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= psy16184
(363 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 224 bits (571), Expect = 5e-59, Method: Compositional matrix adjust.
Identities = 118/212 (55%), Positives = 138/212 (65%), Gaps = 1/212 (0%)
Query: 1 MTQXXXXXXXXXXXXRDPVPYLPPVEKLPHEKK-THGYSGIAAFLNEFEDPKDXXXXXXX 59
MTQ RDP+PYLPP+EKLPHEK Y GIA ++ EFEDP+D
Sbjct: 1 MTQFLPPNLLALFAPRDPIPYLPPLEKLPHEKHHNQPYCGIAPYIREFEDPRDAPPPTRA 60
Query: 60 XXXXXXXXXXXXXXXXQVAYKLEQEIALWDPNSFPNATMDPFKTLFIARVNYDTSESKLR 119
+ ++E E+ +WDP++ PNA D FKTLF+ARVNYDT+ESKLR
Sbjct: 61 ETREERMERKRREKIERRQQEVETELKMWDPHNDPNAQGDAFKTLFVARVNYDTTESKLR 120
Query: 120 REFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVER 179
REFEVYGPIK+I MV++K +GKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVER
Sbjct: 121 REFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVER 180
Query: 180 SRTVKXXXXXXXXXXXXXXXXXXPDVNLKHSG 211
RTVK DVN++HSG
Sbjct: 181 GRTVKGWRPRRLGGGLGGTRRGGADVNIRHSG 212
>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 = 224 bits (570), Expect = 7e-59, Method: Compositional matrix adjust.
Identities = 118/212 (55%), Positives = 138/212 (65%), Gaps = 1/212 (0%)
Query: 1 MTQXXXXXXXXXXXXRDPVPYLPPVEKLPHEKK-THGYSGIAAFLNEFEDPKDXXXXXXX 59
MTQ RDP+PYLPP+EKLPHEK Y GIA ++ EFEDP+D
Sbjct: 1 MTQFLPPNLLALFAPRDPIPYLPPLEKLPHEKHHNQPYCGIAPYIREFEDPRDAPPPTRA 60
Query: 60 XXXXXXXXXXXXXXXXQVAYKLEQEIALWDPNSFPNATMDPFKTLFIARVNYDTSESKLR 119
+ ++E E+ +WDP++ PNA D FKTLF+ARVNYDT+ESKLR
Sbjct: 61 ETREERMERKRREKIERRQQEVETELKMWDPHNDPNAQGDAFKTLFVARVNYDTTESKLR 120
Query: 120 REFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVER 179
REFEVYGPIK+I MV++K +GKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVER
Sbjct: 121 REFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVER 180
Query: 180 SRTVKXXXXXXXXXXXXXXXXXXPDVNLKHSG 211
RTVK DVN++HSG
Sbjct: 181 GRTVKGWRPRRLGGGLGGTRRGGADVNIRHSG 212
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 47/76 (61%)
Query: 101 FKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAY 160
+++F+ + Y+ +E +L+ F GP+ +V+++ TGKP+GY F EY+ + SA
Sbjct: 8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAM 67
Query: 161 KHADGKKIDGRRVLVD 176
++ +G++ GR + VD
Sbjct: 68 RNLNGREFSGRALRVD 83
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 60.8 bits (146), Expect = 1e-09, Method: Composition-based stats.
Identities = 26/73 (35%), Positives = 46/73 (63%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ +++DT+E L + F YG I ++V+V ++ T + RG+ F+ +E+ D A
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 164 DGKKIDGRRVLVD 176
+GK +DGR++ VD
Sbjct: 75 NGKSVDGRQIRVD 87
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 49/81 (60%)
Query: 96 ATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERD 155
A DP L + ++ T+E LR F YGPI + +V+++ + + RG+AF+ +E+ D
Sbjct: 7 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDD 66
Query: 156 MHSAYKHADGKKIDGRRVLVD 176
A + A+G ++DGRR+ VD
Sbjct: 67 AKEAKERANGMELDGRRIRVD 87
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 58.5 bits (140), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 48/78 (61%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHS 158
DP L + ++ T+E LR F YGPI + +V+++ + + RG+AF+ +E+ D
Sbjct: 44 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKE 103
Query: 159 AYKHADGKKIDGRRVLVD 176
A + A+G ++DGRR+ VD
Sbjct: 104 AKERANGMELDGRRIRVD 121
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 57.8 bits (138), Expect = 8e-09, Method: Composition-based stats.
Identities = 29/81 (35%), Positives = 49/81 (60%)
Query: 96 ATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERD 155
A DP L + ++ T+E LR F YGPI + +V+++ + + RG+AF+ +E+ D
Sbjct: 10 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDD 69
Query: 156 MHSAYKHADGKKIDGRRVLVD 176
A + A+G ++DGRR+ VD
Sbjct: 70 AKEAKERANGMELDGRRIRVD 90
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 51/86 (59%), Gaps = 3/86 (3%)
Query: 91 NSFPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEY 150
+S PNA P KTLF+ ++ DT+E L+ F+ G ++ + V ++ TG +G+ F+++
Sbjct: 5 SSGPNARSQPSKTLFVKGLSEDTTEETLKESFD--GSVRARI-VTDRETGSSKGFGFVDF 61
Query: 151 EHERDMHSAYKHADGKKIDGRRVLVD 176
E D +A + + +IDG +V +D
Sbjct: 62 NSEEDAKAAKEAMEDGEIDGNKVTLD 87
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 42/82 (51%)
Query: 98 MDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMH 157
+D TL + + Y TS LRR FE YG + + + T PRG+AF+ + RD
Sbjct: 10 VDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQ 69
Query: 158 SAYKHADGKKIDGRRVLVDVER 179
A DG ++DGR + V V R
Sbjct: 70 DAEAAMDGAELDGRELRVQVAR 91
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 56.2 bits (134), Expect = 3e-08, Method: Composition-based stats.
Identities = 28/80 (35%), Positives = 48/80 (60%)
Query: 96 ATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERD 155
A DP L + ++ T+E LR F YGPI + +V+++ + + RG+AF+ +E+ D
Sbjct: 10 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDD 69
Query: 156 MHSAYKHADGKKIDGRRVLV 175
A + A+G ++DGRR+ V
Sbjct: 70 AKEAKERANGMELDGRRIRV 89
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 47/73 (64%), Gaps = 1/73 (1%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LFI +N +T+E L+ F +GPI +++++ ++ T K RG+AFI +E+ D +A K
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKDM 68
Query: 164 DGKKIDGRRVLVD 176
+GK + G+ + V+
Sbjct: 69 NGKSLHGKAIKVE 81
>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 = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%)
Query: 101 FKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAY 160
+L + + Y TS LRR FE YG + + + ++ T + RG+AF+ + +RD A
Sbjct: 47 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 106
Query: 161 KHADGKKIDGRRVLVDVER 179
DG +DGR + V + R
Sbjct: 107 DAMDGAVLDGRELRVQMAR 125
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 42/77 (54%)
Query: 103 TLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKH 162
+L + + Y TS LRR FE YG + + + ++ T + RG+AF+ + +RD A
Sbjct: 72 SLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDA 131
Query: 163 ADGKKIDGRRVLVDVER 179
DG +DGR + V + R
Sbjct: 132 MDGAVLDGRELRVQMAR 148
>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 = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 3/84 (3%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+FI +N+DT+E LR F YG + + ++ + TG+ RG+ F+ +E + K
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQ 65
Query: 164 ---DGKKIDGRRVLVDVERSRTVK 184
DGK ID +R + E+ +T K
Sbjct: 66 HILDGKVIDPKRAIPRDEQDKTGK 89
Score = 31.6 bits (70), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 14/60 (23%), Positives = 27/60 (45%)
Query: 92 SFPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
+ P D +F+ + D + F +G I ++ +K TG+ RG+ F+ Y+
Sbjct: 78 AIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYD 137
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 5/74 (6%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+++ + + +L R F YGP++ + + N P G+AF+E+E RD A +
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRGL 57
Query: 164 DGKKIDGRRVLVDV 177
DGK I G RV V++
Sbjct: 58 DGKVICGSRVRVEL 71
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 39/75 (52%)
Query: 101 FKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAY 160
F +++A V+ D S+ ++ FE +G IK + + TGK +GY FIEYE + A
Sbjct: 109 FNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 168
Query: 161 KHADGKKIDGRRVLV 175
+ + G+ + V
Sbjct: 169 SSXNLFDLGGQYLRV 183
Score = 47.8 bits (112), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 38/72 (52%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+++ + Y+ E +R+ F +GPIK I + VT K +G+AF+EYE A +
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 164 DGKKIDGRRVLV 175
+ + GR + V
Sbjct: 75 NSVXLGGRNIKV 86
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ ++Y +SE L + F YGP+ ++ + +T KP+G+AF+ + AY
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 164 DGKKIDGRRVLV 175
DG+ GR + V
Sbjct: 71 DGQVFQGRMLHV 82
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 43/74 (58%), Gaps = 5/74 (6%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+++ + + ++++L R F YGP++ + + N P G+AF+E+E RD A +
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVREL 130
Query: 164 DGKKIDGRRVLVDV 177
DG+ + G RV V++
Sbjct: 131 DGRTLCGCRVRVEL 144
>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 = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 39/75 (52%)
Query: 101 FKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAY 160
F +++A V+ D S+ ++ FE +G IK + + TGK +GY FIEYE + A
Sbjct: 110 FNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 169
Query: 161 KHADGKKIDGRRVLV 175
+ + G+ + V
Sbjct: 170 SSMNLFDLGGQYLRV 184
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+++ + Y+ E +R+ F +GPIK I M + VT K +G+AF+EYE A +
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 164 DGKKIDGRRVLV 175
+ + GR + V
Sbjct: 76 NSVMLGGRNIKV 87
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 43/74 (58%), Gaps = 5/74 (6%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+++ + + ++++L R F YGP++ + + N P G+AF+E+E RD A +
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRDL 130
Query: 164 DGKKIDGRRVLVDV 177
DG+ + G RV V++
Sbjct: 131 DGRTLCGCRVRVEL 144
>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 = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+++ + Y+ E +R+ F +GPIK I M + VT K +G+AF+EYE A +
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 164 DGKKIDGRRVLV 175
+ + GR + V
Sbjct: 91 NSVMLGGRNIKV 102
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 33/59 (55%)
Query: 101 FKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSA 159
F +++A V+ D S+ ++ FE +G IK + + TGK +GY FIEYE + A
Sbjct: 125 FNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDA 183
>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 = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 42/74 (56%)
Query: 103 TLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKH 162
TL++ +++ T+E ++ F G IKKI+M +K+ G+ F+EY D +A ++
Sbjct: 41 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRY 100
Query: 163 ADGKKIDGRRVLVD 176
+G ++D R + D
Sbjct: 101 INGTRLDDRIIRTD 114
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 47.8 bits (112), Expect = 1e-05, Method: Composition-based stats.
Identities = 25/77 (32%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 101 FKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAY 160
F +F+ + Y T+++ LR+ FE +G I++ V++ ++ TGK RGY F+ A
Sbjct: 17 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERAC 76
Query: 161 KHADGKKIDGRRVLVDV 177
K + IDGR+ V++
Sbjct: 77 KDPN-PIIDGRKANVNL 92
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 26/91 (28%), Positives = 47/91 (51%), Gaps = 2/91 (2%)
Query: 91 NSFPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEY 150
+S PN D T+ + ++ DT E+ L+ F +G I +I + +K TG+ +G+AFI +
Sbjct: 5 SSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISF 64
Query: 151 EHERDMHSAYKHADGKKIDGRRVLVDVERSR 181
D A G D ++++VE ++
Sbjct: 65 HRREDAARAIAGVSGFGYD--HLILNVEWAK 93
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 42/82 (51%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHS 158
D + L + + E +LR+ FE YGPI+ + +V ++ T + RGY F++++
Sbjct: 40 DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQ 99
Query: 159 AYKHADGKKIDGRRVLVDVERS 180
A +G I +R+ V + S
Sbjct: 100 AIAGLNGFNILNKRLKVALAAS 121
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 43/73 (58%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ ++ + E +++ +F YG IK I + ++ TG +GYA +EYE + +A +
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 164 DGKKIDGRRVLVD 176
+G +I G+ + VD
Sbjct: 135 NGAEIMGQTIQVD 147
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 43/73 (58%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ ++ + E +++ +F YG IK I + ++ TG +GYA +EYE + +A +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 164 DGKKIDGRRVLVD 176
+G +I G+ + VD
Sbjct: 89 NGAEIMGQTIQVD 101
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 40/72 (55%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
L++ ++++ +E LR FE +G I IV++ + TG+ +GY FI + A +
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 164 DGKKIDGRRVLV 175
+G ++ GR + V
Sbjct: 68 NGFELAGRPMRV 79
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 44/73 (60%), Gaps = 4/73 (5%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSA---- 159
+F+ + ++ E++LR F+ +G + ++VM+++ +PRG+ FI +E E+ + A
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMH 72
Query: 160 YKHADGKKIDGRR 172
+ GKK++ +R
Sbjct: 73 FHDIMGKKVEVKR 85
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 45.4 bits (106), Expect = 4e-05, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 42/73 (57%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ V+ + +E + +F YG IK I + ++ TG +GY +EYE ++ +A +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 164 DGKKIDGRRVLVD 176
+G+ + G+ + VD
Sbjct: 70 NGQDLMGQPISVD 82
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+++++ V+Y ++ L F G I +I ++ +K +G P+GYA+IE+ ER+ A
Sbjct: 37 RSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFA-ERNSVDAAV 95
Query: 162 HADGKKIDGRRVLV 175
D GR + V
Sbjct: 96 AMDETVFRGRTIKV 109
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 42/73 (57%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ V+ + +E + +F YG IK I + ++ TG +GY +EYE ++ +A +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 164 DGKKIDGRRVLVD 176
+G+ + G+ + VD
Sbjct: 86 NGQDLMGQPISVD 98
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 42/73 (57%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ V+ + +E + +F YG IK I + ++ TG +GY +EYE ++ +A +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 164 DGKKIDGRRVLVD 176
+G+ + G+ + VD
Sbjct: 70 NGQDLMGQPISVD 82
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 45.1 bits (105), Expect = 6e-05, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 42/73 (57%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ V+ + +E + +F YG IK I + ++ TG +GY +EYE ++ +A +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 164 DGKKIDGRRVLVD 176
+G+ + G+ + VD
Sbjct: 70 NGQDLMGQPISVD 82
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 42/73 (57%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ V+ + +E + +F YG IK I + ++ TG +GY +EYE ++ +A +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 164 DGKKIDGRRVLVD 176
+G+ + G+ + VD
Sbjct: 85 NGQDLMGQPISVD 97
>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 = 45.1 bits (105), Expect = 7e-05, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 42/74 (56%), Gaps = 1/74 (1%)
Query: 103 TLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKH 162
TL++ +++ T+E ++ F G IKKI+M +K+ G+ F+EY D +A ++
Sbjct: 20 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK-TACGFCFVEYYSRADAENAMRY 78
Query: 163 ADGKKIDGRRVLVD 176
+G ++D R + D
Sbjct: 79 INGTRLDDRIIRTD 92
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 45.1 bits (105), Expect = 7e-05, Method: Composition-based stats.
Identities = 24/92 (26%), Positives = 47/92 (51%), Gaps = 1/92 (1%)
Query: 91 NSFPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEY 150
N+ + P + L++ ++++ +E LR FE +G I+ I ++ + TG+ +GY FI +
Sbjct: 17 NNLQKGSAGPMR-LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITF 75
Query: 151 EHERDMHSAYKHADGKKIDGRRVLVDVERSRT 182
A + +G ++ GR + V RT
Sbjct: 76 SDSECAKKALEQLNGFELAGRPMKVGHVTERT 107
>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 = 44.7 bits (104), Expect = 8e-05, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 42/73 (57%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ V+ + +E + +F YG IK I + ++ TG +GY +EYE ++ +A +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 164 DGKKIDGRRVLVD 176
+G+ + G+ + VD
Sbjct: 72 NGQDLMGQPISVD 84
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 97 TMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVM-VHNKVTGKPRGYAFIEYEHERD 155
+M P K + I R+ + ++ + F YG IK I M V +GYA++E+E+ +
Sbjct: 1 SMKPTK-VHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDE 59
Query: 156 MHSAYKHADGKKIDGRRV 173
A KH DG +IDG+ +
Sbjct: 60 AEKALKHMDGGQIDGQEI 77
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHS 158
+ + LFI ++++T++ LR FE +G + V++ + T + RG+ F+ Y ++ +
Sbjct: 10 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA 69
Query: 159 AYKHADGKKIDGRRV 173
A +A K+DGR V
Sbjct: 70 AM-NARPHKVDGRVV 83
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 32/50 (64%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
K +F+ + DT E LR FE YG I+ I ++ ++ +GK RG+AF+ ++
Sbjct: 104 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 153
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHS 158
+ + LFI ++++T++ LR FE +G + V++ + T + RG+ F+ Y ++ +
Sbjct: 11 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA 70
Query: 159 AYKHADGKKIDGRRV 173
A +A K+DGR V
Sbjct: 71 AM-NARPHKVDGRVV 84
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 32/50 (64%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
K +F+ + DT E LR FE YG I+ I ++ ++ +GK RG+AF+ ++
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 154
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 32/50 (64%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
K +F+ + DT E LR FE YG I+ I ++ ++ +GK RG+AF+ ++
Sbjct: 106 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 155
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHS 158
+ + LFI ++++T++ LR FE +G + V++ + T + RG+ F+ Y ++ +
Sbjct: 12 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA 71
Query: 159 AYKHADGKKIDGRRV 173
A +A K+DGR V
Sbjct: 72 AM-NARPHKVDGRVV 85
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHS 158
+ + LFI ++++T++ LR FE +G + V++ + T + RG+ F+ Y ++ +
Sbjct: 11 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA 70
Query: 159 AYKHADGKKIDGRRV 173
A +A K+DGR V
Sbjct: 71 AM-NARPHKVDGRVV 84
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 32/50 (64%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
K +F+ + DT E LR FE YG I+ I ++ ++ +GK RG+AF+ ++
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 154
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHS 158
+ + LFI ++++T++ LR FE +G + V++ + T + RG+ F+ Y ++ +
Sbjct: 4 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA 63
Query: 159 AYKHADGKKIDGRRV 173
A +A K+DGR V
Sbjct: 64 AM-NARPHKVDGRVV 77
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 32/50 (64%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
K +F+ + DT E LR FE YG I+ I ++ ++ +GK RG+AF+ ++
Sbjct: 98 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 147
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHS 158
+ + LFI ++++T++ LR FE +G + V++ + T + RG+ F+ Y ++ +
Sbjct: 9 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA 68
Query: 159 AYKHADGKKIDGRRV 173
A +A K+DGR V
Sbjct: 69 AM-NARPHKVDGRVV 82
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 32/50 (64%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
K +F+ + DT E LR FE YG I+ I ++ ++ +GK RG+AF+ ++
Sbjct: 103 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 152
>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 = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 39/72 (54%)
Query: 100 PFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSA 159
P + +++ + YD +E ++ GP+ + M+ + TG+ +GYAFIE+ SA
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 61
Query: 160 YKHADGKKIDGR 171
++ +G ++ R
Sbjct: 62 VRNLNGYQLGSR 73
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHS 158
+ F+ LFI ++++T+E LR +E +G + V++ + + + RG+ F+ + ++ +
Sbjct: 25 EQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDA 84
Query: 159 AYKHADGKKIDGRRV 173
A A IDGR V
Sbjct: 85 AM-AARPHSIDGRVV 98
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 39/72 (54%)
Query: 100 PFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSA 159
P + +++ + YD +E ++ GP+ + M+ + TG+ +GYAFIE+ SA
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 160 YKHADGKKIDGR 171
++ +G ++ R
Sbjct: 61 VRNLNGYQLGSR 72
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LFI+ + + ++ +L + +G +K + +V N+ GKP+G A++EYE+E A
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMKM 78
Query: 164 DGKKIDGRRVLVDVERS 180
DG I + V + S
Sbjct: 79 DGMTIKENIIKVAISNS 95
>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 = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 39/72 (54%)
Query: 100 PFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSA 159
P + +++ + YD +E ++ GP+ + M+ + TG+ +GYAFIE+ SA
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 62
Query: 160 YKHADGKKIDGR 171
++ +G ++ R
Sbjct: 63 VRNLNGYQLGSR 74
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ L++ ++ +E L++ F+V GPI I ++ +K K YAF+EY D + A +
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQ 59
Query: 162 HADGKKIDGRRVLVD 176
+GK+I+ V ++
Sbjct: 60 TLNGKQIENNIVKIN 74
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 1/84 (1%)
Query: 88 WDPNSFPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAF 147
W S +++ D F LF+ +N + + LR F+ + ++ + TG RGY F
Sbjct: 75 WAFQSQQSSSDDTF-NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGF 133
Query: 148 IEYEHERDMHSAYKHADGKKIDGR 171
+ + + D +A G+ ++GR
Sbjct: 134 VSFTSQDDAQNAMDSMQGQDLNGR 157
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 39/73 (53%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+F+ ++ + + ++ F +G I +V + TGK +GY F+ + ++ D +A H
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 164 DGKKIDGRRVLVD 176
G+ + GR++ +
Sbjct: 78 GGQWLGGRQIRTN 90
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 42.4 bits (98), Expect = 4e-04, Method: Composition-based stats.
Identities = 25/80 (31%), Positives = 42/80 (52%), Gaps = 4/80 (5%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
KTL ++ ++Y +E L+ FE IK V GK +GYAFIE+ D A
Sbjct: 16 KTLVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEALN 71
Query: 162 HADGKKIDGRRVLVDVERSR 181
+ ++I+GR + ++++ R
Sbjct: 72 SCNKREIEGRAIRLELQGPR 91
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 39/74 (52%)
Query: 103 TLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKH 162
T+++ ++ SE L F GP+ M ++VTG+ +GY F+E+ E D A K
Sbjct: 17 TVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKI 76
Query: 163 ADGKKIDGRRVLVD 176
D K+ G+ + V+
Sbjct: 77 MDMIKLYGKPIRVN 90
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+TL++ ++ D +E + + F GP K M+ + P Y F+E+ RD +A
Sbjct: 16 RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVEFYEHRDAAAALA 73
Query: 162 HADGKKIDGRRVLVD 176
+G+KI G+ V V+
Sbjct: 74 AMNGRKILGKEVKVN 88
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 43/91 (47%), Gaps = 5/91 (5%)
Query: 83 QEIALWDPNSFPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKP 142
EI L P + + +TL ++++ +E +L+ FE I+ + GK
Sbjct: 81 NEIKLEKPKGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQ-----DGKS 135
Query: 143 RGYAFIEYEHERDMHSAYKHADGKKIDGRRV 173
+G A+IE++ E D + G +IDGR V
Sbjct: 136 KGIAYIEFKSEADAEKNLEEKQGAEIDGRSV 166
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 37/82 (45%)
Query: 98 MDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMH 157
MD L + + + ++ + + F G I+ +V +K+TG+ GY F+ Y D
Sbjct: 1 MDSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDAD 60
Query: 158 SAYKHADGKKIDGRRVLVDVER 179
A +G K+ + + V R
Sbjct: 61 KAINTLNGLKLQTKTIKVSYAR 82
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 33/64 (51%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
L+++ + S+ ++ + F YG I ++ ++ TG RG FI ++ + A K
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 164 DGKK 167
+G+K
Sbjct: 153 NGQK 156
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 39/73 (53%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+F+ ++ + + ++ F +G I +V + TGK +GY F+ + ++ D +A +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 164 DGKKIDGRRVLVD 176
G+ + GR++ +
Sbjct: 78 GGQWLGGRQIRTN 90
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/74 (21%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+++++ V+Y + +L F G + ++ ++ +K +G P+G+A+IE+ + + ++
Sbjct: 6 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA 65
Query: 162 HADGKKIDGRRVLV 175
D GR++ V
Sbjct: 66 -LDESLFRGRQIKV 78
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 41/90 (45%)
Query: 86 ALWDPNSFPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGY 145
+++ P D LFI + ++ +++ +GP+K +V + TG +GY
Sbjct: 99 SVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGY 158
Query: 146 AFIEYEHERDMHSAYKHADGKKIDGRRVLV 175
AF EY A +G ++ +++LV
Sbjct: 159 AFCEYVDINVTDQAIAGLNGMQLGDKKLLV 188
>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 = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 17/79 (21%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+++++ V+Y + +L F G + ++ ++ +K +G P+G+A+IE+ + + ++
Sbjct: 7 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA 66
Query: 162 HADGKKIDGRRVLVDVERS 180
D GR++ V +R+
Sbjct: 67 -LDESLFRGRQIKVIPKRT 84
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 3/82 (3%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGK---PRGYAFIEYEHERDMHSAY 160
LFI +N+ T+E L+ F G IK + K G+ F+EY+ A
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 161 KHADGKKIDGRRVLVDVERSRT 182
K G +DG ++ V + T
Sbjct: 68 KQLQGHTVDGHKLEVRISERAT 89
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 41/82 (50%)
Query: 94 PNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHE 153
P+A P +L++ ++ D +E+ L +F GPI I + + +T + GYA++ ++
Sbjct: 8 PSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQP 67
Query: 154 RDMHSAYKHADGKKIDGRRVLV 175
D A + I G+ V +
Sbjct: 68 ADAERALDTMNFDVIKGKPVRI 89
Score = 32.0 bits (71), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 35/79 (44%), Gaps = 2/79 (2%)
Query: 103 TLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKH 162
+FI ++ L F +G I +V ++ K GY F+ +E + A +
Sbjct: 105 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEK 162
Query: 163 ADGKKIDGRRVLVDVERSR 181
+G ++ R+V V +SR
Sbjct: 163 MNGMLLNDRKVFVGRFKSR 181
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 109 VNY---DTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHADG 165
VNY D ++ +L F GPI ++ + TG GYAF+++ E D A K +G
Sbjct: 8 VNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNG 67
Query: 166 KKIDGRRVLVDVER 179
+ +R+ V R
Sbjct: 68 ITVRNKRLKVSYAR 81
Score = 35.4 bits (80), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSA 159
L++ + ++ +L F YG I + ++ +K+TG+PRG AF+ Y + A
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 147
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 36/72 (50%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LFI + ++ +++ +GP+K +V + TG +GYAF EY A
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 158
Query: 164 DGKKIDGRRVLV 175
+G ++ +++LV
Sbjct: 159 NGMQLGDKKLLV 170
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 36/72 (50%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LFI + ++ +++ +GP+K +V + TG +GYAF EY A
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 156
Query: 164 DGKKIDGRRVLV 175
+G ++ +++LV
Sbjct: 157 NGMQLGDKKLLV 168
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 109 VNY---DTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHADG 165
VNY + ++ + R F G I+ +V +K+TG+ GY F+ Y +D A +G
Sbjct: 7 VNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNG 66
Query: 166 KKIDGRRVLVDVER 179
++ + + V R
Sbjct: 67 LRLQTKTIKVSYAR 80
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 35/67 (52%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
L+++ + ++ +L + F YG I ++ ++VTG RG FI ++ + A K
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 164 DGKKIDG 170
+G+K G
Sbjct: 151 NGQKPSG 157
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 41/82 (50%)
Query: 94 PNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHE 153
P+A P +L++ ++ D +E+ L +F GPI I + + +T + GYA++ ++
Sbjct: 3 PSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQP 62
Query: 154 RDMHSAYKHADGKKIDGRRVLV 175
D A + I G+ V +
Sbjct: 63 ADAERALDTMNFDVIKGKPVRI 84
Score = 31.6 bits (70), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 35/79 (44%), Gaps = 2/79 (2%)
Query: 103 TLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKH 162
+FI ++ L F +G I +V ++ K GY F+ +E + A +
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEK 157
Query: 163 ADGKKIDGRRVLVDVERSR 181
+G ++ R+V V +SR
Sbjct: 158 MNGMLLNDRKVFVGRFKSR 176
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 109 VNY---DTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHADG 165
VNY D ++ +L F GPI ++ + TG GYAF+++ E D A K +G
Sbjct: 8 VNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNG 67
Query: 166 KKIDGRRVLVDVER 179
+ +R+ V R
Sbjct: 68 ITVRNKRLKVSYAR 81
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 31/53 (58%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
D LF+ +++ T++ LR F YG + V++ +K T + RG+ F++++
Sbjct: 14 DEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFK 66
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 20/82 (24%), Positives = 37/82 (45%)
Query: 98 MDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMH 157
MD L + + + ++ + + F G I+ +V +K+TG+ GY F+ Y D
Sbjct: 1 MDSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDAD 60
Query: 158 SAYKHADGKKIDGRRVLVDVER 179
A +G K+ + + V R
Sbjct: 61 KAINTLNGLKLQTKTIKVSYAR 82
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 5/91 (5%)
Query: 83 QEIALWDPNSFPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKP 142
EI L P + +TL + Y ++ +L+ FE I+ + GK
Sbjct: 75 NEIKLEKPKGKDSKKERDARTLLAKNLPYKVTQDELKEVFEDAAEIRLVSK-----DGKS 129
Query: 143 RGYAFIEYEHERDMHSAYKHADGKKIDGRRV 173
+G A+IE++ E D ++ G +IDGR +
Sbjct: 130 KGIAYIEFKTEADAEKTFEEKQGTEIDGRSI 160
>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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 3/74 (4%)
Query: 109 VNY---DTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHADG 165
VNY D ++ +L F GPI + + TG GYAF+++ E D A K +G
Sbjct: 19 VNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVLNG 78
Query: 166 KKIDGRRVLVDVER 179
+ +R+ V R
Sbjct: 79 ITVRNKRLKVSYAR 92
Score = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSA 159
L++ + ++ +L F YG I + ++ +K+TG+PRG AF+ Y + A
Sbjct: 103 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 158
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 37/68 (54%), Gaps = 1/68 (1%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
L ++ +++ S++ ++ F +G +KK VH +G+ G A + +E + D A K
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKK-AAVHYDRSGRSLGTADVHFERKADALKAMKQY 89
Query: 164 DGKKIDGR 171
+G +DGR
Sbjct: 90 NGVPLDGR 97
>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 = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 37/68 (54%), Gaps = 1/68 (1%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
L ++ +++ S++ ++ F +G +KK VH +G+ G A + +E + D A K
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKK-AAVHYDRSGRSLGTADVHFERKADALKAXKQY 90
Query: 164 DGKKIDGR 171
+G +DGR
Sbjct: 91 NGVPLDGR 98
>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 = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 38/66 (57%), Gaps = 2/66 (3%)
Query: 92 SFPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
S P + P T+F+ ++ E+++R F YG +K++ ++ ++ TG +GY F+ +
Sbjct: 1 SLPEGKIMP-NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFY 58
Query: 152 HERDMH 157
++ D+
Sbjct: 59 NDVDVQ 64
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 37.7 bits (86), Expect = 0.009, Method: Composition-based stats.
Identities = 23/86 (26%), Positives = 43/86 (50%), Gaps = 6/86 (6%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
KT+FI +++D+ E L + +G +K + +V + T +G AF ++ +
Sbjct: 16 KTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLA 75
Query: 162 HAD------GKKIDGRRVLVDVERSR 181
A G K+DGR++ VD+ +R
Sbjct: 76 AASLEAEGGGLKLDGRQLKVDLAVTR 101
>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 = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 38/66 (57%), Gaps = 2/66 (3%)
Query: 92 SFPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
S P + P T+F+ ++ E+++R F YG +K++ ++ ++ TG +GY F+ +
Sbjct: 1 SLPEGKIMP-NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFY 58
Query: 152 HERDMH 157
++ D+
Sbjct: 59 NDVDVQ 64
>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 = 37.7 bits (86), Expect = 0.011, Method: Composition-based stats.
Identities = 17/73 (23%), Positives = 36/73 (49%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ +N + + LR F+ + ++ + TG RGY F+ + + D +A
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 164 DGKKIDGRRVLVD 176
G+ ++GR + ++
Sbjct: 64 QGQDLNGRPLRIN 76
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 37.4 bits (85), Expect = 0.012, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 5/72 (6%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+TL ++++ +E +L+ FE I+ + GK +G A+IE++ E D +
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALEIRLVSQ-----DGKSKGIAYIEFKSEADAEKNLE 71
Query: 162 HADGKKIDGRRV 173
G +IDGR V
Sbjct: 72 EKQGAEIDGRSV 83
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 16/88 (18%)
Query: 97 TMDPFKTLFIARVNYDTSESKLRREFEVYGP-----IKKIVMVHNKVTGKPRGYAFIEYE 151
TM K L++ + TSE + +EF P +KKI R YAF+ +
Sbjct: 11 TMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI-----------RDYAFVHFS 59
Query: 152 HERDMHSAYKHADGKKIDGRRVLVDVER 179
+ D A K +GK +DG + V + +
Sbjct: 60 NREDAVEAMKALNGKVLDGSPIEVTLAK 87
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 15/74 (20%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ +++ + Y + +++ F +G + + +++++ T KP+G+ F+E + E + A
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEE-SVSEAIA 60
Query: 162 HADGKKIDGRRVLV 175
D GR + V
Sbjct: 61 KLDNTDFMGRTIRV 74
>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 = 37.0 bits (84), Expect = 0.016, Method: Composition-based stats.
Identities = 18/73 (24%), Positives = 39/73 (53%), Gaps = 4/73 (5%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEH----ERDMHSA 159
+FI +++DT++ L+ F +G + + + +TG+ RG+ F+ ++ ++ M
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 160 YKHADGKKIDGRR 172
+GK ID +R
Sbjct: 62 EHKLNGKVIDPKR 74
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 37.0 bits (84), Expect = 0.019, Method: Composition-based stats.
Identities = 17/71 (23%), Positives = 39/71 (54%)
Query: 103 TLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKH 162
T++++ + + + + L R F YG + K+ ++ +K T K +G AFI + + + +
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRA 77
Query: 163 ADGKKIDGRRV 173
+ K++ GR +
Sbjct: 78 INNKQLFGRVI 88
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 34/55 (61%), Gaps = 1/55 (1%)
Query: 103 TLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMH 157
T+F+ ++ E+++R F YG +K++ ++ ++ TG +GY F+ + ++ D+
Sbjct: 12 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQ 65
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 8/78 (10%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
L + ++ + +LR +FE YGP+ + +V + YAF+ E D A +
Sbjct: 13 LHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRGL 64
Query: 164 DGKKIDGRRVLVDVERSR 181
D + G+R+ V + SR
Sbjct: 65 DNTEFQGKRMHVQLSTSR 82
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 36.6 bits (83), Expect = 0.024, Method: Composition-based stats.
Identities = 20/74 (27%), Positives = 38/74 (51%), Gaps = 8/74 (10%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+F+ V+ + +LR FE G + + +V + YAF+ E E D +A
Sbjct: 12 IFVGNVSAACTSQELRSLFERRGRVIECDVV--------KDYAFVHMEKEADAKAAIAQL 63
Query: 164 DGKKIDGRRVLVDV 177
+GK++ G+R+ V++
Sbjct: 64 NGKEVKGKRINVEL 77
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+++ + D + F YG I+ I + N+ G P +AF+E+E RD A
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDIDL-KNRRGGPP--FAFVEFEDPRDAEDAVYGR 81
Query: 164 DGKKIDGRRVLVDVERS 180
DG DG R+ V+ RS
Sbjct: 82 DGYDYDGYRLRVEFPRS 98
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 36.2 bits (82), Expect = 0.030, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 36/72 (50%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LFI + ++ +++ +GP+K +V + TG +GYAF EY A
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 164 DGKKIDGRRVLV 175
+G ++ +++LV
Sbjct: 64 NGMQLGDKKLLV 75
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 36.2 bits (82), Expect = 0.032, Method: Composition-based stats.
Identities = 16/70 (22%), Positives = 38/70 (54%), Gaps = 4/70 (5%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHE----RDMHSA 159
+FI +++ T++ LR F +G +K+ +++ + +T + RG+ F+ + + + + +
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 62
Query: 160 YKHADGKKID 169
D K ID
Sbjct: 63 RHELDSKTID 72
>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 = 35.8 bits (81), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSA 159
L++ + ++ +L F YG I + ++ +K+TG+PRG AF+ Y + A
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 71
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 35.8 bits (81), Expect = 0.034, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ LF+ +N SE +RR FE +G I++ ++ G +G AF++Y + +A
Sbjct: 16 RKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGP-DGNSKGCAFVKYSSHAEAQAAIN 74
Query: 162 HADGKK 167
G +
Sbjct: 75 ALHGSQ 80
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 35.8 bits (81), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHE 153
K +F+ ++ DT E K+R F +G ++ I + + T K RG+ FI ++ E
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEE 53
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 35.8 bits (81), Expect = 0.042, Method: Composition-based stats.
Identities = 12/50 (24%), Positives = 30/50 (60%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHE 153
+F+ ++ +T+ ++ FE +G + +++ +K T + RG+ F+ +E E
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESE 51
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 35.4 bits (80), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 42/83 (50%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ L++ + + + L F +G I I + + T K RG+AF+E+E D +A
Sbjct: 13 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 72
Query: 162 HADGKKIDGRRVLVDVERSRTVK 184
+ + ++ GR + V++ + +K
Sbjct: 73 NMNESELFGRTIRVNLAKPMRIK 95
>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 = 35.0 bits (79), Expect = 0.064, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 5/71 (7%)
Query: 105 FIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHAD 164
F+ +++DTS+ L+ F +G + + + TG+ RG+ FI + +D S K D
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILF---KDAASVEKVLD 71
Query: 165 GK--KIDGRRV 173
K ++DGR +
Sbjct: 72 QKEHRLDGRVI 82
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 35.0 bits (79), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHE 153
+F+ ++ DT E K+R F +G ++ I + + T K RG+ FI ++ E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEE 51
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 34.7 bits (78), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 42/82 (51%), Gaps = 2/82 (2%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
K L ++ + + + LR+ F +G I + ++ N+ K G+ F+ +E+ D A +
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSK--GFGFVTFENSADADRARE 73
Query: 162 HADGKKIDGRRVLVDVERSRTV 183
G ++GR++ V+ +R +
Sbjct: 74 KLHGTVVEGRKIEVNNATARVM 95
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 34.7 bits (78), Expect = 0.078, Method: Composition-based stats.
Identities = 12/47 (25%), Positives = 30/47 (63%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEY 150
+FI +++ T++ LR F +G +K+ +++ + +T + RG+ F+ +
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 74
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 34.3 bits (77), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 42/82 (51%), Gaps = 2/82 (2%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
K L ++ + + + LR+ F +G I + ++ N+ K G+ F+ +E+ D A +
Sbjct: 30 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSK--GFGFVTFENSADADRARE 87
Query: 162 HADGKKIDGRRVLVDVERSRTV 183
G ++GR++ V+ +R +
Sbjct: 88 KLHGTVVEGRKIEVNNATARVM 109
>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 = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 40/78 (51%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ L++ + + + L F +G I I + + T K RG+AF+E+E D +A
Sbjct: 8 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 67
Query: 162 HADGKKIDGRRVLVDVER 179
+ + ++ GR + V++ +
Sbjct: 68 NMNESELFGRTIRVNLAK 85
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 40/78 (51%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ L++ + + + L F +G I I + + T K RG+AF+E+E D +A
Sbjct: 6 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 65
Query: 162 HADGKKIDGRRVLVDVER 179
+ + ++ GR + V++ +
Sbjct: 66 NMNESELFGRTIRVNLAK 83
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 34.3 bits (77), Expect = 0.12, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 29/43 (67%), Gaps = 1/43 (2%)
Query: 114 SESKLRREFEVYG-PIKKIVMVHNKVTGKPRGYAFIEYEHERD 155
+E +R + + +G +++ ++ NK +G+ RG+AF+E+ H +D
Sbjct: 14 TEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQD 56
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ L+I + Y + ++ F YGPI++I + + T + RG A++ YE D +A
Sbjct: 9 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGN---TPETRGTAYVVYEDIFDAKNAVD 65
Query: 162 HADGKKIDGRRVLV 175
H G + R ++V
Sbjct: 66 HLSGFNVSNRYLVV 79
>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 = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 39/76 (51%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ L++ + + + L F +G I I + + T K RG+AF+E+E D +A
Sbjct: 3 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 62
Query: 162 HADGKKIDGRRVLVDV 177
+ + ++ GR + V++
Sbjct: 63 NMNESELFGRTIRVNL 78
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 39/76 (51%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ L++ + + + L F +G I I + + T K RG+AF+E+E D +A
Sbjct: 64 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 123
Query: 162 HADGKKIDGRRVLVDV 177
+ + ++ GR + V++
Sbjct: 124 NMNESELFGRTIRVNL 139
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 33.9 bits (76), Expect = 0.15, Method: Composition-based stats.
Identities = 21/83 (25%), Positives = 41/83 (49%), Gaps = 2/83 (2%)
Query: 93 FPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEH 152
FP A + +T+F+ + E L F GP+ K+ + ++ GKP+ + F+ ++H
Sbjct: 9 FP-AQEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDR-EGKPKSFGFVCFKH 66
Query: 153 ERDMHSAYKHADGKKIDGRRVLV 175
+ A +G ++ GR + V
Sbjct: 67 PESVSYAIALLNGIRLYGRPINV 89
>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 = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ L+I + Y + ++ F YGPI++I + + T + RG A++ YE D +A
Sbjct: 19 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGN---TPETRGTAYVVYEDIFDAKNACD 75
Query: 162 HADGKKIDGRRVLV 175
H G + R ++V
Sbjct: 76 HLSGFNVCNRYLVV 89
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 133 MVH---NKVTGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERSR 181
M+H +K TGKP+G A + YE +A + DGK G ++ V + R +
Sbjct: 52 MIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLARKK 103
>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 = 33.1 bits (74), Expect = 0.23, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 28/49 (57%)
Query: 125 YGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRV 173
+G I +V + TGK +GY F+ + ++ D +A + G+ + GR++
Sbjct: 30 FGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI 78
>pdb|2L5I|A Chain A, Structure Of The Spliceosomal Phosphopeptide P140
(Non-Phosphorylated Form)
Length = 21
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/20 (70%), Positives = 18/20 (90%)
Query: 130 KIVMVHNKVTGKPRGYAFIE 149
+I MV++K +GKPRGYAFIE
Sbjct: 1 RIHMVYSKRSGKPRGYAFIE 20
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 32/68 (47%), Gaps = 8/68 (11%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ D ES+L F +GP+K++ +++ G+AF+E+E A +
Sbjct: 7 LFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKAIEEV 58
Query: 164 DGKKIDGR 171
GK +
Sbjct: 59 HGKSFANQ 66
>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 = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 3/74 (4%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ L I + Y + ++ F YGPI++I + + T + RG A++ YE D +A
Sbjct: 19 RILMIRNLPYKITAEEMYDIFGKYGPIRQIRVGN---TPETRGTAYVVYEDIFDAKNACD 75
Query: 162 HADGKKIDGRRVLV 175
H G + R ++V
Sbjct: 76 HLSGFNVCNRYLVV 89
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 32.7 bits (73), Expect = 0.34, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYK 161
+ L+I + Y + ++ F YGPI++I + + T + RG A++ YE D +A
Sbjct: 13 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGN---TPETRGTAYVVYEDIFDAKNACD 69
Query: 162 HADGKKIDGRRVLV 175
H G + R ++V
Sbjct: 70 HLSGFNVCNRYLVV 83
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ D ES+L F +GP+K++ +++ G+AF+E+E A +
Sbjct: 34 LFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAESAAKAIEEV 85
Query: 164 DGKKI 168
GK
Sbjct: 86 HGKSF 90
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 103 TLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKH 162
T+F+A ++Y KL+ F + G + + ++ +K GK RG + +E + A
Sbjct: 17 TVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDK-DGKSRGIGTVTFEQSIEAVQAISM 75
Query: 163 ADGKKI 168
+G+ +
Sbjct: 76 FNGQLL 81
>pdb|2L5J|A Chain A, Structure Of The Spliceosomal Phosphopeptide P140
(Phosphorylated Form)
Length = 21
Score = 32.0 bits (71), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 14/20 (70%), Positives = 17/20 (85%)
Query: 130 KIVMVHNKVTGKPRGYAFIE 149
+I MV++K GKPRGYAFIE
Sbjct: 1 RIHMVYSKRXGKPRGYAFIE 20
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 31.2 bits (69), Expect = 0.94, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 28/47 (59%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEY 150
LF+ ++ E L+ FE +G I ++ ++ +++TG +G AF+ Y
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTY 64
>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 = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 27/51 (52%)
Query: 125 YGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLV 175
+G +++ +V+++ TG+ +GY F EY + A GK + R + V
Sbjct: 117 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYV 167
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 27/51 (52%)
Query: 125 YGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLV 175
+G +++ +V+++ TG+ +GY F EY + A GK + R + V
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYV 169
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 27/51 (52%)
Query: 125 YGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLV 175
+G +++ +V+++ TG+ +GY F EY + A GK + R + V
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYV 169
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFI---EYEHERDMHSAY 160
L + + + T+E L+ F +G + + + + TG +G+ F+ EYE + + S
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR 77
Query: 161 KHADGKKID 169
DG+ D
Sbjct: 78 HMIDGRWCD 86
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 16/64 (25%), Positives = 33/64 (51%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
L+++ + S+ ++ + F YG I ++ ++ TG RG FI ++ + A K
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 164 DGKK 167
+G+K
Sbjct: 64 NGQK 67
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/84 (21%), Positives = 38/84 (45%), Gaps = 8/84 (9%)
Query: 92 SFPNATMDPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
S ++ M K LF+ + +E L + F +G ++++ K + YAFI ++
Sbjct: 2 SSGSSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVK--------KLKDYAFIHFD 53
Query: 152 HERDMHSAYKHADGKKIDGRRVLV 175
A + +GK ++G + +
Sbjct: 54 ERDGAVKAMEEMNGKDLEGENIEI 77
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 30.4 bits (67), Expect = 1.8, Method: Composition-based stats.
Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 115 ESKLRREFEVYG-PIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHADGKKIDG 170
E+ + R F G + + ++ N++TG P GY F+E+ +GK + G
Sbjct: 23 ENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPG 79
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 30.0 bits (66), Expect = 2.1, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 20/29 (68%)
Query: 143 RGYAFIEYEHERDMHSAYKHADGKKIDGR 171
+G+AF++Y +ER+ +A DG+ I G+
Sbjct: 50 KGFAFVQYVNERNARAAVAGEDGRMIAGQ 78
>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 = 29.6 bits (65), Expect = 2.4, Method: Composition-based stats.
Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+FI ++ L F +G I +V ++ K GY F+ +E + A +
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKM 65
Query: 164 DGKKIDGRRVLVDVERSR 181
+G ++ R+V V +SR
Sbjct: 66 NGMLLNDRKVFVGRFKSR 83
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 29.6 bits (65), Expect = 2.4, Method: Composition-based stats.
Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
+FI ++ L F +G I +V ++ K GY F+ +E + A +
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKM 71
Query: 164 DGKKIDGRRVLVDVERSR 181
+G ++ R+V V +SR
Sbjct: 72 NGMLLNDRKVFVGRFKSR 89
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 6/68 (8%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ + D +E +R FE YG ++ + + RG+ FI E A
Sbjct: 25 LFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEIAKAEL 78
Query: 164 DGKKIDGR 171
DG + R
Sbjct: 79 DGTILKSR 86
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 29.6 bits (65), Expect = 2.5, Method: Composition-based stats.
Identities = 18/83 (21%), Positives = 42/83 (50%), Gaps = 2/83 (2%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHS 158
+P T ++ + ++T + + F+ I+ + +V +K T K +G+ ++E++ +
Sbjct: 13 EPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKE 71
Query: 159 AYKHADGKKIDGRRVLVDVERSR 181
A + DG + R + VD+ R
Sbjct: 72 ALTY-DGALLGDRSLRVDIAEGR 93
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 19/35 (54%)
Query: 140 GKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVL 174
GK +GY F+EY A K+ADG K+D +
Sbjct: 44 GKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTF 78
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 29.6 bits (65), Expect = 2.7, Method: Composition-based stats.
Identities = 14/75 (18%), Positives = 38/75 (50%), Gaps = 2/75 (2%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKV-TGKPRGYAFIEYEHERDMHSAYKH 162
+ + + + ++ ++R F +G +K + + TG RG+ F+++ ++D A+
Sbjct: 18 ILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNA 77
Query: 163 -ADGKKIDGRRVLVD 176
+ GRR++++
Sbjct: 78 LCHSTHLYGRRLVLE 92
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 140 GKPRGYAFIEYEHERDMHSAYKHADGKKID 169
GK +GY F+EY A K+ADG K+D
Sbjct: 58 GKTKGYIFLEYASPAHAVDAVKNADGYKLD 87
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 29.3 bits (64), Expect = 3.7, Method: Composition-based stats.
Identities = 17/79 (21%), Positives = 37/79 (46%), Gaps = 8/79 (10%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LFI + + +E ++R FE YG + + ++ N Y F+ E + A ++
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--------YGFVHIEDKTAAEDAIRNL 62
Query: 164 DGKKIDGRRVLVDVERSRT 182
K+ G + V+ ++++
Sbjct: 63 HHYKLHGVNINVEASKNKS 81
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 9/72 (12%)
Query: 102 KTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGK----PRGYAFIEYEHERDMH 157
+ +F+ + D E ++ F +GP+ +V +K K P+GYAF+ ++ E +
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFGPL--VVDWPHKAESKSYFPPKGYAFLLFQEESSVQ 66
Query: 158 S---AYKHADGK 166
+ A DGK
Sbjct: 67 ALIDACLEEDGK 78
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/83 (21%), Positives = 41/83 (49%)
Query: 99 DPFKTLFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHS 158
+P K L++ ++ +E L F + K + +TG+ RG AFI + ++
Sbjct: 23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQ 82
Query: 159 AYKHADGKKIDGRRVLVDVERSR 181
A +G K+ G+ ++++ +++
Sbjct: 83 ALHLVNGYKLYGKILVIEFGKNK 105
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ + D +E ++R+ FE YG + V +H K +G+ FI E A
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGE-VFIH-----KDKGFGFIRLETRTLAEIAKVEL 78
Query: 164 DGKKIDGRRVLV 175
D + G+++ V
Sbjct: 79 DNMPLRGKQLRV 90
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
Length = 99
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYEHERDMHSAYKHA 163
LF+ + D +E ++R+ FE YG + V +H K +G+ FI E A
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGE-VFIH-----KDKGFGFIRLETRTLAEIAKVEL 71
Query: 164 DGKKIDGRRVLV 175
D + G+++ V
Sbjct: 72 DNMPLRGKQLRV 83
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 28.5 bits (62), Expect = 6.9, Method: Composition-based stats.
Identities = 13/48 (27%), Positives = 26/48 (54%)
Query: 104 LFIARVNYDTSESKLRREFEVYGPIKKIVMVHNKVTGKPRGYAFIEYE 151
L+I + T++ L + + YG I + +K T K +GY F++++
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFD 55
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 28.1 bits (61), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 136 NKVTGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLV-----DVER 179
++ TGK +G+ F+E D K GK++D + L DVER
Sbjct: 47 DEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRLFLYTMKDVER 95
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
0.317 0.136 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,517,350
Number of Sequences: 62578
Number of extensions: 163288
Number of successful extensions: 628
Number of sequences better than 100.0: 144
Number of HSP's better than 100.0 without gapping: 110
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 478
Number of HSP's gapped (non-prelim): 164
length of query: 363
length of database: 14,973,337
effective HSP length: 100
effective length of query: 263
effective length of database: 8,715,537
effective search space: 2292186231
effective search space used: 2292186231
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: 52 (24.6 bits)