRNI+V
Sbjct: 75 MNSVMLGGRNIKV 87
Score = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 46/86 (53%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
+L ++ + ++++ + D ++ +K F G+I + D TG+ +GYGF+++
Sbjct: 102 QLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEK 161
Query: 78 EAAAGEAIKEMDGLLLDGRNIRVNYA 103
++ +A+ M+ L G+ +RV A
Sbjct: 162 AQSSQDAVSSMNLFDLGGQYLRVGKA 187
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 47/83 (56%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
+ ++ L++GGL+ + ++ VL AF G+I ++++ D T + RG+ FV+F A
Sbjct: 9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 68
Query: 83 EAIKEMDGLLLDGRNIRVNYAHK 105
AI M+ L GR IRVN A
Sbjct: 69 AAIDNMNESELFGRTIRVNLAKP 91
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 54.3 bits (129), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 32/84 (38%), Positives = 49/84 (58%), Gaps = 2/84 (2%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
R D N +F GLS T E L++ F ++G I +V ++ D+ + +SRG+ FV F +
Sbjct: 9 RANPDPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 66
Query: 78 EAAAGEAIKEMDGLLLDGRNIRVN 101
A EA + +G+ LDGR IRV+
Sbjct: 67 VDDAKEAKERANGMELDGRRIRVS 90
>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 = 53.9 bits (128), Expect = 2e-08, Method: Composition-based stats.
Identities = 24/73 (32%), Positives = 42/73 (57%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ ++YDT E+ L+ F +G I + ++ + +G+ RGY F+++ E A K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 89 DGLLLDGRNIRVN 101
DG +DGR + V+
Sbjct: 165 DGKKIDGRRVLVD 177
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 52.4 bits (124), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLFIGGLS++T E L++ + Q G++ + V+ D + +SRG+GFV F+S A A+
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Query: 88 MDGLLLDGRNIRVNYA 103
+DGR + A
Sbjct: 89 RP-HSIDGRVVEPKRA 103
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 38/62 (61%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L++ GL ++ ++ F Q+G II +++ D+ TG SRG GF++F A EAIK +
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 89 DG 90
+G
Sbjct: 64 NG 65
>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 = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 43/75 (57%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+++G + YD E + D G +I +K++ D TG+S+GY F++F ++ A++ +
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 89 DGLLLDGRNIRVNYA 103
+G L R ++ Y+
Sbjct: 67 NGYQLGSRFLKCGYS 81
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 43/75 (57%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+++G + YD E + D G +I +K++ D TG+S+GY F++F ++ A++ +
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 89 DGLLLDGRNIRVNYA 103
+G L R ++ Y+
Sbjct: 65 NGYQLGSRFLKCGYS 79
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 51.2 bits (121), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 41/80 (51%), Gaps = 6/80 (7%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
R +LF+G L D E K F ++GE EV + DR G+GF++ S A
Sbjct: 20 TQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR------GFGFIRLESRTLAEI 73
Query: 84 AIKEMDGLLLDGRNIRVNYA 103
A E+DG +L R +R+ +A
Sbjct: 74 AKAELDGTILKSRPLRIRFA 93
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 49/91 (53%), Gaps = 6/91 (6%)
Query: 4 LNGSVRFSHSVRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV 63
L+G++ S +R IR + + L + LS + +L+ AF Q G + + V+ D
Sbjct: 78 LDGTILKSRPLR-IRFATHGAA---LTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDD- 132
Query: 64 TGQSRGYGFVKFASEAAAGEAIKEM-DGLLL 93
G++ G GFV+FA++ A +A++ DG L
Sbjct: 133 RGRATGKGFVEFAAKPPARKALERCGDGAFL 163
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 43/75 (57%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+++G + YD E + D G +I +K++ D TG+S+GY F++F ++ A++ +
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 89 DGLLLDGRNIRVNYA 103
+G L R ++ Y+
Sbjct: 66 NGYQLGSRFLKCGYS 80
>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 = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 45/73 (61%), Gaps = 4/73 (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 AIKEMDGLLLDGR 96
++DG +++ +
Sbjct: 74 RPHKVDGRVVEPK 86
Score = 50.4 bits (119), Expect = 3e-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
>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 = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 45/73 (61%), Gaps = 4/73 (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 AIKEMDGLLLDGR 96
++DG +++ +
Sbjct: 75 RPHKVDGRVVEPK 87
Score = 50.4 bits (119), Expect = 3e-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
>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 = 27/73 (36%), Positives = 45/73 (61%), Gaps = 4/73 (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 AIKEMDGLLLDGR 96
++DG +++ +
Sbjct: 75 RPHKVDGRVVEPK 87
Score = 50.1 bits (118), Expect = 3e-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
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 45/73 (61%), Gaps = 4/73 (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 AIKEMDGLLLDGR 96
++DG +++ +
Sbjct: 73 RPHKVDGRVVEPK 85
Score = 50.1 bits (118), Expect = 3e-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
>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 = 3e-07, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 45/73 (61%), Gaps = 4/73 (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 AIKEMDGLLLDGR 96
++DG +++ +
Sbjct: 68 RPHKVDGRVVEPK 80
Score = 50.1 bits (118), Expect = 3e-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
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 45/73 (61%), Gaps = 4/73 (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 AIKEMDGLLLDGR 96
++DG +++ +
Sbjct: 76 RPHKVDGRVVEPK 88
Score = 50.1 bits (118), Expect = 3e-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
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 40/73 (54%)
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 MDGLLLDGRNIRV 100
+DG + GR + V
Sbjct: 70 VDGQVFQGRMLHV 82
>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 = 50.1 bits (118), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 42/73 (57%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
++++G + Y+ E ++ AF G I + D VT + +G+ FV++ AA A+++
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 88 MDGLLLDGRNIRV 100
+ + L GRNI+V
Sbjct: 74 XNSVXLGGRNIKV 86
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/86 (22%), Positives = 45/86 (52%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
+L ++ + ++++ + D ++ +K F G+I + D TG+ +GYGF+++
Sbjct: 101 QLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEK 160
Query: 78 EAAAGEAIKEMDGLLLDGRNIRVNYA 103
++ +A+ + L G+ +RV A
Sbjct: 161 AQSSQDAVSSXNLFDLGGQYLRVGKA 186
>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 = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 52/97 (53%), Gaps = 2/97 (2%)
Query: 1 MQWLNG-SVRFSH-SVRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKV 58
++ LNG +VR V + R +S T L++ L + L FG++G I++ +
Sbjct: 73 IKVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNI 132
Query: 59 ICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDG 95
+ D++TG+ RG FV++ A EAI ++ ++ +G
Sbjct: 133 LRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEG 169
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 44/88 (50%), Gaps = 1/88 (1%)
Query: 19 LLSDSN-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 EAAAGEAIKEMDGLLLDGRNIRVNYAHK 105
E + AIK ++G+ + + ++V+YA
Sbjct: 66 EXDSQRAIKVLNGITVRNKRLKVSYARP 93
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 52/97 (53%), Gaps = 2/97 (2%)
Query: 1 MQWLNG-SVRFSH-SVRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKV 58
++ LNG +VR V + R +S T L++ L + L FG++G I++ +
Sbjct: 62 IKVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNI 121
Query: 59 ICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDG 95
+ D++TG+ RG FV++ A EAI ++ ++ +G
Sbjct: 122 LRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEG 158
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 41/81 (50%)
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 IKEMDGLLLDGRNIRVNYAHK 105
IK ++G+ + + ++V+YA
Sbjct: 62 IKVLNGITVRNKRLKVSYARP 82
>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 = 48.9 bits (115), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 48/80 (60%), Gaps = 1/80 (1%)
Query: 21 SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80
S S + KLFI GL + + L++ HG + +++++ +R G+ +G +V++ +E+
Sbjct: 12 STSLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRA-GKPKGLAYVEYENESQ 70
Query: 81 AGEAIKEMDGLLLDGRNIRV 100
A +A+ +MDG+ + I+V
Sbjct: 71 ASQAVMKMDGMTIKENIIKV 90
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 48.9 bits (115), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 30/91 (32%), Positives = 47/91 (51%), Gaps = 6/91 (6%)
Query: 19 LLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASE 78
L SD +FI LS+D+ E L + Q G++ V+V+ T S+G F +F ++
Sbjct: 8 LPSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQ 67
Query: 79 AAAGEAI------KEMDGLLLDGRNIRVNYA 103
AA + + E GL LDGR ++V+ A
Sbjct: 68 EAAQKCLAAASLEAEGGGLKLDGRQLKVDLA 98
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 48.9 bits (115), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 46/76 (60%), Gaps = 2/76 (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 MDGLLLDGRNIRVNYA 103
+ G +++GR I VN A
Sbjct: 89 LHGTVVEGRKIEVNNA 104
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 48.5 bits (114), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 46/76 (60%), Gaps = 2/76 (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 MDGLLLDGRNIRVNYA 103
+ G +++GR I VN A
Sbjct: 75 LHGTVVEGRKIEVNNA 90
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 41/81 (50%)
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 IKEMDGLLLDGRNIRVNYAHK 105
IK ++G+ + + ++V+YA
Sbjct: 62 IKVLNGITVRNKRLKVSYARP 82
>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|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 43/80 (53%), Gaps = 2/80 (2%)
Query: 21 SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80
S S+ ++F+ L +D +LKD F + G ++ + + G+S+G G VKF S
Sbjct: 3 SGSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEV 60
Query: 81 AGEAIKEMDGLLLDGRNIRV 100
A A + M+G+ L GR I V
Sbjct: 61 AERACRMMNGMKLSGREIDV 80
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 46/80 (57%), Gaps = 5/80 (6%)
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 MDGLLLDG----RNIRVNYA 103
++G L G + ++NYA
Sbjct: 72 INGKPLPGATPAKRFKLNYA 91
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 40/75 (53%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L + L+Y T+ L+ F ++G + +V + + T RG+ FV+F A +A M
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 89 DGLLLDGRNIRVNYA 103
DG LDGR +RV A
Sbjct: 76 DGAELDGRELRVQVA 90
>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 = 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: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDV 61
>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 = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 43/80 (53%)
Query: 16 FIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKF 75
+ R +S T L++ L + L FG++G I++ ++ D++TG+ RG FV++
Sbjct: 3 YARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRY 62
Query: 76 ASEAAAGEAIKEMDGLLLDG 95
A EAI ++ ++ +G
Sbjct: 63 NKREEAQEAISALNNVIPEG 82
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 47.4 bits (111), 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|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 = 47.0 bits (110), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+++G + Y + L+ F G I + ++CD+ +G +GY +++FA + A+ M
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVA-M 97
Query: 89 DGLLLDGRNIRV 100
D + GR I+V
Sbjct: 98 DETVFRGRTIKV 109
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 36/58 (62%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85
K+F+GG+ ++ ET L++ F + G + EV +I D + RG+GF+ F E + +A+
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV 69
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
S+ + +F+ L +D +LKD F + G ++ + + G+S+G G VKF S A
Sbjct: 2 SSGSSGIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAE 59
Query: 83 EAIKEMDGLLLDGRNIRV 100
A + M+G+ L GR I V
Sbjct: 60 RACRMMNGMKLSGREIDV 77
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 43/80 (53%), Gaps = 6/80 (7%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
R++LF+G L D E ++ F ++G+ EV + D+ G+GF++ + A
Sbjct: 20 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEI 73
Query: 84 AIKEMDGLLLDGRNIRVNYA 103
A E+D + L G+ +RV +A
Sbjct: 74 AKVELDNMPLRGKQLRVRFA 93
>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 = 4e-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|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 = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 43/80 (53%), Gaps = 6/80 (7%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
R++LF+G L D E ++ F ++G+ EV + D+ G+GF++ + A
Sbjct: 13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEI 66
Query: 84 AIKEMDGLLLDGRNIRVNYA 103
A E+D + L G+ +RV +A
Sbjct: 67 AKVELDNMPLRGKQLRVRFA 86
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 41/80 (51%), Gaps = 8/80 (10%)
Query: 21 SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80
S S+ KLFIG L + E ++ F Q+G+++E +I + YGFV + A
Sbjct: 3 SGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTA 54
Query: 81 AGEAIKEMDGLLLDGRNIRV 100
A +AI+ + L G NI V
Sbjct: 55 AEDAIRNLHHYKLHGVNINV 74
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 38/73 (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 DGLLLDGRNIRVN 101
+G + + ++V
Sbjct: 103 NGFQVGTKRLKVQ 115
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 37/66 (56%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
S+ + L+I GL T + L +G+I+ K I D+ T + +GYGFV F S +AA
Sbjct: 2 SSGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQ 61
Query: 83 EAIKEM 88
+A+ +
Sbjct: 62 KAVTAL 67
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 45.1 bits (105), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 42/77 (54%), Gaps = 5/77 (6%)
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 MDGLLLDGRNIRVNYAH 104
+DG L G +RV ++
Sbjct: 130 LDGRTLCGCRVRVELSN 146
>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 = 45.1 bits (105), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 42/75 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 89 DGLLLDGRNIRVNYA 103
+G L G+ I V++
Sbjct: 70 NGQDLMGQPISVDWC 84
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 45.1 bits (105), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 42/75 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 89 DGLLLDGRNIRVNYA 103
+G L G+ I V++
Sbjct: 70 NGQDLMGQPISVDWC 84
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 45.1 bits (105), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 42/75 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 89 DGLLLDGRNIRVNYA 103
+G L G+ I V++
Sbjct: 70 NGQDLMGQPISVDWC 84
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/100 (22%), Positives = 55/100 (55%), Gaps = 7/100 (7%)
Query: 5 NGSVRFSHSVRFIRLLSDSNSR-TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV 63
+GS + +RF +++ S+ + ++ GG++ + +++ F G+I+E++V ++
Sbjct: 3 SGSSGNTKQLRFEDVVNQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK- 61
Query: 64 TGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103
GY FV+F++ +A AI ++G ++G ++ +
Sbjct: 62 -----GYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWG 96
>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 = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 42/75 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 89 DGLLLDGRNIRVNYA 103
+G L G+ I V++
Sbjct: 72 NGQDLMGQPISVDWC 86
>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 = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 42/75 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 89 DGLLLDGRNIRVNYA 103
+G L G+ I V++
Sbjct: 86 NGQDLMGQPISVDWC 100
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 42/75 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ G+ + E + D F ++GEI + + DR TG +GY V++ + A A++ +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 89 DGLLLDGRNIRVNYA 103
+G L G+ I V++
Sbjct: 85 NGQDLMGQPISVDWC 99
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 8/79 (10%)
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 IKEMDGLLLDGRNIRVNYA 103
I+E+ G + + V Y+
Sbjct: 55 IEEVHGKSFANQPLEVVYS 73
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQ-SRGYGFVKFASEAAA 81
S TK+ IG L+ + + + + F +G+I + + +R+ S+GY +V+F + A
Sbjct: 1 SMKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEA 60
Query: 82 GEAIKEMDGLLLDGRNI 98
+A+K MDG +DG+ I
Sbjct: 61 EKALKHMDGGQIDGQEI 77
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 36/72 (50%)
Query: 34 LSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLL 93
LS DT ET L++ F G I + + D+ TGQS+G+ F+ F A AI + G
Sbjct: 23 LSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGY 82
Query: 94 DGRNIRVNYAHK 105
D + V +A
Sbjct: 83 DHLILNVEWAKP 94
>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 = 38/68 (55%), Gaps = 2/68 (2%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L + GL + T E LK+ F GE++ V+V D TG S+G+GFV+F + + +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR 77
Query: 89 DGLLLDGR 96
++DGR
Sbjct: 78 H--MIDGR 83
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 45/74 (60%)
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 DGLLLDGRNIRVNY 102
+G LD R IR ++
Sbjct: 102 NGTRLDDRIIRTDW 115
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 44.7 bits (104), Expect = 1e-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|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 8/79 (10%)
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 IKEMDGLLLDGRNIRVNYA 103
I+E+ G + + V Y+
Sbjct: 82 IEEVHGKSFANQPLEVVYS 100
>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 = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 45/82 (54%), Gaps = 2/82 (2%)
Query: 26 RTKLFIGGLSYDTNETVLKDAFGQHG--EIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
R L+IG L++ T + L +A G +I+E+K +R GQS+G+ V SEA++ +
Sbjct: 1 RIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKK 60
Query: 84 AIKEMDGLLLDGRNIRVNYAHK 105
+ + L G+N V ++K
Sbjct: 61 LMDLLPKRELHGQNPVVTPSNK 82
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 40/79 (50%), Gaps = 3/79 (3%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA---SEAAAGEA 84
KLFIG + + +E LK F + G+I E+ V+ DR TG +G F+ + S A A
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 85 IKEMDGLLLDGRNIRVNYA 103
+ E L R I+V A
Sbjct: 75 LHEQKTLPGMNRPIQVKPA 93
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 5/77 (6%)
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 MDGLLLDGRNIRVNYAH 104
+DG L G +RV ++
Sbjct: 130 LDGRTLCGCRVRVELSN 146
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 39/73 (53%), Gaps = 1/73 (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 DGLLLDGRNIRVN 101
+G+ L GR I V+
Sbjct: 78 NGIRLYGRPINVS 90
>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 = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 40/81 (49%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
+S KLFIGGL N+ +K+ G + ++ D TG S+GY F ++
Sbjct: 111 PDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTD 170
Query: 83 EAIKEMDGLLLDGRNIRVNYA 103
+AI ++G+ L + + V A
Sbjct: 171 QAIAGLNGMQLGDKKLLVQRA 191
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 43/77 (55%), Gaps = 2/77 (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 DGLLLDGRNIRVNYAHK 105
+G ++ + + V A +
Sbjct: 76 NGRIVATKPLYVALAQR 92
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 40/75 (53%), Gaps = 8/75 (10%)
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 DGLLLDGRNIRVNYA 103
+G L+G NI + +A
Sbjct: 66 NGKDLEGENIEIVFA 80
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 42/75 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ + + E +++ F +GEI + + DR TG S+GY V++ + A A + +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 89 DGLLLDGRNIRVNYA 103
+G + G+ I+V++
Sbjct: 89 NGAEIMGQTIQVDWC 103
>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|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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 42/75 (56%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LF+ + + E +++ F +GEI + + DR TG S+GY V++ + A A + +
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 89 DGLLLDGRNIRVNYA 103
+G + G+ I+V++
Sbjct: 135 NGAEIMGQTIQVDWC 149
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 38/76 (50%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLFIGGL N+ +K+ G + ++ D TG S+GY F ++ +AI
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 157
Query: 88 MDGLLLDGRNIRVNYA 103
++G+ L + + V A
Sbjct: 158 LNGMQLGDKKLLVQRA 173
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 38/76 (50%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLFIGGL N+ +K+ G + ++ D TG S+GY F ++ +AI
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 155
Query: 88 MDGLLLDGRNIRVNYA 103
++G+ L + + V A
Sbjct: 156 LNGMQLGDKKLLVQRA 171
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 38/76 (50%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLFIGGL N+ +K+ G + ++ D TG S+GY F ++ +AI
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 88 MDGLLLDGRNIRVNYA 103
++G+ L + + V A
Sbjct: 63 LNGMQLGDKKLLVQRA 78
>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 = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 44/85 (51%), Gaps = 2/85 (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 GEAIKEMDGLLLDGRNIRVNYAHKD 106
+ ++ + G +L+G + V A +
Sbjct: 113 HKLLELLPGKVLNGEKVDVRPATRQ 137
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 44/74 (59%), Gaps = 1/74 (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 DGLLLDGRNIRVNY 102
+G LD R IR ++
Sbjct: 80 NGTRLDDRIIRTDW 93
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 43/77 (55%), Gaps = 7/77 (9%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS-EAAAGEAI 85
T L++GGL ET L++ F Q GEI + V+ Q + F++FA+ +AA A
Sbjct: 13 TTLYVGGLGDTITETDLRNHFYQFGEIRTITVV------QRQQCAFIQFATRQAAEVAAE 66
Query: 86 KEMDGLLLDGRNIRVNY 102
K + L+++GR + V +
Sbjct: 67 KSFNKLIVNGRRLNVKW 83
>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 = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 44/82 (53%), Gaps = 2/82 (2%)
Query: 26 RTKLFIGGLSYDTNETVLKDAFGQHG--EIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
R L+IG L++ T + L +A G +I+E+K +R GQS+G+ V SEA++ +
Sbjct: 68 RIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKK 127
Query: 84 AIKEMDGLLLDGRNIRVNYAHK 105
+ + L G+N V +K
Sbjct: 128 LMDLLPKRELHGQNPVVTPVNK 149
>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|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 4/72 (5%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L + LSY E L++ F + I+V G+S+GY F++FAS A EA+
Sbjct: 18 LVLSNLSYSATEETLQEVF-EKATFIKVP---QNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 89 DGLLLDGRNIRV 100
+ ++GR IR+
Sbjct: 74 NKREIEGRAIRL 85
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 39/79 (49%), Gaps = 3/79 (3%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA---SEAAAGEA 84
KLF+G + +E LK F + G I E+ V+ DR+TG +G F+ + S A A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 85 IKEMDGLLLDGRNIRVNYA 103
+ E L R I+V A
Sbjct: 77 LHEQKTLPGMNRPIQVKPA 95
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 39/80 (48%), Gaps = 4/80 (5%)
Query: 12 HSVRFIRLLSDSNSRT---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|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 40.0 bits (92), 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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KLFIG +S E ++ F G+I E +++ G SRG FV F + A A AIK
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRIL-RGPDGLSRGCAFVTFTTRAMAQTAIKA 155
Query: 88 M 88
M
Sbjct: 156 M 156
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 42/74 (56%), Gaps = 1/74 (1%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KL + L + ++ +++ F + G + + V DR +G+S G V F +A A +A+K+
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQ 88
Query: 88 MDGLLLDGRNIRVN 101
+G+ LDGR + +
Sbjct: 89 YNGVPLDGRPMNIQ 102
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 45/83 (54%), Gaps = 3/83 (3%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQ-HGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
S LF+G L+ D ++ +L + F + + KV+ D+ TG S+GYGFVKF E
Sbjct: 6 SGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFTDELEQ 64
Query: 82 GEAIKEMDGLL-LDGRNIRVNYA 103
A+ E G + L + +R++ A
Sbjct: 65 KRALTECQGAVGLGSKPVRLSVA 87
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 43/74 (58%), Gaps = 5/74 (6%)
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 DGLLLDGRNIRVNY 102
G +DGR++ + Y
Sbjct: 74 QGAEIDGRSVSLYY 87
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+++G + Y L+ F G + V ++CD+ +G +G+ +++F+ + + ++ +
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA-L 66
Query: 89 DGLLLDGRNIRV 100
D L GR I+V
Sbjct: 67 DESLFRGRQIKV 78
>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 = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 43/74 (58%), Gaps = 5/74 (6%)
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 DGLLLDGRNIRVNY 102
G +DGR++ + Y
Sbjct: 157 QGAEIDGRSVSLYY 170
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 8/78 (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 MDGLLLDGRNIRVNYAHK 105
++G + G+ I V + K
Sbjct: 63 LNGKEVKGKRINVELSTK 80
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 41/85 (48%), Gaps = 2/85 (2%)
Query: 19 LLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASE 78
++ D L++G LS D E ++ F Q G K+I + + Y FV+F
Sbjct: 8 MMEDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVEFYEH 65
Query: 79 AAAGEAIKEMDGLLLDGRNIRVNYA 103
A A+ M+G + G+ ++VN+A
Sbjct: 66 RDAAAALAAMNGRKILGKEVKVNWA 90
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 42/86 (48%), Gaps = 3/86 (3%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQ---SRGYGFVKFASEA 79
S+ + LFI L++ T E LK F + G I + + S G+GFV++
Sbjct: 2 SSGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPE 61
Query: 80 AAGEAIKEMDGLLLDGRNIRVNYAHK 105
A +A+K++ G +DG + V + +
Sbjct: 62 QAQKALKQLQGHTVDGHKLEVRISER 87
>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 = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+++G + Y L+ F G + V ++CD+ +G +G+ +++F+ + + ++ +
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA-L 67
Query: 89 DGLLLDGRNIRV 100
D L GR I+V
Sbjct: 68 DESLFRGRQIKV 79
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 44/83 (53%), Gaps = 8/83 (9%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
+N T+L++GGL +T+ L F + G I + D V G S + ++++ S AA
Sbjct: 14 ANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTI----DHVKGDS--FAYIQYESLDAAQ 67
Query: 83 EAIKEMDGLLLDG--RNIRVNYA 103
A +M G L G R +RV++A
Sbjct: 68 AACAKMRGFPLGGPDRRLRVDFA 90
>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 = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 37/72 (51%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
LFI L + + L F G ++ KV D+ T S+ +GFV + + +A AI+ M
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 89 DGLLLDGRNIRV 100
+G + + ++V
Sbjct: 88 NGFQIGMKRLKV 99
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
KLFIG +S E ++ F G+I E +++ G SRG FV F + A A AIK
Sbjct: 97 KLFIGXISKKCTENDIRVXFSSFGQIEECRIL-RGPDGLSRGCAFVTFTTRAXAQTAIK 154
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
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
KL + L + ++ +++ F + G + + V DR +G+S G V F +A A +A K+
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAXKQ 89
Query: 88 MDGLLLDGRNIRVN 101
+G+ LDGR +
Sbjct: 90 YNGVPLDGRPXNIQ 103
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 6/80 (7%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
++RT L L Y + LK+ F EI +++ G+S+G +++F +EA A +
Sbjct: 92 DART-LLAKNLPYKVTQDELKEVFEDAAEI---RLVSK--DGKSKGIAYIEFKTEADAEK 145
Query: 84 AIKEMDGLLLDGRNIRVNYA 103
+E G +DGR+I + Y
Sbjct: 146 TFEEKQGTEIDGRSISLYYT 165
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 1/75 (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 EMDGLLLDGRNIRVN 101
+G LL R + V
Sbjct: 75 MFNGQLLFDRPMHVK 89
>pdb|2U1A|A Chain A, Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20
Structures
Length = 88
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 42/87 (48%), Gaps = 6/87 (6%)
Query: 20 LSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEA 79
LS++ LF+ L +TNE +L F Q EV+++ R FV+F +E
Sbjct: 7 LSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR-----HDIAFVEFDNEV 61
Query: 80 AAGEAIKEMDGLLLDGRN-IRVNYAHK 105
AG A + G + N +++++A K
Sbjct: 62 QAGAARDALQGFKITQNNAMKISFAKK 88
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
KL + L + ++ +++ F + G + + V DR +G+S G V F A A +A+K
Sbjct: 89 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMK 147
Query: 87 EMDGLLLDGRNIRVN 101
+ G+ LDGR + +
Sbjct: 148 QYKGVPLDGRPMDIQ 162
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 39/79 (49%), Gaps = 10/79 (12%)
Query: 29 LFIGGLSYDTNETVLKDAFG--QHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
L++ L T+E +++ F + G + VK I R Y FV F++ A EA+K
Sbjct: 18 LYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI--------RDYAFVHFSNREDAVEAMK 69
Query: 87 EMDGLLLDGRNIRVNYAHK 105
++G +LDG I V A
Sbjct: 70 ALNGKVLDGSPIEVTLAKP 88
>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 = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 42/87 (48%), Gaps = 6/87 (6%)
Query: 20 LSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEA 79
LS++ LF+ L +TNE +L F Q EV+++ R FV+F +E
Sbjct: 201 LSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR-----HDIAFVEFDNEV 255
Query: 80 AAGEAIKEMDGLLLDGRN-IRVNYAHK 105
AG A + G + N +++++A K
Sbjct: 256 QAGAARDALQGFKITQNNAMKISFAKK 282
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 11/78 (14%)
Query: 37 DTNETVLKDA--------FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+ NE + KD F Q G+I+++ + R + + RG FV F ++A A++ M
Sbjct: 16 NLNEKIKKDELKKSLYAIFSQFGQILDI--LVSR-SLKMRGQAFVIFKEVSSATNALRSM 72
Query: 89 DGLLLDGRNIRVNYAHKD 106
G + +R+ YA D
Sbjct: 73 QGFPFYDKPMRIQYAKTD 90
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
KL + L + ++ +++ F + G + + V DR +G+S G V F A A +A+K
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMK 94
Query: 87 EMDGLLLDGRNIRVN 101
+ G+ LDGR + +
Sbjct: 95 QYKGVPLDGRPMDIQ 109
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
KL + L + ++ +++ F + G + + V DR +G+S G V F A A +A+K
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMK 94
Query: 87 EMDGLLLDGRNIRVN 101
+ G+ LDGR + +
Sbjct: 95 QYKGVPLDGRPMDIQ 109
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 34/77 (44%), Gaps = 8/77 (10%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
TKL +G +S L+ F ++G +IE ++ D Y FV A EAI+
Sbjct: 11 TKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIR 62
Query: 87 EMDGLLLDGRNIRVNYA 103
+D G+ + V +
Sbjct: 63 GLDNTEFQGKRMHVQLS 79
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 19 LLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASE 78
L S KLF+G L+ +E ++ F G I E ++ G S+G FVK++S
Sbjct: 8 CLRQPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTIL-RGPDGNSKGCAFVKYSSH 66
Query: 79 AAAGEAIKEMDG 90
A A AI + G
Sbjct: 67 AEAQAAINALHG 78
>pdb|1OIA|A Chain A, U1a Rnp Domain 1-95
pdb|1OIA|B Chain B, U1a Rnp Domain 1-95
Length = 95
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 37 DTNETVLKDA--------FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+ NE + KD F Q G+I+++ V + + RG FV F ++A A++ M
Sbjct: 16 NLNEKIKKDELKKSLYAIFSQFGQILDILV---SRSLKMRGQAFVIFKEVSSATNALRSM 72
Query: 89 DGLLLDGRNIRVNYAHKD 106
G + +R+ YA D
Sbjct: 73 QGFPFYDKPMRIQYAKTD 90
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 40/92 (43%), Gaps = 8/92 (8%)
Query: 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEI--------IEVKVICDRVTGQSRGYGFV 73
D++ +F+ GL + + D F Q G I + + DR TG+ +G V
Sbjct: 3 DNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATV 62
Query: 74 KFASEAAAGEAIKEMDGLLLDGRNIRVNYAHK 105
F +A AI DG G I+V++A +
Sbjct: 63 SFDDPPSAKAAIDWFDGKEFSGNPIKVSFATR 94
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 3/81 (3%)
Query: 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGE 83
N+ ++++G L D ++D F ++G I ++ + +R G + FV+F A +
Sbjct: 20 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDID-LKNRRGGPP--FAFVEFEDPRDAED 76
Query: 84 AIKEMDGLLLDGRNIRVNYAH 104
A+ DG DG +RV +
Sbjct: 77 AVYGRDGYDYDGYRLRVEFPR 97
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
Query: 65 GQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRN-IRVN 101
G+++GY F+++AS A A +A+K DG LD ++ RVN
Sbjct: 44 GKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVN 81
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 41/82 (50%), Gaps = 7/82 (8%)
Query: 29 LFIGGLSYDTNETVLKDA----FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEA 84
++I L+ + LK + F Q G+I+++ + R + + RG FV F ++A A
Sbjct: 11 IYINNLNEKIKKDELKKSLYAIFSQFGQILDI--LVSR-SLKMRGQAFVIFKEVSSATNA 67
Query: 85 IKEMDGLLLDGRNIRVNYAHKD 106
++ M G + +R+ YA D
Sbjct: 68 LRSMQGFPFYDKPMRIQYAKTD 89
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
Query: 65 GQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRN-IRVN 101
G+++GY F+++AS A A +A+K DG LD ++ RVN
Sbjct: 58 GKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVN 95
>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 = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 37/78 (47%), Gaps = 6/78 (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-LLDGRNIRVNYAHK 105
G + +++ +A K
Sbjct: 66 QGFKITPTHAMKITFAKK 83
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 34.3 bits (77), Expect = 0.018, 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|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 32/52 (61%), Gaps = 4/52 (7%)
Query: 56 VKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM----DGLLLDGRNIRVNYA 103
+++I D+ T Q+RG+ FV+ +S A + ++ + L +DG+ I V++A
Sbjct: 41 IRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFA 92
>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 = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 36/70 (51%), Gaps = 4/70 (5%)
Query: 41 TVLKDA----FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGR 96
VLK A F + G+++ ++ D TG+++G+ FV+ S A + IK G LD +
Sbjct: 23 PVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLK 82
Query: 97 NIRVNYAHKD 106
+ Y KD
Sbjct: 83 HRLFLYTMKD 92
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 7/79 (8%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
+K+F+G + D L+ F Q+GE+++V + R + FV FA + A
Sbjct: 12 SKVFVGRCTEDMTAEELQQFFCQYGEVVDV-----FIPKPFRAFAFVTFADDKVAQSLCG 66
Query: 87 EMDGLLLDGRNIRVNYAHK 105
E L++ G ++ ++ A
Sbjct: 67 E--DLIIKGISVHISNAEP 83
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 37 DTNETVLKDA--------FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+ NE + KD F + G+I+++ V + + RG FV F ++A A++ M
Sbjct: 11 NLNEKIKKDELKKSLHAIFSRFGQILDILV---SRSLKMRGQAFVIFKEVSSATNALRSM 67
Query: 89 DGLLLDGRNIRVNYAHKD 106
G + +R+ YA D
Sbjct: 68 QGFPFYDKPMRIQYAKTD 85
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 33.5 bits (75), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 37 DTNETVLKDA--------FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+ NE + KD F + G+I+++ V + + RG FV F ++A A++ M
Sbjct: 10 NLNEKIKKDELKKSLHAIFSRFGQILDILV---SRSLKMRGQAFVIFKEVSSATNALRSM 66
Query: 89 DGLLLDGRNIRVNYAHKD 106
G + +R+ YA D
Sbjct: 67 QGFPFYDKPMRIQYAKTD 84
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 33.5 bits (75), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 40/86 (46%), Gaps = 5/86 (5%)
Query: 17 IRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76
IRL + N L+I L Y + D FG++G I +++V T ++RG +V +
Sbjct: 1 IRLPPEVNR--ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGN---TPETRGTAYVVYE 55
Query: 77 SEAAAGEAIKEMDGLLLDGRNIRVNY 102
A A+ + G + R + V Y
Sbjct: 56 DIFDAKNAVDHLSGFNVSNRYLVVLY 81
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 33.5 bits (75), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 37 DTNETVLKDA--------FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+ NE + KD F + G+I+++ V + + RG FV F ++A A++ M
Sbjct: 13 NLNEKIKKDELKKSLHAIFSRFGQILDILV---SRSLKMRGQAFVIFKEVSSATNALRSM 69
Query: 89 DGLLLDGRNIRVNYAHKD 106
G + +R+ YA D
Sbjct: 70 QGFPFYDKPMRIQYAKTD 87
>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 = 33.5 bits (75), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 36/83 (43%), Gaps = 8/83 (9%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEI--------IEVKVICDRVTGQSRGYGFVKFASEAA 80
+F+ GL + + D F Q G I + + DR TG+ +G V F +
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 81 AGEAIKEMDGLLLDGRNIRVNYA 103
A AI DG G I+V++A
Sbjct: 76 AKAAIDWFDGKEFSGNPIKVSFA 98
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 37 DTNETVLKDA--------FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+ NE + KD F + G+I+++ V + + RG FV F ++A A++ M
Sbjct: 16 NLNEKIKKDELKKSLHAIFSRFGQILDILV---SRSLKMRGQAFVIFKEVSSATNALRSM 72
Query: 89 DGLLLDGRNIRVNYAHKD 106
G + +R+ YA D
Sbjct: 73 QGFPFYDKPMRIQYAKTD 90
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 37 DTNETVLKDA--------FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+ NE + KD F + G+I+++ V + + RG FV F ++A A++ M
Sbjct: 15 NLNEKIKKDELKKSLHAIFSRFGQILDILV---SRSLKMRGQAFVIFKEVSSATNALRSM 71
Query: 89 DGLLLDGRNIRVNYAHKD 106
G + +R+ YA D
Sbjct: 72 QGFPFYDKPMRIQYAKTD 89
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 37 DTNETVLKDA--------FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+ NE + KD F + G+I+++ V + + RG FV F ++A A++ M
Sbjct: 12 NLNEKIKKDELKKSLHAIFSRFGQILDILV---SRSLKMRGQAFVIFKEVSSATNALRSM 68
Query: 89 DGLLLDGRNIRVNYAHKD 106
G + +R+ YA D
Sbjct: 69 QGFPFYDKPMRIQYAKTD 86
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 33.1 bits (74), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 42/86 (48%), Gaps = 2/86 (2%)
Query: 20 LSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV-TGQSRGYGFVKFASE 78
+ + +K+ + + + N+ +++ F GE+ V++ TG RG+GFV F ++
Sbjct: 9 VPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITK 68
Query: 79 AAAGEAIKEM-DGLLLDGRNIRVNYA 103
A +A + L GR + + +A
Sbjct: 69 QDAKKAFNALCHSTHLYGRRLVLEWA 94
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 33.1 bits (74), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 37 DTNETVLKDA--------FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+ NE + KD F + G+I+++ V + + RG FV F ++A A++ M
Sbjct: 15 NLNEKIKKDELKKSLHAIFSRFGQILDILV---SRSLKMRGQAFVIFKEVSSATNALRSM 71
Query: 89 DGLLLDGRNIRVNYAHKD 106
G + +R+ YA D
Sbjct: 72 QGFPFYDKPMRIQYAKTD 89
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 33.1 bits (74), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 37 DTNETVLKDA--------FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+ NE + KD F + G+I+++ V + + RG FV F ++A A++ M
Sbjct: 16 NLNEKIKKDELKKSLHAIFSRFGQILDILV---SRSLKMRGQAFVIFKEVSSATNALRSM 72
Query: 89 DGLLLDGRNIRVNYAHKD 106
G + +R+ YA D
Sbjct: 73 QGFPFYDKPMRIQYAKTD 90
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 33.1 bits (74), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 37 DTNETVLKDA--------FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
+ NE + KD F + G+I+++ V + + RG FV F ++A A++ M
Sbjct: 15 NLNEKIKKDELKKSLHAIFSRFGQILDILV---SRSLKMRGQAFVIFKEVSSATNALRSM 71
Query: 89 DGLLLDGRNIRVNYAHKD 106
G + +R+ YA D
Sbjct: 72 QGFPFYDKPMRIQYAKTD 89
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 32.7 bits (73), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 37/73 (50%), Gaps = 5/73 (6%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87
K+++G L + L+ AF +G + V + + G+ FV+F A +A++
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRG 56
Query: 88 MDGLLLDGRNIRV 100
+DG ++ G +RV
Sbjct: 57 LDGKVICGSRVRV 69
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 32.7 bits (73), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 43/75 (57%), Gaps = 2/75 (2%)
Query: 30 FIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMD 89
++G L ++T + + DA + I V+++ D+ T + +G+ +V+F + EA+ D
Sbjct: 19 YVGNLPFNTVQGDI-DAIFKDLSIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALT-YD 76
Query: 90 GLLLDGRNIRVNYAH 104
G LL R++RV+ A
Sbjct: 77 GALLGDRSLRVDIAE 91
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 32.3 bits (72), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 34/74 (45%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L + L + ++ G + ++ TGQS+GYGF ++ + +A A ++
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 89 DGLLLDGRNIRVNY 102
G L R + V++
Sbjct: 158 LGKPLGPRTLYVHW 171
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 45 DAFGQHGEIIEVKVICDRVTGQS---RGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101
DA + + C GQ +G+ +++ + A EA ++ DGL L G ++RV+
Sbjct: 200 DALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVS 259
Query: 102 YA 103
+
Sbjct: 260 FC 261
>pdb|3S8S|A Chain A, Crystal Structure Of The Rrm Domain Of Human Setd1a
Length = 110
Score = 32.3 bits (72), Expect = 0.072, 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|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 32.3 bits (72), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 34/74 (45%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L + L + ++ G + ++ TGQS+GYGF ++ + +A A ++
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 89 DGLLLDGRNIRVNY 102
G L R + V++
Sbjct: 158 LGKPLGPRTLYVHW 171
Score = 31.2 bits (69), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 25/39 (64%)
Query: 65 GQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103
GQ +G+ +++ + A EA ++ DGL L G ++RV++
Sbjct: 223 GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC 261
>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 = 32.3 bits (72), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 34/74 (45%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88
L + L + ++ G + ++ TGQS+GYGF ++ + +A A ++
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 155
Query: 89 DGLLLDGRNIRVNY 102
G L R + V++
Sbjct: 156 LGKPLGPRTLYVHW 169
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 25/39 (64%)
Query: 65 GQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103
GQ +G+ +++ + A EA ++ DGL L G ++RV++
Sbjct: 221 GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC 259
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 32.0 bits (71), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77
T L+I L +E L++ G++I +++ D +G SRG GF + S
Sbjct: 26 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMES 75
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 32.0 bits (71), Expect = 0.080, 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|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 32.0 bits (71), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 17 IRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76
IRL + N L+I L Y + D FG++G I +++V T ++RG +V +
Sbjct: 5 IRLPPEVNR--ILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYE 59
Query: 77 SEAAAGEAIKEMDGLLLDGRNIRVNY 102
A A + G + R + V Y
Sbjct: 60 DIFDAKNACDHLSGFNVCNRYLVVLY 85
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 4/58 (6%)
Query: 41 TVLKDA----FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLD 94
VLK A F + G+++ ++ D TG+++G+ FV+ S A + IK G LD
Sbjct: 23 PVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLD 80
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 41/83 (49%), Gaps = 7/83 (8%)
Query: 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82
S+ + +F+G + D E L++ F Q+G++++V + R + FV FA + A
Sbjct: 2 SSGSSGVFVGRCTGDMTEDELREFFSQYGDVMDV-----FIPKPFRAFAFVTFADDQIAQ 56
Query: 83 EAIKEMDGLLLDGRNIRVNYAHK 105
E L++ G ++ ++ A
Sbjct: 57 SLCGE--DLIIKGISVHISNAEP 77
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 31.2 bits (69), Expect = 0.15, 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|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 17 IRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76
IRL + N L+I L Y + D FG++G I +++V T ++RG +V +
Sbjct: 11 IRLPPEVNR--ILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYE 65
Query: 77 SEAAAGEAIKEMDGLLLDGRNIRVNY 102
A A + G + R + V Y
Sbjct: 66 DIFDAKNACDHLSGFNVCNRYLVVLY 91
>pdb|2E5J|A Chain A, Solution Structure Of Rna Binding Domain In
Methenyltetrahydrofolate Synthetase Domain Containing
Length = 97
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 36/78 (46%), Gaps = 7/78 (8%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQ-SRGYGFVKFASEAAAGEAIKE 87
+++G L D + LK A + G + R+T Q R F+ + AAA +A+
Sbjct: 22 VYVGNLPRDARVSDLKRALRELGSVPL------RLTWQGPRRRAFLHYPDSAAAQQAVSC 75
Query: 88 MDGLLLDGRNIRVNYAHK 105
+ GL L +RV A +
Sbjct: 76 LQGLRLGTDTLRVALARQ 93
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 39/84 (46%), Gaps = 7/84 (8%)
Query: 21 SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80
S S+ KL+IG LS L+ FG + +V+ GY FV + +
Sbjct: 3 SGSSGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL------KSGYAFVDYPDQNW 56
Query: 81 AGEAIKEMDGLL-LDGRNIRVNYA 103
A AI+ + G + L G+ + V+Y+
Sbjct: 57 AIRAIETLSGKVELHGKIMEVDYS 80
>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 = 0.31, 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|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 42/82 (51%), Gaps = 17/82 (20%)
Query: 27 TKLFIGGLSYDTNETVLKDA-----FGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
+++FIG L N V+K + F ++G+I+ V +G+ FV++ +E A
Sbjct: 16 SRVFIGNL----NTLVVKKSDVEAIFSKYGKIVGCSV--------HKGFAFVQYVNERNA 63
Query: 82 GEAIKEMDGLLLDGRNIRVNYA 103
A+ DG ++ G+ + +N A
Sbjct: 64 RAAVAGEDGRMIAGQVLDINLA 85
>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 = 0.39, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81
+ ++RT +F L+ L+D F G++ +V++I DR + +S+G +V+F +
Sbjct: 22 ERDART-VFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSV 80
Query: 82 GEAI 85
AI
Sbjct: 81 PLAI 84
>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 = 29.6 bits (65), Expect = 0.43, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 2 RPLSDQEKRKQIXVRGLAGVENVTELKKNFNRHLHFTLVK---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 = 29.6 bits (65), Expect = 0.43, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 2 RPLSDQEKRKQIXVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 53
>pdb|1Z8D|A Chain A, Crystal Structure Of Human Muscle Glycogen Phosphorylase
A With Amp And Glucose
Length = 842
Score = 29.6 bits (65), Expect = 0.47, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 3 RPLSDQEKRKQIXVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 54
>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 = 29.3 bits (64), Expect = 0.56, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 2 RPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 53
>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 = 29.3 bits (64), Expect = 0.57, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 2 RPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---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 = 29.3 bits (64), Expect = 0.57, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 2 RPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---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 = 29.3 bits (64), Expect = 0.57, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 1 RPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 52
>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 = 29.3 bits (64), Expect = 0.57, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 3 RPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 54
>pdb|2DIS|A Chain A, Solution Structure Of The Rrm Domain Of Unnamed Protein
Product
Length = 109
Score = 29.3 bits (64), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 46/90 (51%), Gaps = 4/90 (4%)
Query: 21 SDSNSRTKLFIGGLS-YDTNETVLKDAFGQHGEIIEVKVICDRVTG-QSRGYGFVKFASE 78
S S+ +LFIGG+ E +L++ +++V V ++RG+ FV++ S
Sbjct: 3 SGSSGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESH 62
Query: 79 AAAGEAIKE-MDG-LLLDGRNIRVNYAHKD 106
AA A ++ M G + L G I V++A +
Sbjct: 63 RAAAMARRKLMPGRIQLWGHQIAVDWAEPE 92
>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 = 29.3 bits (64), Expect = 0.57, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 2 RPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---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 = 29.3 bits (64), Expect = 0.57, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGF 72
R LSD R ++ + GL+ N T LK F +H VK DR R Y F
Sbjct: 2 RPLSDQEKRKQISVRGLAGVENVTELKKNFNRHLHFTLVK---DRNVATPRDYYF 53
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 28.9 bits (63), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 36/85 (42%), Gaps = 8/85 (9%)
Query: 29 LFIGGLSYDTNETVLKDAFGQHGEI--------IEVKVICDRVTGQSRGYGFVKFASEAA 80
+++ GL+ L D F Q G + + + D+ TG+ +G V +
Sbjct: 18 IYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPT 77
Query: 81 AGEAIKEMDGLLLDGRNIRVNYAHK 105
A A++ DG G ++V+ A K
Sbjct: 78 AKAAVEWFDGKDFQGSKLKVSLARK 102
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 28.9 bits (63), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 43/80 (53%), Gaps = 13/80 (16%)
Query: 27 TKLFIGGLSYD-TNETVLKDAFGQHGEIIEVKVICDRVTGQS--RGYGFVKFASEAAAGE 83
+++FIG L+ ++ ++ F ++G RV G S +GY FV++++E A
Sbjct: 28 SRVFIGNLNTALVKKSDVETIFSKYG----------RVAGCSVHKGYAFVQYSNERHARA 77
Query: 84 AIKEMDGLLLDGRNIRVNYA 103
A+ +G +L G+ + +N A
Sbjct: 78 AVLGENGRVLAGQTLDINMA 97
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 28.9 bits (63), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 6/76 (7%)
Query: 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86
T +IG + + E L F G I++ K +G F+K+ + A I
Sbjct: 28 TTAYIGNIPHFATEADLIPLFQNFGFILDFKHY------PEKGCCFIKYDTHEQAAVCIV 81
Query: 87 EMDGLLLDGRNIRVNY 102
+ GRN+R +
Sbjct: 82 ALANFPFQGRNLRTGW 97
>pdb|1JMT|A Chain A, X-Ray Structure Of A Core U2af65U2AF35 HETERODIMER
Length = 104
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 40 ETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNI 98
E V + ++GE+ E+ V CD + G +VKF E A +A+ +++ +G+ I
Sbjct: 41 EEVFTEMEEKYGEVEEMNV-CDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPI 98
>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 = 23/74 (31%), Positives = 39/74 (52%), Gaps = 5/74 (6%)
Query: 31 IGGLSYDTNETVLKDAFGQHG-EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMD 89
+ G+ + E ++D F HG + V ++ D V G++ G G VKF S EA+K +
Sbjct: 21 VHGMPFSAMENDVRDFF--HGLRVDAVHLLKDHV-GRNNGNGLVKFLSPQDTFEALKR-N 76
Query: 90 GLLLDGRNIRVNYA 103
+L+ R + V+ A
Sbjct: 77 RMLMIQRYVEVSPA 90
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 5/70 (7%)
Query: 28 KLFIGGLSYDTNETVLKDAFGQHGEII--EVKVICDRVTGQSRGYGFVKFASEAAAG--- 82
K+F+GGL D +E + +F + G ++ + +GY F+ F E++
Sbjct: 10 KVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEESSVQALI 69
Query: 83 EAIKEMDGLL 92
+A E DG L
Sbjct: 70 DACLEEDGKL 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 = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 13/45 (28%), Positives = 25/45 (55%)
Query: 12 HSVRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEV 56
H + + + ++N + IGG +TN +L + F ++GE I+V
Sbjct: 154 HYNKALFVAKENNLNAIIIIGGDDSNTNAAILAEYFKKNGENIQV 198
>pdb|2X7X|A Chain A, Fructose Binding Periplasmic Domain Of Hybrid Two
Component System Bt1754
pdb|2X7X|B Chain B, Fructose Binding Periplasmic Domain Of Hybrid Two
Component System Bt1754
Length = 325
Score = 26.2 bits (56), Expect = 4.5, Method: Composition-based stats.
Identities = 27/105 (25%), Positives = 42/105 (40%), Gaps = 19/105 (18%)
Query: 18 RLLSDSNSRTKLFIGGLSYDTNETV---LKDAFGQHGEIIEVKVICDRVTGQSRGYGF-- 72
++LSD + +IG +Y+ +V + + G I+E+ + R GF
Sbjct: 96 KILSD---KYTAYIGADNYEIGRSVGNYIASSLKGKGNIVELTGLSGSTPAMERHQGFMA 152
Query: 73 -------VKFASEAAA----GEAIKEMDGLLLDGRNIRVNYAHKD 106
+K +A A G A EMD +L I YAH D
Sbjct: 153 AISKFPDIKLIDKADAAWERGPAEIEMDSMLRRHPKIDAVYAHND 197
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
0.321 0.137 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,082,487
Number of Sequences: 62578
Number of extensions: 108296
Number of successful extensions: 579
Number of sequences better than 100.0: 208
Number of HSP's better than 100.0 without gapping: 189
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 333
Number of HSP's gapped (non-prelim): 236
length of query: 106
length of database: 14,973,337
effective HSP length: 71
effective length of query: 35
effective length of database: 10,530,299
effective search space: 368560465
effective search space used: 368560465
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)