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= 033181
(125 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 83.2 bits (204), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 35/116 (30%), Positives = 75/116 (64%), Gaps = 3/116 (2%)
Query: 5 EDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAF 64
D N ++ L+G++ I+++N++ + + ++ F LFVG+L+ +V E+L AF
Sbjct: 52 HDANIALQTLNGKQIENNIVKINWAFQSQQS---SSDDTFNLFVGDLNVNVDDETLRNAF 108
Query: 65 QEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 120
+++ + + V++D ++G SRGYGFV ++++ + + A++S+ G +L GR +R++ A
Sbjct: 109 KDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA 164
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 44/75 (58%), Gaps = 1/75 (1%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L+VGNL ++T + L Q FQ G + +++ D ++ ++ Y FV Y + AL++L
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMID-KNNKNVNYAFVEYHQSHDANIALQTL 61
Query: 106 NGVELEGRAMRVSLA 120
NG ++E ++++ A
Sbjct: 62 NGKQIENNIVKINWA 76
>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 = 72.8 bits (177), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 55/77 (71%)
Query: 44 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALE 103
F LFVG+L+ +V E+L AF+++ + + V++D ++G SRGYGFV ++++ + + A++
Sbjct: 2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 61
Query: 104 SLNGVELEGRAMRVSLA 120
S+ G +L GR +R++ A
Sbjct: 62 SMQGQDLNGRPLRINWA 78
>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 = 69.7 bits (169), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 49/77 (63%)
Query: 44 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALE 103
F +FVG+LS +TTE + AF +G + ARV+ D +G+S+GYGFV + K + E A++
Sbjct: 16 FHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 75
Query: 104 SLNGVELEGRAMRVSLA 120
+ G L GR +R + A
Sbjct: 76 QMGGQWLGGRQIRTNWA 92
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 69.3 bits (168), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 48/80 (60%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+FVGN+ + T E L F E G VV R++YD E+G+ +GYGF Y + +A+ +L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 106 NGVELEGRAMRVSLAQGRRS 125
NG E GRA+RV A ++
Sbjct: 71 NGREFSGRALRVDNAASEKN 90
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 9 AVIENLDGREYLGRILRVN 27
+ + NL+GRE+ GR LRV+
Sbjct: 65 SAMRNLNGREFSGRALRVD 83
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 68.6 bits (166), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 48/77 (62%)
Query: 44 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALE 103
F +FVG+LS +TTE + AF +G + ARV+ D +G+S+GYGFV + K + E A+
Sbjct: 16 FHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIV 75
Query: 104 SLNGVELEGRAMRVSLA 120
+ G L GR +R + A
Sbjct: 76 HMGGQWLGGRQIRTNWA 92
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 30/73 (41%), Positives = 49/73 (67%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+L+VG+L +++T + L F+ +G + +++ D E+GRS+GYGF+ +S + ALE
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 105 LNGVELEGRAMRV 117
LNG EL GR M+V
Sbjct: 88 LNGFELAGRPMKV 100
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 65.5 bits (158), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 32/81 (39%), Positives = 49/81 (60%)
Query: 40 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEME 99
A + KLFVG LS+ +SL Q F +YG + V+ D E+ RSRG+GFV + + +
Sbjct: 9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAK 68
Query: 100 TALESLNGVELEGRAMRVSLA 120
A+ ++NG ++GR +RV A
Sbjct: 69 DAMMAMNGKSVDGRQIRVDQA 89
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 30/72 (41%), Positives = 46/72 (63%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L+VG+L +++T + L F+ +G + ++ D ++GRS+GYGF+ +S ALE L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 106 NGVELEGRAMRV 117
NG EL GR MRV
Sbjct: 68 NGFELAGRPMRV 79
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 60.1 bits (144), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 47/76 (61%), Gaps = 2/76 (2%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L+V NL + E L +AF +G + A+V+ +G GRS+G+GFVC+S+ E A+ +
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG--GRSKGFGFVCFSSPEEATKAVTEM 75
Query: 106 NGVELEGRAMRVSLAQ 121
NG + + + V+LAQ
Sbjct: 76 NGRIVATKPLYVALAQ 91
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 58.9 bits (141), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 62/118 (52%), Gaps = 5/118 (4%)
Query: 2 STVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLT 61
S D + I L+G + + ++V+++ + D L+V L +++ + +
Sbjct: 54 SDPNDADKAINTLNGLKLQTKTIKVSYARPSSASI-----RDANLYVSGLPKTMSQKEME 108
Query: 62 QAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 119
Q F +YG ++ +R+L D +G SRG GF+ + + E E A++ LNG + G A +++
Sbjct: 109 QLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGAAEPITV 166
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 45/76 (59%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V L ++T + F G++ +++ D +G+S GYGFV YS + + A+ +L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 106 NGVELEGRAMRVSLAQ 121
NG++L+ + ++VS A+
Sbjct: 67 NGLKLQTKTIKVSYAR 82
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 58.9 bits (141), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 48/76 (63%), Gaps = 1/76 (1%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
K+FVG L + T SL + F+ +G++ A V+ D ++G+SRGYGFV + +A E A +
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 105 LNGVELEGRAMRVSLA 120
N + ++GR V+LA
Sbjct: 79 PNPI-IDGRKANVNLA 93
>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 = 58.9 bits (141), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 31/108 (28%), Positives = 56/108 (51%), Gaps = 5/108 (4%)
Query: 5 EDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAF 64
+D I L+G + ++V+++ + D L+V L ++T + L Q F
Sbjct: 55 KDAEKAINTLNGLRLQTKTIKVSYARPSSASI-----RDANLYVSGLPKTMTQKELEQLF 109
Query: 65 QEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEG 112
+YG ++ +R+L D +G SRG GF+ + + E E A++ LNG + G
Sbjct: 110 SQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSG 157
Score = 49.3 bits (116), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V L ++T E F G + +++ D +G+S GYGFV Y + E A+ +L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 106 NGVELEGRAMRVSLAQ 121
NG+ L+ + ++VS A+
Sbjct: 65 NGLRLQTKTIKVSYAR 80
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 58.5 bits (140), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 50/80 (62%), Gaps = 1/80 (1%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
++VGNL +S T+E + + F ++G V +++YD E+ + +G+GFV ++ E A+ L
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSE-AIAKL 62
Query: 106 NGVELEGRAMRVSLAQGRRS 125
+ + GR +RV+ A ++S
Sbjct: 63 DNTDFMGRTIRVTEANPKKS 82
>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 = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 45/78 (57%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LFV +++ T L + F+ YG + ++Y SG+ RGY F+ Y + +M +A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 106 NGVELEGRAMRVSLAQGR 123
+G +++GR + V + +GR
Sbjct: 165 DGKKIDGRRVLVDVERGR 182
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 51/91 (56%), Gaps = 1/91 (1%)
Query: 33 KPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCY 92
K + P E KLF+G LS+ T ESL F+++G + V+ D + RSRG+GFV Y
Sbjct: 1 KSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 60
Query: 93 STKAEMETALESLNGVELEGRAMRVSLAQGR 123
+T E++ A+ + +++GR + A R
Sbjct: 61 ATVEEVDAAMNA-RPHKVDGRVVEPKRAVSR 90
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 55/120 (45%), Gaps = 12/120 (10%)
Query: 2 STVEDCNAVIENLDGREYLGRILR----VNFSDKPKPKLPLYAETDFKLFVGNLSWSVTT 57
+TVE+ +A + N + GR++ V+ D +P L + K+FVG +
Sbjct: 61 ATVEEVDAAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVK---KIFVGGIKEDTEE 116
Query: 58 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL----ESLNGVELEGR 113
L F++YG + ++ D SG+ RG+ FV + ++ + ++NG E R
Sbjct: 117 HHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 176
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 51/91 (56%), Gaps = 1/91 (1%)
Query: 33 KPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCY 92
K + P E KLF+G LS+ T ESL F+++G + V+ D + RSRG+GFV Y
Sbjct: 3 KSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 62
Query: 93 STKAEMETALESLNGVELEGRAMRVSLAQGR 123
+T E++ A+ + +++GR + A R
Sbjct: 63 ATVEEVDAAMNA-RPHKVDGRVVEPKRAVSR 92
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 55/120 (45%), Gaps = 12/120 (10%)
Query: 2 STVEDCNAVIENLDGREYLGRILR----VNFSDKPKPKLPLYAETDFKLFVGNLSWSVTT 57
+TVE+ +A + N + GR++ V+ D +P L + K+FVG +
Sbjct: 63 ATVEEVDAAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVK---KIFVGGIKEDTEE 118
Query: 58 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL----ESLNGVELEGR 113
L F++YG + ++ D SG+ RG+ FV + ++ + ++NG E R
Sbjct: 119 HHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 178
>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 = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 51/91 (56%), Gaps = 1/91 (1%)
Query: 33 KPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCY 92
K + P E KLF+G LS+ T ESL F+++G + V+ D + RSRG+GFV Y
Sbjct: 3 KSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 62
Query: 93 STKAEMETALESLNGVELEGRAMRVSLAQGR 123
+T E++ A+ + +++GR + A R
Sbjct: 63 ATVEEVDAAMNA-RPHKVDGRVVEPKRAVSR 92
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 55/120 (45%), Gaps = 12/120 (10%)
Query: 2 STVEDCNAVIENLDGREYLGRILR----VNFSDKPKPKLPLYAETDFKLFVGNLSWSVTT 57
+TVE+ +A + N + GR++ V+ D +P L + K+FVG +
Sbjct: 63 ATVEEVDAAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVK---KIFVGGIKEDTEE 118
Query: 58 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL----ESLNGVELEGR 113
L F++YG + ++ D SG+ RG+ FV + ++ + ++NG E R
Sbjct: 119 HHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 178
>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 = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 51/91 (56%), Gaps = 1/91 (1%)
Query: 33 KPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCY 92
K + P E KLF+G LS+ T ESL F+++G + V+ D + RSRG+GFV Y
Sbjct: 2 KSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 61
Query: 93 STKAEMETALESLNGVELEGRAMRVSLAQGR 123
+T E++ A+ + +++GR + A R
Sbjct: 62 ATVEEVDAAMNA-RPHKVDGRVVEPKRAVSR 91
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 55/120 (45%), Gaps = 12/120 (10%)
Query: 2 STVEDCNAVIENLDGREYLGRILR----VNFSDKPKPKLPLYAETDFKLFVGNLSWSVTT 57
+TVE+ +A + N + GR++ V+ D +P L + K+FVG +
Sbjct: 62 ATVEEVDAAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVK---KIFVGGIKEDTEE 117
Query: 58 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL----ESLNGVELEGR 113
L F++YG + ++ D SG+ RG+ FV + ++ + ++NG E R
Sbjct: 118 HHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 177
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 51/91 (56%), Gaps = 1/91 (1%)
Query: 33 KPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCY 92
K + P E KLF+G LS+ T ESL F+++G + V+ D + RSRG+GFV Y
Sbjct: 4 KSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 63
Query: 93 STKAEMETALESLNGVELEGRAMRVSLAQGR 123
+T E++ A+ + +++GR + A R
Sbjct: 64 ATVEEVDAAMNA-RPHKVDGRVVEPKRAVSR 93
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 55/120 (45%), Gaps = 12/120 (10%)
Query: 2 STVEDCNAVIENLDGREYLGRILR----VNFSDKPKPKLPLYAETDFKLFVGNLSWSVTT 57
+TVE+ +A + N + GR++ V+ D +P L + K+FVG +
Sbjct: 64 ATVEEVDAAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVK---KIFVGGIKEDTEE 119
Query: 58 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL----ESLNGVELEGR 113
L F++YG + ++ D SG+ RG+ FV + ++ + ++NG E R
Sbjct: 120 HHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 179
>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 = 29/79 (36%), Positives = 44/79 (55%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V LS T L + F +YG + ++YD +S RSRG+ FV + + + A E
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 74
Query: 106 NGVELEGRAMRVSLAQGRR 124
NG+EL+GR +RV + +R
Sbjct: 75 NGMELDGRRIRVDFSITKR 93
>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 = 57.0 bits (136), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 47/81 (58%), Gaps = 2/81 (2%)
Query: 43 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
D L+V NL ++T + L F +YG++V +L D +GR RG FV Y+ + E + A+
Sbjct: 100 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 159
Query: 103 ESLNGVELEG--RAMRVSLAQ 121
+LN V EG + + V LA+
Sbjct: 160 SALNNVIPEGGSQPLSVRLAE 180
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 41/76 (53%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V L T L F+ G + R+ D ++G S GY FV ++++ + + A++ L
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 106 NGVELEGRAMRVSLAQ 121
NG+ + + ++VS A+
Sbjct: 77 NGITVRNKRLKVSYAR 92
>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 = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 47/79 (59%), Gaps = 1/79 (1%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
KLF+G LS+ T ESL F+++G + V+ D + RSRG+GFV Y+T E++ A+ +
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 105 LNGVELEGRAMRVSLAQGR 123
+++GR + A R
Sbjct: 68 RPH-KVDGRVVEPKRAVSR 85
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 55/120 (45%), Gaps = 12/120 (10%)
Query: 2 STVEDCNAVIENLDGREYLGRILR----VNFSDKPKPKLPLYAETDFKLFVGNLSWSVTT 57
+TVE+ +A + N + GR++ V+ D +P L + K+FVG +
Sbjct: 56 ATVEEVDAAM-NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVK---KIFVGGIKEDTEE 111
Query: 58 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL----ESLNGVELEGR 113
L F++YG + ++ D SG+ RG+ FV + ++ + ++NG E R
Sbjct: 112 HHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVR 171
>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 = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 47/81 (58%), Gaps = 2/81 (2%)
Query: 43 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
D L+V NL ++T + L F +YG++V +L D +GR RG FV Y+ + E + A+
Sbjct: 13 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 72
Query: 103 ESLNGVELEG--RAMRVSLAQ 121
+LN V EG + + V LA+
Sbjct: 73 SALNNVIPEGGSQPLSVRLAE 93
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 44/79 (55%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V LS T L + F +YG + ++YD +S RSRG+ FV + + + A E
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 106 NGVELEGRAMRVSLAQGRR 124
NG+EL+GR +RV + +R
Sbjct: 78 NGMELDGRRIRVDFSITKR 96
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 56.2 bits (134), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 45/77 (58%)
Query: 43 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
D L+V NL ++T + L F +YG++V +L D +GR RG FV Y+ + E + A+
Sbjct: 89 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 148
Query: 103 ESLNGVELEGRAMRVSL 119
+LN V EG + +S+
Sbjct: 149 SALNNVIPEGGSQPLSV 165
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 43/76 (56%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V L +T L F+ G + R++ D ++G S GY FV ++++ + + A++ L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 106 NGVELEGRAMRVSLAQ 121
NG+ + + ++VS A+
Sbjct: 66 NGITVRNKRLKVSYAR 81
>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 = 55.8 bits (133), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 44/76 (57%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V L ++T + L F G V A+++ D +G S GYGFV Y T + E A+ +L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 106 NGVELEGRAMRVSLAQ 121
NG+ L+ + ++VS A+
Sbjct: 65 NGLRLQSKTIKVSYAR 80
Score = 55.1 bits (131), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 61/117 (52%), Gaps = 5/117 (4%)
Query: 3 TVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQ 62
T +D I L+G + ++V+++ +P ++ D L++ L ++T + +
Sbjct: 53 TAKDAERAINTLNGLRLQSKTIKVSYA-RPSSEVI----KDANLYISGLPRTMTQKDVED 107
Query: 63 AFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 119
F +G ++ +RVL D +G SRG F+ + ++E E A+ S NG + G + +++
Sbjct: 108 MFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITV 164
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 55.8 bits (133), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 46/77 (59%)
Query: 43 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
D L+V L +++ + + Q F +YG ++ +R+L D +G SRG GF+ + + E E A+
Sbjct: 1 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 60
Query: 103 ESLNGVELEGRAMRVSL 119
+ LNG + G A +++
Sbjct: 61 KGLNGQKPLGAAEPITV 77
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 55.8 bits (133), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 44/76 (57%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V L ++T + L F G V A+++ D +G S GYGFV Y T + E A+ +L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 106 NGVELEGRAMRVSLAQ 121
NG+ L+ + ++VS A+
Sbjct: 65 NGLRLQSKTIKVSYAR 80
Score = 55.5 bits (132), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 61/117 (52%), Gaps = 5/117 (4%)
Query: 3 TVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQ 62
T +D I L+G + ++V+++ +P ++ D L++ L ++T + +
Sbjct: 53 TAKDAERAINTLNGLRLQSKTIKVSYA-RPSSEVI----KDANLYISGLPRTMTQKDVED 107
Query: 63 AFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 119
F +G ++ +RVL D +G SRG F+ + ++E E A+ S NG + G + +++
Sbjct: 108 MFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITV 164
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 55.8 bits (133), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 30/75 (40%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
KL V NL + V+ + + F E+G + A V YD SGRS G V + KA+ A++
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYD-RSGRSLGTADVHFERKADALKAMKQ 88
Query: 105 LNGVELEGRAMRVSL 119
NGV L+GR M + L
Sbjct: 89 YNGVPLDGRPMNIQL 103
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 55.5 bits (132), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 44/79 (55%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V LS T L + F +YG + ++YD +S RSRG+ FV + + + A E
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 108
Query: 106 NGVELEGRAMRVSLAQGRR 124
NG+EL+GR +RV + +R
Sbjct: 109 NGMELDGRRIRVDFSITKR 127
>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 = 55.5 bits (132), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 50/79 (63%)
Query: 42 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETA 101
+ F +FVG+LS +TT ++ AF +G + ARV+ D +G+S+GYGFV + K + E A
Sbjct: 5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENA 64
Query: 102 LESLNGVELEGRAMRVSLA 120
++ + G L GR +R + A
Sbjct: 65 IQQMGGQWLGGRQIRTNWA 83
>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 = 55.5 bits (132), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 47/76 (61%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V NL++ + ++L + F++YG V + D + SRG+ FV + K + E A++++
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 106 NGVELEGRAMRVSLAQ 121
+G L+GR +RV +A+
Sbjct: 110 DGAVLDGRELRVQMAR 125
>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 = 55.5 bits (132), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 44/76 (57%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V L ++T + L F G V A+++ D +G S GYGFV Y T + E A+ +L
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 106 NGVELEGRAMRVSLAQ 121
NG+ L+ + ++VS A+
Sbjct: 67 NGLRLQSKTIKVSYAR 82
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 55.5 bits (132), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 47/76 (61%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V NL++ + ++L + F++YG V + D + SRG+ FV + K + E A++++
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 106 NGVELEGRAMRVSLAQ 121
+G L+GR +RV +A+
Sbjct: 133 DGAVLDGRELRVQMAR 148
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 55.5 bits (132), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 42/73 (57%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V LS T L + F +YG + ++YD +S RSRG+ FV + + + A E
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 106 NGVELEGRAMRVS 118
NG+EL+GR +RVS
Sbjct: 78 NGMELDGRRIRVS 90
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 55.1 bits (131), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 39/58 (67%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
KLF+G LS+ T ESL ++++G + V+ D S RSRG+GFV +S+ AE++ A+
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM 86
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 55.1 bits (131), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
K FVG LSW + + L F ++G VV + D +GRSRG+GF+ + A +E L+
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 105 LNGVELEGRAM 115
L+GR +
Sbjct: 73 KEH-RLDGRVI 82
>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 = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+F+ NL S+ ++L F +GN++ +V+ D E+G S+GYGFV + T+ E A+E +
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 158
Query: 106 NGVELEGRAMRVSLAQGRR 124
NG+ L R + V + R+
Sbjct: 159 NGMLLNDRKVFVGRFKSRK 177
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 2/88 (2%)
Query: 34 PKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYS 93
P P Y L+VG+L VT L + F G ++ RV D + RS GY +V +
Sbjct: 3 PSAPSYPMA--SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQ 60
Query: 94 TKAEMETALESLNGVELEGRAMRVSLAQ 121
A+ E AL+++N ++G+ +R+ +Q
Sbjct: 61 QPADAERALDTMNFDVIKGKPVRIMWSQ 88
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+F+ NL S+ ++L F +GN++ +V+ D E+G S+GYGFV + T+ E A+E +
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 71
Query: 106 NGVELEGRAMRVSLAQGRR 124
NG+ L R + V + R+
Sbjct: 72 NGMLLNDRKVFVGRFKSRK 90
>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 = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+F+ NL S+ ++L F +GN++ +V+ D E+G S+GYGFV + T+ E A+E +
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 163
Query: 106 NGVELEGRAMRVSLAQGRR 124
NG+ L R + V + R+
Sbjct: 164 NGMLLNDRKVFVGRFKSRK 182
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 2/88 (2%)
Query: 34 PKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYS 93
P P Y L+VG+L VT L + F G ++ RV D + RS GY +V +
Sbjct: 8 PSAPSYPMA--SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQ 65
Query: 94 TKAEMETALESLNGVELEGRAMRVSLAQ 121
A+ E AL+++N ++G+ +R+ +Q
Sbjct: 66 QPADAERALDTMNFDVIKGKPVRIMWSQ 93
>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 = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 43/76 (56%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V L + T + L F G V A+++ D +G S GYGFV Y T + E A+ +L
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 106 NGVELEGRAMRVSLAQ 121
NG+ L+ + ++VS A+
Sbjct: 82 NGLRLQSKTIKVSYAR 97
>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 = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 44/78 (56%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LF+ +L + L Q F +GNVV A+V D ++ S+ +GFV Y + A++S+
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 106 NGVELEGRAMRVSLAQGR 123
NG ++ + ++V L + +
Sbjct: 88 NGFQIGMKRLKVQLKRSK 105
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 43/75 (57%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
++V NL +S+T L + F +YG VV ++ D ++ +S+G F+ + K + ++
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 106 NGVELEGRAMRVSLA 120
N +L GR ++ S+A
Sbjct: 79 NNKQLFGRVIKASIA 93
>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 = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+F+ NL S+ ++L F +GN++ +V+ D E+G S+GYGFV + T+ E A+E +
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERAIEKM 65
Query: 106 NGVELEGRAMRVSLAQGRR 124
NG+ L R + V + R+
Sbjct: 66 NGMLLNDRKVFVGRFKSRK 84
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
KLFVG L WS T E+L F +YG VV ++ D + +SRG+GFV + + T L S
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 105 LNGVELEGRAM 115
L+GR +
Sbjct: 78 RPHT-LDGRNI 87
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 41 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMET 100
ET KL V NL + V+ + + F E+G + A V YD SGRS G V + +A+
Sbjct: 86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADALK 144
Query: 101 ALESLNGVELEGRAMRVSL 119
A++ GV L+GR M + L
Sbjct: 145 AMKQYKGVPLDGRPMDIQL 163
>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 = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 40/62 (64%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
K+F+G L+W T ++L + F +YG V +++ D +GRSRG+GF+ + + ++ +++
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 105 LN 106
+
Sbjct: 65 QH 66
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 46/80 (57%), Gaps = 1/80 (1%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
K+FVG + V + + F ++G ++ A+++ D ++G+SRG+GFV Y + ++ ++
Sbjct: 89 KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQN 148
Query: 105 LNGVELEGRAMRVSLAQGRR 124
++ + R + + A+ R
Sbjct: 149 -KFIDFKDRKIEIKRAEPRH 167
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 42/83 (50%), Gaps = 1/83 (1%)
Query: 36 LPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTK 95
P E D +FVGNL V E L + F + G + + D E G+ + +GFVC+
Sbjct: 9 FPAQEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHP 67
Query: 96 AEMETALESLNGVELEGRAMRVS 118
+ A+ LNG+ L GR + VS
Sbjct: 68 ESVSYAIALLNGIRLYGRPINVS 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 = 53.5 bits (127), Expect = 3e-08, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 45/78 (57%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LFV +++ T L + F+ YG + ++Y SG+ RGY F+ Y + +M +A +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 106 NGVELEGRAMRVSLAQGR 123
+G +++GR + V + +GR
Sbjct: 165 DGKKIDGRRVLVDVERGR 182
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 52.8 bits (125), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 48/85 (56%)
Query: 40 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEME 99
A T L+VG L+ V + L AF +G++ ++ D E+ + RG+ FV + +
Sbjct: 9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 68
Query: 100 TALESLNGVELEGRAMRVSLAQGRR 124
A++++N EL GR +RV+LA+ R
Sbjct: 69 AAIDNMNESELFGRTIRVNLAKPMR 93
Score = 28.9 bits (63), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 5 EDCNAVIENLDGREYLGRILRVNFSDKP 32
ED A I+N++ E GR +RVN + KP
Sbjct: 65 EDAAAAIDNMNESELFGRTIRVNLA-KP 91
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 45/76 (59%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L+VG L+ V + L AF +G++ ++ D E+ + RG+ FV + + A++++
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 106 NGVELEGRAMRVSLAQ 121
N EL GR +RV+LA+
Sbjct: 68 NESELFGRTIRVNLAK 83
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 5 EDCNAVIENLDGREYLGRILRVNFS 29
ED A I+N++ E GR +RVN +
Sbjct: 58 EDAAAAIDNMNESELFGRTIRVNLA 82
>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 = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 45/76 (59%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L+VG L+ V + L AF +G++ ++ D E+ + RG+ FV + + A++++
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 106 NGVELEGRAMRVSLAQ 121
N EL GR +RV+LA+
Sbjct: 70 NESELFGRTIRVNLAK 85
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 5 EDCNAVIENLDGREYLGRILRVNFS 29
ED A I+N++ E GR +RVN +
Sbjct: 60 EDAAAAIDNMNESELFGRTIRVNLA 84
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 48/80 (60%), Gaps = 1/80 (1%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V NL++ + +SL + F++YG V + + + RG+ FV + + + + A ++
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 106 NGVELEGRAMRVSLAQ-GRR 124
+G EL+GR +RV +A+ GRR
Sbjct: 76 DGAELDGRELRVQVARYGRR 95
>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 = 52.4 bits (124), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 44/75 (58%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L+VG L+ V + L AF +G++ ++ D E+ + RG+ FV + + A++++
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 106 NGVELEGRAMRVSLA 120
N EL GR +RV+LA
Sbjct: 65 NESELFGRTIRVNLA 79
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 5 EDCNAVIENLDGREYLGRILRVNFS 29
ED A I+N++ E GR +RVN +
Sbjct: 55 EDAAAAIDNMNESELFGRTIRVNLA 79
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 52.0 bits (123), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 41 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMET 100
ET KL V NL + V+ + + F E+G + A V YD SGRS G V + +A+
Sbjct: 33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADALK 91
Query: 101 ALESLNGVELEGRAMRVSL 119
A++ GV L+GR M + L
Sbjct: 92 AMKQYKGVPLDGRPMDIQL 110
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 52.0 bits (123), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 41 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMET 100
ET KL V NL + V+ + + F E+G + A V YD SGRS G V + +A+
Sbjct: 33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADALK 91
Query: 101 ALESLNGVELEGRAMRVSL 119
A++ GV L+GR M + L
Sbjct: 92 AMKQYKGVPLDGRPMDIQL 110
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 52.0 bits (123), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 45/76 (59%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V L ++T + F G++ +++ D +G+S GYGFV YS + + A+ +L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 106 NGVELEGRAMRVSLAQ 121
NG++L+ + ++VS A+
Sbjct: 67 NGLKLQTKTIKVSYAR 82
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 52.0 bits (123), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 47/81 (58%), Gaps = 1/81 (1%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
K+F+G LSW T E L + F ++G V V+ D + RSRG+GFV + +A ++ L +
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL-A 85
Query: 105 LNGVELEGRAMRVSLAQGRRS 125
+ EL+ + + +A RR+
Sbjct: 86 QSRHELDSKTIDPKVAFPRRA 106
>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 = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
KL V NL + V+ + + F E+G + A V YD SGRS G V + KA+ A +
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYD-RSGRSLGTADVHFERKADALKAXKQ 89
Query: 105 LNGVELEGRAMRVSL 119
NGV L+GR + L
Sbjct: 90 YNGVPLDGRPXNIQL 104
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 46/81 (56%)
Query: 40 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEME 99
A T L+VG L+ V + L AF +G++ ++ D E+ + RG+ FV + +
Sbjct: 60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 119
Query: 100 TALESLNGVELEGRAMRVSLA 120
A++++N EL GR +RV+LA
Sbjct: 120 AAIDNMNESELFGRTIRVNLA 140
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 5 EDCNAVIENLDGREYLGRILRVNFS 29
ED A I+N++ E GR +RVN +
Sbjct: 116 EDAAAAIDNMNESELFGRTIRVNLA 140
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 41/74 (55%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LF+ +L T L F +GNV+ A+V D ++ S+ +GFV + + A++++
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 106 NGVELEGRAMRVSL 119
NG ++ + ++V L
Sbjct: 103 NGFQVGTKRLKVQL 116
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 52/98 (53%), Gaps = 11/98 (11%)
Query: 26 VNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSR 85
+N +K +PK +L V N+ + L Q F ++G ++ ++++ E G S+
Sbjct: 21 MNTENKSQPK---------RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN-ERG-SK 69
Query: 86 GYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 123
G+GFV + A+ + A E L+G +EGR + V+ A R
Sbjct: 70 GFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATAR 107
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 47/89 (52%), Gaps = 2/89 (2%)
Query: 34 PKLPLYAETDF--KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVC 91
P + E D L V + +V L Q F+ YG + +++ D E+ +SRGYGFV
Sbjct: 31 PPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVK 90
Query: 92 YSTKAEMETALESLNGVELEGRAMRVSLA 120
+ + + + A+ LNG + + ++V+LA
Sbjct: 91 FQSGSSAQQAIAGLNGFNILNKRLKVALA 119
>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 = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCY----STKAEMETA 101
+F+G LSW T + L F ++G VV + D +GRSRG+GFV + S M+
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 102 LESLNG 107
LNG
Sbjct: 62 EHKLNG 67
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 45/79 (56%), Gaps = 2/79 (2%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+L V N+ + L Q F ++G ++ ++++ E G S+G+GFV + A+ + A E
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN-ERG-SKGFGFVTFENSADADRAREK 74
Query: 105 LNGVELEGRAMRVSLAQGR 123
L+G +EGR + V+ A R
Sbjct: 75 LHGTVVEGRKIEVNNATAR 93
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 35/58 (60%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
K+F+G LSW T E L + F ++G V V+ D + RSRG+GFV + +A ++ L
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL 59
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 49/79 (62%), Gaps = 5/79 (6%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L + NLS+S T E+L + F++ + + ++G+S+GY F+ +++ + + AL S
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 106 NGVELEGRAMRVSLAQGRR 124
N E+EGRA+R+ L QG R
Sbjct: 74 NKREIEGRAIRLEL-QGPR 91
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 49.7 bits (117), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 45/82 (54%), Gaps = 1/82 (1%)
Query: 40 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEME 99
A+ KLF+G L+ + L F ++G + ++ D + +SRG+ F+ + A+ +
Sbjct: 4 ADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKD-RTSKSRGFAFITFENPADAK 62
Query: 100 TALESLNGVELEGRAMRVSLAQ 121
A + +NG L G+A++V A+
Sbjct: 63 NAAKDMNGKSLHGKAIKVEQAK 84
>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 = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
Query: 30 DKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGF 89
D+P P+ + + LFV + T E + F EYG + + D +G +GY
Sbjct: 12 DEPGPQRSVEG---WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTL 68
Query: 90 VCYSTKAEMETALESLNGVELEGRAMRVS 118
V Y T E + A+E LNG +L G+ + V
Sbjct: 69 VEYETYKEAQAAMEGLNGQDLMGQPISVD 97
>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 = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
Query: 30 DKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGF 89
D+P P+ + + LFV + T E + F EYG + + D +G +GY
Sbjct: 13 DEPGPQRSVEG---WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTL 69
Query: 90 VCYSTKAEMETALESLNGVELEGRAMRVS 118
V Y T E + A+E LNG +L G+ + V
Sbjct: 70 VEYETYKEAQAAMEGLNGQDLMGQPISVD 98
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 46/76 (60%), Gaps = 3/76 (3%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LFV LS T E+L ++F V AR++ D E+G S+G+GFV ++++ + + A E++
Sbjct: 18 LFVKGLSEDTTEETLKESFD---GSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 106 NGVELEGRAMRVSLAQ 121
E++G + + A+
Sbjct: 75 EDGEIDGNKVTLDWAK 90
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 35/58 (60%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALE 103
+FVG LS + T E + F+++G V A +++D + R RG+GFV + ++ +E E
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE 59
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 46/81 (56%), Gaps = 1/81 (1%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVV-GARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+F+GNL + + L F +G ++ +++ D ++G S+GY F+ +++ + A+E+
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 105 LNGVELEGRAMRVSLAQGRRS 125
+NG L R + VS A + S
Sbjct: 68 MNGQYLCNRPITVSYAFKKDS 88
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 43/77 (55%), Gaps = 8/77 (10%)
Query: 44 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALE 103
+K+FVGN+S + T++ L F+ G V+ V+ D Y FV +A+ + A+
Sbjct: 10 WKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIA 61
Query: 104 SLNGVELEGRAMRVSLA 120
LNG E++G+ + V L+
Sbjct: 62 QLNGKEVKGKRINVELS 78
>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 = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 42/73 (57%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+++VG++ + + +++ QAF +G + + +D + + +G+ FV Y + ALE
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 105 LNGVELEGRAMRV 117
+N V L GR ++V
Sbjct: 75 MNSVMLGGRNIKV 87
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 41/76 (53%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+++V ++ ++ + + F+ +G + + D +G+ +GYGF+ Y + A+ S
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 171
Query: 105 LNGVELEGRAMRVSLA 120
+N +L G+ +RV A
Sbjct: 172 MNLFDLGGQYLRVGKA 187
>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 = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 36/73 (49%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LFV + T E + F EYG + + D +G +GY V Y T E + A+E L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 106 NGVELEGRAMRVS 118
NG +L G+ + V
Sbjct: 70 NGQDLMGQPISVD 82
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 46/81 (56%), Gaps = 1/81 (1%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
K+FVG + + L + F+++G V ++YD E R RG+GF+ + + ++ A+ +
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV-N 70
Query: 105 LNGVELEGRAMRVSLAQGRRS 125
++ ++ G+ + V A+ R S
Sbjct: 71 MHFHDIMGKKVEVKRAEPRDS 91
>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 = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 36/73 (49%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LFV + T E + F EYG + + D +G +GY V Y T E + A+E L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 106 NGVELEGRAMRVS 118
NG +L G+ + V
Sbjct: 72 NGQDLMGQPISVD 84
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 36/73 (49%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LFV + T E + F EYG + + D +G +GY V Y T E + A+E L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 106 NGVELEGRAMRVS 118
NG +L G+ + V
Sbjct: 70 NGQDLMGQPISVD 82
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 42/74 (56%), Gaps = 2/74 (2%)
Query: 40 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEME 99
A D KLF+G +S T + F +G + R+L G G SRG FV ++T+A +
Sbjct: 104 AVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILR-GPDGLSRGCAFVTFTTRAMAQ 162
Query: 100 TALESLNGVE-LEG 112
TA+++++ + +EG
Sbjct: 163 TAIKAMHQAQTMEG 176
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 5/68 (7%)
Query: 44 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYD--GESGRSRGYGFVCYSTKAEMETA 101
K+FVG + + + + L + F++YG V VL D +S+G FV + T+ + A
Sbjct: 16 IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTR---KAA 72
Query: 102 LESLNGVE 109
LE+ N +
Sbjct: 73 LEAQNALH 80
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 43/76 (56%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V L +T L F+ G + R++ D ++G S GY FV ++++ + + A++ L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 106 NGVELEGRAMRVSLAQ 121
NG+ + + ++VS A+
Sbjct: 66 NGITVRNKRLKVSYAR 81
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 6/76 (7%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+LFVGNL +T E + F+ YG + R RG+GF+ ++ E A
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEIAKAE 77
Query: 105 LNGVELEGRAMRVSLA 120
L+G L+ R +R+ A
Sbjct: 78 LDGTILKSRPLRIRFA 93
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 43/91 (47%), Gaps = 12/91 (13%)
Query: 13 NLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVG 72
LDG R LR+ F A L V NLS V+ E L QAF ++G V
Sbjct: 77 ELDGTILKSRPLRIRF-----------ATHGAALTVKNLSPVVSNELLEQAFSQFGPVEK 125
Query: 73 ARVLYDGESGRSRGYGFVCYSTKAEMETALE 103
A V+ D + GR+ G GFV ++ K ALE
Sbjct: 126 AVVVVD-DRGRATGKGFVEFAAKPPARKALE 155
>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 = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 36/73 (49%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LFV + T E + F EYG + + D +G +GY V Y T E + A+E L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 106 NGVELEGRAMRVS 118
NG +L G+ + V
Sbjct: 70 NGQDLMGQPISVD 82
>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 = 45.8 bits (107), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 42/73 (57%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+++VG++ + + +++ QAF +G + + +D + + +G+ FV Y + ALE
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 89
Query: 105 LNGVELEGRAMRV 117
+N V L GR ++V
Sbjct: 90 MNSVMLGGRNIKV 102
Score = 45.4 bits (106), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 42/76 (55%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+++V ++ ++ + + F+ +G + A + D +G+ +GYGF+ Y + A+ S
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 186
Query: 105 LNGVELEGRAMRVSLA 120
+N +L G+ +RV A
Sbjct: 187 MNLFDLGGQYLRVGKA 202
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 41/71 (57%), Gaps = 2/71 (2%)
Query: 43 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
D KLF+G +S T + F +G + R+L G G SRG FV ++T+A +TA+
Sbjct: 95 DRKLFIGMISKKCTENDIRVMFSSFGQIEECRILR-GPDGLSRGCAFVTFTTRAMAQTAI 153
Query: 103 ESLNGVE-LEG 112
++++ + +EG
Sbjct: 154 KAMHQAQTMEG 164
Score = 33.9 bits (76), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 5/68 (7%)
Query: 44 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESG--RSRGYGFVCYSTKAEMETA 101
K+FVG + + + + L + F++YG V VL D +S+G FV + T+ + A
Sbjct: 4 IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTR---KAA 60
Query: 102 LESLNGVE 109
LE+ N +
Sbjct: 61 LEAQNALH 68
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 41/76 (53%), Gaps = 6/76 (7%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+LFVGNL +T E + + F++YG G ++ + +G+GF+ T+ E A
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGK-AGEVFIH-----KDKGFGFIRLETRTLAEIAKVE 77
Query: 105 LNGVELEGRAMRVSLA 120
L+ + L G+ +RV A
Sbjct: 78 LDNMPLRGKQLRVRFA 93
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 45.8 bits (107), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 38/79 (48%), Gaps = 8/79 (10%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
KL VGN+S + T + L F+EYG V+ ++ D Y FV + A+
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRG 63
Query: 105 LNGVELEGRAMRVSLAQGR 123
L+ E +G+ M V L+ R
Sbjct: 64 LDNTEFQGKRMHVQLSTSR 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 = 45.4 bits (106), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 40/73 (54%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+++VG++ + + +++ QAF +G + +D + + +G+ FV Y + ALE
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 105 LNGVELEGRAMRV 117
N V L GR ++V
Sbjct: 74 XNSVXLGGRNIKV 86
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 40/76 (52%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+++V ++ ++ + + F+ +G + + D +G+ +GYGF+ Y + A+ S
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 170
Query: 105 LNGVELEGRAMRVSLA 120
N +L G+ +RV A
Sbjct: 171 XNLFDLGGQYLRVGKA 186
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 46/81 (56%)
Query: 43 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
D ++VG L V+ L + F + G VV + D +G+ +GYGFV + ++ + + A+
Sbjct: 15 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74
Query: 103 ESLNGVELEGRAMRVSLAQGR 123
+ ++ ++L G+ +RV+ A
Sbjct: 75 KIMDMIKLYGKPIRVNKASAH 95
>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 = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 38/73 (52%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LFV ++ + + + F +YG + + D +G S+GY V Y T + A E+L
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 106 NGVELEGRAMRVS 118
NG E+ G+ ++V
Sbjct: 135 NGAEIMGQTIQVD 147
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 45.1 bits (105), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 38/73 (52%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LFV ++ + + + F +YG + + D +G S+GY V Y T + A E+L
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 106 NGVELEGRAMRVS 118
NG E+ G+ ++V
Sbjct: 89 NGAEIMGQTIQVD 101
>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 = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 41/71 (57%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+++G++ + T E + G V+ ++++D ++GRS+GY F+ + +A+ +L
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 106 NGVELEGRAMR 116
NG +L R ++
Sbjct: 67 NGYQLGSRFLK 77
>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 = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 1/67 (1%)
Query: 43 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
D KLF+G +S T + F +G + R+L G G SRG FV ++T+A +TA+
Sbjct: 95 DRKLFIGXISKKCTENDIRVXFSSFGQIEECRILR-GPDGLSRGCAFVTFTTRAXAQTAI 153
Query: 103 ESLNGVE 109
++ + +
Sbjct: 154 KAXHQAQ 160
Score = 32.0 bits (71), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 5/68 (7%)
Query: 44 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESG--RSRGYGFVCYSTKAEMETA 101
K FVG + + + + L + F++YG V VL D +S+G FV + T+ + A
Sbjct: 4 IKXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTR---KAA 60
Query: 102 LESLNGVE 109
LE+ N +
Sbjct: 61 LEAQNALH 68
>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 = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 6/76 (7%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+LFVGNL +T E + + F++YG + D +G+GF+ T+ E A
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 70
Query: 105 LNGVELEGRAMRVSLA 120
L+ + L G+ +RV A
Sbjct: 71 LDNMPLRGKQLRVRFA 86
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 41/71 (57%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+++G++ + T E + G V+ ++++D ++GRS+GY F+ + +A+ +L
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 106 NGVELEGRAMR 116
NG +L R ++
Sbjct: 65 NGYQLGSRFLK 75
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 39/65 (60%), Gaps = 1/65 (1%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
KLFVG L+ + + + + F+ +GN+ +L G G S+G FV YS+ AE + A+ +
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILR-GPDGNSKGCAFVKYSSHAEAQAAINA 75
Query: 105 LNGVE 109
L+G +
Sbjct: 76 LHGSQ 80
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 41/71 (57%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+++G++ + T E + G V+ ++++D ++GRS+GY F+ + +A+ +L
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 106 NGVELEGRAMR 116
NG +L R ++
Sbjct: 66 NGYQLGSRFLK 76
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 8/76 (10%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LFV NL+ +VT E L +AF ++G + + L D Y F+ + + A+E +
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEEM 65
Query: 106 NGVELEGRAMRVSLAQ 121
NG +LEG + + A+
Sbjct: 66 NGKDLEGENIEIVFAK 81
>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 = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 41/77 (53%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L+VGNLS+ T E + + F + G++ + D + G+ FV Y ++A+ E A+ +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 106 NGVELEGRAMRVSLAQG 122
NG L+ R +R G
Sbjct: 102 NGTRLDDRIIRTDWDAG 118
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 54/115 (46%), Gaps = 9/115 (7%)
Query: 1 MSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESL 60
+ ED +E L G + G +++ +KPK K L NL + VT + L
Sbjct: 55 FESAEDLEKALE-LTGLKVFGNEIKL---EKPKGKDSKKERDARTLLAKNLPYKVTQDEL 110
Query: 61 TQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAM 115
+ F++ A + + G+S+G ++ + T+A+ E E G E++GR++
Sbjct: 111 KEVFED-----AAEIRLVSKDGKSKGIAYIEFKTEADAEKTFEEKQGTEIDGRSI 160
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 47/87 (54%), Gaps = 8/87 (9%)
Query: 42 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGAR---VLYDGESGRSRGYGFVCYSTKAEM 98
T F LFVGNL+++ + L + V A+ + D G +R +G+V + + ++
Sbjct: 6 TAFNLFVGNLNFNKSAPELKTGISD----VFAKNDLAVVDVRIGMTRKFGYVDFESAEDL 61
Query: 99 ETALESLNGVELEGRAMRVSLAQGRRS 125
E ALE L G+++ G +++ +G+ S
Sbjct: 62 EKALE-LTGLKVFGNEIKLEKPKGKDS 87
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 37/74 (50%), Gaps = 1/74 (1%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+FV NL + V + L + F G VV A +L D + G+SRG G V + E A+
Sbjct: 18 VFVANLDYKVGWKKLKEVFSMAGVVVRADILED-KDGKSRGIGTVTFEQSIEAVQAISMF 76
Query: 106 NGVELEGRAMRVSL 119
NG L R M V +
Sbjct: 77 NGQLLFDRPMHVKM 90
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 42/75 (56%), Gaps = 2/75 (2%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
++FV NL + T + L F E G+V+ A + E+G+S+G G V + + E A
Sbjct: 10 QIFVRNLPFDFTWKMLKDKFNECGHVLYADIKM--ENGKSKGCGVVKFESPEVAERACRM 67
Query: 105 LNGVELEGRAMRVSL 119
+NG++L GR + V +
Sbjct: 68 MNGMKLSGREIDVRI 82
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+FV NL + T + L F E G+V+ A + E+G+S+G G V + + E A +
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKM--ENGKSKGCGVVKFESPEVAERACRMM 65
Query: 106 NGVELEGRAMRVSL 119
NG++L GR + V +
Sbjct: 66 NGMKLSGREIDVRI 79
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 43 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
D KLFVG L+ + E + + FQ +G + VL G G S+G FV +S+ E + A+
Sbjct: 15 DRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLR-GPDGSSKGCAFVKFSSHTEAQAAI 73
Query: 103 ESLNGVE 109
+L+G +
Sbjct: 74 HALHGSQ 80
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 45/95 (47%), Gaps = 5/95 (5%)
Query: 35 KLPLYA-----ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGF 89
K+P+++ E + L++ NLS VT L F + G + + +GR RG F
Sbjct: 12 KIPMFSSYNPGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAF 71
Query: 90 VCYSTKAEMETALESLNGVELEGRAMRVSLAQGRR 124
+ + K AL +NG +L G+ + + + ++
Sbjct: 72 ITFPNKEIAWQALHLVNGYKLYGKILVIEFGKNKK 106
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 1/77 (1%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L+VGNLS+ T E + + F + G++ + D + + G+ FV Y ++A+ E A+ +
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLD-KMKTACGFCFVEYYSRADAENAMRYI 79
Query: 106 NGVELEGRAMRVSLAQG 122
NG L+ R +R G
Sbjct: 80 NGTRLDDRIIRTDWDAG 96
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 42/88 (47%), Gaps = 3/88 (3%)
Query: 38 LYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAE 97
L E + L++ NL + +T E + F +YG + RV G + +RG +V Y +
Sbjct: 3 LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFD 59
Query: 98 METALESLNGVELEGRAMRVSLAQGRRS 125
+ A++ L+G + R + V R+
Sbjct: 60 AKNAVDHLSGFNVSNRYLVVLYYNANRA 87
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 42.7 bits (99), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 43/81 (53%), Gaps = 7/81 (8%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
KL++GNLS +VT + L Q F + + +VL GY FV Y + A+E+
Sbjct: 10 KLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL------KSGYAFVDYPDQNWAIRAIET 63
Query: 105 LNG-VELEGRAMRVSLAQGRR 124
L+G VEL G+ M V + ++
Sbjct: 64 LSGKVELHGKIMEVDYSVSKK 84
>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 = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 28/113 (24%), Positives = 59/113 (52%), Gaps = 9/113 (7%)
Query: 3 TVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQ 62
+ ED +E L G + G +++ +KPK + L NLS+++T + L +
Sbjct: 63 SAEDLEKALE-LTGLKVFGNEIKL---EKPKGRDSKKVRAARTLLAKNLSFNITEDELKE 118
Query: 63 AFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAM 115
F+ + + R++ + G+S+G ++ + ++A+ E LE G E++GR++
Sbjct: 119 VFE---DALEIRLV--SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSV 166
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 46/84 (54%), Gaps = 2/84 (2%)
Query: 42 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETA 101
T F LF+GNL+ + + L A E V+ D +G +R +G+V + + ++E A
Sbjct: 12 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKA 70
Query: 102 LESLNGVELEGRAMRVSLAQGRRS 125
LE L G+++ G +++ +GR S
Sbjct: 71 LE-LTGLKVFGNEIKLEKPKGRDS 93
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 46/84 (54%), Gaps = 6/84 (7%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+F+ NLS+ E+L + Q++G++ RV+ ++ S+G F + T+ + L +
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77
Query: 106 N------GVELEGRAMRVSLAQGR 123
+ G++L+GR ++V LA R
Sbjct: 78 SLEAEGGGLKLDGRQLKVDLAVTR 101
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 50/85 (58%), Gaps = 3/85 (3%)
Query: 43 DFKLFVGNLSWSVTTESLTQAF-QEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETA 101
++ LFVG+L+ V L + F + Y + G +V+ D ++G S+GYGFV ++ + E + A
Sbjct: 9 EYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLD-QTGVSKGYGFVKFTDELEQKRA 67
Query: 102 LESLNG-VELEGRAMRVSLAQGRRS 125
L G V L + +R+S+A + S
Sbjct: 68 LTECQGAVGLGSKPVRLSVAIPKAS 92
>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 = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
++VGN+ + T E L F G+V +L D SG +G+ ++ +S K + T+L +L
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 66
Query: 106 NGVELEGRAMRV 117
+ GR ++V
Sbjct: 67 DESLFRGRQIKV 78
>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 = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
++VGN+ + T E L F G+V +L D SG +G+ ++ +S K + T+L +L
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL 67
Query: 106 NGVELEGRAMRV 117
+ GR ++V
Sbjct: 68 DESLFRGRQIKV 79
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
KLF+GNL T + + F++YG V+ ++ + YGFV K E A+ +
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRN 61
Query: 105 LNGVELEGRAMRVSLAQGR 123
L+ +L G + V ++ +
Sbjct: 62 LHHYKLHGVNINVEASKNK 80
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 47/95 (49%), Gaps = 14/95 (14%)
Query: 27 NFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQA-FQEYGNVVGARVLYDGESGRSR 85
N ++K PK + ++F+GNL+ ++ +S + F +YG V G V +
Sbjct: 16 NVTNKNDPK-----SINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--------HK 62
Query: 86 GYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 120
GY FV YS + A+ NG L G+ + +++A
Sbjct: 63 GYAFVQYSNERHARAAVLGENGRVLAGQTLDINMA 97
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/107 (25%), Positives = 49/107 (45%), Gaps = 5/107 (4%)
Query: 14 LDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGA 73
DG + G+ L++ +P PL KLF+G L + + + + +G +
Sbjct: 72 FDGIIFQGQSLKIR---RPHDYQPLPGAH--KLFIGGLPNYLNDDQVKELLTSFGPLKAF 126
Query: 74 RVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 120
++ D +G S+GY F Y + A+ LNG++L + + V A
Sbjct: 127 NLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 173
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/107 (25%), Positives = 49/107 (45%), Gaps = 5/107 (4%)
Query: 14 LDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGA 73
DG + G+ L++ +P PL KLF+G L + + + + +G +
Sbjct: 70 FDGIIFQGQSLKIR---RPHDYQPLPGAH--KLFIGGLPNYLNDDQVKELLTSFGPLKAF 124
Query: 74 RVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 120
++ D +G S+GY F Y + A+ LNG++L + + V A
Sbjct: 125 NLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 171
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYG--NVVGARVLYDGESGRSRGYGFVCYSTKAEMETALE 103
L++GNL+W T E LT+A G +++ + + +G+S+G+ V ++A + ++
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
Query: 104 SLNGVELEGR 113
L EL G+
Sbjct: 64 LLPKRELHGQ 73
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 35/73 (47%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+LFV NLS++ + E L + F YG + D + + +G+ FV + A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 105 LNGVELEGRAMRV 117
++G +GR + V
Sbjct: 70 VDGQVFQGRMLHV 82
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 45/86 (52%), Gaps = 8/86 (9%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNV-----VGARVLY---DGESGRSRGYGFVCYSTKAE 97
++V L+ SVT + L F++ G V G +++ D E+G+ +G V Y
Sbjct: 18 IYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPT 77
Query: 98 METALESLNGVELEGRAMRVSLAQGR 123
+ A+E +G + +G ++VSLA+ +
Sbjct: 78 AKAAVEWFDGKDFQGSKLKVSLARKK 103
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 41/88 (46%), Gaps = 3/88 (3%)
Query: 38 LYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAE 97
L E + L++ NL + +T E + F +YG + RV G + +RG +V Y +
Sbjct: 13 LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFD 69
Query: 98 METALESLNGVELEGRAMRVSLAQGRRS 125
+ A + L+G + R + V R+
Sbjct: 70 AKNACDHLSGFNVCNRYLVVLYYNANRA 97
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%)
Query: 42 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETA 101
TD L V NL S+T + + + +G++ ++Y +G+S+GYGF Y K A
Sbjct: 94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
Query: 102 LESLNGVELEGRAMRV 117
L G L R + V
Sbjct: 154 KSDLLGKPLGPRTLYV 169
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 79 GESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 120
G+ G+ +G+ + Y T E A + +G+ L G +RVS
Sbjct: 220 GQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC 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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%)
Query: 42 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETA 101
TD L V NL S+T + + + +G++ ++Y +G+S+GYGF Y K A
Sbjct: 92 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
Query: 102 LESLNGVELEGRAMRV 117
L G L R + V
Sbjct: 152 KSDLLGKPLGPRTLYV 167
Score = 27.3 bits (59), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 79 GESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 120
G+ G+ +G+ + Y T E A + +G+ L G +RVS
Sbjct: 218 GQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC 259
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%)
Query: 42 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETA 101
TD L V NL S+T + + + +G++ ++Y +G+S+GYGF Y K A
Sbjct: 94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
Query: 102 LESLNGVELEGRAMRV 117
L G L R + V
Sbjct: 154 KSDLLGKPLGPRTLYV 169
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 79 GESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 120
G+ G+ +G+ + Y T E A + +G+ L G +RVS
Sbjct: 220 GQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC 261
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 4/81 (4%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L V L W T + L + F +G V+ +V D ++G S+G+GFV ++ E ET ++ +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFT---EYETQVKVM 74
Query: 106 NGVEL-EGRAMRVSLAQGRRS 125
+ + +GR L ++S
Sbjct: 75 SQRHMIDGRWCDCKLPNSKQS 95
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 37/73 (50%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L++ L T + L + Q YG +V + + D + + +GYGFV + + + + A+ +L
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 106 NGVELEGRAMRVS 118
++ + + S
Sbjct: 68 KASGVQAQMAKQS 80
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 42/70 (60%), Gaps = 5/70 (7%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L NLS+++T + L + F+ + + R++ + G+S+G ++ + ++A+ E LE
Sbjct: 19 LLAKNLSFNITEDELKEVFE---DALEIRLV--SQDGKSKGIAYIEFKSEADAEKNLEEK 73
Query: 106 NGVELEGRAM 115
G E++GR++
Sbjct: 74 QGAEIDGRSV 83
>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 = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 45/89 (50%), Gaps = 6/89 (6%)
Query: 34 PKLPLYAETDFKL-----FVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYG 88
P PL AE ++ +VGN+ + T + L F G++ +L D SG +GY
Sbjct: 22 PPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYA 81
Query: 89 FVCYSTKAEMETALESLNGVELEGRAMRV 117
++ ++ + ++ A+ +++ GR ++V
Sbjct: 82 YIEFAERNSVDAAV-AMDETVFRGRTIKV 109
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 41/83 (49%), Gaps = 5/83 (6%)
Query: 35 KLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYST 94
+LP E + L++ NL + +T E + F +YG + RV G + +RG +V Y
Sbjct: 6 RLP--PEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYED 60
Query: 95 KAEMETALESLNGVELEGRAMRV 117
+ + A + L+G + R + V
Sbjct: 61 IFDAKNACDHLSGFNVCNRYLVV 83
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L++ NL S+ + L + +G V+ R+L D SG SRG GF + + E +
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAVIGHF 86
Query: 106 NG 107
NG
Sbjct: 87 NG 88
>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 = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYG--NVVGARVLYDGESGRSRGYGFVCYSTKAEMETALE 103
L++GNL+W T E LT+A G +++ + + +G+S+G+ V ++A + ++
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 130
Query: 104 SLNGVELEGRAMRVS 118
L EL G+ V+
Sbjct: 131 LLPKRELHGQNPVVT 145
>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 = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 50/106 (47%), Gaps = 9/106 (8%)
Query: 24 LRVNFSDKPKPKLP--LYAETDFK-----LFVGNLSWSVTTESLTQAFQEYG--NVVGAR 74
+R S KP K P LY + + ++VG+ SW T + L Q + G +VV +
Sbjct: 29 VRQEPSPKPNNKTPAILYTYSGLRNRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELK 88
Query: 75 VLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 120
+ +G+S+GY V +++ + LE L G L G + V A
Sbjct: 89 FAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPA 134
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 39/79 (49%), Gaps = 3/79 (3%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGR---SRGYGFVCYSTKAEMETAL 102
LF+ NL++S T E+L F + G + + S G+GFV Y + + AL
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 103 ESLNGVELEGRAMRVSLAQ 121
+ L G ++G + V +++
Sbjct: 68 KQLQGHTVDGHKLEVRISE 86
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 37/71 (52%), Gaps = 6/71 (8%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
++ G ++ +T + + Q F +G ++ RV + +GY FV +ST A+ S+
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVSV 81
Query: 106 NGVELEGRAMR 116
NG +EG ++
Sbjct: 82 NGTTIEGHVVK 92
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 49/89 (55%), Gaps = 6/89 (6%)
Query: 38 LYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAE 97
L E + +VGNL ++ + F++ ++ R++ D ++ + +G+ CY E
Sbjct: 10 LPTEPPYTAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGF---CYVEFDE 65
Query: 98 METALESL--NGVELEGRAMRVSLAQGRR 124
+++ E+L +G L R++RV +A+GR+
Sbjct: 66 VDSLKEALTYDGALLGDRSLRVDIAEGRK 94
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 40/88 (45%), Gaps = 3/88 (3%)
Query: 38 LYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAE 97
L E + L + NL + +T E + F +YG + RV G + +RG +V Y +
Sbjct: 13 LPPEVNRILMIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFD 69
Query: 98 METALESLNGVELEGRAMRVSLAQGRRS 125
+ A + L+G + R + V R+
Sbjct: 70 AKNACDHLSGFNVCNRYLVVLYYNANRA 97
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 44/82 (53%), Gaps = 2/82 (2%)
Query: 42 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETA 101
T F LF+GNL+ + + L A E + D +G +R +G+V + + ++E A
Sbjct: 16 TPFNLFIGNLNPNKSVAELKVAISELF-AKNDLAVVDVRTGTNRKFGYVDFESAEDLEKA 74
Query: 102 LESLNGVELEGRAMRVSLAQGR 123
LE L G+++ G +++ +GR
Sbjct: 75 LE-LTGLKVFGNEIKLEKPKGR 95
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 39/80 (48%)
Query: 41 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMET 100
++ KLF+G L + + + + +G + ++ D +G S+GY F Y +
Sbjct: 112 DSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 171
Query: 101 ALESLNGVELEGRAMRVSLA 120
A+ LNG++L + + V A
Sbjct: 172 AIAGLNGMQLGDKKLLVQRA 191
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 37/76 (48%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
KLF+G L + + + + +G + ++ D +G S+GY F Y + A+
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 105 LNGVELEGRAMRVSLA 120
LNG++L + + V A
Sbjct: 63 LNGMQLGDKKLLVQRA 78
>pdb|2E5J|A Chain A, Solution Structure Of Rna Binding Domain In
Methenyltetrahydrofolate Synthetase Domain Containing
Length = 97
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 37 PLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKA 96
PL A+ ++VGNL L +A +E G+ V R+ + G R+ F+ Y A
Sbjct: 17 PLAAD----VYVGNLPRDARVSDLKRALRELGS-VPLRLTWQGPRRRA----FLHYPDSA 67
Query: 97 EMETALESLNGVELEGRAMRVSLAQGRR 124
+ A+ L G+ L +RV+LA+ +R
Sbjct: 68 AAQQAVSCLQGLRLGTDTLRVALARQQR 95
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+FVG + + + F YG+V +++ D +G S+GYGFV + +++ +ES
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVES- 69
Query: 106 NGVELEGRAMRVSLA 120
+ G+ +++ A
Sbjct: 70 -QINFHGKKLKLGPA 83
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+FVG + + + F YG+V +++ D +G S+GYGFV + +++ +ES
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 106 NGVELEGRAMRVSLA 120
+ G+ +++ A
Sbjct: 72 --INFHGKKLKLGPA 84
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 44 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALE 103
KLF+G + ++ + L F+E+G + VL D +G +G F+ Y E E+AL+
Sbjct: 14 IKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTY---CERESALK 70
Query: 104 SLNGVE 109
+ + +
Sbjct: 71 AQSALH 76
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
+FVG + + + F YG+V +++ D +G S+GYGFV + +++ +ES
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 106 NGVELEGRAMRVSLA 120
+ G+ +++ A
Sbjct: 71 --INFHGKKLKLGPA 83
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 33/71 (46%)
Query: 36 LPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTK 95
+P+ KLFVG + + + L F+E+G + VL D +G +G F+ Y +
Sbjct: 8 VPMKDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCAR 67
Query: 96 AEMETALESLN 106
A +L+
Sbjct: 68 DSALKAQSALH 78
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 8/62 (12%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
LFV NL+ +VT E L ++F E+G + + L D Y FV + + A++ +
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVHFEDRGAAVKAMDEM 69
Query: 106 NG 107
NG
Sbjct: 70 NG 71
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L+V NL S + E + + F RV + R Y FV +S + + A+++L
Sbjct: 18 LYVRNLMLSTSEEMIEKEFNNIKPGAVERV------KKIRDYAFVHFSNREDAVEAMKAL 71
Query: 106 NGVELEGRAMRVSLAQ 121
NG L+G + V+LA+
Sbjct: 72 NGKVLDGSPIEVTLAK 87
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 7/83 (8%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
K++VGNL L +AF YG + R ++ + G+ FV + + E A+
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPL---RTVWIARN--PPGFAFVEFEDPRDAEDAVRG 56
Query: 105 LNGVELEGRAMRVSLAQG--RRS 125
L+G + G +RV L+ G RRS
Sbjct: 57 LDGKVICGSRVRVELSTGMPRRS 79
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 9/88 (10%)
Query: 40 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRG---YGFVCYSTKA 96
D +++VGNL + T+ + F +YG + D + RG + FV +
Sbjct: 19 GNNDCRIYVGNLPPDIRTKDIEDVFYKYG------AIRDIDLKNRRGGPPFAFVEFEDPR 72
Query: 97 EMETALESLNGVELEGRAMRVSLAQGRR 124
+ E A+ +G + +G +RV + R
Sbjct: 73 DAEDAVYGRDGYDYDGYRLRVEFPRSGR 100
>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 = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 5/68 (7%)
Query: 44 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYD--GESGRSRGYGFVCYSTKAEMETA 101
K+FVG + + + + L + F++YG V VL D +S+G FV + T+ + A
Sbjct: 4 IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTR---KAA 60
Query: 102 LESLNGVE 109
LE+ N +
Sbjct: 61 LEAQNALH 68
>pdb|1WG4|A Chain A, Solution Structure Of Rrm Domain In Protein Bab31986
Length = 98
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 7/74 (9%)
Query: 37 PLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKA 96
P +DF++ V L S + + L +E G+V A V D G G V Y K
Sbjct: 9 PPTRRSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQKD-------GMGMVEYLRKE 61
Query: 97 EMETALESLNGVEL 110
+ME AL L+ +
Sbjct: 62 DMEYALRKLDDTKF 75
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 33.1 bits (74), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 38/82 (46%), Gaps = 5/82 (6%)
Query: 43 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
D K++VGNL + L +AF YG + V + G+ FV + + A+
Sbjct: 73 DCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAV 127
Query: 103 ESLNGVELEGRAMRVSLAQGRR 124
L+G L G +RV L+ G +
Sbjct: 128 RDLDGRTLCGCRVRVELSNGEK 149
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 29/59 (49%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
+FVG LS E + + F +G V + D ++ + RG+ F+ + + ++ +E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 38/82 (46%), Gaps = 5/82 (6%)
Query: 43 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 102
D K++VGNL + L +AF YG + V + G+ FV + + A+
Sbjct: 73 DCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAV 127
Query: 103 ESLNGVELEGRAMRVSLAQGRR 124
L+G L G +RV L+ G +
Sbjct: 128 RELDGRTLCGCRVRVELSNGEK 149
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 32.7 bits (73), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 46/84 (54%), Gaps = 5/84 (5%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGA--RVLYDGESGRSRGYGFVCYST--KAEMETA 101
+ + NL+ T +S+ A Y + + RV+ D ++ +RG+ F+ ST A++
Sbjct: 26 IILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTIEAAQLLQI 85
Query: 102 LESLN-GVELEGRAMRVSLAQGRR 124
L++L+ + ++G+ + V A+G +
Sbjct: 86 LQALHPPLTIDGKTINVEFAKGSK 109
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 32.7 bits (73), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 35/61 (57%), Gaps = 3/61 (4%)
Query: 60 LTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGR-AMRVS 118
+ + F ++G + Y E G+++GY F+ Y++ A A+++ +G +L+ + RV+
Sbjct: 38 IHKIFSKFGKITND--FYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVN 95
Query: 119 L 119
L
Sbjct: 96 L 96
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 32.0 bits (71), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 17/82 (20%), Positives = 40/82 (48%)
Query: 40 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEME 99
A+ + + V NLS L + F+ +G++ + D +G+S+G+ F+ + + +
Sbjct: 12 ADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAA 71
Query: 100 TALESLNGVELEGRAMRVSLAQ 121
A+ ++G + + V A+
Sbjct: 72 RAIAGVSGFGYDHLILNVEWAK 93
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 32.0 bits (71), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYG-NVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
L++G+L + +++AF G V+ +++ + +G GY FV ++ A E L
Sbjct: 12 LWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71
Query: 105 LNGVELEG 112
+NG L G
Sbjct: 72 INGKPLPG 79
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 32.0 bits (71), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 41/83 (49%), Gaps = 11/83 (13%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 104
K+FVG + +T E L Q F +YG VV + R + FV ++ + +S
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFI-----PKPFRAFAFVTFAD----DKVAQS 63
Query: 105 LNGVEL--EGRAMRVSLAQGRRS 125
L G +L +G ++ +S A+ + +
Sbjct: 64 LCGEDLIIKGISVHISNAEPKHN 86
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 32.0 bits (71), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 39/82 (47%), Gaps = 2/82 (2%)
Query: 41 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGE-SGRSRGYGFVCYSTKAEME 99
+T K+ V N+ + + + F +G + R+ +G RG+GFV + TK + +
Sbjct: 13 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAK 72
Query: 100 TALESL-NGVELEGRAMRVSLA 120
A +L + L GR + + A
Sbjct: 73 KAFNALCHSTHLYGRRLVLEWA 94
>pdb|3EGN|A Chain A, C-Terminal Rna Recognition Motif Of The U11U12 65K PROTEIN
Length = 143
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 5/91 (5%)
Query: 40 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVG--ARVLYD---GESGRSRGYGFVCYST 94
E + +++V NL+ V + L F Y + R+++D + GR +G F+
Sbjct: 42 GEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPN 101
Query: 95 KAEMETALESLNGVELEGRAMRVSLAQGRRS 125
+ AL+ NG L G+ M V A+ R
Sbjct: 102 EKAAAKALKEANGYVLFGKPMVVQFARSARP 132
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 60 LTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGR 113
+ + F ++G + Y E G+++GY F+ Y++ A A+++ +G +L+ +
Sbjct: 24 IHKIFSKFGKITND--FYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQ 75
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 105
L+VGNLS VT + Q F + G +++ + S Y FV + + AL ++
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVEFYEHRDAAAALAAM 75
Query: 106 NGVELEGRAMRVSLA 120
NG ++ G+ ++V+ A
Sbjct: 76 NGRKILGKEVKVNWA 90
>pdb|2E44|A Chain A, Solution Structure Of Rna Binding Domain In Insulin-Like
Growth Factor 2 Mrna Binding Protein 3
Length = 96
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 45 KLFVGNLSWSVTTESLTQAFQEYGNVVGA-RVLYDGESGRSRGYGFVCYSTKAEMETALE 103
KL + N+ + E L +YG V +V D E+ V YS+K + AL+
Sbjct: 17 KLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVN----VTYSSKDQARQALD 72
Query: 104 SLNGVELEGRAMRVS 118
LNG +LE ++V+
Sbjct: 73 KLNGFQLENFTLKVA 87
>pdb|2KH9|A Chain A, Solution Structure Of Yeast Prp24-Rrm2 Bound To A Fragment
Of U6 Rna
Length = 92
Score = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 35/74 (47%)
Query: 42 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETA 101
T+ L++ N S T ++ Q+ V + L SR + ++ ++K +
Sbjct: 2 TECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYC 61
Query: 102 LESLNGVELEGRAM 115
+E LNG+++EG +
Sbjct: 62 VEKLNGLKIEGYTL 75
>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
Length = 161
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 35/74 (47%)
Query: 42 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETA 101
T+ L++ N S T ++ Q+ V + L SR + ++ ++K +
Sbjct: 79 TECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYC 138
Query: 102 LESLNGVELEGRAM 115
+E LNG+++EG +
Sbjct: 139 VEKLNGLKIEGYTL 152
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation Initiation
Factor 4b
Length = 100
Score = 28.5 bits (62), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 42/88 (47%), Gaps = 8/88 (9%)
Query: 34 PKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESG-RSRGYGFVCY 92
PK P Y F+GNL + VT ES+ + F+ N+ R+ + + R +G+G+ +
Sbjct: 15 PKSPPYT-----AFLGNLPYDVTEESIKEFFRGL-NISAVRLPREPSNPERLKGFGYAEF 68
Query: 93 STKAEMETALESLNGVELEGRAMRVSLA 120
+ SLN L R +RV +A
Sbjct: 69 EDLD-SLLSALSLNEESLGNRRIRVDVA 95
>pdb|2ZYC|A Chain A, Crystal Structure Of Peptidoglycan Hydrolase From
Sphingomonas Sp. A1
Length = 170
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 58 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFV 90
+S QAFQ+Y ++VG Y +G++ G+ F
Sbjct: 90 DSYEQAFQDYADLVGNSPRYAKVAGKTDGHAFA 122
>pdb|3K3T|A Chain A, E185a Mutant Of Peptidoglycan Hydrolase From Sphingomonas
Sp. A1
Length = 170
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 58 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFV 90
+S QAFQ+Y ++VG Y +G++ G+ F
Sbjct: 90 DSYEQAFQDYADLVGNSPRYAKVAGKTDGHAFA 122
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of
Eukaryotic Initiation Factor 4b
Length = 104
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 7/60 (11%)
Query: 34 PKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESG-RSRGYGFVCY 92
PK P Y F+GNL + VT ES+ + F+ N+ R+ + + R +G+G+ +
Sbjct: 11 PKSPPYT-----AFLGNLPYDVTEESIKEFFRGL-NISAVRLPREPSNPERLKGFGYAEF 64
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 33/71 (46%)
Query: 42 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETA 101
T+ L+ N S T ++ Q+ V + L SR + ++ ++K +
Sbjct: 116 TECTLWXTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYC 175
Query: 102 LESLNGVELEG 112
+E LNG+++EG
Sbjct: 176 VEKLNGLKIEG 186
>pdb|3O8O|B Chain B, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
pdb|3O8O|D Chain D, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
pdb|3O8O|F Chain F, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
pdb|3O8O|H Chain H, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
Length = 766
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 18 EYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLS----------WSVTTESLTQAFQEY 67
E+L + +N +D +PKLP + K+ + N+ +S+ T ++Q + Y
Sbjct: 370 EHLNNFMAINSADHNEPKLP--KDKRLKIAIVNVGAPAGGINSAVYSMATYCMSQGHRPY 427
Query: 68 GNVVGARVLYDGESGRSR 85
+Y+G SG +R
Sbjct: 428 A-------IYNGWSGLAR 438
>pdb|1LKX|A Chain A, Motor Domain Of Myoe, A Class-I Myosin
pdb|1LKX|B Chain B, Motor Domain Of Myoe, A Class-I Myosin
pdb|1LKX|C Chain C, Motor Domain Of Myoe, A Class-I Myosin
pdb|1LKX|D Chain D, Motor Domain Of Myoe, A Class-I Myosin
Length = 697
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 14/89 (15%)
Query: 8 NAVIENLDGRE-------YLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESL 60
NA IENL R Y+G ++ S P L +Y E+D K + G + +
Sbjct: 22 NAFIENLTMRHKSDNIYTYIGDVV---ISTNPFKNLNIYKESDIKAYNGRYKYEMPPHMY 78
Query: 61 TQAFQEYGNVVGAR----VLYDGESGRSR 85
A Y ++ ++ V+ GESG +
Sbjct: 79 ALANDAYRSMRQSQENQCVIISGESGAGK 107
>pdb|4A7F|C Chain C, Structure Of The Actin-Tropomyosin-Myosin Complex (Rigor
Atm 3)
pdb|4A7F|G Chain G, Structure Of The Actin-Tropomyosin-Myosin Complex (Rigor
Atm 3)
pdb|4A7F|J Chain J, Structure Of The Actin-Tropomyosin-Myosin Complex (Rigor
Atm 3)
pdb|4A7H|C Chain C, Structure Of The Actin-Tropomyosin-Myosin Complex (Rigor
Atm 2)
pdb|4A7H|I Chain I, Structure Of The Actin-Tropomyosin-Myosin Complex (Rigor
Atm 2)
pdb|4A7H|J Chain J, Structure Of The Actin-Tropomyosin-Myosin Complex (Rigor
Atm 2)
pdb|4A7L|C Chain C, Structure Of The Actin-Tropomyosin-Myosin Complex (Rigor
Atm 1)
pdb|4A7L|G Chain G, Structure Of The Actin-Tropomyosin-Myosin Complex (Rigor
Atm 1)
pdb|4A7L|J Chain J, Structure Of The Actin-Tropomyosin-Myosin Complex (Rigor
Atm 1)
Length = 697
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 14/89 (15%)
Query: 8 NAVIENLDGRE-------YLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESL 60
NA IENL R Y+G ++ S P L +Y E+D K + G + +
Sbjct: 22 NAFIENLTMRHKSDNIYTYIGDVV---ISTNPFKNLNIYKESDIKAYNGRYKYEMPPHMY 78
Query: 61 TQAFQEYGNVVGAR----VLYDGESGRSR 85
A Y ++ ++ V+ GESG +
Sbjct: 79 ALANDAYRSMRQSQENQCVIISGESGAGK 107
>pdb|2GJP|A Chain A, Structure Of Bacillus Halmapalus Alpha-Amylase,
Crystallized With The Substrate Analogue Acarbose And
Maltose
pdb|2GJR|A Chain A, Structure Of Bacillus Halmapalus Alpha-Amylase Without Any
Substrate Analogues
Length = 485
Score = 26.2 bits (56), Expect = 4.5, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 72 GARVLYDGESGRSRGYGFVCYSTKAEMETALESL--NGVELEG 112
GA LYD +G Y T++++E+A+ +L NGV++ G
Sbjct: 59 GAYDLYDLGEFNQKGTVRTKYGTRSQLESAIHALKNNGVQVYG 101
>pdb|2IAH|A Chain A, Crystal Structure Of The Ferripyoverdine Receptor Of The
Outer Membrane Of Pseudomonas Aeruginosa Bound To
Ferripyoverdine.
pdb|2O5P|A Chain A, Crystal Structure Of The Full Length Ferric Pyoverdine
Outer Membrane Receptor Fpva Of Pseudomonas Aeruginosa
In Its Apo Form
pdb|2O5P|B Chain B, Crystal Structure Of The Full Length Ferric Pyoverdine
Outer Membrane Receptor Fpva Of Pseudomonas Aeruginosa
In Its Apo Form
pdb|2W16|A Chain A, Structures Of Fpva Bound To Heterologous Pyoverdines
pdb|2W16|B Chain B, Structures Of Fpva Bound To Heterologous Pyoverdines
pdb|2W6T|A Chain A, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Fpva-Pvd(Dsm50106)-Fe Complex
pdb|2W6T|B Chain B, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Fpva-Pvd(Dsm50106)-Fe Complex
pdb|2W6U|A Chain A, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Fpva-Pvd(G173)-Fe Complex
pdb|2W6U|B Chain B, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Fpva-Pvd(G173)-Fe Complex
pdb|2W75|A Chain A, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Apo-Fpva
pdb|2W75|B Chain B, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Apo-Fpva
pdb|2W76|A Chain A, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Fpva-Pvd(Pa6)-Fe Complex
pdb|2W76|B Chain B, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Fpva-Pvd(Pa6)-Fe Complex
pdb|2W77|A Chain A, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Fpva-Pvd(Pfl18.1)-Fe Complex
pdb|2W77|B Chain B, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Fpva-Pvd(Pfl18.1)-Fe Complex
pdb|2W78|A Chain A, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Fpva-Pvd(Atcc13535)-Fe Complex
pdb|2W78|B Chain B, Structures Of P. Aeruginosa Fpva Bound To Heterologous
Pyoverdines: Fpva-Pvd(Atcc13535)-Fe Complex
Length = 772
Score = 26.2 bits (56), Expect = 4.6, Method: Composition-based stats.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 7/80 (8%)
Query: 51 LSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL----- 105
+ + + ++L A QE+G +VLY E R++ + K E A+ L
Sbjct: 3 VEFDIPPQALGSALQEFGRQADIQVLYRPEEVRNKRSSAI--KGKLEPNQAITELLRGTG 60
Query: 106 NGVELEGRAMRVSLAQGRRS 125
V+ +G A+ +S+A+ S
Sbjct: 61 ASVDFQGNAITISVAEAADS 80
>pdb|1W9X|A Chain A, Bacillus Halmapalus Alpha Amylase
Length = 481
Score = 26.2 bits (56), Expect = 4.6, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 72 GARVLYDGESGRSRGYGFVCYSTKAEMETALESL--NGVELEG 112
GA LYD +G Y T++++E+A+ +L NGV++ G
Sbjct: 55 GAYDLYDLGEFNQKGTVRTKYGTRSQLESAIHALKNNGVQVYG 97
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 34/73 (46%), Gaps = 7/73 (9%)
Query: 46 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALE-S 104
L+VG L ++T L F ++G + V+ + F+ ++T+ E A E S
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQFATRQAAEVAAEKS 68
Query: 105 LNGVELEGRAMRV 117
N + + GR + V
Sbjct: 69 FNKLIVNGRRLNV 81
>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 445
Score = 25.8 bits (55), Expect = 6.1, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 3/56 (5%)
Query: 53 WSVTTESLTQAFQEYGNVVGAR-VLYDGESGRSRGYGFVCYSTKAEMETALESLNG 107
W + T G+V R V YDG S Y F+ E ET L +L G
Sbjct: 224 WDIETGQCLHVLM--GHVAAVRCVQYDGRRVVSGAYDFMVKVWDPETETCLHTLQG 277
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 11 IENLDGREYLGRILRVNFSD 30
I+++DG EYL + ++NFS+
Sbjct: 53 IKSIDGVEYLNNLTQINFSN 72
>pdb|2OMV|A Chain A, Crystal Structure Of Inla S192n Y369s/hec1 Complex
pdb|2OMW|A Chain A, Crystal Structure Of Inla S192n Y369s/mec1 Complex
Length = 461
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 11 IENLDGREYLGRILRVNFSD 30
I+++DG EYL + ++NFS+
Sbjct: 53 IKSIDGVEYLNNLTQINFSN 72
>pdb|4FM9|A Chain A, Human Topoisomerase Ii Alpha Bound To Dna
Length = 763
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 12/29 (41%), Positives = 16/29 (55%)
Query: 11 IENLDGREYLGRILRVNFSDKPKPKLPLY 39
I N D RE + I R+ ++P P LP Y
Sbjct: 434 IPNFDVREIVNNIRRLMDGEEPLPMLPSY 462
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 11 IENLDGREYLGRILRVNFSD 30
I+++DG EYL + ++NFS+
Sbjct: 53 IKSIDGVEYLNNLTQINFSN 72
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 11 IENLDGREYLGRILRVNFSD 30
I+++DG EYL + ++NFS+
Sbjct: 53 IKSIDGVEYLNNLTQINFSN 72
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 11 IENLDGREYLGRILRVNFSD 30
I+++DG EYL + ++NFS+
Sbjct: 57 IKSIDGVEYLNNLTQINFSN 76
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 11 IENLDGREYLGRILRVNFSD 30
I+++DG EYL + ++NFS+
Sbjct: 53 IKSIDGVEYLNNLTQINFSN 72
>pdb|1O6S|A Chain A, Internalin (Listeria Monocytogenes) E-Cadherin (Human)
Recognition Complex
pdb|1O6T|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|B Chain B, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
Length = 466
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 11 IENLDGREYLGRILRVNFSD 30
I+++DG EYL + ++NFS+
Sbjct: 58 IKSIDGVEYLNNLTQINFSN 77
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
0.316 0.133 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,524,924
Number of Sequences: 62578
Number of extensions: 133598
Number of successful extensions: 590
Number of sequences better than 100.0: 192
Number of HSP's better than 100.0 without gapping: 161
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 348
Number of HSP's gapped (non-prelim): 235
length of query: 125
length of database: 14,973,337
effective HSP length: 86
effective length of query: 39
effective length of database: 9,591,629
effective search space: 374073531
effective search space used: 374073531
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)