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= 043064
(196 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 142 bits (358), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 68/128 (53%), Positives = 90/128 (70%), Gaps = 8/128 (6%)
Query: 48 KKTKGRGFREEADSERHSRLADRNFESLGTDGG----PGPQRSIEGWIILVTGVHEEAQE 103
K KGRGF S+ ++R A ++E + + PGPQRS+EGWI+ VT +HEEAQE
Sbjct: 31 KHRKGRGF----GSDSNTREAIHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQE 86
Query: 104 DDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQTLTV 163
D++Q F +YGEI+N+HLNLDRRTGF KGYAL+EYE ++A A A+NG E++ QT+ V
Sbjct: 87 DEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQV 146
Query: 164 DWAFSNGP 171
DW F GP
Sbjct: 147 DWCFVKGP 154
>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 = 139 bits (350), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 60/102 (58%), Positives = 82/102 (80%), Gaps = 1/102 (0%)
Query: 71 NFESLGTDGG-PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGF 129
+++S+ DG PGPQRS+EGWI+ VTGVHEEA E+D+ + F EYGEI+N+HLNLDRRTG+
Sbjct: 4 DYDSVEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGY 63
Query: 130 VKGYALIEYENFEEAQNAITAMNGGELLTQTLTVDWAFSNGP 171
+KGY L+EYE ++EAQ A+ +NG +L+ Q ++VDW F GP
Sbjct: 64 LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFVRGP 105
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 137 bits (344), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 58/91 (63%), Positives = 73/91 (80%)
Query: 81 PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
PGPQRS+EGWI+ VT +HEEAQED++Q F +YGEI+N+HLNLDRRTGF KGYAL+EYE
Sbjct: 18 PGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYET 77
Query: 141 FEEAQNAITAMNGGELLTQTLTVDWAFSNGP 171
++A A A+NG E++ QT+ VDW F GP
Sbjct: 78 HKQALAAKEALNGAEIMGQTIQVDWCFVKGP 108
>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 = 136 bits (343), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 57/91 (62%), Positives = 75/91 (82%)
Query: 81 PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
PGPQRS+EGWI+ VTGVHEEA E+D+ + F EYGEI+N+HLNLDRRTG++KGY L+EYE
Sbjct: 1 PGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 60
Query: 141 FEEAQNAITAMNGGELLTQTLTVDWAFSNGP 171
++EAQ A+ +NG +L+ Q ++VDW F GP
Sbjct: 61 YKEAQAAMEGLNGQDLMGQPISVDWCFVRGP 91
>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 = 135 bits (339), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 58/98 (59%), Positives = 80/98 (81%), Gaps = 1/98 (1%)
Query: 71 NFESLGTDGG-PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGF 129
+++S+ DG PGPQRS+EGWI+ VTGVHEEA E+D+ + F EYGEI+N+HLNLDRRTG+
Sbjct: 3 DYDSVEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGY 62
Query: 130 VKGYALIEYENFEEAQNAITAMNGGELLTQTLTVDWAF 167
+KGY L+EYE ++EAQ A+ +NG +L+ Q ++VDW F
Sbjct: 63 LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF 100
>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 = 132 bits (331), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 55/89 (61%), Positives = 73/89 (82%)
Query: 83 PQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFE 142
PQRS+EGWI+ VTGVHEEA E+D+ + F EYGEI+N+HLNLDRRTG++KGY L+EYE ++
Sbjct: 1 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYK 60
Query: 143 EAQNAITAMNGGELLTQTLTVDWAFSNGP 171
EAQ A+ +NG +L+ Q ++VDW F GP
Sbjct: 61 EAQAAMEGLNGQDLMGQPISVDWCFVRGP 89
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 131 bits (330), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 55/89 (61%), Positives = 73/89 (82%)
Query: 83 PQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFE 142
PQRS+EGWI+ VTGVHEEA E+D+ + F EYGEI+N+HLNLDRRTG++KGY L+EYE ++
Sbjct: 1 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYK 60
Query: 143 EAQNAITAMNGGELLTQTLTVDWAFSNGP 171
EAQ A+ +NG +L+ Q ++VDW F GP
Sbjct: 61 EAQAAMEGLNGQDLMGQPISVDWCFVRGP 89
>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 = 127 bits (319), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 53/85 (62%), Positives = 71/85 (83%)
Query: 83 PQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFE 142
PQRS+EGWI+ VTGVHEEA E+D+ + F EYGEI+N+HLNLDRRTG++KGY L+EYE ++
Sbjct: 1 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYK 60
Query: 143 EAQNAITAMNGGELLTQTLTVDWAF 167
EAQ A+ +NG +L+ Q ++VDW F
Sbjct: 61 EAQAAMEGLNGQDLMGQPISVDWCF 85
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 37/103 (35%), Positives = 58/103 (56%), Gaps = 4/103 (3%)
Query: 76 GTDGGPGP-QRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYA 134
G+ G GP +R+ + I VT + E+ +E DLQ +F +G I ++L D+ TG KG+A
Sbjct: 1 GSSGSSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFA 60
Query: 135 LIEYENFEEAQNAITAMNGGELLTQTLTVDWA---FSNGPSTG 174
I + E+A AI ++G L V+WA ++GPS+G
Sbjct: 61 FISFHRREDAARAIAGVSGFGYDHLILNVEWAKPSTNSGPSSG 103
>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 = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 48/77 (62%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
I V VH++ +DD+++VF +G+I++ L D TG KGY IEYE + +Q+A+++M
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 172
Query: 152 NGGELLTQTLTVDWAFS 168
N +L Q L V A +
Sbjct: 173 NLFDLGGQYLRVGKAVT 189
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V ++ E ED ++ F +G I+++ ++ D T KG+A +EYE E AQ A+ M
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 152 NGGEL 156
N L
Sbjct: 76 NSVML 80
>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 = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 48/77 (62%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
I V VH++ +DD+++VF +G+I++ L D TG KGY IEYE + +Q+A+++M
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 187
Query: 152 NGGELLTQTLTVDWAFS 168
N +L Q L V A +
Sbjct: 188 NLFDLGGQYLRVGKAVT 204
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 35/61 (57%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V ++ E ED ++ F +G I+++ ++ D T KG+A +EYE E AQ A+ M
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 152 N 152
N
Sbjct: 91 N 91
>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 = 57.4 bits (137), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 47/77 (61%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
I V VH++ +DD+++VF +G+I++ L D TG KGY IEYE + +Q+A+++
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSX 171
Query: 152 NGGELLTQTLTVDWAFS 168
N +L Q L V A +
Sbjct: 172 NLFDLGGQYLRVGKAVT 188
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 34/65 (52%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V ++ E ED ++ F +G I+++ + D T KG+A +EYE E AQ A+
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 152 NGGEL 156
N L
Sbjct: 75 NSVXL 79
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/88 (36%), Positives = 47/88 (53%), Gaps = 2/88 (2%)
Query: 81 PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
P RS+ + V + EA E+ L+++F E G + + L DR TG KGY EY++
Sbjct: 2 PAVDRSLRS--VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQD 59
Query: 141 FEEAQNAITAMNGGELLTQTLTVDWAFS 168
E A +A+ +NG E + L VD A S
Sbjct: 60 QETALSAMRNLNGREFSGRALRVDNAAS 87
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 50/88 (56%), Gaps = 5/88 (5%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V G+ + E L+ VF +YG+I + + DR T +G+ + +EN ++A++A+ AM
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 152 NGGELLTQTLTVDWAFS-----NGPSTG 174
NG + + + VD A +GPS+G
Sbjct: 75 NGKSVDGRQIRVDQAGKSSDNRSGPSSG 102
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 29/99 (29%), Positives = 52/99 (52%), Gaps = 5/99 (5%)
Query: 75 LGTDGGPGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYA 134
LG+ P P + V G+ E DL+ VF +YG I ++ + D+++ +G+A
Sbjct: 3 LGSRANPDPN-----CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFA 57
Query: 135 LIEYENFEEAQNAITAMNGGELLTQTLTVDWAFSNGPST 173
+ +EN ++A+ A NG EL + + VD++ + P T
Sbjct: 58 FVYFENVDDAKEAKERANGMELDGRRIRVDFSITKRPHT 96
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 49/92 (53%), Gaps = 4/92 (4%)
Query: 76 GTDGGPGPQ-RSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYA 134
G+ G GP RS + V G+ E+ E+ L+ F G +R + DR TG KG+
Sbjct: 1 GSSGSSGPNARSQPSKTLFVKGLSEDTTEETLKESFD--GSVR-ARIVTDRETGSSKGFG 57
Query: 135 LIEYENFEEAQNAITAMNGGELLTQTLTVDWA 166
+++ + E+A+ A AM GE+ +T+DWA
Sbjct: 58 FVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWA 89
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 34/102 (33%), Positives = 53/102 (51%), Gaps = 5/102 (4%)
Query: 55 FREEADSERHSRLAD----RNFESLGTDGGPGPQRSIEGWIILVTGVHEEAQEDDLQNVF 110
F E DS+R ++ + RN + PG + SI+ + VT + +D L +F
Sbjct: 52 FTSEMDSQRAIKVLNGITVRNKRLKVSYARPGGE-SIKDTNLYVTNLPRTITDDQLDTIF 110
Query: 111 GEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMN 152
G+YG I ++ D+ TG +G A + Y EEAQ AI+A+N
Sbjct: 111 GKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALN 152
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 42/81 (51%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
++V + ++ + +L +F G I + D +TG+ GYA +++ + ++Q AI +
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 152 NGGELLTQTLTVDWAFSNGPS 172
NG + + L V +A G S
Sbjct: 66 NGITVRNKRLKVSYARPGGES 86
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 49/89 (55%), Gaps = 5/89 (5%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ V G+ EE + L F +G+I ++ + LD T +G+A +E+E E+A AI
Sbjct: 14 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 73
Query: 151 MNGGELLTQTLTVDWA-----FSNGPSTG 174
MN EL +T+ V+ A +GPS+G
Sbjct: 74 MNESELFGRTIRVNLAKPMRIKESGPSSG 102
>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 = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 63/125 (50%), Gaps = 13/125 (10%)
Query: 55 FREEADSERHSRLAD----RNFESLGTDGGPGPQRSIEGWIILVTGVHEEAQEDDLQNVF 110
F E DS+R ++ + RN + PG + SI+ + VT + +D L +F
Sbjct: 63 FTSEXDSQRAIKVLNGITVRNKRLKVSYARPGGE-SIKDTNLYVTNLPRTITDDQLDTIF 121
Query: 111 GEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMN-----GGELLTQTLTVDW 165
G+YG I ++ D+ TG +G A + Y EEAQ AI+A+N GG +Q L+V
Sbjct: 122 GKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGG---SQPLSVRL 178
Query: 166 AFSNG 170
A +G
Sbjct: 179 AEEHG 183
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 42/81 (51%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
++V + ++ + +L +F G I + D +TG+ GYA +++ + ++Q AI +
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 152 NGGELLTQTLTVDWAFSNGPS 172
NG + + L V +A G S
Sbjct: 77 NGITVRNKRLKVSYARPGGES 97
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 50.8 bits (120), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 31/89 (34%), Positives = 46/89 (51%), Gaps = 6/89 (6%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEI-RNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
I + + E E L + F +G I + + D TG KGYA I + +F+ + AI A
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 151 MNGGELLTQTLTVDWAFS-----NGPSTG 174
MNG L + +TV +AF +GPS+G
Sbjct: 68 MNGQYLCNRPITVSYAFKKDSKGSGPSSG 96
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 50.8 bits (120), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 49/90 (54%), Gaps = 3/90 (3%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
++V + + +D+ +++FG G+I + L D+ TG GY + Y + +A AI +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 152 NGGELLTQTLTVDWAFSNGPSTGPFKRKNM 181
NG +L T+T+ V +A PS+ + N+
Sbjct: 67 NGLKLQTKTIKVSYA---RPSSASIRDANL 93
Score = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 45/87 (51%)
Query: 86 SIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQ 145
SI + V+G+ + + +++ +F +YG I + LD+ TG +G I ++ EA+
Sbjct: 87 SIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAE 146
Query: 146 NAITAMNGGELLTQTLTVDWAFSNGPS 172
AI +NG + L + F+N PS
Sbjct: 147 EAIKGLNGQKPLGAAEPITVKFANNPS 173
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 50.8 bits (120), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ + G++ E E L+ VFG++G I + L DR T +G+A I +EN +A+NA M
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKDM 68
Query: 152 NGGELLTQTLTVDWA 166
NG L + + V+ A
Sbjct: 69 NGKSLHGKAIKVEQA 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 = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 51/100 (51%), Gaps = 5/100 (5%)
Query: 74 SLGTDGGPGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGY 133
S G P P + V G+ E DL+ VF +YG I ++ + D+++ +G+
Sbjct: 5 SSGNRANPDPN-----CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGF 59
Query: 134 ALIEYENFEEAQNAITAMNGGELLTQTLTVDWAFSNGPST 173
A + +EN ++A+ A NG EL + + VD++ + P T
Sbjct: 60 AFVYFENVDDAKEAKERANGMELDGRRIRVDFSITKRPHT 99
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/105 (30%), Positives = 55/105 (52%), Gaps = 8/105 (7%)
Query: 76 GTDGGPGPQRSIEGWIIL-VTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYA 134
G+ G GP ++G I L V + D L+ VF +YG + ++++ + T +G+A
Sbjct: 1 GSSGSSGPD--VDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFA 58
Query: 135 LIEYENFEEAQNAITAMNGGELLTQTLTVDWAFS-----NGPSTG 174
+ + + +AQ+A AM+G EL + L V A +GPS+G
Sbjct: 59 FVRFHDRRDAQDAEAAMDGAELDGRELRVQVARYGRRDLSGPSSG 103
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 43/75 (57%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
++V + + +D+ +++FG G+I + L D+ TG GY + Y + +A AI +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 152 NGGELLTQTLTVDWA 166
NG +L T+T+ V +A
Sbjct: 67 NGLKLQTKTIKVSYA 81
>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 = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 50/90 (55%), Gaps = 3/90 (3%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
++V + + +++ +++FG GEI + L D+ TG GY + Y + ++A+ AI +
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 152 NGGELLTQTLTVDWAFSNGPSTGPFKRKNM 181
NG L T+T+ V +A PS+ + N+
Sbjct: 65 NGLRLQTKTIKVSYA---RPSSASIRDANL 91
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 86 SIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQ 145
SI + V+G+ + + +L+ +F +YG I + +D+ TG +G I ++ EA+
Sbjct: 85 SIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAE 144
Query: 146 NAITAMNGGEL--LTQTLTVDWA 166
AI +NG + T+ +TV +A
Sbjct: 145 EAIKGLNGQKPSGATEPITVKFA 167
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 43/85 (50%), Gaps = 6/85 (7%)
Query: 79 GGPGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEY 138
G GP R + V +H ED L+ +F +G I ++ L +D TG KGY I +
Sbjct: 22 GSAGPMR------LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITF 75
Query: 139 ENFEEAQNAITAMNGGELLTQTLTV 163
+ E A+ A+ +NG EL + + V
Sbjct: 76 SDSECAKKALEQLNGFELAGRPMKV 100
>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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 48/90 (53%), Gaps = 8/90 (8%)
Query: 86 SIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQ 145
SI+ + VT + +D L +FG+YG I ++ D+ TG +G A + Y EEAQ
Sbjct: 10 SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQ 69
Query: 146 NAITAMN-----GGELLTQTLTVDWAFSNG 170
AI+A+N GG +Q L+V A +G
Sbjct: 70 EAISALNNVIPEGG---SQPLSVRLAEEHG 96
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 51/102 (50%), Gaps = 5/102 (4%)
Query: 70 RNFESLGTDGGPGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGF 129
R +G P P + V G+ E DL+ VF +YG I ++ + D+++
Sbjct: 32 RGSRHVGNRANPDPN-----CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRR 86
Query: 130 VKGYALIEYENFEEAQNAITAMNGGELLTQTLTVDWAFSNGP 171
+G+A + +EN ++A+ A NG EL + + VD++ + P
Sbjct: 87 SRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSITKRP 128
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 45/88 (51%), Gaps = 5/88 (5%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V + E +D+++ F +G+I + + D TG KGY + + N +A+NAI M
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 152 NGGELLTQTLTVDWAF-----SNGPSTG 174
G L + + +WA +GPS+G
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPSGPSSG 105
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 41/70 (58%), Gaps = 1/70 (1%)
Query: 103 EDDLQNVFGEYGEIRNLHLNLDR-RTGFVKGYALIEYENFEEAQNAITAMNGGELLTQTL 161
+D + +F YG+I+ + + ++R KGYA +E+EN +EA+ A+ M+GG++ Q +
Sbjct: 18 KDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEI 77
Query: 162 TVDWAFSNGP 171
T + P
Sbjct: 78 TATAVLAPWP 87
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 43/76 (56%)
Query: 88 EGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
EG + + + +E + DL + F +G + + + +D++T K + + ++N + AQ A
Sbjct: 39 EGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVA 98
Query: 148 ITAMNGGELLTQTLTV 163
I AMNG ++ T+ L V
Sbjct: 99 IKAMNGFQVGTKRLKV 114
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 43/76 (56%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ V G+ EE + L F +G+I ++ + LD T +G+A +E+E E+A AI
Sbjct: 7 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66
Query: 151 MNGGELLTQTLTVDWA 166
MN EL +T+ V+ A
Sbjct: 67 MNESELFGRTIRVNLA 82
>pdb|3MDF|A Chain A, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
pdb|3MDF|B Chain B, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
Length = 85
Score = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 43/76 (56%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ V G+ EE + L F +G+I ++ + LD T +G+A +E+E E+A AI
Sbjct: 9 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 68
Query: 151 MNGGELLTQTLTVDWA 166
MN EL +T+ V+ A
Sbjct: 69 MNESELFGRTIRVNLA 84
>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 = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 43/76 (56%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ V G+ EE + L F +G+I ++ + LD T +G+A +E+E E+A AI
Sbjct: 4 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 63
Query: 151 MNGGELLTQTLTVDWA 166
MN EL +T+ V+ A
Sbjct: 64 MNESELFGRTIRVNLA 79
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 43/81 (53%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V+G+ + + +++ +F +YG I + LD+ TG +G I ++ EA+ AI +
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 152 NGGELLTQTLTVDWAFSNGPS 172
NG + L + F+N PS
Sbjct: 64 NGQKPLGAAEPITVKFANNPS 84
>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 = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 55/103 (53%), Gaps = 7/103 (6%)
Query: 76 GTDGGPGPQR---SIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
G+ G G R S+E + ++G+ +++L+ + +G +++L L + R G KG
Sbjct: 1 GSSGSSGVFRYSTSLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRL-VTNRAGKPKG 59
Query: 133 YALIEYENFEEAQNAITAMNGGELLTQTLTVDWAFSN-GPSTG 174
A +EYEN +A A+ M+G + + V A SN GPS+G
Sbjct: 60 LAYVEYENESQASQAVMKMDGMTIKENIIKV--AISNSGPSSG 100
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 48/90 (53%), Gaps = 3/90 (3%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
++V + + +D+L+++F GE+ + L D+ G GY + Y ++A+ AI +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 152 NGGELLTQTLTVDWAFSNGPSTGPFKRKNM 181
NG L ++T+ V +A PS+ K N+
Sbjct: 65 NGLRLQSKTIKVSYA---RPSSEVIKDANL 91
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 37/62 (59%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ ++G+ + D++++F +G I N + +D+ TG +G A I ++ EA+ AIT+
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 152 NG 153
NG
Sbjct: 151 NG 152
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 43/76 (56%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ V G+ EE + L F +G+I ++ + LD T +G+A +E+E E+A AI
Sbjct: 65 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 124
Query: 151 MNGGELLTQTLTVDWA 166
MN EL +T+ V+ A
Sbjct: 125 MNESELFGRTIRVNLA 140
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 48/90 (53%), Gaps = 3/90 (3%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
++V + + +D+L+++F GE+ + L D+ G GY + Y ++A+ AI +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 152 NGGELLTQTLTVDWAFSNGPSTGPFKRKNM 181
NG L ++T+ V +A PS+ K N+
Sbjct: 65 NGLRLQSKTIKVSYA---RPSSEVIKDANL 91
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 37/62 (59%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ ++G+ + D++++F +G I N + +D+ TG +G A I ++ EA+ AIT+
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 152 NG 153
NG
Sbjct: 151 NG 152
>pdb|2CPZ|A Chain A, Solution Structure Of Rna Binding Domain 3 In Cug Triplet
Repeat Rna-Binding Protein 1
pdb|2RQ4|A Chain A, Refinement Of Rna Binding Domain 3 In Cug Triplet Repeat
Rna-Binding Protein 1
pdb|2RQC|A Chain A, Solution Structure Of Rna-Binding Domain 3 Of Cugbp1 In
Complex With Rna (Ug)3
Length = 115
Score = 46.6 bits (109), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 48/92 (52%), Gaps = 5/92 (5%)
Query: 88 EGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
EG + + + +E + DL +F +G + + + +D++T K + + Y+N AQ A
Sbjct: 24 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAA 83
Query: 148 ITAMNGGELLTQTLTVDWAFS-----NGPSTG 174
I +MNG ++ + L V S +GPS+G
Sbjct: 84 IQSMNGFQIGMKRLKVQLKRSKNDSKSGPSSG 115
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 46.6 bits (109), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 45/88 (51%), Gaps = 5/88 (5%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V +H ED L+ +F +G+I N+ L D TG KGY I + + E A+ A+ +
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 152 NGGELLTQTLTVDWAF-----SNGPSTG 174
NG EL + + V +GPS+G
Sbjct: 68 NGFELAGRPMRVGHVTERLDGGSGPSSG 95
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 46.6 bits (109), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 40/73 (54%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V V+ + E L+ F YG I+ +H+ +R+G +GYA IEYE+ + +A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 152 NGGELLTQTLTVD 164
+G ++ + + VD
Sbjct: 165 DGKKIDGRRVLVD 177
>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 = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 45/85 (52%), Gaps = 1/85 (1%)
Query: 83 PQRSIEGWIIL-VTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENF 141
P +EG L V + D L+ VF +YG + ++++ DR T +G+A + + +
Sbjct: 40 PPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDK 99
Query: 142 EEAQNAITAMNGGELLTQTLTVDWA 166
+A++A+ AM+G L + L V A
Sbjct: 100 RDAEDAMDAMDGAVLDGRELRVQMA 124
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 40/77 (51%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
++V + E L+ +F YG I ++ + DR T +GY +++++ AQ AI +
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 152 NGGELLTQTLTVDWAFS 168
NG +L + L V A S
Sbjct: 105 NGFNILNKRLKVALAAS 121
>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 = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 40/73 (54%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V V+ + E L+ F YG I+ +H+ +R+G +GYA IEYE+ + +A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 152 NGGELLTQTLTVD 164
+G ++ + + VD
Sbjct: 165 DGKKIDGRRVLVD 177
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 53/113 (46%), Gaps = 14/113 (12%)
Query: 76 GTDGGPG-PQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRN--------LHLNLDRR 126
G+ G G P + I V G+++ DDL + F + G ++ +H+ LD+
Sbjct: 1 GSSGSSGDPDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKE 60
Query: 127 TGFVKGYALIEYENFEEAQNAITAMNGGELLTQTLTVDWA-----FSNGPSTG 174
TG KG A + YE+ A+ A+ +G + L V A ++GPS+G
Sbjct: 61 TGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLARKKPPMNSGPSSG 113
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 42/75 (56%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
++V + + +D+L+++F GE+ + L D+ G GY + Y ++A+ AI +
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 152 NGGELLTQTLTVDWA 166
NG L ++T+ V +A
Sbjct: 67 NGLRLQSKTIKVSYA 81
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 47/85 (55%), Gaps = 5/85 (5%)
Query: 90 WIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAIT 149
+ V G+ E DL+ VF +YG I ++ + D+++ +G+A + +EN ++A+ A
Sbjct: 16 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 75
Query: 150 AMNGGELLTQTLTVDWAFSNGPSTG 174
NG EL + + V +GPS+G
Sbjct: 76 RANGMELDGRRIRV-----SGPSSG 95
>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 = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 39/81 (48%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V + E +D++ F +G I + + D TG KGY + + N +A+NAI M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 152 NGGELLTQTLTVDWAFSNGPS 172
G L + + +WA P+
Sbjct: 78 GGQWLGGRQIRTNWATRKPPA 98
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 44/79 (55%)
Query: 88 EGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
+G ++V + + +D+L+++F GE+ + L D+ G GY + Y ++A+ A
Sbjct: 18 QGTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 77
Query: 148 ITAMNGGELLTQTLTVDWA 166
I +NG L ++T+ V +A
Sbjct: 78 INTLNGLRLQSKTIKVSYA 96
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 48/88 (54%), Gaps = 5/88 (5%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V G+ E+ E L +F + G + N H+ DR TG +GY +E+ + E+A AI M
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 152 NGGELLTQTLTVDWAFSN-----GPSTG 174
+ +L + + V+ A ++ GPS+G
Sbjct: 78 DMIKLYGKPIRVNKASAHNKNLSGPSSG 105
>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 = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 43/75 (57%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V ++ ++ L+N F ++ + H+ D +TG +GY + + + ++AQNA+ +M
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 152 NGGELLTQTLTVDWA 166
G +L + L ++WA
Sbjct: 64 QGQDLNGRPLRINWA 78
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 41/83 (49%), Gaps = 5/83 (6%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ + G+ + DL + YG+I + LD+ T KGY +++++ AQ A+TA+
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
Query: 152 NGGELLTQTLTVDWAFSNGPSTG 174
+ Q A +GPS+G
Sbjct: 68 KASGVQAQ-----MAKQSGPSSG 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 = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 45/85 (52%), Gaps = 5/85 (5%)
Query: 82 GPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENF 141
GP R ++ + + + E+ + ++ G + NL + D +TG KGYA IE+ +
Sbjct: 1 GPSR-----VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDL 55
Query: 142 EEAQNAITAMNGGELLTQTLTVDWA 166
E + +A+ +NG +L ++ L ++
Sbjct: 56 ESSASAVRNLNGYQLGSRFLKCGYS 80
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 50/89 (56%), Gaps = 7/89 (7%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V ++++ EDD++ +F +G I + L G KG A ++Y + EAQ AI A+
Sbjct: 18 LFVGMLNKQQSEDDVRRLFEAFGNIEECTI-LRGPDGNSKGCAFVKYSSHAEAQAAINAL 76
Query: 152 NGGELL---TQTLTVDWAFSN---GPSTG 174
+G + + + +L V +A ++ GPS+G
Sbjct: 77 HGSQTMPGASSSLVVKFADTDKESGPSSG 105
>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 = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 42/76 (55%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ + + + E+ + ++ G + NL + D +TG KGYA IE+ + E + +A+
Sbjct: 6 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 65
Query: 151 MNGGELLTQTLTVDWA 166
+NG +L ++ L ++
Sbjct: 66 LNGYQLGSRFLKCGYS 81
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 42/76 (55%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ + + + E+ + ++ G + NL + D +TG KGYA IE+ + E + +A+
Sbjct: 4 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 63
Query: 151 MNGGELLTQTLTVDWA 166
+NG +L ++ L ++
Sbjct: 64 LNGYQLGSRFLKCGYS 79
>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 = 1e-04, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 43/75 (57%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V ++ ++ L+N F ++ + H+ D +TG +GY + + + ++AQNA+ +M
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 152 NGGELLTQTLTVDWA 166
G +L + L ++WA
Sbjct: 150 QGQDLNGRPLRINWA 164
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 42/83 (50%), Gaps = 1/83 (1%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ V + + ED L+ F G I N+ + +D+ V YA +EY +A A+
Sbjct: 2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNV-NYAFVEYHQSHDANIALQT 60
Query: 151 MNGGELLTQTLTVDWAFSNGPST 173
+NG ++ + ++WAF + S+
Sbjct: 61 LNGKQIENNIVKINWAFQSQQSS 83
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 44/81 (54%), Gaps = 1/81 (1%)
Query: 87 IEGWIIL-VTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQ 145
+EG L V + D L+ VF +YG + ++++ DR T +G+A + + + +A+
Sbjct: 67 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAE 126
Query: 146 NAITAMNGGELLTQTLTVDWA 166
+A+ AM+G L + L V A
Sbjct: 127 DAMDAMDGAVLDGRELRVQMA 147
>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 = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ + G+ +D ++ + +G ++ +L D TG KGYA EY + AI +
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 176
Query: 152 NGGELLTQTLTVDWA 166
NG +L + L V A
Sbjct: 177 NGMQLGDKKLLVQRA 191
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ + G+ +D ++ + +G ++ +L D TG KGYA EY + AI +
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 158
Query: 152 NGGELLTQTLTVDWA 166
NG +L + L V A
Sbjct: 159 NGMQLGDKKLLVQRA 173
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ + G+ +D ++ + +G ++ +L D TG KGYA EY + AI +
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 156
Query: 152 NGGELLTQTLTVDWA 166
NG +L + L V A
Sbjct: 157 NGMQLGDKKLLVQRA 171
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 50/88 (56%), Gaps = 8/88 (9%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
I V + + + D+++VF +YG IR++ L +RR G +A +E+E+ +A++A+
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDIDLK-NRRGG--PPFAFVEFEDPRDAEDAVYGR 81
Query: 152 NGGELLTQTLTVDWAFS-----NGPSTG 174
+G + L V++ S +GPS+G
Sbjct: 82 DGYDYDGYRLRVEFPRSGRGTGSGPSSG 109
>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 = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 103 EDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQTLT 162
E+ + +F + G+I+ + + LD+ G+ +EY + +A+NA+ +NG L + +
Sbjct: 53 EEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIR 112
Query: 163 VDW--AFSNGPSTG 174
DW F G G
Sbjct: 113 TDWDAGFKEGRQYG 126
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ + G+ +D ++ + +G ++ +L D TG KGYA EY + AI +
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 152 NGGELLTQTLTVDWA 166
NG +L + L V A
Sbjct: 64 NGMQLGDKKLLVQRA 78
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 42/81 (51%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
++V + ++ + +L +F G I + D +TG+ GYA +++ + ++Q AI +
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 152 NGGELLTQTLTVDWAFSNGPS 172
NG + + L V +A G S
Sbjct: 66 NGITVRNKRLKVSYARPGGES 86
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 13/79 (16%)
Query: 101 AQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQT 160
++ D++ +F +YG + ++ KGYA ++Y N A+ A+ NG L QT
Sbjct: 40 VKKSDVETIFSKYGRVAGCSVH--------KGYAFVQYSNERHARAAVLGENGRVLAGQT 91
Query: 161 LTVDWAFS-----NGPSTG 174
L ++ A +GPS+G
Sbjct: 92 LDINMAGEPKPDRSGPSSG 110
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 37/68 (54%), Gaps = 1/68 (1%)
Query: 76 GTDGGPGPQRSIEGWI-ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYA 134
G+ G G +R+++ ++V G+ + E DL+ F +GE+ + + D +TG KG+
Sbjct: 1 GSSGSSGVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFG 60
Query: 135 LIEYENFE 142
+ + +E
Sbjct: 61 FVRFTEYE 68
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 81 PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
PG +++ I V G+ E+ +E L++ F +YG+I + + DR +G +G+A + +++
Sbjct: 99 PGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 156
Query: 141 FEEAQNAI 148
+ +
Sbjct: 157 HDSVDKIV 164
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 6/89 (6%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V + + E+DL+ +F YG + LH +D T KG+A + + E A A +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 152 NGGELLTQTLTV------DWAFSNGPSTG 174
+G + L V A +GPS+G
Sbjct: 71 DGQVFQGRMLHVLPSTIKKEASQSGPSSG 99
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 81 PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
PG +++ I V G+ E+ +E L++ F +YG+I + + DR +G +G+A + +++
Sbjct: 98 PGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 155
Query: 141 FEEAQNAI 148
+ +
Sbjct: 156 HDSVDKIV 163
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 81 PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
PG +++ I V G+ E+ +E L++ F +YG+I + + DR +G +G+A + +++
Sbjct: 97 PGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 154
Query: 141 FEEAQNAI 148
+ +
Sbjct: 155 HDSVDKIV 162
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 81 PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
PG +++ I V G+ E+ +E L++ F +YG+I + + DR +G +G+A + +++
Sbjct: 98 PGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 155
Query: 141 FEEAQNAI 148
+ +
Sbjct: 156 HDSVDKIV 163
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 81 PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
PG +++ I V G+ E+ +E L++ F +YG+I + + DR +G +G+A + +++
Sbjct: 96 PGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 153
Query: 141 FEEAQNAI 148
+ +
Sbjct: 154 HDSVDKIV 161
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 81 PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
PG +++ I V G+ E+ +E L++ F +YG+I + + DR +G +G+A + +++
Sbjct: 91 PGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 148
Query: 141 FEEAQNAI 148
+ +
Sbjct: 149 HDSVDKIV 156
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 38/78 (48%), Gaps = 1/78 (1%)
Query: 76 GTDGGPG-PQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYA 134
G+ G G P + + + V + E DL+ +F E+G I L + DR TG KG A
Sbjct: 1 GSSGSSGVPMKDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCA 60
Query: 135 LIEYENFEEAQNAITAMN 152
+ Y + A A +A++
Sbjct: 61 FLTYCARDSALKAQSALH 78
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 47/89 (52%), Gaps = 5/89 (5%)
Query: 88 EGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
E ++++ + A E+ LQ VF + I+ + G KGYA IE+ +FE+A+ A
Sbjct: 14 ESKTLVLSNLSYSATEETLQEVFEKATFIKVPQ----NQNGKSKGYAFIEFASFEDAKEA 69
Query: 148 ITAMNGGELLTQTLTVDWAFSNG-PSTGP 175
+ + N E+ + + ++ G P++GP
Sbjct: 70 LNSCNKREIEGRAIRLELQGPRGSPNSGP 98
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 37/75 (49%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V+ + +DL +F +YG++ + + D+ T KG A I + + + AQN A+
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 152 NGGELLTQTLTVDWA 166
N +L + + A
Sbjct: 79 NNKQLFGRVIKASIA 93
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 49/90 (54%), Gaps = 7/90 (7%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRR-TGFVKGYALIEYENFEEAQNAITA 150
ILV + +A + +++ +F +GE++ + L TG +G+ +++ ++A+ A A
Sbjct: 18 ILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNA 77
Query: 151 M-NGGELLTQTLTVDWAFS-----NGPSTG 174
+ + L + L ++WA S +GPS+G
Sbjct: 78 LCHSTHLYGRRLVLEWADSEVTVQSGPSSG 107
>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 = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 43/79 (54%), Gaps = 3/79 (3%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
I+++ + + +++ ++FG+YG IR + + T +G A + YE+ +A+NA
Sbjct: 20 ILMIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNACDH 76
Query: 151 MNGGELLTQTLTVDWAFSN 169
++G + + L V + +N
Sbjct: 77 LSGFNVCNRYLVVLYYNAN 95
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 29/50 (58%)
Query: 103 EDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMN 152
E DL+ +F E+G+I L + DR TG KG A + Y E A A +A++
Sbjct: 27 EKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALH 76
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 49/105 (46%), Gaps = 14/105 (13%)
Query: 76 GTDGGPGPQRSI-EGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYA 134
G+ G G +R+ +G + V G E+ L+ F +G I +L ++ R FV
Sbjct: 1 GSSGSSGERRAPRKGNTLYVYG--EDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVT--- 55
Query: 135 LIEYENFEEAQNAITAMNGGELLTQTLTVDWA-----FSNGPSTG 174
YE E A A+ +NG ++ + L V+ A +GPS+G
Sbjct: 56 ---YEKMESADQAVAELNGTQVESVQLKVNIARKQPMLDSGPSSG 97
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 8/67 (11%)
Query: 100 EAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQ 159
+ QE +L +FG +G ++ + + + G+A +E+E E A AI ++G Q
Sbjct: 42 DVQESELNEIFGPFGPMKEVKI--------LNGFAFVEFEEAESAAKAIEEVHGKSFANQ 93
Query: 160 TLTVDWA 166
L V ++
Sbjct: 94 PLEVVYS 100
>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 = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 103 EDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQTLT 162
E+ + +F + G+I+ + + LD+ G+ +EY + +A+NA+ +NG L + +
Sbjct: 32 EEQIYELFSKSGDIKKIIMGLDKMKT-ACGFCFVEYYSRADAENAMRYINGTRLDDRIIR 90
Query: 163 VDW 165
DW
Sbjct: 91 TDW 93
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 36.2 bits (82), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 8/67 (11%)
Query: 100 EAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQ 159
+ QE +L +FG +G ++ + + + G+A +E+E E A AI ++G Q
Sbjct: 15 DVQESELNEIFGPFGPMKEVKI--------LNGFAFVEFEEAESAAKAIEEVHGKSFANQ 66
Query: 160 TLTVDWA 166
L V ++
Sbjct: 67 PLEVVYS 73
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 42/79 (53%), Gaps = 3/79 (3%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
I+ + + + +++ ++FG+YG IR + + T +G A + YE+ +A+NA
Sbjct: 20 ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNACDH 76
Query: 151 MNGGELLTQTLTVDWAFSN 169
++G + + L V + +N
Sbjct: 77 LSGFNVCNRYLVVLYYNAN 95
>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 = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%)
Query: 113 YGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQTLTVDWA 166
+G I + + D TG KGY + + N +A+NAI M G L + + +WA
Sbjct: 30 FGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA 83
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 44/88 (50%), Gaps = 7/88 (7%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V + + ++ L+ F +G I + + ++ G KG+ + + + EEA A+T M
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 152 NGGELLTQTLTVDWA-----FSNGPSTG 174
NG + T+ L V A +GPS+G
Sbjct: 76 NGRIVATKPLYVALAQRKEERQSGPSSG 103
>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 = 35.8 bits (81), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 30/53 (56%)
Query: 88 EGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
E + + G++ + ED+L+ FG+YG + +L + D TG +G+ + +E
Sbjct: 2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEK 54
Score = 33.1 bits (74), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 27/49 (55%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
I V G+ + + + + F ++G I + L LD+ TG +G+ + Y++
Sbjct: 90 IFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDS 138
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 35.8 bits (81), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 43/79 (54%), Gaps = 3/79 (3%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
I+ + + + +++ ++FG+YG IR + + T +G A + YE+ +A+NA+
Sbjct: 10 ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNAVDH 66
Query: 151 MNGGELLTQTLTVDWAFSN 169
++G + + L V + +N
Sbjct: 67 LSGFNVSNRYLVVLYYNAN 85
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 35.8 bits (81), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 40/79 (50%), Gaps = 13/79 (16%)
Query: 101 AQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQT 160
++ D++ +F +YG+I ++ KG+A ++Y N A+ A+ +G + Q
Sbjct: 28 VKKSDVEAIFSKYGKIVGCSVH--------KGFAFVQYVNERNARAAVAGEDGRMIAGQV 79
Query: 161 LTVDWAFS-----NGPSTG 174
L ++ A +GPS+G
Sbjct: 80 LDINLAAEPKVNRSGPSSG 98
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 35.4 bits (80), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 8/86 (9%)
Query: 90 WIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAIT 149
W I V V +L+++F G + + D VK YA + E +A+ AI
Sbjct: 10 WKIFVGNVSAACTSQELRSLFERRGRV----IECD----VVKDYAFVHMEKEADAKAAIA 61
Query: 150 AMNGGELLTQTLTVDWAFSNGPSTGP 175
+NG E+ + + V+ + +GP
Sbjct: 62 QLNGKEVKGKRINVELSTKGQKKSGP 87
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/96 (20%), Positives = 42/96 (43%), Gaps = 11/96 (11%)
Query: 84 QRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEE 143
Q S + + G+ + ++ F +G+I + + + KGY+ + + E
Sbjct: 20 QSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHES 73
Query: 144 AQNAITAMNGGELLTQTLTVDWA-----FSNGPSTG 174
A +AI ++NG + + W ++GPS+G
Sbjct: 74 AAHAIVSVNGTTIEGHVVKCYWGKESPDMTSGPSSG 109
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 35.4 bits (80), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 43/79 (54%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F ++G+I ++ L R+ ++G A + ++ A NA
Sbjct: 12 IYINNLNEKIKKDELKKSLYAIFSQFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 68
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 69 LRSMQGFPFYDKPMRIQYA 87
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 35.4 bits (80), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 38/77 (49%), Gaps = 5/77 (6%)
Query: 103 EDDLQNVFGEYGE-IRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQT- 160
E+ + F GE + ++ + +R TG GY +E+ + A+ + +NG L T
Sbjct: 23 ENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATP 82
Query: 161 ---LTVDWAFSNGPSTG 174
+++A +GPS+G
Sbjct: 83 AKRFKLNYATYSGPSSG 99
>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 = 35.4 bits (80), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 83 PQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFE 142
P+ I + V G+ E ++++ F YG ++ + + DR TG KGY + + N
Sbjct: 3 PEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDV 61
Query: 143 EAQNAI 148
+ Q +
Sbjct: 62 DVQKIV 67
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAI 148
+ V G+ E ++++ F YG ++ + + DR TG KGY + + N + Q +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 68
>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 = 35.0 bits (79), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 83 PQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFE 142
P+ I + V G+ E ++++ F YG ++ + + DR TG KGY + + N
Sbjct: 3 PEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDV 61
Query: 143 EAQNAI 148
+ Q +
Sbjct: 62 DVQKIV 67
>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 = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 45/100 (45%), Gaps = 6/100 (6%)
Query: 77 TDGGPGP-----QRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVK 131
T+G P P ++ I+ + V V + DL+ F G I + + D+ +G K
Sbjct: 19 TEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPK 78
Query: 132 GYALIEYENFEEAQNAITAMNGGELLTQTLTVDWAFSNGP 171
GYA IE+ + +A AM+ +T+ V +N P
Sbjct: 79 GYAYIEFAE-RNSVDAAVAMDETVFRGRTIKVLPKRTNMP 117
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 34.7 bits (78), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 40/75 (53%), Gaps = 3/75 (4%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
I+ + + + +++ ++FG+YG IR + + T +G A + YE+ +A+NA
Sbjct: 14 ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNACDH 70
Query: 151 MNGGELLTQTLTVDW 165
++G + + L V +
Sbjct: 71 LSGFNVCNRYLVVLY 85
>pdb|3EGN|A Chain A, C-Terminal Rna Recognition Motif Of The U11U12 65K PROTEIN
Length = 143
Score = 34.7 bits (78), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 41/89 (46%), Gaps = 5/89 (5%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEY----GEIRNLHLNLD-RRTGFVKGYALIEYENFEEAQN 146
I V + + QE DL+ +FG Y E + + ++ + G +KG A I N + A
Sbjct: 48 IYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAK 107
Query: 147 AITAMNGGELLTQTLTVDWAFSNGPSTGP 175
A+ NG L + + V +A S P P
Sbjct: 108 ALKEANGYVLFGKPMVVQFARSARPKQDP 136
>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 = 0.033, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 44/86 (51%), Gaps = 7/86 (8%)
Query: 94 VTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAI----- 148
V+ + ++ DL+ +FG++G+I ++ + + R KG+ + +EN +A A
Sbjct: 20 VSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGS--KGFGFVTFENSADADRAREKLHG 77
Query: 149 TAMNGGELLTQTLTVDWAFSNGPSTG 174
T + G ++ T ++GPS+G
Sbjct: 78 TVVEGRKIEVNNATARVMTNSGPSSG 103
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 34.3 bits (77), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 43/79 (54%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F ++G+I ++ L R+ ++G A + ++ A NA
Sbjct: 11 IYINNLNEKIKKDELKKSLYAIFSQFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 67
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 68 LRSMQGFPFYDKPMRIQYA 86
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 34.3 bits (77), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
I V + A + ++ +F ++G++ N+ L DR T KG+ +E + E AI +
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAKL 62
Query: 152 NGGELLTQTLTVDWA 166
+ + + +T+ V A
Sbjct: 63 DNTDFMGRTIRVTEA 77
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 34.3 bits (77), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 38/75 (50%), Gaps = 6/75 (8%)
Query: 105 DLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQTLTVD 164
DL++ F G++R++ + DR + KG A +E+ + AI + G LL + V
Sbjct: 41 DLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQ 99
Query: 165 WAFS-----NGPSTG 174
+ + +GPS+G
Sbjct: 100 ASQAEKNRLSGPSSG 114
>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 = 33.9 bits (76), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 31/57 (54%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAI 148
I V G+ + E+ ++ FG +GE+ ++ L +D +T +G+ I ++ E + +
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 60
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 33.9 bits (76), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 31/57 (54%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAI 148
I V G+ + E+ ++ FG +GE+ ++ L +D +T +G+ I ++ E + +
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 58
>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 = 33.5 bits (75), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 30/57 (52%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAI 148
+ + G+ + + DL++ F ++GE+ + L LD TG +G+ + ++ E +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVM 58
>pdb|1OIA|A Chain A, U1a Rnp Domain 1-95
pdb|1OIA|B Chain B, U1a Rnp Domain 1-95
Length = 95
Score = 33.5 bits (75), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 43/79 (54%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F ++G+I ++ L R+ ++G A + ++ A NA
Sbjct: 12 IYINNLNEKIKKDELKKSLYAIFSQFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 68
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 69 LRSMQGFPFYDKPMRIQYA 87
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 33.5 bits (75), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 40/86 (46%), Gaps = 11/86 (12%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNL-HLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
+ V G+ L F +G IR + H+ D +A I+YE+ + AQ A
Sbjct: 20 LWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGD-------SFAYIQYESLDAAQAACAK 72
Query: 151 MNGGEL--LTQTLTVDWAFSNGPSTG 174
M G L + L VD+A +GPS+G
Sbjct: 73 MRGFPLGGPDRRLRVDFA-KSGPSSG 97
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 33.5 bits (75), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 56/129 (43%), Gaps = 5/129 (3%)
Query: 44 GGAPKKTK---GRGFREE-ADSERHSRLADRNFESLGTDGGPGPQRSIEGWIILVTGVHE 99
GG P++ + RG R A R L D+ L G G + G +LV+ +
Sbjct: 39 GGGPRRNRPAIARGGRNRPAPYSRPKPLPDKWQHDLFDSGCGGGEGVETGAKLLVSNLDF 98
Query: 100 EAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQ 159
+ D+Q +F E+G ++ ++ D R+G G A + +E +A A+ G L +
Sbjct: 99 GVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADALKAMKQYKGVPLDGR 157
Query: 160 TLTVDWAFS 168
+ + S
Sbjct: 158 PMDIQLVAS 166
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 33.5 bits (75), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 42/79 (53%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F +G+I ++ L R+ ++G A + ++ A NA
Sbjct: 9 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 65
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 66 LRSMQGFPFYDKPMRIQYA 84
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 33.5 bits (75), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 43/88 (48%), Gaps = 4/88 (4%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFV---KGYALIEYENFEEAQNAI 148
+ + ++ E+ L+ VF + G I++ ++ + V G+ +EY+ E+AQ A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 149 TAMNGGELLTQTLTVDWA-FSNGPSTGP 175
+ G + L V + + P++GP
Sbjct: 68 KQLQGHTVDGHKLEVRISERATKPASGP 95
>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 = 33.5 bits (75), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 31/75 (41%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ V + + + + +G + L RTG KGY EY + A A +
Sbjct: 95 LLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSD 154
Query: 151 MNGGELLTQTLTVDW 165
+ G L +TL V W
Sbjct: 155 LLGKPLGPRTLYVHW 169
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 33.1 bits (74), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 31/75 (41%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ V + + + + +G + L RTG KGY EY + A A +
Sbjct: 97 LLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSD 156
Query: 151 MNGGELLTQTLTVDW 165
+ G L +TL V W
Sbjct: 157 LLGKPLGPRTLYVHW 171
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 33.1 bits (74), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 42/79 (53%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F +G+I ++ L R+ ++G A + ++ A NA
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 67
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 68 LRSMQGFPFYDKPMRIQYA 86
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 33.1 bits (74), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 6/61 (9%)
Query: 106 LQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQTLTVDW 165
L+ F +G I +L ++ R FV YE E A A+ +NG ++ + L V+
Sbjct: 54 LRGAFSPFGNIIDLSMDPPRNCAFVT------YEKMESADQAVAELNGTQVESVQLKVNI 107
Query: 166 A 166
A
Sbjct: 108 A 108
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 33.1 bits (74), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 42/79 (53%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F +G+I ++ L R+ ++G A + ++ A NA
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 68
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 69 LRSMQGFPFYDKPMRIQYA 87
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 33.1 bits (74), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 7/75 (9%)
Query: 105 DLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQTLTVD 164
D+ +F + IR++ L D+ T KG+ +E++ + + A+T +G L ++L VD
Sbjct: 31 DIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALT-YDGALLGDRSLRVD 88
Query: 165 WA-----FSNGPSTG 174
A +GPS+G
Sbjct: 89 IAEGRKQDKSGPSSG 103
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 33.1 bits (74), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 42/79 (53%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F +G+I ++ L R+ ++G A + ++ A NA
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 68
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 69 LRSMQGFPFYDKPMRIQYA 87
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 33.1 bits (74), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 42/79 (53%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F +G+I ++ L R+ ++G A + ++ A NA
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 67
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 68 LRSMQGFPFYDKPMRIQYA 86
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 33.1 bits (74), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 31/75 (41%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ V + + + + +G + L RTG KGY EY + A A +
Sbjct: 97 LLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSD 156
Query: 151 MNGGELLTQTLTVDW 165
+ G L +TL V W
Sbjct: 157 LLGKPLGPRTLYVHW 171
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 33.1 bits (74), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 42/79 (53%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F +G+I ++ L R+ ++G A + ++ A NA
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 67
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 68 LRSMQGFPFYDKPMRIQYA 86
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 42/79 (53%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F +G+I ++ L R+ ++G A + ++ A NA
Sbjct: 7 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 63
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 64 LRSMQGFPFYDKPMRIQYA 82
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 42/79 (53%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F +G+I ++ L R+ ++G A + ++ A NA
Sbjct: 6 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 62
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 63 LRSMQGFPFYDKPMRIQYA 81
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 42/79 (53%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQN----VFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA 147
I + ++E+ ++D+L+ +F +G+I ++ L R+ ++G A + ++ A NA
Sbjct: 8 IYINNLNEKIKKDELKKSLHAIFSRFGQILDI---LVSRSLKMRGQAFVIFKEVSSATNA 64
Query: 148 ITAMNGGELLTQTLTVDWA 166
+ +M G + + + +A
Sbjct: 65 LRSMQGFPFYDKPMRIQYA 83
>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 = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 8/83 (9%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRN--------LHLNLDRRTGFVKGYALIEYENFEE 143
I V G+ E + + + F + G I+ ++L DR TG +KG A + +++
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 144 AQNAITAMNGGELLTQTLTVDWA 166
A+ AI +G E + V +A
Sbjct: 76 AKAAIDWFDGKEFSGNPIKVSFA 98
>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 = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 47/110 (42%), Gaps = 13/110 (11%)
Query: 55 FREEADSERHSRLADRNFESLG--------TDGGPGPQRSIEGWIILVTGVHEEAQEDDL 106
F++ AD+ER L NF+ + + P ++S G I + + + L
Sbjct: 64 FQQPADAERA--LDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGNI-FIKNLDKSIDNKAL 120
Query: 107 QNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGEL 156
+ F +G I + + D KGY + +E E A+ AI MNG L
Sbjct: 121 YDTFSAFGNILSCKVVCDENGS--KGYGFVHFETQEAAERAIEKMNGMLL 168
Score = 30.4 bits (67), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 34/75 (45%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V +H + E L F G I ++ + D T GYA + ++ +A+ A+ M
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 77
Query: 152 NGGELLTQTLTVDWA 166
N + + + + W+
Sbjct: 78 NFDVIKGKPVRIMWS 92
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 8/83 (9%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRN--------LHLNLDRRTGFVKGYALIEYENFEE 143
I V G+ E + + + F + G I+ ++L DR TG +KG A + +++
Sbjct: 10 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 69
Query: 144 AQNAITAMNGGELLTQTLTVDWA 166
A+ AI +G E + V +A
Sbjct: 70 AKAAIDWFDGKEFSGNPIKVSFA 92
>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 = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 47/110 (42%), Gaps = 13/110 (11%)
Query: 55 FREEADSERHSRLADRNFESLG--------TDGGPGPQRSIEGWIILVTGVHEEAQEDDL 106
F++ AD+ER L NF+ + + P ++S G I + + + L
Sbjct: 59 FQQPADAERA--LDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGNI-FIKNLDKSIDNKAL 115
Query: 107 QNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGEL 156
+ F +G I + + D KGY + +E E A+ AI MNG L
Sbjct: 116 YDTFSAFGNILSCKVVCDENGS--KGYGFVHFETQEAAERAIEKMNGMLL 163
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 34/75 (45%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V +H + E L F G I ++ + D T GYA + ++ +A+ A+ M
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 152 NGGELLTQTLTVDWA 166
N + + + + W+
Sbjct: 73 NFDVIKGKPVRIMWS 87
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 6/86 (6%)
Query: 81 PGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
PG + + + V + + E+D + +F YGE + +N DR G+ I E+
Sbjct: 14 PGEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR------GFGFIRLES 67
Query: 141 FEEAQNAITAMNGGELLTQTLTVDWA 166
A+ A ++G L ++ L + +A
Sbjct: 68 RTLAEIAKAELDGTILKSRPLRIRFA 93
>pdb|2DNR|A Chain A, Solution Structure Of Rna Binding Domain In Synaptojanin 1
Length = 91
Score = 32.0 bits (71), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 13/79 (16%)
Query: 98 HEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNA--ITAMNGGE 155
++A D+L F +GE+ + D+ + F E +A + ++NG E
Sbjct: 24 FDDALIDELLQQFASFGEVILIRFVEDKM-----------WVTFLEGSSALNVLSLNGKE 72
Query: 156 LLTQTLTVDWAFSNGPSTG 174
LL +T+T+ +GPS+G
Sbjct: 73 LLNRTITIALKSPSGPSSG 91
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 40/73 (54%), Gaps = 2/73 (2%)
Query: 94 VTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNG 153
V+ + ++ DL+ +FG++G+I ++ + + R KG+ + +EN +A A ++G
Sbjct: 34 VSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGS--KGFGFVTFENSADADRAREKLHG 91
Query: 154 GELLTQTLTVDWA 166
+ + + V+ A
Sbjct: 92 TVVEGRKIEVNNA 104
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 31.6 bits (70), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 76 GTDGGPGPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVK 131
G+ G G ++I + V G+ + E DL+N F ++GEIR + + ++ F++
Sbjct: 1 GSSGSSGEDKTIT--TLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQ 54
>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 = 31.6 bits (70), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 2/62 (3%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
I + + + L + F +G I + + D KGY + +E E A+ AI M
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS--KGYGFVHFETQEAAERAIEKM 65
Query: 152 NG 153
NG
Sbjct: 66 NG 67
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 16/79 (20%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 89 GWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAI 148
G + + G+ + ++ L+ FG++GE++ + D T +G+ + + + + + +
Sbjct: 25 GCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMD-QAGVDKV 83
Query: 149 TAMNGGELLTQTLTVDWAF 167
A + EL ++T+ AF
Sbjct: 84 LAQSRHELDSKTIDPKVAF 102
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 5/65 (7%)
Query: 115 EIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQTLTVDWAF-----SN 169
E N+ R ++ YA + + N E+A A+ A+NG L + V A S+
Sbjct: 35 EFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVDKDSS 94
Query: 170 GPSTG 174
GPS+G
Sbjct: 95 GPSSG 99
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+LV+ + + D+Q +F E+G ++ ++ D R+G G A + +E +A A+
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYD-RSGRSLGTADVHFERKADALKAMKQY 89
Query: 152 NGGEL 156
NG L
Sbjct: 90 NGVPL 94
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 31.2 bits (69), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 2/62 (3%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
I + + + L + F +G I + + D KGY + +E E A+ AI M
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS--KGYGFVHFETQEAAERAIEKM 71
Query: 152 NG 153
NG
Sbjct: 72 NG 73
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 30.8 bits (68), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 78 DGGPGPQRSIE-GWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALI 136
D G G +E G +LV+ + + D+Q +F E+G ++ ++ D R+G G A +
Sbjct: 23 DSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADV 81
Query: 137 EYENFEEAQNAITAMNG 153
+E +A A+ G
Sbjct: 82 HFERRADALKAMKQYKG 98
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 78 DGGPGPQRSIE-GWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALI 136
D G G +E G +LV+ + + D+Q +F E+G ++ ++ D R+G G A +
Sbjct: 23 DSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADV 81
Query: 137 EYENFEEAQNAITAMNG 153
+E +A A+ G
Sbjct: 82 HFERRADALKAMKQYKG 98
>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 = 0.50, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 36/76 (47%), Gaps = 8/76 (10%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
++ V + E+ L+ F ++G++ R +K YA I ++ + A A+
Sbjct: 13 VLFVRNLANTVTEEILEKAFSQFGKLE--------RVKKLKDYAFIHFDERDGAVKAMEE 64
Query: 151 MNGGELLTQTLTVDWA 166
MNG +L + + + +A
Sbjct: 65 MNGKDLEGENIEIVFA 80
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 30.8 bits (68), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 36/79 (45%), Gaps = 9/79 (11%)
Query: 76 GTDGGPG-PQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYA 134
G+ G G P+ + ++ V + E+ L+ F E+G++ R +K YA
Sbjct: 1 GSSGSSGDPEVMAKVKVLFVRNLATTVTEEILEKSFSEFGKLE--------RVKKLKDYA 52
Query: 135 LIEYENFEEAQNAITAMNG 153
+ +E+ A A+ MNG
Sbjct: 53 FVHFEDRGAAVKAMDEMNG 71
>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 = 30.4 bits (67), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 12/56 (21%), Positives = 29/56 (51%)
Query: 93 LVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAI 148
V G+ + + DL++ F ++GE+ + + D TG +G+ I +++ + +
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVL 70
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 30.4 bits (67), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 10/49 (20%), Positives = 28/49 (57%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYEN 140
+ V G+ ++ L++ F +YGE+ + + D+ T +G+ +++++
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKD 67
>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 = 0.71, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYG-EIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAIT 149
I+++ + + A EDD++ +G + R + L ++ +G +G+A +E+ + ++A +
Sbjct: 3 IVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWME 62
Query: 150 A 150
A
Sbjct: 63 A 63
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 30.0 bits (66), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+LV+ + + D+Q +F E+G ++ ++ D R+G G A + +E +A A
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYD-RSGRSLGTADVHFERKADALKAXKQY 90
Query: 152 NGGEL 156
NG L
Sbjct: 91 NGVPL 95
>pdb|2K7F|A Chain A, Haddock Calculated Model Of The Complex Between The Brct
Region Of Rfc P140 And Dsdna
pdb|2K6G|A Chain A, Solution Structure Of The Dna Binding Brct Domain From The
Large Subunit Of Human Replication Factor C
Length = 109
Score = 30.0 bits (66), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 73 ESLGTDGGP-GPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYG 114
++LG+ P G + +EG I ++TGV E + D+ +++ YG
Sbjct: 18 KALGSKEIPKGAENCLEGLIFVITGVLESIERDEAKSLIERYG 60
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 30.0 bits (66), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 14/66 (21%), Positives = 35/66 (53%), Gaps = 5/66 (7%)
Query: 101 AQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQT 160
A + +L+ F YG +R + + + G+A +E+E+ +A++A+ ++G +
Sbjct: 12 AGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRGLDGKVICGSR 66
Query: 161 LTVDWA 166
+ V+ +
Sbjct: 67 VRVELS 72
>pdb|1WEX|A Chain A, Solution Structure Of Rrm Domain In Protein Bab28521
Length = 104
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 6/59 (10%)
Query: 91 IILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAIT 149
++ V G+ E E DL ++G I + + +R AL+E+EN + A+ +T
Sbjct: 17 VVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQ------ALVEFENIDSAKECVT 69
>pdb|2EBU|A Chain A, Solution Structure Of The Brct Domain From Human
Replication Factor C Large Subunit 1
Length = 112
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 28/49 (57%), Gaps = 2/49 (4%)
Query: 82 GPQRSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFV 130
G + +EG I ++TGV E + D+ +++ YG + N+ ++T ++
Sbjct: 18 GAENCLEGLIFVITGVLESIERDEAKSLIERYG--GKVTGNVSKKTNYL 64
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 40/79 (50%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V + + +L+ FG YG +R++ + + G+A +E+E+ +A +A+ +
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNP-----PGFAFVEFEDPRDAADAVREL 130
Query: 152 NGGELLTQTLTVDWAFSNG 170
+G L + V+ SNG
Sbjct: 131 DGRTLCGCRVRVE--LSNG 147
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 40/79 (50%), Gaps = 7/79 (8%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V + + +L+ FG YG +R++ + + G+A +E+E+ +A +A+ +
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNP-----PGFAFVEFEDPRDAADAVRDL 130
Query: 152 NGGELLTQTLTVDWAFSNG 170
+G L + V+ SNG
Sbjct: 131 DGRTLCGCRVRVE--LSNG 147
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 13/75 (17%)
Query: 105 DLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQTLTVD 164
+L+ F EYG + + D VK YA + E E+A AI ++ E + + V
Sbjct: 26 ELRAKFEEYGPV----IECD----IVKDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQ 77
Query: 165 WAFS-----NGPSTG 174
+ S +GPS+G
Sbjct: 78 LSTSRLRTASGPSSG 92
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 26/57 (45%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAI 148
I V G+ + L+ F +G+I + DR+TG +GY + + A+ A
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERAC 76
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 43/88 (48%), Gaps = 7/88 (7%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V + + E + +F + G ++ + + + Y +E+ +A A+ AM
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSN--DPYCFVEFYEHRDAAAALAAM 75
Query: 152 NGGELLTQTLTVDWAFS-----NGPSTG 174
NG ++L + + V+WA + +GPS+G
Sbjct: 76 NGRKILGKEVKVNWATTPSSQKSGPSSG 103
>pdb|3LCG|A Chain A, The D-Sialic Acid Aldolase Mutant V251l
pdb|3LCG|B Chain B, The D-Sialic Acid Aldolase Mutant V251l
pdb|3LCG|C Chain C, The D-Sialic Acid Aldolase Mutant V251l
pdb|3LCG|D Chain D, The D-Sialic Acid Aldolase Mutant V251l
Length = 319
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 11/96 (11%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 184 GALKQTSGDLYQMEQIRREHPDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGW--RYQG 241
Query: 97 VHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
+ + +E D+Q E + ++L +TG +G
Sbjct: 242 IVKALKEGDIQTAQKLQTECNKV-IDLLIKTGLFRG 276
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/59 (18%), Positives = 30/59 (50%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITA 150
+ + G+ E E+ L+N + ++G++ + + D + +G+ + + + E A+ A
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
>pdb|3LCW|A Chain A, L-Kdo Aldolase Complexed With Hydroxypyruvate
pdb|3LCW|B Chain B, L-Kdo Aldolase Complexed With Hydroxypyruvate
pdb|3LCW|C Chain C, L-Kdo Aldolase Complexed With Hydroxypyruvate
pdb|3LCW|D Chain D, L-Kdo Aldolase Complexed With Hydroxypyruvate
pdb|3LCX|A Chain A, L-Kdo Aldolase
pdb|3LCX|B Chain B, L-Kdo Aldolase
pdb|3LCX|C Chain C, L-Kdo Aldolase
pdb|3LCX|D Chain D, L-Kdo Aldolase
Length = 319
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 11/96 (11%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 184 GALKQTSGDLYQMEQIRREHPDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGW--RYQG 241
Query: 97 VHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
+ + +E D+Q E + ++L +TG +G
Sbjct: 242 IVKALKEGDIQTAQKLQTECNKV-IDLLIKTGIFRG 276
>pdb|3LCI|A Chain A, The D-Sialic Acid Aldolase Mutant V251w
pdb|3LCI|B Chain B, The D-Sialic Acid Aldolase Mutant V251w
pdb|3LCI|C Chain C, The D-Sialic Acid Aldolase Mutant V251w
pdb|3LCI|D Chain D, The D-Sialic Acid Aldolase Mutant V251w
Length = 319
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 42/96 (43%), Gaps = 11/96 (11%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 184 GALKQTSGDLYQMEQIRREHPDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGW--RYQG 241
Query: 97 VHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
+ + +E D+Q E + ++L +TG+ +G
Sbjct: 242 IVKALKEGDIQTAQKLQTECNKV-IDLLIKTGWFRG 276
>pdb|3LCL|A Chain A, The D-Sialic Acid Aldolase Mutant V251iV265I
pdb|3LCL|B Chain B, The D-Sialic Acid Aldolase Mutant V251iV265I
pdb|3LCL|C Chain C, The D-Sialic Acid Aldolase Mutant V251iV265I
pdb|3LCL|D Chain D, The D-Sialic Acid Aldolase Mutant V251iV265I
Length = 319
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 11/96 (11%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 184 GALKQTSGDLYQMEQIRREHPDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGW--RYQG 241
Query: 97 VHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
+ + +E D+Q E + ++L +TG +G
Sbjct: 242 IVKALKEGDIQTAQKLQTECNKV-IDLLIKTGIFRG 276
>pdb|3LCF|A Chain A, The D-Sialic Acid Aldolase Mutant V251i
pdb|3LCF|B Chain B, The D-Sialic Acid Aldolase Mutant V251i
pdb|3LCF|C Chain C, The D-Sialic Acid Aldolase Mutant V251i
pdb|3LCF|D Chain D, The D-Sialic Acid Aldolase Mutant V251i
Length = 319
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 11/96 (11%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 184 GALKQTSGDLYQMEQIRREHPDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGW--RYQG 241
Query: 97 VHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
+ + +E D+Q E + ++L +TG +G
Sbjct: 242 IVKALKEGDIQTAQKLQTECNKV-IDLLIKTGIFRG 276
>pdb|2HGN|A Chain A, Nmr Structure Of The Third Qrrm Domain Of Human Hnrnp F
pdb|2KG1|A Chain A, Structure Of The Third Qrrm Domain Of Hnrnp F In Complex
With A Agggau G-Tract Rna
Length = 139
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 85 RSIEGWIILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEA 144
+S G + + G+ +A E+D+ N F +R +H+ + G V G A +E+ EEA
Sbjct: 42 QSTTGHCVHMRGLPYKATENDIYNFFSPLNPVR-VHIEIG-PDGRVTGEADVEFATHEEA 99
Query: 145 QNAIT 149
A++
Sbjct: 100 VAAMS 104
>pdb|1NAL|1 Chain 1, The Three-Dimensional Structure Of N-Acetylneuraminate
Lyase From Escherichia Coli
pdb|1NAL|2 Chain 2, The Three-Dimensional Structure Of N-Acetylneuraminate
Lyase From Escherichia Coli
pdb|1NAL|3 Chain 3, The Three-Dimensional Structure Of N-Acetylneuraminate
Lyase From Escherichia Coli
pdb|1NAL|4 Chain 4, The Three-Dimensional Structure Of N-Acetylneuraminate
Lyase From Escherichia Coli
Length = 297
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 11/96 (11%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 162 GALKQTSGDLYQMEQIRREHPDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGW--RYQG 219
Query: 97 VHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
+ + +E D+Q E + ++L +TG +G
Sbjct: 220 IVKALKEGDIQTAQKLQTECNKV-IDLLIKTGVFRG 254
>pdb|1HL2|A Chain A, Crystal Structure Of N-Acetylneuraminate Lyase From E.
Coli Mutant L142r In Complex With B-Hydroxypyruvate
pdb|1HL2|B Chain B, Crystal Structure Of N-Acetylneuraminate Lyase From E.
Coli Mutant L142r In Complex With B-Hydroxypyruvate
pdb|1HL2|C Chain C, Crystal Structure Of N-Acetylneuraminate Lyase From E.
Coli Mutant L142r In Complex With B-Hydroxypyruvate
pdb|1HL2|D Chain D, Crystal Structure Of N-Acetylneuraminate Lyase From E.
Coli Mutant L142r In Complex With B-Hydroxypyruvate
Length = 297
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 41/96 (42%), Gaps = 11/96 (11%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 162 GALKQTSGDLYQMEQIRREHPDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGW--RYQG 219
Query: 97 VHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
+ + +E D+Q E N ++L +TG +G
Sbjct: 220 IVKALKEGDIQTAQKLQTEC-NKVIDLLIKTGVFRG 254
>pdb|1FDZ|A Chain A, N-Acetylneuraminate Lyase In Complex With Pyruvate Via
Borohydride Reduction
pdb|1FDZ|B Chain B, N-Acetylneuraminate Lyase In Complex With Pyruvate Via
Borohydride Reduction
pdb|1FDZ|C Chain C, N-Acetylneuraminate Lyase In Complex With Pyruvate Via
Borohydride Reduction
pdb|1FDZ|D Chain D, N-Acetylneuraminate Lyase In Complex With Pyruvate Via
Borohydride Reduction
pdb|1FDY|A Chain A, N-Acetylneuraminate Lyase In Complex With Hydroxypyruvate
pdb|1FDY|B Chain B, N-Acetylneuraminate Lyase In Complex With Hydroxypyruvate
pdb|1FDY|C Chain C, N-Acetylneuraminate Lyase In Complex With Hydroxypyruvate
pdb|1FDY|D Chain D, N-Acetylneuraminate Lyase In Complex With Hydroxypyruvate
Length = 297
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 11/96 (11%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 162 GALKQTSGDLYQMEQIRREHPDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGW--RYQG 219
Query: 97 VHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
+ + +E D+Q E + ++L +TG +G
Sbjct: 220 IVKALKEGDIQTAQKLQTECNKV-IDLLIKTGVFRG 254
>pdb|2WO5|A Chain A, Structure Of Wild Type E. Coli N-Acetylneuraminic Acid
Lyase In Space Group P21 Crystal Form I
pdb|2WO5|B Chain B, Structure Of Wild Type E. Coli N-Acetylneuraminic Acid
Lyase In Space Group P21 Crystal Form I
pdb|2WO5|C Chain C, Structure Of Wild Type E. Coli N-Acetylneuraminic Acid
Lyase In Space Group P21 Crystal Form I
pdb|2WO5|D Chain D, Structure Of Wild Type E. Coli N-Acetylneuraminic Acid
Lyase In Space Group P21 Crystal Form I
pdb|2YGY|A Chain A, Structure Of Wild Type E. Coli N-Acetylneuraminic Acid
Lyase In Space Group P21 Crystal Form Ii
pdb|2YGY|B Chain B, Structure Of Wild Type E. Coli N-Acetylneuraminic Acid
Lyase In Space Group P21 Crystal Form Ii
pdb|2YGY|C Chain C, Structure Of Wild Type E. Coli N-Acetylneuraminic Acid
Lyase In Space Group P21 Crystal Form Ii
pdb|2YGY|D Chain D, Structure Of Wild Type E. Coli N-Acetylneuraminic Acid
Lyase In Space Group P21 Crystal Form Ii
Length = 304
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 11/96 (11%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 169 GALKQTSGDLYQMEQIRREHPDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGW--RYQG 226
Query: 97 VHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
+ + +E D+Q E + ++L +TG +G
Sbjct: 227 IVKALKEGDIQTAQKLQTECNKV-IDLLIKTGVFRG 261
>pdb|3LBC|A Chain A, D-Sialic Acid Aldolase Complexed With L-Arabinose
pdb|3LBC|B Chain B, D-Sialic Acid Aldolase Complexed With L-Arabinose
pdb|3LBC|C Chain C, D-Sialic Acid Aldolase Complexed With L-Arabinose
pdb|3LBC|D Chain D, D-Sialic Acid Aldolase Complexed With L-Arabinose
pdb|3LBM|A Chain A, D-Sialic Acid Aldolase
pdb|3LBM|B Chain B, D-Sialic Acid Aldolase
pdb|3LBM|C Chain C, D-Sialic Acid Aldolase
pdb|3LBM|D Chain D, D-Sialic Acid Aldolase
Length = 319
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 11/96 (11%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 184 GALKQTSGDLYQMEQIRREHPDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGW--RYQG 241
Query: 97 VHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
+ + +E D+Q E + ++L +TG +G
Sbjct: 242 IVKALKEGDIQTAQKLQTECNKV-IDLLIKTGVFRG 276
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 5/72 (6%)
Query: 103 EDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMNGGELLTQTLT 162
ED+L+ VF + EIR L + G KG A IE+++ +A+ + G E+ ++++
Sbjct: 30 EDELKEVFEDALEIR-----LVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVS 84
Query: 163 VDWAFSNGPSTG 174
+ + G + G
Sbjct: 85 LYYTGEKGGTRG 96
>pdb|2WNQ|A Chain A, Structure Of The E192n Mutant Of E. Coli
N-Acetylneuraminic Acid Lyase In Space Group P21
pdb|2WNQ|B Chain B, Structure Of The E192n Mutant Of E. Coli
N-Acetylneuraminic Acid Lyase In Space Group P21
pdb|2WNQ|C Chain C, Structure Of The E192n Mutant Of E. Coli
N-Acetylneuraminic Acid Lyase In Space Group P21
pdb|2WNQ|D Chain D, Structure Of The E192n Mutant Of E. Coli
N-Acetylneuraminic Acid Lyase In Space Group P21
Length = 304
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 11/96 (11%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 169 GALKQTSGDLYQMEQIRREHPDLVLYNGYDNIFASGLLAGADGGIGSTYNIMGW--RYQG 226
Query: 97 VHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKG 132
+ + +E D+Q E + ++L +TG +G
Sbjct: 227 IVKALKEGDIQTAQKLQTECNKV-IDLLIKTGVFRG 261
>pdb|1WYR|A Chain A, Solution Structure Of The Ch Domain Of Human Rho Guanine
Nucleotide Exchange Factor 6
Length = 121
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 129 FVKGYALIEYENFEEAQNAITAMNGGELLTQTLTVDWAFSNGPSTG 174
F+KG A ++ E F+ + + +N ++L+ L V+ A +GPS+G
Sbjct: 77 FLKGCATLQVEIFD-PDDLYSGVNFSKVLSTLLAVNKATESGPSSG 121
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/76 (19%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ + G+ + ++ L+ FG++GE++ + D T +G+ + + + + + + A
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMD-QAGVDKVLAQ 61
Query: 152 NGGELLTQTLTVDWAF 167
+ EL ++T+ AF
Sbjct: 62 SRHELDSKTIDPKVAF 77
>pdb|1HH2|P Chain P, Crystal Structure Of Nusa From Thermotoga Maritima
Length = 344
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 113 YGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMN 152
+G +N+ + +DR TG +K Y L+E EE ++ T ++
Sbjct: 39 FGNSKNVEVVIDRNTGNIKVYQLLEV--VEEVEDPATQIS 76
>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 = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAI 148
I V V A ++L+ F G + + + D+ +G KG+A IE+ + E + ++
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65
>pdb|1L2F|A Chain A, Crystal Structure Of Nusa From Thermotoga Maritima: A
Structure-Based Role Of The N-Terminal Domain
Length = 369
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 113 YGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAMN 152
+G +N+ + +DR TG +K Y L+E EE ++ T ++
Sbjct: 64 FGNSKNVEVVIDRNTGNIKVYQLLEV--VEEVEDPATQIS 101
>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 = 27.3 bits (59), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 42/88 (47%), Gaps = 11/88 (12%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAITAM 151
+ V + + E++++ +F +YG+ + ++ D KG+ I E A+ A +
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVEL 71
Query: 152 NGGELLTQTLTVDWA-----FSNGPSTG 174
+ L + L V +A ++GPS+G
Sbjct: 72 DNMPLRGKQLRVRFACHSASLTSGPSSG 99
>pdb|3LCH|A Chain A, The D-Sialic Acid Aldolase Mutant V251r
pdb|3LCH|B Chain B, The D-Sialic Acid Aldolase Mutant V251r
pdb|3LCH|C Chain C, The D-Sialic Acid Aldolase Mutant V251r
pdb|3LCH|D Chain D, The D-Sialic Acid Aldolase Mutant V251r
Length = 319
Score = 27.3 bits (59), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 45 GAPKKTKGRGFREEADSERHSRLA-----DRNFES---LGTDGGPGPQRSIEGWIILVTG 96
GA K+T G ++ E H L D F S G DGG G +I GW G
Sbjct: 184 GALKQTSGDLYQMEQIRREHPDLVLYNGYDEIFASGLLAGADGGIGSTYNIMGW--RYQG 241
Query: 97 VHEEAQEDDLQN 108
+ + +E D+Q
Sbjct: 242 IVKALKEGDIQT 253
>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 = 26.9 bits (58), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 92 ILVTGVHEEAQEDDLQNVFGEYGEIRNLHLNLDRRTGFVKGYALIEYENFEEAQNAI 148
I V V A ++L+ F G + + + D+ +G KG+A IE+ + E + ++
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 64
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
0.312 0.133 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,266,766
Number of Sequences: 62578
Number of extensions: 221393
Number of successful extensions: 511
Number of sequences better than 100.0: 183
Number of HSP's better than 100.0 without gapping: 122
Number of HSP's successfully gapped in prelim test: 61
Number of HSP's that attempted gapping in prelim test: 366
Number of HSP's gapped (non-prelim): 199
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 49 (23.5 bits)