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= 010771
(501 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 = 166 bits (420), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 108/234 (46%), Positives = 129/234 (55%), Gaps = 29/234 (12%)
Query: 42 LTANLLKLFEPRAPLEYKPPPEK-----RKCPPLTGMAQFVSHFAEPGDPLYAPPVEKAE 96
L NLL LF PR P+ Y PP EK P G+A ++ F +P D APP +AE
Sbjct: 5 LPPNLLALFAPRDPIPYLPPLEKLPHEKHHNQPYCGIAPYIREFEDPRD---APPPTRAE 61
Query: 97 TPVERRARIHXXXXXXXXXXXXXXXXXYDPHNDPNVSGDPYKTLFVARLSYETTESKIKR 156
T ER R +DPHNDPN GD +KTLFVAR++Y+TTESK++R
Sbjct: 62 TREERMERKRREKIERRQQEVETELKMWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRR 121
Query: 157 EFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKPRGYAFIEYMHTRDMKAA 216
EFE YGPIKR + +V K + KPRGYAFIEY H RDM +A
Sbjct: 122 EFEVYGPIKR---------------------IHMVYSKRSGKPRGYAFIEYEHERDMHSA 160
Query: 217 YKQADGRKLDGRRVLVDVERGRTVPNWRPRXXXXXXXXXXXXXXXXNQRYSGRE 270
YK ADG+K+DGRRVLVDVERGRTV WRPR N R+SGR+
Sbjct: 161 YKHADGKKIDGRRVLVDVERGRTVKGWRPRRLGGGLGGTRRGGADVNIRHSGRD 214
>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 = 166 bits (419), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 108/234 (46%), Positives = 129/234 (55%), Gaps = 29/234 (12%)
Query: 42 LTANLLKLFEPRAPLEYKPPPEK-----RKCPPLTGMAQFVSHFAEPGDPLYAPPVEKAE 96
L NLL LF PR P+ Y PP EK P G+A ++ F +P D APP +AE
Sbjct: 5 LPPNLLALFAPRDPIPYLPPLEKLPHEKHHNQPYCGIAPYIREFEDPRD---APPPTRAE 61
Query: 97 TPVERRARIHXXXXXXXXXXXXXXXXXYDPHNDPNVSGDPYKTLFVARLSYETTESKIKR 156
T ER R +DPHNDPN GD +KTLFVAR++Y+TTESK++R
Sbjct: 62 TREERMERKRREKIERRQQEVETELKMWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRR 121
Query: 157 EFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKPRGYAFIEYMHTRDMKAA 216
EFE YGPIKR + +V K + KPRGYAFIEY H RDM +A
Sbjct: 122 EFEVYGPIKR---------------------IHMVYSKRSGKPRGYAFIEYEHERDMHSA 160
Query: 217 YKQADGRKLDGRRVLVDVERGRTVPNWRPRXXXXXXXXXXXXXXXXNQRYSGRE 270
YK ADG+K+DGRRVLVDVERGRTV WRPR N R+SGR+
Sbjct: 161 YKHADGKKIDGRRVLVDVERGRTVKGWRPRRLGGGLGGTRRGGADVNIRHSGRD 214
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 44/96 (45%), Gaps = 21/96 (21%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
+++FV + YE TE ++K F GP+ RLV D+ET
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSF---------------------RLVYDRETG 47
Query: 198 KPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
KP+GY F EY +A + +GR+ GR + VD
Sbjct: 48 KPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVD 83
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 49/99 (49%), Gaps = 21/99 (21%)
Query: 135 DPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDK 194
DP L V LS TTE ++ F YGPI V +V D+
Sbjct: 13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIA---------------------DVSIVYDQ 51
Query: 195 ETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
++ + RG+AF+ + + D K A ++A+G +LDGRR+ VD
Sbjct: 52 QSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 90
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 49/99 (49%), Gaps = 21/99 (21%)
Query: 135 DPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDK 194
DP L V LS TTE ++ F YGPI V +V D+
Sbjct: 44 DPNCCLGVFGLSLYTTERDLREVFSKYGPIA---------------------DVSIVYDQ 82
Query: 195 ETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
++ + RG+AF+ + + D K A ++A+G +LDGRR+ VD
Sbjct: 83 QSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 121
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 49/99 (49%), Gaps = 21/99 (21%)
Query: 135 DPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDK 194
DP L V LS TTE ++ F YGPI V +V D+
Sbjct: 10 DPNCCLGVFGLSLYTTERDLREVFSKYGPIA---------------------DVSIVYDQ 48
Query: 195 ETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
++ + RG+AF+ + + D K A ++A+G +LDGRR+ VD
Sbjct: 49 QSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 87
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 32/98 (32%), Positives = 48/98 (48%), Gaps = 21/98 (21%)
Query: 135 DPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDK 194
DP L V LS TTE ++ F YGPI V +V D+
Sbjct: 13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIA---------------------DVSIVYDQ 51
Query: 195 ETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
++ + RG+AF+ + + D K A ++A+G +LDGRR+ V
Sbjct: 52 QSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV 89
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 49.3 bits (116), Expect = 4e-06, Method: Composition-based stats.
Identities = 31/104 (29%), Positives = 48/104 (46%), Gaps = 24/104 (23%)
Query: 130 PNVSGDPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVR 189
PN P KTLFV LS +TTE +K F+ + R
Sbjct: 8 PNARSQPSKTLFVKGLSEDTTEETLKESFDG------------------------SVRAR 43
Query: 190 LVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
+VTD+ET +G+ F+++ D KAA + + ++DG +V +D
Sbjct: 44 IVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLD 87
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 48.9 bits (115), Expect = 7e-06, Method: Composition-based stats.
Identities = 29/103 (28%), Positives = 51/103 (49%), Gaps = 22/103 (21%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LFV LS++T E +++ F YG I ++ +V D+ET +
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVV---------------------VVKDRETQRS 53
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVERGRTVPN 242
RG+ F+ + + D K A +G+ +DGR++ VD + G++ N
Sbjct: 54 RGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVD-QAGKSSDN 95
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 50/109 (45%), Gaps = 23/109 (21%)
Query: 128 NDPNVSGDPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEK 187
+ P+V G TL V L+Y T+ ++R FE YG + GD
Sbjct: 6 SGPDVDG--MITLKVDNLTYRTSPDSLRRVFEKYGRV----------GD----------- 42
Query: 188 VRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVER 236
V + + T PRG+AF+ + RD + A DG +LDGR + V V R
Sbjct: 43 VYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVAR 91
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 45.8 bits (107), Expect = 5e-05, Method: Composition-based stats.
Identities = 27/93 (29%), Positives = 41/93 (44%), Gaps = 21/93 (22%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LFV LSY ++E +++ F +YGP+ L D T KP
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSEL---------------------HYPIDSLTKKP 49
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
+G+AF+ +M AY + DG+ GR + V
Sbjct: 50 KGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHV 82
>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 = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 33/107 (30%), Positives = 49/107 (45%), Gaps = 23/107 (21%)
Query: 130 PNVSGDPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVR 189
P+V G +L V L+Y T+ ++R FE YG + GD V
Sbjct: 42 PDVEG--MTSLKVDNLTYRTSPDTLRRVFEKYGRV----------GD-----------VY 78
Query: 190 LVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVER 236
+ D+ T + RG+AF+ + RD + A DG LDGR + V + R
Sbjct: 79 IPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMAR 125
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 30/108 (27%), Positives = 46/108 (42%), Gaps = 25/108 (23%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
KTL ++ LSY TE ++ FE IK V +
Sbjct: 16 KTLVLSNLSYSATEETLQEVFEKATFIK-------------------------VPQNQNG 50
Query: 198 KPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVERGRTVPNWRP 245
K +GYAFIE+ D K A + R+++GR + ++++ R PN P
Sbjct: 51 KSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQGPRGSPNSGP 98
>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 = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 42/99 (42%), Gaps = 21/99 (21%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
TL+V LS+ TTE +I F G IK++I + DK
Sbjct: 41 TLYVGNLSFYTTEEQIYELFSKSGDIKKII---------------------MGLDKMKKT 79
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVERG 237
G+ F+EY D + A + +G +LD R + D + G
Sbjct: 80 ACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAG 118
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 32/100 (32%), Positives = 47/100 (47%), Gaps = 24/100 (24%)
Query: 134 GDPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTD 193
G P +TL+V LS + TE I + F GP C SC +++T+
Sbjct: 13 GQP-RTLYVGNLSRDVTEVLILQLFSQIGP-----CKSC----------------KMITE 50
Query: 194 KETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
+N P Y F+E+ RD AA +GRK+ G+ V V+
Sbjct: 51 HTSNDP--YCFVEFYEHRDAAAALAAMNGRKILGKEVKVN 88
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 21/89 (23%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
L+V L + TE ++ FE +G I E ++L+ D ET +
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRI---------------------ESIQLMMDSETGRS 67
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGR 228
+GY FI + + K A +Q +G +L GR
Sbjct: 68 KGYGFITFSDSECAKKALEQLNGFELAGR 96
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/98 (30%), Positives = 45/98 (45%), Gaps = 21/98 (21%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
+L V L+Y T+ ++R FE YG + GD V + D+ T +
Sbjct: 72 SLKVDNLTYRTSPDTLRRVFEKYGRV----------GD-----------VYIPRDRYTKE 110
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVER 236
RG+AF+ + RD + A DG LDGR + V + R
Sbjct: 111 SRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMAR 148
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 31/102 (30%), Positives = 47/102 (46%), Gaps = 22/102 (21%)
Query: 132 VSGDPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLV 191
V D LF+ L+ ET E +K F +GPI +V L+
Sbjct: 2 VEADHPGKLFIGGLNRETNEKMLKAVFGKHGPI---------------------SEVLLI 40
Query: 192 TDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
D+ T+K RG+AFI + + D K A K +G+ L G+ + V+
Sbjct: 41 KDR-TSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVE 81
>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 = 0.006, Method: Composition-based stats.
Identities = 30/111 (27%), Positives = 42/111 (37%), Gaps = 28/111 (25%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LF+ L++ TTE +K F G IK SC K+ NK
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIK-----SCT------------------ISKKKNKA 44
Query: 200 -----RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVERGRTVPNWRP 245
G+ F+EY + A KQ G +DG ++ V + T P P
Sbjct: 45 GVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISERATKPASGP 95
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 22/91 (24%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LF+ LS+ETT+ ++ FE +G + + ++ D T +
Sbjct: 17 LFIGGLSFETTDESLRSHFEQWGTLTDCV---------------------VMRDPNTKRS 55
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
RG+ F+ Y ++ AA A K+DGR V
Sbjct: 56 RGFGFVTYATVEEVDAAM-NARPHKVDGRVV 85
Score = 32.3 bits (72), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 21/70 (30%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
K +FV + +T E ++ FE YG I E + ++TD+ +
Sbjct: 106 KKIFVGGIKEDTEEHHLRDYFEQYGKI---------------------EVIEIMTDRGSG 144
Query: 198 KPRGYAFIEY 207
K RG+AF+ +
Sbjct: 145 KKRGFAFVTF 154
>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 = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 22/91 (24%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LF+ LS+ETT+ ++ FE +G + + ++ D T +
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCV---------------------VMRDPNTKRS 53
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
RG+ F+ Y ++ AA A K+DGR V
Sbjct: 54 RGFGFVTYATVEEVDAAM-NARPHKVDGRVV 83
Score = 32.3 bits (72), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 21/70 (30%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
K +FV + +T E ++ FE YG I E + ++TD+ +
Sbjct: 104 KKIFVGGIKEDTEEHHLRDYFEQYGKI---------------------EVIEIMTDRGSG 142
Query: 198 KPRGYAFIEY 207
K RG+AF+ +
Sbjct: 143 KKRGFAFVTF 152
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 40/93 (43%), Gaps = 21/93 (22%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
++V + YE E I++ F +GPIK + D S D T K
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSI--------DXSWD-------------SVTXKH 53
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
+G+AF+EY + A +Q + L GR + V
Sbjct: 54 KGFAFVEYEVPEAAQLALEQXNSVXLGGRNIKV 86
Score = 32.3 bits (72), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 21/96 (21%)
Query: 137 YKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKET 196
+ ++VA + + ++ IK FE++G IK SC L D T
Sbjct: 109 FNRIYVASVHQDLSDDDIKSVFEAFGKIK-----SCT----------------LARDPTT 147
Query: 197 NKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
K +GY FIEY + + A + L G+ + V
Sbjct: 148 GKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRV 183
>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 = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 40/95 (42%), Gaps = 21/95 (22%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
LFV + E TE I +F YG IK + L D+ T
Sbjct: 25 ILFVTGVHEEATEEDIHDKFAEYGEIK---------------------NIHLNLDRRTGY 63
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
+GY +EY ++ +AA + +G+ L G+ + VD
Sbjct: 64 LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVD 98
>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 = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 22/91 (24%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LF+ LS+ETT+ ++ FE +G + + ++ D T +
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCV---------------------VMRDPNTKRS 54
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
RG+ F+ Y ++ AA A K+DGR V
Sbjct: 55 RGFGFVTYATVEEVDAAM-NARPHKVDGRVV 84
Score = 32.3 bits (72), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 21/70 (30%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
K +FV + +T E ++ FE YG I E + ++TD+ +
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKI---------------------EVIEIMTDRGSG 143
Query: 198 KPRGYAFIEY 207
K RG+AF+ +
Sbjct: 144 KKRGFAFVTF 153
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 22/91 (24%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LF+ LS+ETT+ ++ FE +G + + ++ D T +
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCV---------------------VMRDPNTKRS 52
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
RG+ F+ Y ++ AA A K+DGR V
Sbjct: 53 RGFGFVTYATVEEVDAAM-NARPHKVDGRVV 82
Score = 32.0 bits (71), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 21/70 (30%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
K +FV + +T E ++ FE YG I E + ++TD+ +
Sbjct: 103 KKIFVGGIKEDTEEHHLRDYFEQYGKI---------------------EVIEIMTDRGSG 141
Query: 198 KPRGYAFIEY 207
K RG+AF+ +
Sbjct: 142 KKRGFAFVTF 151
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 22/91 (24%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LF+ LS+ETT+ ++ FE +G + + ++ D T +
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCV---------------------VMRDPNTKRS 54
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
RG+ F+ Y ++ AA A K+DGR V
Sbjct: 55 RGFGFVTYATVEEVDAAM-NARPHKVDGRVV 84
Score = 32.0 bits (71), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 21/70 (30%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
K +FV + +T E ++ FE YG I E + ++TD+ +
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKI---------------------EVIEIMTDRGSG 143
Query: 198 KPRGYAFIEY 207
K RG+AF+ +
Sbjct: 144 KKRGFAFVTF 153
>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 = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 39/93 (41%), Gaps = 21/93 (22%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
++V + YE E I++ F +GPIK + + D T K
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIK---------------------SIDMSWDSVTMKH 69
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
+G+AF+EY + A +Q + L GR + V
Sbjct: 70 KGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 102
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 21/71 (29%)
Query: 137 YKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKET 196
+ ++VA + + ++ IK FE++G IK L D T
Sbjct: 125 FNRIYVASVHQDLSDDDIKSVFEAFGKIK---------------------SATLARDPTT 163
Query: 197 NKPRGYAFIEY 207
K +GY FIEY
Sbjct: 164 GKHKGYGFIEY 174
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 38.5 bits (88), Expect = 0.008, Method: Composition-based stats.
Identities = 26/107 (24%), Positives = 44/107 (41%), Gaps = 21/107 (19%)
Query: 126 PHNDPNVSGDPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCD 185
P N D + L V + E ++++ FE YGPI
Sbjct: 31 PPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPI--------------------- 69
Query: 186 EKVRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
E V++V D+ET + RGY F+++ + A +G + +R+ V
Sbjct: 70 ESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKV 116
>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 = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 22/91 (24%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LF+ LS+ETT+ ++ FE +G + + ++ D T +
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCV---------------------VMRDPNTKRS 47
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
RG+ F+ Y ++ AA A K+DGR V
Sbjct: 48 RGFGFVTYATVEEVDAAM-NARPHKVDGRVV 77
Score = 32.0 bits (71), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 21/70 (30%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
K +FV + +T E ++ FE YG I E + ++TD+ +
Sbjct: 98 KKIFVGGIKEDTEEHHLRDYFEQYGKI---------------------EVIEIMTDRGSG 136
Query: 198 KPRGYAFIEY 207
K RG+AF+ +
Sbjct: 137 KKRGFAFVTF 146
>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 = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 40/95 (42%), Gaps = 21/95 (22%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
LFV + E TE I +F YG IK + L D+ T
Sbjct: 24 ILFVTGVHEEATEEDIHDKFAEYGEIK---------------------NIHLNLDRRTGY 62
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
+GY +EY ++ +AA + +G+ L G+ + VD
Sbjct: 63 LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVD 97
>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 = 0.010, Method: Compositional matrix adjust.
Identities = 27/109 (24%), Positives = 40/109 (36%), Gaps = 21/109 (19%)
Query: 124 YDPHNDPNVSGDPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKP 183
Y P V D LF+ L + ++K S+GP+K
Sbjct: 101 YVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAF---------------- 144
Query: 184 CDEKVRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
LV D T +GYAF EY+ A +G +L +++LV
Sbjct: 145 -----NLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 188
>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 = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 39/93 (41%), Gaps = 21/93 (22%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
++V + YE E I++ F +GPIK + + D T K
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIK---------------------SIDMSWDSVTMKH 54
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
+G+AF+EY + A +Q + L GR + V
Sbjct: 55 KGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 87
Score = 32.0 bits (71), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 21/71 (29%)
Query: 137 YKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKET 196
+ ++VA + + ++ IK FE++G IK SC L D T
Sbjct: 110 FNRIYVASVHQDLSDDDIKSVFEAFGKIK-----SCT----------------LARDPTT 148
Query: 197 NKPRGYAFIEY 207
K +GY FIEY
Sbjct: 149 GKHKGYGFIEY 159
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 40/95 (42%), Gaps = 21/95 (22%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
LFV + E E +I+ +F YG IK + L D+ T
Sbjct: 28 ILFVTSIHEEAQEDEIQEKFCDYGEIK---------------------NIHLNLDRRTGF 66
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
+GYA +EY + AA + +G ++ G+ + VD
Sbjct: 67 SKGYALVEYETHKQALAAKEALNGAEIMGQTIQVD 101
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 41/98 (41%), Gaps = 26/98 (26%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
++V L +++++R F YGP++ + P
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWV--------------------------ARNP 109
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVERG 237
G+AF+E+ RD A ++ DGR L G RV V++ G
Sbjct: 110 PGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSNG 147
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 37.7 bits (86), Expect = 0.013, Method: Composition-based stats.
Identities = 23/95 (24%), Positives = 39/95 (41%), Gaps = 22/95 (23%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
+ ++V L Y T ++K F +G + V+L+ D+ET
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVF---------------------NVKLIYDRETK 40
Query: 198 KPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
KP+G+ F+E M + A + D GR + V
Sbjct: 41 KPKGFGFVE-MQEESVSEAIAKLDNTDFMGRTIRV 74
>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 = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 40/95 (42%), Gaps = 21/95 (22%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
LFV + E TE I +F YG IK + L D+ T
Sbjct: 11 ILFVTGVHEEATEEDIHDKFAEYGEIK---------------------NIHLNLDRRTGY 49
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
+GY +EY ++ +AA + +G+ L G+ + VD
Sbjct: 50 LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVD 84
>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 = 37.7 bits (86), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 40/95 (42%), Gaps = 21/95 (22%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
LFV + E TE I +F YG IK + L D+ T
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIK---------------------NIHLNLDRRTGY 47
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
+GY +EY ++ +AA + +G+ L G+ + VD
Sbjct: 48 LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVD 82
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 37.7 bits (86), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 188 VRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVERGR 238
VRLV DK+T+K +G+ ++E+ +K A DG L R + VD+ GR
Sbjct: 44 VRLVRDKDTDKFKGFCYVEFDEVDSLKEALTY-DGALLGDRSLRVDIAEGR 93
>pdb|1HL6|A Chain A, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|C Chain C, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1RK8|A Chain A, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|A Chain A, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|C Chain C, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 165
Score = 37.7 bits (86), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 40/95 (42%), Gaps = 21/95 (22%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
LFV + E E +I+ +F YG IK + N D+ T
Sbjct: 74 ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLN---------------------LDRRTGF 112
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
+GYA +EY + AA + +G ++ G+ + VD
Sbjct: 113 SKGYALVEYETHKQALAAKEALNGAEIMGQTIQVD 147
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 37.7 bits (86), Expect = 0.016, Method: Composition-based stats.
Identities = 25/98 (25%), Positives = 45/98 (45%), Gaps = 22/98 (22%)
Query: 137 YKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKET 196
+ +FV L Y TT++ +++ FE +G I E+ ++TD++T
Sbjct: 17 FTKIFVGGLPYHTTDASLRKYFEGFGDI---------------------EEAVVITDRQT 55
Query: 197 NKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDV 234
K RGY F+ + A K + +DGR+ V++
Sbjct: 56 GKSRGYGFVTMADRAAAERACKDPN-PIIDGRKANVNL 92
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 40/95 (42%), Gaps = 21/95 (22%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
LFV + E TE I +F YG IK + L D+ T
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIK---------------------NIHLNLDRRTGY 47
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
+GY +EY ++ +AA + +G+ L G+ + VD
Sbjct: 48 LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVD 82
>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 = 37.4 bits (85), Expect = 0.017, Method: Composition-based stats.
Identities = 26/91 (28%), Positives = 38/91 (41%), Gaps = 21/91 (23%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
+FV LS E T IK F +G I R+V D T K
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRI---------------------SDARVVKDMATGKS 56
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
+GY F+ + + D + A +Q G+ L GR++
Sbjct: 57 KGYGFVSFFNKWDAENAIQQMGGQWLGGRQI 87
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 26/98 (26%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
++V L +++++R F YGP++ + P
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWV--------------------------ARNP 109
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVERG 237
G+AF+E+ RD A + DGR L G RV V++ G
Sbjct: 110 PGFAFVEFEDPRDAADAVRDLDGRTLCGCRVRVELSNG 147
>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 = 37.0 bits (84), Expect = 0.024, Method: Composition-based stats.
Identities = 26/94 (27%), Positives = 40/94 (42%), Gaps = 21/94 (22%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LFV + E TE I +F YG IK + L D+ T
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIK---------------------NIHLNLDRRTGYL 48
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
+GY +EY ++ +AA + +G+ L G+ + VD
Sbjct: 49 KGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVD 82
>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 = 36.6 bits (83), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 36/93 (38%), Gaps = 21/93 (22%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LF+ L + ++K S+GP+K LV D T
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAF---------------------NLVKDSATGLS 137
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
+GYAF EY+ A +G +L +++LV
Sbjct: 138 KGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 170
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 36.2 bits (82), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 36/93 (38%), Gaps = 21/93 (22%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LF+ L + ++K S+GP+K LV D T
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAF---------------------NLVKDSATGLS 135
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
+GYAF EY+ A +G +L +++LV
Sbjct: 136 KGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 168
>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 = 36.2 bits (82), Expect = 0.048, Method: Composition-based stats.
Identities = 29/99 (29%), Positives = 43/99 (43%), Gaps = 22/99 (22%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
TL+V LS+ TTE +I F G IK++I G D + C
Sbjct: 20 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIM----GLDKMKTA--C-------------- 59
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVERG 237
G+ F+EY D + A + +G +LD R + D + G
Sbjct: 60 --GFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAG 96
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 35.8 bits (81), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 22/105 (20%), Positives = 45/105 (42%), Gaps = 25/105 (23%)
Query: 137 YKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKET 196
++ LF+ LS+ETTE ++ +E +G + + ++ D +
Sbjct: 27 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCV---------------------VMRDPAS 65
Query: 197 NKPRGYAFIEYMHTRDMKAAYK----QADGRKLDGRRVLVDVERG 237
+ RG+ F+ + ++ AA DGR ++ +R + E G
Sbjct: 66 KRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAVAREESG 110
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 35.4 bits (80), Expect = 0.068, Method: Composition-based stats.
Identities = 25/91 (27%), Positives = 36/91 (39%), Gaps = 21/91 (23%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
+FV LS E T IK F +G I R+V D T K
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKI---------------------SDARVVKDMATGKS 56
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
+GY F+ + + D + A G+ L GR++
Sbjct: 57 KGYGFVSFYNKLDAENAIVHMGGQWLGGRQI 87
>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 = 35.0 bits (79), Expect = 0.089, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 25/42 (59%)
Query: 189 RLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
R+V D T K +GY F+ + + D + A +Q G+ L GR++
Sbjct: 37 RVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI 78
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 35.0 bits (79), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 40/98 (40%), Gaps = 26/98 (26%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
++V L + +++R F YGP++ T P
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLR--------------------------TVWIARNP 36
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVERG 237
G+AF+E+ RD + A + DG+ + G RV V++ G
Sbjct: 37 PGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTG 74
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 34.7 bits (78), Expect = 0.13, Method: Composition-based stats.
Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 3/69 (4%)
Query: 177 SSRDGKPCDEKVRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVER 236
+ R G+P + + DKET KP+G A + Y KAA + DG+ G ++ V + R
Sbjct: 45 NKRTGQP---MIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLAR 101
Query: 237 GRTVPNWRP 245
+ N P
Sbjct: 102 KKPPMNSGP 110
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 21/92 (22%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
T++V+ L + T + + R F YG + KV ++ DK+T K
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVV---------------------KVTIMKDKDTRK 56
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
+G AFI ++ + + + ++L GR +
Sbjct: 57 SKGVAFILFLDKDSAQNCTRAINNKQLFGRVI 88
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 23/96 (23%), Positives = 42/96 (43%), Gaps = 22/96 (22%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
+ L+V L TE +K+ F+ GPI ++++ DK N
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIA---------------------NIKIMIDK-NN 38
Query: 198 KPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
K YAF+EY + D A + +G++++ V ++
Sbjct: 39 KNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKIN 74
Score = 30.0 bits (66), Expect = 3.3, Method: Composition-based stats.
Identities = 12/41 (29%), Positives = 21/41 (51%)
Query: 193 DKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
D +T RGY F+ + D + A G+ L+GR + ++
Sbjct: 122 DMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRIN 162
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 29/116 (25%), Positives = 45/116 (38%), Gaps = 23/116 (19%)
Query: 130 PNVSGDPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVR 189
PN D T+ V LS +T E+ ++ F +G I R +
Sbjct: 8 PNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISR---------------------IY 46
Query: 190 LVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVERGRTVPNWRP 245
L DK T + +G+AFI + D A G D ++++VE + N P
Sbjct: 47 LAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYD--HLILNVEWAKPSTNSGP 100
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 20/93 (21%), Positives = 40/93 (43%), Gaps = 21/93 (22%)
Query: 136 PYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKE 195
P + +++ + Y+ TE +I + GP+ L +++ D +
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINL---------------------KMMFDPQ 39
Query: 196 TNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGR 228
T + +GYAFIE+ +A + +G +L R
Sbjct: 40 TGRSKGYAFIEFRDLESSASAVRNLNGYQLGSR 72
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 34.3 bits (77), Expect = 0.17, Method: Composition-based stats.
Identities = 28/107 (26%), Positives = 49/107 (45%), Gaps = 27/107 (25%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
KT+F+ LS+++ E + + +G +K VR+V +T
Sbjct: 16 KTVFIRNLSFDSEEEALGEVLQQFGDLKY---------------------VRVVLHPDTE 54
Query: 198 KPRGYAFIEYM----HTRDMKAAYKQAD--GRKLDGRRVLVDVERGR 238
+G AF ++M + + AA +A+ G KLDGR++ VD+ R
Sbjct: 55 HSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVDLAVTR 101
>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 = 0.18, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 28/49 (57%)
Query: 188 VRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVER 236
+++ D ET K RG+AF+E+ D AA + +L GR + V++ +
Sbjct: 37 IQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK 85
>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 = 34.3 bits (77), Expect = 0.19, Method: Composition-based stats.
Identities = 20/93 (21%), Positives = 40/93 (43%), Gaps = 21/93 (22%)
Query: 136 PYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKE 195
P + +++ + Y+ TE +I + GP+ L +++ D +
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINL---------------------KMMFDPQ 40
Query: 196 TNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGR 228
T + +GYAFIE+ +A + +G +L R
Sbjct: 41 TGRSKGYAFIEFRDLESSASAVRNLNGYQLGSR 73
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 33.9 bits (76), Expect = 0.21, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 28/49 (57%)
Query: 188 VRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVER 236
+++ D ET K RG+AF+E+ D AA + +L GR + V++ +
Sbjct: 35 IQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK 83
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 33.5 bits (75), Expect = 0.25, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 28/49 (57%)
Query: 188 VRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVER 236
+++ D ET K RG+AF+E+ D AA + +L GR + V++ +
Sbjct: 42 IQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK 90
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 33.5 bits (75), Expect = 0.28, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 188 VRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDV 234
+++ D ET K RG+AF+E+ D AA + +L GR + V++
Sbjct: 93 IQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL 139
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 33.5 bits (75), Expect = 0.30, Method: Composition-based stats.
Identities = 23/93 (24%), Positives = 36/93 (38%), Gaps = 21/93 (22%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LF+ L + ++K S+GP+K LV D T
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAF---------------------NLVKDSATGLS 42
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
+GYAF EY+ A +G +L +++LV
Sbjct: 43 KGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 75
>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 = 33.5 bits (75), Expect = 0.30, Method: Composition-based stats.
Identities = 20/93 (21%), Positives = 40/93 (43%), Gaps = 21/93 (22%)
Query: 136 PYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKE 195
P + +++ + Y+ TE +I + GP+ L +++ D +
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINL---------------------KMMFDPQ 41
Query: 196 TNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGR 228
T + +GYAFIE+ +A + +G +L R
Sbjct: 42 TGRSKGYAFIEFRDLESSASAVRNLNGYQLGSR 74
>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 = 33.5 bits (75), Expect = 0.31, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 188 VRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDV 234
+++ D ET K RG+AF+E+ D AA + +L GR + V++
Sbjct: 32 IQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL 78
>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 = 33.5 bits (75), Expect = 0.32, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 32/77 (41%), Gaps = 21/77 (27%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
K +FV LS +T E KI+ F +G + E + L D +TN
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEV---------------------ESIELPMDNKTN 40
Query: 198 KPRGYAFIEYMHTRDMK 214
K RG+ FI + +K
Sbjct: 41 KRRGFCFITFKEEEPVK 57
>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 = 33.1 bits (74), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 39/95 (41%), Gaps = 22/95 (23%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
++++V + Y +T ++ F S G I R + ++ DK +
Sbjct: 37 RSVYVGNVDYGSTAQDLEAHFSSCGSINR---------------------ITILCDKFSG 75
Query: 198 KPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
P+GYA+IE+ + AA D GR + V
Sbjct: 76 HPKGYAYIEFAERNSVDAAVAM-DETVFRGRTIKV 109
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 33.1 bits (74), Expect = 0.35, Method: Composition-based stats.
Identities = 26/94 (27%), Positives = 40/94 (42%), Gaps = 13/94 (13%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
T+FV L T + F+ G IK + + G+P + L TD+ET K
Sbjct: 15 TIFVQGLGENVTIESVADYFKQIGIIK----------TNKKTGQP---MINLYTDRETGK 61
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV 232
+G A + + KAA DG++ G + V
Sbjct: 62 LKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKV 95
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 32.7 bits (73), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 41/93 (44%), Gaps = 26/93 (27%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
+TL L Y+ T+ ++K FE I RL+ S+DGK
Sbjct: 94 RTLLAKNLPYKVTQDELKEVFEDAAEI-RLV---------SKDGKS-------------- 129
Query: 198 KPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
+G A+IE+ D + +++ G ++DGR +
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 = 32.7 bits (73), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 45/112 (40%), Gaps = 24/112 (21%)
Query: 125 DPHNDPNVSGDPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPC 184
D NDP S L V L + T+ ++ F + GPI N+C
Sbjct: 5 DLMNDPRASN---TNLIVNYLPQDXTDRELYALFRAIGPI-----NTC------------ 44
Query: 185 DEKVRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVER 236
R+ D +T GYAF+++ D + A K +G + +R+ V R
Sbjct: 45 ----RIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVLNGITVRNKRLKVSYAR 92
>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 = 32.0 bits (71), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 40/93 (43%), Gaps = 26/93 (27%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
+TL LS+ TE ++K FE I RL+ S+DG
Sbjct: 100 RTLLAKNLSFNITEDELKEVFEDALEI-RLV---------SQDG---------------- 133
Query: 198 KPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
K +G A+IE+ D + ++ G ++DGR V
Sbjct: 134 KSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSV 166
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 21/75 (28%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
+FV LS +T E KI+ F +G + E + L D +TNK
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEV---------------------ESIELPMDNKTNKR 40
Query: 200 RGYAFIEYMHTRDMK 214
RG+ FI + +K
Sbjct: 41 RGFCFITFKEEEPVK 55
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 31.6 bits (70), Expect = 1.2, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 21/29 (72%)
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGR 228
+G+AF++Y++ R+ +AA DGR + G+
Sbjct: 50 KGFAFVQYVNERNARAAVAGEDGRMIAGQ 78
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 31.2 bits (69), Expect = 1.2, Method: Composition-based stats.
Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 21/68 (30%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
+FV LS TT +K FE +G + + L+ DK TN+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKV---------------------DDAMLMFDKTTNRH 40
Query: 200 RGYAFIEY 207
RG+ F+ +
Sbjct: 41 RGFGFVTF 48
>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 = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/95 (20%), Positives = 39/95 (41%), Gaps = 24/95 (25%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
+F+ L+++TTE ++ F YG + L +++ D T +
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDL---------------------KIMKDPATGRS 44
Query: 200 RGYAFIEYMHTRDMKAAYKQ---ADGRKLDGRRVL 231
RG+ F+ + + K DG+ +D +R +
Sbjct: 45 RGFGFLSFEKPSSVDEVVKTQHILDGKVIDPKRAI 79
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 31.2 bits (69), Expect = 1.3, Method: Composition-based stats.
Identities = 27/100 (27%), Positives = 41/100 (41%), Gaps = 13/100 (13%)
Query: 139 TLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNK 198
T+FV L T + F+ G IK + + G+P + L TD+ET K
Sbjct: 9 TIFVQGLGENVTIESVADYFKQIGIIK----------TNKKTGQP---MINLYTDRETGK 55
Query: 199 PRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVERGR 238
+G A + + KAA DG++ G + V R
Sbjct: 56 LKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFATRR 95
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 30.8 bits (68), Expect = 1.8, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 188 VRLVTDKETNKPRGYAFIEYMHTRDMKAAYKQADG----RKLDGRRVLVDVER 236
+RL+ DK+T + RG+AF++ D + K+DG+ + VD +
Sbjct: 41 IRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAK 93
>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 = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 20/83 (24%), Positives = 38/83 (45%), Gaps = 22/83 (26%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
LF++ L + T+ +++ +++G +K L RLVT++ KP
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDL---------------------RLVTNR-AGKP 57
Query: 200 RGYAFIEYMHTRDMKAAYKQADG 222
+G A++EY + A + DG
Sbjct: 58 KGLAYVEYENESQASQAVMKMDG 80
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 21/97 (21%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
L V L + T+ ++ F + GPI N+C R++ D +T
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPI-----NTC----------------RIMRDYKTGYS 44
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVER 236
GYAF+++ D + A K +G + +R+ V R
Sbjct: 45 YGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR 81
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 30.4 bits (67), Expect = 2.7, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 20/26 (76%)
Query: 187 KVRLVTDKETNKPRGYAFIEYMHTRD 212
+VRL+ +K + + RG+AF+E+ H +D
Sbjct: 31 EVRLMRNKSSGQSRGFAFVEFSHLQD 56
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 23/41 (56%)
Query: 193 DKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
D+ T + +GY F+E++ D A K D KL G+ + V+
Sbjct: 50 DRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVN 90
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 20/89 (22%), Positives = 38/89 (42%), Gaps = 20/89 (22%)
Query: 142 VARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKPRG 201
+ RL+ T+ I F +YG IK + P + + +G
Sbjct: 9 IGRLTRNVTKDHIMEIFSTYGKIKMI-------------DMPVERM-------HPHLSKG 48
Query: 202 YAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
YA++E+ + + + A K DG ++DG+ +
Sbjct: 49 YAYVEFENPDEAEKALKHMDGGQIDGQEI 77
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 29.6 bits (65), Expect = 3.8, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 24/40 (60%)
Query: 195 ETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDV 234
E + + YAF+ D KAA Q +G+++ G+R+ V++
Sbjct: 38 ECDVVKDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVEL 77
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 29.6 bits (65), Expect = 4.4, Method: Composition-based stats.
Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 21/97 (21%)
Query: 140 LFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETNKP 199
L V L + T+ ++ F + GPI N+C R++ D +T
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPI-----NTC----------------RIMRDYKTGYS 44
Query: 200 RGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVDVER 236
GYAF+++ D + A K +G + +R+ V R
Sbjct: 45 YGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR 81
>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 = 29.6 bits (65), Expect = 4.5, Method: Composition-based stats.
Identities = 12/41 (29%), Positives = 21/41 (51%)
Query: 193 DKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLVD 233
D +T RGY F+ + D + A G+ L+GR + ++
Sbjct: 36 DMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRIN 76
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 29.3 bits (64), Expect = 4.9, Method: Composition-based stats.
Identities = 17/74 (22%), Positives = 30/74 (40%), Gaps = 21/74 (28%)
Query: 134 GDPYKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTD 193
D LFV L + TT+ ++ F YG + + ++ D
Sbjct: 13 ADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCV---------------------IMKD 51
Query: 194 KETNKPRGYAFIEY 207
K TN+ RG+ F+++
Sbjct: 52 KTTNQSRGFGFVKF 65
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 29.3 bits (64), Expect = 5.9, Method: Composition-based stats.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 194 KETNKPRGYAFIEYMHTRDMKAAYKQADGRKLD 226
+E K +GY F+EY A K ADG KLD
Sbjct: 41 EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLD 73
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 28.9 bits (63), Expect = 6.8, Method: Composition-based stats.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 194 KETNKPRGYAFIEYMHTRDMKAAYKQADGRKLD 226
+E K +GY F+EY A K ADG KLD
Sbjct: 55 EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLD 87
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 28.9 bits (63), Expect = 7.4, Method: Composition-based stats.
Identities = 24/93 (25%), Positives = 39/93 (41%), Gaps = 26/93 (27%)
Query: 138 KTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDGKPCDEKVRLVTDKETN 197
+TL LS+ TE ++K FE I+ + S+DG
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALEIRLV----------SQDG---------------- 50
Query: 198 KPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRV 230
K +G A+IE+ D + ++ G ++DGR V
Sbjct: 51 KSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSV 83
>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 = 28.9 bits (63), Expect = 7.9, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 193 DKETNKPRGYAFIEYMHTRDMKAAYKQADGRKLDGRRVLV-----DVER 236
D+ T K +G+ F+E D K K G++LD + L DVER
Sbjct: 47 DEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRLFLYTMKDVER 95
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 28.5 bits (62), Expect = 8.9, Method: Composition-based stats.
Identities = 14/45 (31%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 137 YKTLFVARLSYETTESKIKREFESYGPIKRLICNSCNGGDSSRDG 181
++ LFV L+ + +E ++R FE++G I+ C G D + G
Sbjct: 15 HRKLFVGMLNKQQSEDDVRRLFEAFGNIEE--CTILRGPDGNSKG 57
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
0.314 0.134 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,491,692
Number of Sequences: 62578
Number of extensions: 453617
Number of successful extensions: 1067
Number of sequences better than 100.0: 103
Number of HSP's better than 100.0 without gapping: 82
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 894
Number of HSP's gapped (non-prelim): 132
length of query: 501
length of database: 14,973,337
effective HSP length: 103
effective length of query: 398
effective length of database: 8,527,803
effective search space: 3394065594
effective search space used: 3394065594
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)