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= 012923
(453 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 48/192 (25%), Positives = 86/192 (44%), Gaps = 33/192 (17%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
K+F+ GL WDT + L + F +YG + D K + D +G+S+G+GF+ F+ S + +K
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK- 63
Query: 192 PQKKIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRKIF 251
Q + ++ + A + KIF
Sbjct: 64 TQHILDGKVIDPKRA--------------------------------IPRDEQDKTGKIF 91
Query: 252 VSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPHK 311
V +G ++ P++ FFS++G I + L +DK TG+ +GF Y + DA + +
Sbjct: 92 VGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFI 151
Query: 312 NFEGHILNCQRA 323
+F+ + +RA
Sbjct: 152 DFKDRKIEIKRA 163
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 35/57 (61%)
Query: 125 DEDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKT 181
DE KIFV G+G D + + + F Q+G I D + + DK +G+S+G+GF+ + +
Sbjct: 82 DEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDS 138
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 249 KIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEE 308
K+F+ + + L +F KYG + + + D ATG+ +GF ++ + + ++
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 309 PHKNFEGHILNCQRAI 324
H +G +++ +RAI
Sbjct: 65 QH-ILDGKVIDPKRAI 79
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 46/191 (24%), Positives = 82/191 (42%), Gaps = 28/191 (14%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
RK+F+ GL ++T E+L F+Q+G + DC + D + +S+G+GF+ + T A+
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 191 EPQKKIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRKI 250
K+ R+ + A + T +KI
Sbjct: 74 ARPHKVDGRVVEPKRA--------------------------VSREDSQRPGAHLTVKKI 107
Query: 251 FVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPH 310
FV + + E L +F +YG+IE + D+ +GK +GF + D+ K + + +
Sbjct: 108 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 167
Query: 311 KNFEGHILNCQ 321
GH NC+
Sbjct: 168 HTVNGH--NCE 176
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 44/87 (50%), Gaps = 5/87 (5%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
RK+F+ + E + L + F ++G + + + D T + +GF Y TV+ A+
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 308 -EPHKNFEGHILNCQRAI---DGPKPG 330
PHK +G ++ +RA+ D +PG
Sbjct: 74 ARPHK-VDGRVVEPKRAVSREDSQRPG 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 = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 46/191 (24%), Positives = 82/191 (42%), Gaps = 28/191 (14%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
RK+F+ GL ++T E+L F+Q+G + DC + D + +S+G+GF+ + T A+
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 191 EPQKKIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRKI 250
K+ R+ + A + T +KI
Sbjct: 74 ARPHKVDGRVVEPKRA--------------------------VSREDSQRPGAHLTVKKI 107
Query: 251 FVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPH 310
FV + + E L +F +YG+IE + D+ +GK +GF + D+ K + + +
Sbjct: 108 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 167
Query: 311 KNFEGHILNCQ 321
GH NC+
Sbjct: 168 HTVNGH--NCE 176
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 44/87 (50%), Gaps = 5/87 (5%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
RK+F+ + E + L + F ++G + + + D T + +GF Y TV+ A+
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 308 -EPHKNFEGHILNCQRAI---DGPKPG 330
PHK +G ++ +RA+ D +PG
Sbjct: 74 ARPHK-VDGRVVEPKRAVSREDSQRPG 99
>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 = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 46/191 (24%), Positives = 82/191 (42%), Gaps = 28/191 (14%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
RK+F+ GL ++T E+L F+Q+G + DC + D + +S+G+GF+ + T A+
Sbjct: 13 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 72
Query: 191 EPQKKIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRKI 250
K+ R+ + A + T +KI
Sbjct: 73 ARPHKVDGRVVEPKRA--------------------------VSREDSQRPGAHLTVKKI 106
Query: 251 FVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPH 310
FV + + E L +F +YG+IE + D+ +GK +GF + D+ K + + +
Sbjct: 107 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 166
Query: 311 KNFEGHILNCQ 321
GH NC+
Sbjct: 167 HTVNGH--NCE 175
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 44/87 (50%), Gaps = 5/87 (5%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
RK+F+ + E + L + F ++G + + + D T + +GF Y TV+ A+
Sbjct: 13 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 72
Query: 308 -EPHKNFEGHILNCQRAI---DGPKPG 330
PHK +G ++ +RA+ D +PG
Sbjct: 73 ARPHK-VDGRVVEPKRAVSREDSQRPG 98
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 46/191 (24%), Positives = 82/191 (42%), Gaps = 28/191 (14%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
RK+F+ GL ++T E+L F+Q+G + DC + D + +S+G+GF+ + T A+
Sbjct: 15 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 74
Query: 191 EPQKKIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRKI 250
K+ R+ + A + T +KI
Sbjct: 75 ARPHKVDGRVVEPKRA--------------------------VSREDSQRPGAHLTVKKI 108
Query: 251 FVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPH 310
FV + + E L +F +YG+IE + D+ +GK +GF + D+ K + + +
Sbjct: 109 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 168
Query: 311 KNFEGHILNCQ 321
GH NC+
Sbjct: 169 HTVNGH--NCE 177
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 44/87 (50%), Gaps = 5/87 (5%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
RK+F+ + E + L + F ++G + + + D T + +GF Y TV+ A+
Sbjct: 15 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 74
Query: 308 -EPHKNFEGHILNCQRAI---DGPKPG 330
PHK +G ++ +RA+ D +PG
Sbjct: 75 ARPHK-VDGRVVEPKRAVSREDSQRPG 100
>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 = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 46/191 (24%), Positives = 82/191 (42%), Gaps = 28/191 (14%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
RK+F+ GL ++T E+L F+Q+G + DC + D + +S+G+GF+ + T A+
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66
Query: 191 EPQKKIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRKI 250
K+ R+ + A + T +KI
Sbjct: 67 ARPHKVDGRVVEPKRA--------------------------VSREDSQRPGAHLTVKKI 100
Query: 251 FVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPH 310
FV + + E L +F +YG+IE + D+ +GK +GF + D+ K + + +
Sbjct: 101 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 160
Query: 311 KNFEGHILNCQ 321
GH NC+
Sbjct: 161 HTVNGH--NCE 169
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 44/87 (50%), Gaps = 5/87 (5%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
RK+F+ + E + L + F ++G + + + D T + +GF Y TV+ A+
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66
Query: 308 -EPHKNFEGHILNCQRAI---DGPKPG 330
PHK +G ++ +RA+ D +PG
Sbjct: 67 ARPHK-VDGRVVEPKRAVSREDSQRPG 92
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 46/191 (24%), Positives = 82/191 (42%), Gaps = 28/191 (14%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
RK+F+ GL ++T E+L F+Q+G + DC + D + +S+G+GF+ + T A+
Sbjct: 12 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 71
Query: 191 EPQKKIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRKI 250
K+ R+ + A + T +KI
Sbjct: 72 ARPHKVDGRVVEPKRA--------------------------VSREDSQRPGAHLTVKKI 105
Query: 251 FVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPH 310
FV + + E L +F +YG+IE + D+ +GK +GF + D+ K + + +
Sbjct: 106 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 165
Query: 311 KNFEGHILNCQ 321
GH NC+
Sbjct: 166 HTVNGH--NCE 174
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 44/87 (50%), Gaps = 5/87 (5%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
RK+F+ + E + L + F ++G + + + D T + +GF Y TV+ A+
Sbjct: 12 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 71
Query: 308 -EPHKNFEGHILNCQRAI---DGPKPG 330
PHK +G ++ +RA+ D +PG
Sbjct: 72 ARPHK-VDGRVVEPKRAVSREDSQRPG 97
>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 = 62.0 bits (149), Expect = 6e-10, Method: Composition-based stats.
Identities = 24/68 (35%), Positives = 42/68 (61%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
+F+ GL WDT + L D F ++GE+ DC D ++G+S+G+GF+LFK K + +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 193 QKKIGNRM 200
+ K+ ++
Sbjct: 62 EHKLNGKV 69
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 41/74 (55%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEP 309
+F+ + + + L +FSK+GE+ + L +D TG+ +GF ++K ++ K +++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 310 HKNFEGHILNCQRA 323
G +++ +RA
Sbjct: 62 EHKLNGKVIDPKRA 75
>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 = 62.0 bits (149), Expect = 7e-10, Method: Composition-based stats.
Identities = 28/69 (40%), Positives = 42/69 (60%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
K FV GL WDT + L D F ++GE+ DC D +G+S+G+GFILFK + K L +
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 192 PQKKIGNRM 200
+ ++ R+
Sbjct: 73 KEHRLDGRV 81
Score = 41.6 bits (96), Expect = 9e-04, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 41/75 (54%)
Query: 249 KIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEE 308
K FV + + + L +F+K+GE+ + + D TG+ +GF ++K + +K L++
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 309 PHKNFEGHILNCQRA 323
+G +++ ++A
Sbjct: 73 KEHRLDGRVIDPKKA 87
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 61.2 bits (147), Expect = 1e-09, Method: Composition-based stats.
Identities = 31/84 (36%), Positives = 47/84 (55%)
Query: 126 EDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGA 185
+D KIFV GL + T +L F+ +G+IE+ + D+ +GKS+GYGF+ R+ A
Sbjct: 13 KDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAA 72
Query: 186 RKALKEPQKKIGNRMTACQLASIG 209
+A K+P I R LA +G
Sbjct: 73 ERACKDPNPIIDGRKANVNLAYLG 96
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/84 (30%), Positives = 40/84 (47%)
Query: 246 TQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKA 305
T KIFV + L +F +G+IEE + D+ TGK +G+ AA++A
Sbjct: 16 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA 75
Query: 306 LEEPHKNFEGHILNCQRAIDGPKP 329
++P+ +G N A G KP
Sbjct: 76 CKDPNPIIDGRKANVNLAYLGAKP 99
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 56.6 bits (135), Expect = 3e-08, Method: Composition-based stats.
Identities = 25/49 (51%), Positives = 33/49 (67%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFK 180
K+FV GL W T ETL F QYGE+ DC + DK + +S+G+GF+ FK
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFK 66
Score = 35.4 bits (80), Expect = 0.064, Method: Composition-based stats.
Identities = 25/92 (27%), Positives = 39/92 (42%), Gaps = 7/92 (7%)
Query: 249 KIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEE 308
K+FV + + L ++FS+YGE+ + + DK T + +GF +K + L
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 309 PHKNFEGHILNCQRAIDGPKPGKSRHHNAQNP 340
+G R ID PKP R P
Sbjct: 78 RPHTLDG------RNID-PKPCTPRGMQPSGP 102
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 56.6 bits (135), Expect = 3e-08, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 47/75 (62%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
K+F+ GL W T E L + F Q+GE+++C + D ++ +S+G+GF+ F ++G K L +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 192 PQKKIGNRMTACQLA 206
+ ++ ++ ++A
Sbjct: 62 SRHELDSKTIDPKVA 76
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 55.1 bits (131), Expect = 8e-08, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 47/75 (62%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
K+F+ GL W T E L + F Q+GE+++C + D ++ +S+G+GF+ F ++G K L +
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
Query: 192 PQKKIGNRMTACQLA 206
+ ++ ++ ++A
Sbjct: 87 SRHELDSKTIDPKVA 101
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 50.4 bits (119), Expect = 2e-06, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 42/74 (56%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
IFV GL +T E + F+Q+G+++D + DK + + +G+GF+ F++ K +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 193 QKKIGNRMTACQLA 206
+I N+M C+ A
Sbjct: 62 FHEINNKMVECKKA 75
Score = 37.0 bits (84), Expect = 0.024, Method: Composition-based stats.
Identities = 16/74 (21%), Positives = 36/74 (48%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEP 309
IFV + + + +F ++G++++ L DK T + +GF +++ D +K E
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 310 HKNFEGHILNCQRA 323
++ C++A
Sbjct: 62 FHEINNKMVECKKA 75
>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 = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 38/70 (54%), Gaps = 7/70 (10%)
Query: 127 DPVHRK-----IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKT 181
DP RK IF+ L + L D F +G I CK VCD+ SKGYGF+ F+T
Sbjct: 90 DPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFET 147
Query: 182 RSGARKALKE 191
+ A +A+++
Sbjct: 148 QEAAERAIEK 157
>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 = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 38/70 (54%), Gaps = 7/70 (10%)
Query: 127 DPVHRK-----IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKT 181
DP RK IF+ L + L D F +G I CK VCD+ SKGYGF+ F+T
Sbjct: 95 DPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFET 152
Query: 182 RSGARKALKE 191
+ A +A+++
Sbjct: 153 QEAAERAIEK 162
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 49.7 bits (117), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 40/68 (58%)
Query: 122 QVADEDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKT 181
Q+ E V R + V+ + L F++YG IE K VCD+ + +S+GYGF+ F++
Sbjct: 34 QMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQS 93
Query: 182 RSGARKAL 189
S A++A+
Sbjct: 94 GSSAQQAI 101
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/59 (22%), Positives = 33/59 (55%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKAL 306
R + V+ + + ++ +L F +YG IE + D+ T + +G+ +++ +A++A+
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAI 101
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 49.3 bits (116), Expect = 5e-06, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 42/70 (60%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
RK+F+ GL ++T E+L + ++Q+G++ DC + D S +S+G+GF+ F + + A+
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA 87
Query: 191 EPQKKIGNRM 200
I R+
Sbjct: 88 ARPHSIDGRV 97
Score = 32.3 bits (72), Expect = 0.59, Method: Composition-based stats.
Identities = 17/89 (19%), Positives = 42/89 (47%), Gaps = 6/89 (6%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
RK+F+ + E + L ++ ++G++ + + D A+ + +GF + ++ A+
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA 87
Query: 308 EPHKNFEGHILNCQRAI------DGPKPG 330
+ +G ++ +RA+ GP G
Sbjct: 88 ARPHSIDGRVVEPKRAVAREESGSGPSSG 116
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 49.3 bits (116), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 39/204 (19%), Positives = 83/204 (40%), Gaps = 25/204 (12%)
Query: 129 VHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKA 188
+ +++V + ++ +T+ AF +G I+ D V+ K KG+ F+ ++ A+ A
Sbjct: 27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLA 86
Query: 189 LKEPQKKI--GNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYT 246
L++ + G + + ++IG
Sbjct: 87 LEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF--------------------- 125
Query: 247 QRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKAL 306
+I+V++V +L + + F +G+I+ L D TGK KG+ Y+ +++ A+
Sbjct: 126 -NRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAV 184
Query: 307 EEPHK-NFEGHILNCQRAIDGPKP 329
+ + G L +A+ P P
Sbjct: 185 SSMNLFDLGGQYLRVGKAVTPPMP 208
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 37/70 (52%)
Query: 120 VRQVADEDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILF 179
+ Q+A+E +I+V + D + + F+ +G+I+ D +GK KGYGFI +
Sbjct: 115 IDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEY 174
Query: 180 KTRSGARKAL 189
+ ++ A+
Sbjct: 175 EKAQSSQDAV 184
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 48.5 bits (114), Expect = 8e-06, Method: Composition-based stats.
Identities = 27/70 (38%), Positives = 38/70 (54%), Gaps = 7/70 (10%)
Query: 127 DPVHRK-----IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKT 181
DP RK IF+ L + L D F +G I CK VCD+ SKGYGF+ F+T
Sbjct: 3 DPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFET 60
Query: 182 RSGARKALKE 191
+ A +A+++
Sbjct: 61 QEAAERAIEK 70
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 47.8 bits (112), Expect = 1e-05, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 37/58 (63%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
K+FV GL +DT ++L F +YG+I + V D+ + +S+G+GF+ F+ A+ A+
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAM 71
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 32/58 (55%)
Query: 249 KIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKAL 306
K+FV + + Q L FSKYG+I E + D+ T + +GF ++ +D AK A+
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAM 71
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 43/217 (19%), Positives = 89/217 (41%), Gaps = 29/217 (13%)
Query: 116 VASRVRQVADEDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYG 175
+A R R +A + +++V + ++ +T+ AF +G I+ D V+ K KG+
Sbjct: 3 MAQRQRALA----IMCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFA 58
Query: 176 FILFKTRSGARKALKEPQKKI--GNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXX 233
F+ ++ A+ AL++ + G + + ++IG
Sbjct: 59 FVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF-------- 110
Query: 234 XXXXXXXXXSEYTQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCL 293
+I+V++V +L + + F +G+I+ L D TGK KG+
Sbjct: 111 --------------NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGF 156
Query: 294 FVYKTVDAAKKALEEPHK-NFEGHILNCQRAIDGPKP 329
Y+ +++ A+ + + G L +A+ P P
Sbjct: 157 IEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTPPMP 193
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 33/60 (55%)
Query: 130 HRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
H +FV L + E + AF +G+I D + V D +GKSKGYGF+ F + A A+
Sbjct: 15 HFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAI 74
Score = 32.3 bits (72), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLF-VYKTVDA 301
+FV ++ E+ + + + F+ +G+I + + D ATGK KG+ Y +DA
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDA 70
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 44/216 (20%), Positives = 89/216 (41%), Gaps = 29/216 (13%)
Query: 117 ASRVRQVADEDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGF 176
A R R +A + +++V + ++ +T+ AF +G I+ D V+ K KG+ F
Sbjct: 3 AQRQRALA----IXCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAF 58
Query: 177 ILFKTRSGARKALKEPQK-KIGNR-MTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXX 234
+ ++ A+ AL++ +G R + + ++IG
Sbjct: 59 VEYEVPEAAQLALEQXNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF--------- 109
Query: 235 XXXXXXXXSEYTQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLF 294
+I+V++V +L + + F +G+I+ L D TGK KG+
Sbjct: 110 -------------NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFI 156
Query: 295 VYKTVDAAKKALEEPHK-NFEGHILNCQRAIDGPKP 329
Y+ +++ A+ + + G L +A+ P P
Sbjct: 157 EYEKAQSSQDAVSSXNLFDLGGQYLRVGKAVTPPXP 192
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 34/62 (54%)
Query: 130 HRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
H +FV L + E + AF +G I D + V D +GKSKGYGF+ F + A A+
Sbjct: 15 HFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAI 74
Query: 190 KE 191
++
Sbjct: 75 QQ 76
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 32/59 (54%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEE 308
+FV ++ E+ + + A F+ +G I + + D ATGK KG+ + A+ A+++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ 76
>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 = 47.0 bits (110), Expect = 2e-05, Method: Composition-based stats.
Identities = 23/59 (38%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
IF+ L + L D F +G I CK VCD+ SKGYGF+ F+T+ A +A+++
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEK 64
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 36/60 (60%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
+++V L ++ + L F+ +G IE + + D +G+SKGYGFI F A+KAL++
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%)
Query: 249 KIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEE 308
+++V ++ + L F +G IE L +D TG+ KG+ + + AKKALE+
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
>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 = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 36/65 (55%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+KIFV + + +K+ +F +GE+E L +D T K +GFC +K + KK +E
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
Query: 308 EPHKN 312
+ + N
Sbjct: 62 KKYHN 66
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
+KIFV GL DT E + + F +GE+E + D + K +G+ FI FK +K ++
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
Query: 191 EPQKKIGNRMTACQL 205
+ +G ++ C++
Sbjct: 62 KKYHNVG--LSKCEI 74
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 35/57 (61%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
+++ GL T + L+ + YG+I KA+ DK + K KGYGF+ F + S A+KA+
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64
>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 = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 38/175 (21%), Positives = 67/175 (38%), Gaps = 31/175 (17%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
+ V+ L + E F GEIE CK V DK++G+S GYGF+ + A KA+
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI--- 61
Query: 193 QKKIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRKIFV 252
N + +L + + ++V
Sbjct: 62 -----NTLNGLRLQT-----------------------KTIKVSYARPSSASIRDANLYV 93
Query: 253 SNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
S + + ++L FS+YG I + +D+ TG +G + A++A++
Sbjct: 94 SGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK 148
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 37/175 (21%), Positives = 64/175 (36%), Gaps = 33/175 (18%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
+ V+ L D L F+ G I C+ D +G S GY F+ F + +++A+K
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 193 QK-KIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRKIF 251
+ N+ A G ++
Sbjct: 77 NGITVRNKRLKVSYARPGGESIKDT--------------------------------NLY 104
Query: 252 VSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKAL 306
V+N+ + +L F KYG I + + DK TG+P+G Y + A++A+
Sbjct: 105 VTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 159
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 37/175 (21%), Positives = 65/175 (37%), Gaps = 33/175 (18%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
+ V+ L D L F+ G I C+ + D +G S GY F+ F + +++A+K
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 193 QK-KIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRKIF 251
+ N+ A G ++
Sbjct: 66 NGITVRNKRLKVSYARPGGESIKDT--------------------------------NLY 93
Query: 252 VSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKAL 306
V+N+ + +L F KYG I + + DK TG+P+G Y + A++A+
Sbjct: 94 VTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 148
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 34/157 (21%), Positives = 63/157 (40%), Gaps = 31/157 (19%)
Query: 151 FKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEPQKKIGNRMTACQLASIGX 210
F G+IE CK V DK++G+S GYGF+ + + A KA+ N + +L +
Sbjct: 25 FGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI--------NTLNGLKLQT--- 73
Query: 211 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRKIFVSNVGSELEPQKLLAFFSK 270
+ ++VS + + +++ FS+
Sbjct: 74 --------------------KTIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQ 113
Query: 271 YGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
YG I + +D+ATG +G + A++A++
Sbjct: 114 YGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 150
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 31/58 (53%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
++V GL + + F QYG I + + D+ +G S+G GFI F R A +A+K
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 150
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 39/185 (21%), Positives = 71/185 (38%), Gaps = 37/185 (20%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
+ V+ L + + L F GE+E K + DKV+G S GYGF+ + T A +A+
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI--- 61
Query: 193 QKKIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQ-RKIF 251
N + +L S SE + ++
Sbjct: 62 -----NTLNGLRLQS------------------------KTIKVSYARPSSEVIKDANLY 92
Query: 252 VSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPHK 311
+S + + + + FS++G I + +D+ TG +G + A++A+
Sbjct: 93 ISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI----T 148
Query: 312 NFEGH 316
+F GH
Sbjct: 149 SFNGH 153
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 39/185 (21%), Positives = 71/185 (38%), Gaps = 37/185 (20%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
+ V+ L + + L F GE+E K + DKV+G S GYGF+ + T A +A+
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI--- 61
Query: 193 QKKIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQ-RKIF 251
N + +L S SE + ++
Sbjct: 62 -----NTLNGLRLQS------------------------KTIKVSYARPSSEVIKDANLY 92
Query: 252 VSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPHK 311
+S + + + + FS++G I + +D+ TG +G + A++A+
Sbjct: 93 ISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI----T 148
Query: 312 NFEGH 316
+F GH
Sbjct: 149 SFNGH 153
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEP 309
IFV + + +K+ +F +GE+E L +D T K +GFC +K + KK +E+
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 310 HKN 312
+ N
Sbjct: 62 YHN 64
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
IFV GL DT E + + F +GE+E + D + K +G+ FI FK +K +++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 193 QKKIGNRMTACQL 205
+G ++ C++
Sbjct: 62 YHNVG--LSKCEI 72
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 36/59 (61%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
++V L ++ + L F+ +G+I++ + D +G+SKGYGFI F AR+AL++
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQ 66
Score = 31.2 bits (69), Expect = 1.2, Method: Composition-based stats.
Identities = 15/59 (25%), Positives = 30/59 (50%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEE 308
++V ++ + L F +G+I+ L D TG+ KG+ + + A++ALE+
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQ 66
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 117 ASRVRQVADEDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGF 176
A + +Q + +D + +FV L + ETL +AFK + + D +G S+GYGF
Sbjct: 76 AFQSQQSSSDDTFN--LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGF 133
Query: 177 ILFKTRSGARKALKEPQ 193
+ F ++ A+ A+ Q
Sbjct: 134 VSFTSQDDAQNAMDSMQ 150
>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 = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 34/58 (58%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+FV+ V E + + F++YGEI+ L +D+ TG KG+ L Y+T A+ A+E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
Score = 37.4 bits (85), Expect = 0.017, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 33/58 (56%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
+FV G+ + E + D F +YGEI++ D+ +G KGY + ++T A+ A++
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
>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 = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 21/82 (25%), Positives = 42/82 (51%), Gaps = 1/82 (1%)
Query: 127 DPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGAR 186
+P R +++ + +D E ++D G + + K + D +G+SKGY FI F+ +
Sbjct: 1 NPPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSA 60
Query: 187 KALKEPQK-KIGNRMTACQLAS 207
A++ ++G+R C +S
Sbjct: 61 SAVRNLNGYQLGSRFLKCGYSS 82
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 31/58 (53%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
++V GL + + F QYG I + + D+ +G S+G GFI F R A +A+K
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
>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 = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 34/58 (58%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+FV+ V E + + F++YGEI+ L +D+ TG KG+ L Y+T A+ A+E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
Score = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 33/58 (56%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
+FV G+ + E + D F +YGEI++ D+ +G KGY + ++T A+ A++
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 34/58 (58%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+FV+ V E + + F++YGEI+ L +D+ TG KG+ L Y+T A+ A+E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
Score = 37.0 bits (84), Expect = 0.022, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 33/58 (56%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
+FV G+ + E + D F +YGEI++ D+ +G KGY + ++T A+ A++
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 34/58 (58%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+FV+ V E + + F++YGEI+ L +D+ TG KG+ L Y+T A+ A+E
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 69
Score = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 33/58 (56%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
+FV G+ + E + D F +YGEI++ D+ +G KGY + ++T A+ A++
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 69
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 18/39 (46%), Positives = 26/39 (66%)
Query: 151 FKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
F G+IE CK V DK++G+S GYGF+ + + A KA+
Sbjct: 25 FGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
>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 = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 34/58 (58%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+FV+ V E + + F++YGEI+ L +D+ TG KG+ L Y+T A+ A+E
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 82
Score = 38.1 bits (87), Expect = 0.010, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 40/82 (48%), Gaps = 5/82 (6%)
Query: 114 RDVASRVRQVADEDPVHRKI-----FVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVS 168
R+ V Q DE R + FV G+ + E + D F +YGEI++ D+ +
Sbjct: 1 REDYDSVEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRT 60
Query: 169 GKSKGYGFILFKTRSGARKALK 190
G KGY + ++T A+ A++
Sbjct: 61 GYLKGYTLVEYETYKEAQAAME 82
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 33/60 (55%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
R +FV + ++ E L D F + G + + V D+ +GK KGYGF ++ + A A++
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68
Score = 38.5 bits (88), Expect = 0.007, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 1/77 (1%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
R +FV N+ E ++L FS+ G + L D+ TGKPKG+ Y+ + A A+
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68
Query: 308 EPH-KNFEGHILNCQRA 323
+ + F G L A
Sbjct: 69 NLNGREFSGRALRVDNA 85
>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 = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 34/58 (58%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+FV+ V E + + F++YGEI+ L +D+ TG KG+ L Y+T A+ A+E
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 83
Score = 37.7 bits (86), Expect = 0.013, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 40/82 (48%), Gaps = 5/82 (6%)
Query: 114 RDVASRVRQVADEDPVHRKI-----FVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVS 168
R+ V Q DE R + FV G+ + E + D F +YGEI++ D+ +
Sbjct: 2 REDYDSVEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRT 61
Query: 169 GKSKGYGFILFKTRSGARKALK 190
G KGY + ++T A+ A++
Sbjct: 62 GYLKGYTLVEYETYKEAQAAME 83
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
R ++V + + + A+ L F G I +CDK SG KGY +I F R+ A+
Sbjct: 37 RSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV 95
Score = 36.6 bits (83), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 32/75 (42%)
Query: 244 EYTQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAK 303
E +R ++V NV Q L A FS G I + DK +G PKG+ + ++
Sbjct: 33 EIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVD 92
Query: 304 KALEEPHKNFEGHIL 318
A+ F G +
Sbjct: 93 AAVAMDETVFRGRTI 107
>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 = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 32/62 (51%)
Query: 128 PVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARK 187
P + V+ L + + L F GE+E K + DKV+G S GYGF+ + T A +
Sbjct: 2 PGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAER 61
Query: 188 AL 189
A+
Sbjct: 62 AI 63
Score = 29.6 bits (65), Expect = 4.1, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 27/57 (47%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKAL 306
+ V+ + + +L + FS GE+E L DK G G+ Y T A++A+
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 63
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 35/60 (58%), Gaps = 3/60 (5%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKT---VDAAKKAL 306
+FV+++ E + ++ F YGEI+ L +D+ TG KG+ L Y+T AAK+AL
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Score = 31.6 bits (70), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKA 188
+FV + + + + + + F YGEI++ D+ +G SKGY + ++T A A
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 130
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 39/69 (56%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
+++ GL ++ + + +ID FK+ +ED + +GK+ G GF+ F+ + + AL
Sbjct: 28 VYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRH 87
Query: 193 QKKIGNRMT 201
++ +GNR
Sbjct: 88 KQYMGNRFI 96
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 34/76 (44%), Gaps = 1/76 (1%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
+ +FV + +DT L F+ YG I+ V K SGK +GY FI ++ A K
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 191 EPQ-KKIGNRMTACQL 205
KKI R +
Sbjct: 163 HADGKKIDGRRVLVDV 178
Score = 31.6 bits (70), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 38/77 (49%), Gaps = 4/77 (5%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+ +FV+ V + KL F YG I+ + K +GKP+G+ Y+ ++ +
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYE----HERDMH 158
Query: 308 EPHKNFEGHILNCQRAI 324
+K+ +G ++ +R +
Sbjct: 159 SAYKHADGKKIDGRRVL 175
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 35/60 (58%), Gaps = 3/60 (5%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKT---VDAAKKAL 306
+FV+++ E + ++ F YGEI+ L +D+ TG KG+ L Y+T AAK+AL
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Score = 32.0 bits (71), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKA 188
+FV + + + + + + F YGEI++ D+ +G SKGY + ++T A A
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 84
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 20/78 (25%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
R +++ + +D E ++D G + + K + D +G+SKGY FI F+ + A++
Sbjct: 3 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVR 62
Query: 191 EPQK-KIGNRMTACQLAS 207
++G+R C +S
Sbjct: 63 NLNGYQLGSRFLKCGYSS 80
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 20/78 (25%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
R +++ + +D E ++D G + + K + D +G+SKGY FI F+ + A++
Sbjct: 4 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVR 63
Query: 191 EPQK-KIGNRMTACQLAS 207
++G+R C +S
Sbjct: 64 NLNGYQLGSRFLKCGYSS 81
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 21/57 (36%), Positives = 30/57 (52%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
I V L DT+ L + F+ +G I DK +G+SKG+ FI F R A +A+
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 26/57 (45%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKAL 306
I V+N+ + L F +G I L DK TG+ KGF + + A +A+
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
>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 = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
+FV L + ETL +AFK + + D +G S+GYGF+ F ++ A+ A+
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 193 Q 193
Q
Sbjct: 64 Q 64
>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 = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 31/57 (54%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
+ V+ L + + L F GE+E K + DKV+G S GYGF+ + T A +A+
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 78
Score = 28.9 bits (63), Expect = 6.1, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 263 KLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKAL 306
+L + FS GE+E L DK G G+ Y T A++A+
Sbjct: 35 ELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 78
>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 = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
R I+V + + AE L F G + +CDK SG KG+ +I F + R +L
Sbjct: 6 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 64
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%)
Query: 244 EYTQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAK 303
E R I+V NV ++L A F G + + DK +G PKGF + ++ +
Sbjct: 2 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 61
Query: 304 KALEEPHKNFEG 315
+L F G
Sbjct: 62 TSLALDESLFRG 73
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 38.5 bits (88), Expect = 0.008, Method: Composition-based stats.
Identities = 26/73 (35%), Positives = 42/73 (57%), Gaps = 5/73 (6%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
+ +FV GL DT ETL ++F G + + V D+ +G SKG+GF+ F + A+ A +
Sbjct: 16 KTLFVKGLSEDTTEETLKESFD--GSVR-ARIVTDRETGSSKGFGFVDFNSEEDAKAAKE 72
Query: 191 --EPQKKIGNRMT 201
E + GN++T
Sbjct: 73 AMEDGEIDGNKVT 85
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 249 KIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEE 308
++FV N+ + L FS YG + E ID T KPKGF + + A KA E
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 309 PH-KNFEGHILNC 320
+ F+G +L+
Sbjct: 70 VDGQVFQGRMLHV 82
Score = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
++FV L + + E L F YG + + D ++ K KG+ F+ F A KA E
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
>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 = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 34/76 (44%), Gaps = 1/76 (1%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
+ +FV + +DT L F+ YG I+ V K SGK +GY FI ++ A K
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 191 EPQ-KKIGNRMTACQL 205
KKI R +
Sbjct: 163 HADGKKIDGRRVLVDV 178
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 38/77 (49%), Gaps = 4/77 (5%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+ +FV+ V + KL F YG I+ + K +GKP+G+ Y+ ++ +
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEH----ERDMH 158
Query: 308 EPHKNFEGHILNCQRAI 324
+K+ +G ++ +R +
Sbjct: 159 SAYKHADGKKIDGRRVL 175
>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 = 38.1 bits (87), Expect = 0.009, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 33/62 (53%)
Query: 130 HRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
H +FV L + + AF +G I D + V D +GKSKGYGF+ F + A A+
Sbjct: 6 HFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAI 65
Query: 190 KE 191
++
Sbjct: 66 QQ 67
>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 = 38.1 bits (87), Expect = 0.010, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 28/59 (47%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
R I+V + + AE L F G + +CDK SG KG+ +I F + R +L
Sbjct: 7 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65
Score = 33.1 bits (74), Expect = 0.35, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 31/72 (43%)
Query: 244 EYTQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAK 303
E R I+V NV ++L A F G + + DK +G PKGF + ++ +
Sbjct: 3 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 62
Query: 304 KALEEPHKNFEG 315
+L F G
Sbjct: 63 TSLALDESLFRG 74
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 29/59 (49%), Gaps = 8/59 (13%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
+FV L E L AF Q+G++E K + D Y FI F R GA KA++E
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEE 64
Score = 28.5 bits (62), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 11/90 (12%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEP 309
+FV N+ + + + L FS++G++E K K + + D A KA+EE
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLER--------VKKLKDYAFIHFDERDGAVKAMEEM 65
Query: 310 H-KNFEGHILNCQRAIDGPKPGKSRHHNAQ 338
+ K+ EG N + P K + AQ
Sbjct: 66 NGKDLEGE--NIEIVFAKPPDQKRKERKAQ 93
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 37.7 bits (86), Expect = 0.015, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 29/54 (53%)
Query: 135 VHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKA 188
V GL T L + F +YG I D V D+ S +S+G+ F+ F+ A++A
Sbjct: 17 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 70
Score = 32.3 bits (72), Expect = 0.49, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 26/46 (56%)
Query: 262 QKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+ L FSKYG I + + D+ + + +GF ++ VD AK+A E
Sbjct: 27 RDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 72
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 37.4 bits (85), Expect = 0.016, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 29/54 (53%)
Query: 135 VHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKA 188
V GL T L + F +YG I D V D+ S +S+G+ F+ F+ A++A
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Score = 32.3 bits (72), Expect = 0.52, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 26/46 (56%)
Query: 262 QKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+ L FSKYG I + + D+ + + +GF ++ VD AK+A E
Sbjct: 30 RDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 75
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 37.4 bits (85), Expect = 0.018, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 29/54 (53%)
Query: 135 VHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKA 188
V GL T L + F +YG I D V D+ S +S+G+ F+ F+ A++A
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Score = 33.1 bits (74), Expect = 0.32, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 36/70 (51%), Gaps = 5/70 (7%)
Query: 262 QKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPHKNFEGHILNCQ 321
+ L FSKYG I + + D+ + + +GF ++ VD AK+A E + G L+ +
Sbjct: 30 RDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERAN----GMELDGR 85
Query: 322 RA-IDGPKPG 330
R + GP G
Sbjct: 86 RIRVSGPSSG 95
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 37.0 bits (84), Expect = 0.021, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 29/54 (53%)
Query: 135 VHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKA 188
V GL T L + F +YG I D V D+ S +S+G+ F+ F+ A++A
Sbjct: 51 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 104
Score = 32.3 bits (72), Expect = 0.62, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 26/46 (56%)
Query: 262 QKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALE 307
+ L FSKYG I + + D+ + + +GF ++ VD AK+A E
Sbjct: 61 RDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 106
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
RK+F+ + + F +G+IE+C+ + G S+G F+ F TR+ A+ A+K
Sbjct: 108 RKLFIGMISKKCTENDIRVMFSSFGQIEECR-ILRGPDGLSRGCAFVTFTTRAMAQTAIK 166
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 41/188 (21%), Positives = 67/188 (35%), Gaps = 42/188 (22%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSG--KSKGYGFILFKTRSGARKAL 189
K+FV + + L + F+QYG + + + D+ +SKG F+ F TR KA
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTR----KAA 72
Query: 190 KEPQKKIGNRMTACQLASIGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSEYTQRK 249
E Q + N + RK
Sbjct: 73 LEAQNALHN-----------------------MKVLPGMHHPIQMKPADSEKNNAVEDRK 109
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEE-----GPLGIDKATGKPKGFCLFVYKTVDA-AK 303
+F+ + + + FS +G+IEE GP G+ + C FV T A A+
Sbjct: 110 LFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRG-------CAFVTFTTRAMAQ 162
Query: 304 KALEEPHK 311
A++ H+
Sbjct: 163 TAIKAMHQ 170
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 37.0 bits (84), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
RK+F+ + + F +G+IE+C+ + G S+G F+ F TR+ A+ A+K
Sbjct: 96 RKLFIGXISKKCTENDIRVXFSSFGQIEECR-ILRGPDGLSRGCAFVTFTTRAXAQTAIK 154
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 13/70 (18%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEE-----GPLGIDKATGKPKGFCLFVYKTVDA- 301
RK+F+ + + + FS +G+IEE GP G+ + C FV T A
Sbjct: 96 RKLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPDGLSRG-------CAFVTFTTRAX 148
Query: 302 AKKALEEPHK 311
A+ A++ H+
Sbjct: 149 AQTAIKAXHQ 158
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 37.0 bits (84), Expect = 0.024, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 33/59 (55%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
+ +F+ L +D++ E L + +Q+G+++ + V + SKG F F T+ A+K L
Sbjct: 16 KTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCL 74
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 37.0 bits (84), Expect = 0.024, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
+ V GL W T + L + F +GE+ + D +G SKG+GF+ F K + +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ- 76
Query: 193 QKKIGNRMTACQL 205
+ I R C+L
Sbjct: 77 RHMIDGRWCDCKL 89
>pdb|2JPB|A Chain A, Solution Structure Of Ompr-C Dna Binding Protein
Length = 104
Score = 37.0 bits (84), Expect = 0.025, Method: Composition-based stats.
Identities = 23/53 (43%), Positives = 32/53 (60%), Gaps = 7/53 (13%)
Query: 95 EPFSKDQLVNLLR----EAAENHRDVA-SRVRQVADEDPVHRKIF--VHGLGW 140
EP S+D+L+NL R A E DV SR+R++ +EDP H + V GLG+
Sbjct: 43 EPLSRDKLMNLARGREYSAMERSIDVQISRLRRMVEEDPAHPRYIQTVWGLGY 95
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
RK+F+ + + F +G+IE+C+ + G S+G F+ F TR+ A+ A+K
Sbjct: 96 RKLFIGMISKKCTENDIRVMFSSFGQIEECR-ILRGPDGLSRGCAFVTFTTRAMAQTAIK 154
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 13/70 (18%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEE-----GPLGIDKATGKPKGFCLFVYKTVDA- 301
RK+F+ + + + FS +G+IEE GP G+ + C FV T A
Sbjct: 96 RKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRG-------CAFVTFTTRAM 148
Query: 302 AKKALEEPHK 311
A+ A++ H+
Sbjct: 149 AQTAIKAMHQ 158
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 36.6 bits (83), Expect = 0.028, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 31/53 (58%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRS 183
R I+V L + +E + + F Q+G++ + K + D+ + K KG+GF+ + S
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES 54
Score = 31.6 bits (70), Expect = 0.91, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 25/44 (56%)
Query: 248 RKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGF 291
R I+V N+ +++ FS++G++ L D+ T KPKGF
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGF 45
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 36.6 bits (83), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 32/70 (45%), Gaps = 8/70 (11%)
Query: 128 PVHRKIFVHGLGWDTKA-------ETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFK 180
P+ + HG K E L AF Q+G +E V D G++ G GF+ F
Sbjct: 87 PLRIRFATHGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDD-RGRATGKGFVEFA 145
Query: 181 TRSGARKALK 190
+ ARKAL+
Sbjct: 146 AKPPARKALE 155
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 36.2 bits (82), Expect = 0.034, Method: Composition-based stats.
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 15/80 (18%)
Query: 246 TQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKA 305
++ ++VSN+ L L FSKYG++ + + DK T K KG ++ D+A+
Sbjct: 15 SKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQ-- 72
Query: 306 LEEPHKNFEGHILNCQRAID 325
NC RAI+
Sbjct: 73 -------------NCTRAIN 79
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 19/68 (27%), Positives = 30/68 (44%)
Query: 128 PVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARK 187
P ++V L + L F +YG++ + DK + KSKG FILF + A+
Sbjct: 14 PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQN 73
Query: 188 ALKEPQKK 195
+ K
Sbjct: 74 CTRAINNK 81
>pdb|1OPC|A Chain A, Ompr Dna-Binding Domain, Escherichia Coli
Length = 110
Score = 36.2 bits (82), Expect = 0.038, Method: Composition-based stats.
Identities = 23/53 (43%), Positives = 32/53 (60%), Gaps = 7/53 (13%)
Query: 95 EPFSKDQLVNLLR----EAAENHRDVA-SRVRQVADEDPVHRKIF--VHGLGW 140
EP S+D+L+NL R A E DV SR+R++ +EDP H + V GLG+
Sbjct: 49 EPLSRDKLMNLARGREYSAMERSIDVQISRLRRMVEEDPAHPRYIQTVWGLGY 101
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 36.2 bits (82), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 30/58 (51%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
++V GL L + F Q G + + D+V+G+ +GYGF+ F + A A+K
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75
>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 = 36.2 bits (82), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
+FV G+ + F +YG +++ K + D+ +G SKGYGF+ F +K ++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 68
Score = 35.4 bits (80), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 42/95 (44%), Gaps = 12/95 (12%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLF-VYKTVDAAKKALEE 308
+FV + ++ ++ +FF++YG ++E + D+ TG KG+ Y VD K + E
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQK--IVE 68
Query: 309 PHKNFEGHILNCQRAIDGPKPGKSRHHNAQNPHFQ 343
NF G L AI R N H Q
Sbjct: 69 SQINFHGKKLKLGPAI--------RKQNLSTYHVQ 95
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 128 PVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARK 187
P HRK+FV L + + F+ +G IE+C + G SKG F+ + + + A+
Sbjct: 13 PSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEEC-TILRGPDGNSKGCAFVKYSSHAEAQA 71
Query: 188 AL 189
A+
Sbjct: 72 AI 73
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 35.8 bits (81), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 3/64 (4%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGK---SKGYGFILFKTRSGARKAL 189
+F+ L + T ETL F + G I+ C K S G+GF+ +K A+KAL
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 190 KEPQ 193
K+ Q
Sbjct: 68 KQLQ 71
>pdb|1ODD|A Chain A, Ompr C-terminal Domain (ompr-c) From Escherichia Coli
Length = 118
Score = 35.8 bits (81), Expect = 0.052, Method: Composition-based stats.
Identities = 23/53 (43%), Positives = 32/53 (60%), Gaps = 7/53 (13%)
Query: 95 EPFSKDQLVNLLR----EAAENHRDVA-SRVRQVADEDPVHRKIF--VHGLGW 140
EP S+D+L+NL R A E DV SR+R++ +EDP H + V GLG+
Sbjct: 57 EPLSRDKLMNLARGREYSAMERSIDVQISRLRRMVEEDPAHPRYIQTVWGLGY 109
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 35.4 bits (80), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
RK+FV LG E + F+ +G I++C V G SKG F+ F+T + A+ A+
Sbjct: 13 RKLFVGMLGKQQTDEDVRKMFEPFGTIDEC-TVLRGPDGTSKGCAFVKFQTHAEAQAAI 70
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 35.0 bits (79), Expect = 0.079, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 31/57 (54%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKAL 306
++V+N+ + +L F KYG I + + DK TG+P+G Y + A++A+
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 72
Score = 28.9 bits (63), Expect = 6.3, Method: Composition-based stats.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
++V L + L F +YG I + DK++G+ +G F+ + R A++A+
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 72
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 34.7 bits (78), Expect = 0.11, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGP-LGIDKATGKPKGFCLFVYKTVDAAKKALE 307
IF+ N+ E++ + L FS +G I + P + D TG KG+ + + DA+ A+E
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIE 66
Score = 30.0 bits (66), Expect = 2.6, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEI-EDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
IF+ L + + L D F +G I + K + D +G SKGY FI F + + A++
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIE 66
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 135 VHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEPQK 194
V L + T +TL F++YG + D D+ + +S+G+ F+ F + A A+
Sbjct: 75 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 134
Query: 195 KIGN-RMTACQLASIG 209
+ + R Q+A G
Sbjct: 135 AVLDGRELRVQMARYG 150
>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 = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 30/57 (52%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKAL 306
++V N+ +++ FSK G+I++ +G+DK GFC Y + A+ A+
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAM 98
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEP 192
++V L E L AF +G I K + + G+SKG+GF+ F + A KA+ E
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 193 QKKI 196
+I
Sbjct: 76 NGRI 79
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 262 QKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPH 310
+ L + FSK G++ ID+ATGK KGF +++ AKK ++ H
Sbjct: 27 KALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFH 75
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
KIFV G+ + L + FK++G + + + D + +G+GFI F+ +A+
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV 69
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 33/75 (44%)
Query: 249 KIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEE 308
KIFV + +L +F K+G + E + D +P+GF ++ + +A+
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 309 PHKNFEGHILNCQRA 323
+ G + +RA
Sbjct: 72 HFHDIMGKKVEVKRA 86
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
RK+FV L E ++ F+ +G I++C V G SKG F+ F + + A+ A+
Sbjct: 16 RKLFVGMLNKQQSEEDVLRLFQPFGVIDEC-TVLRGPDGSSKGCAFVKFSSHTEAQAAI 73
>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 = 33.5 bits (75), Expect = 0.26, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 4/76 (5%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLF-VYKTVDAAKKALEE 308
+FV + ++ ++ +FF++YG ++E + D+ TG KG+ Y VD K + E
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQK--IVE 68
Query: 309 PHKNFEGHILNCQRAI 324
NF G L AI
Sbjct: 69 SQINFHGKKLKLGPAI 84
Score = 33.1 bits (74), Expect = 0.31, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILF 179
+FV G+ + F +YG +++ K + D+ +G SKGYGF+ F
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSF 57
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 33.5 bits (75), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 262 QKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPH 310
+ L + FSK G++ ID+ATGK KGF +++ AKK ++ H
Sbjct: 27 KALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFH 75
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 33.5 bits (75), Expect = 0.28, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 4/76 (5%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLF-VYKTVDAAKKALEE 308
+FV + ++ ++ +FF++YG ++E + D+ TG KG+ Y VD K + E
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQK--IVE 69
Query: 309 PHKNFEGHILNCQRAI 324
NF G L AI
Sbjct: 70 SQINFHGKKLKLGPAI 85
Score = 33.1 bits (74), Expect = 0.34, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILF 179
+FV G+ + F +YG +++ K + D+ +G SKGYGF+ F
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSF 58
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 33.1 bits (74), Expect = 0.30, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAV--------CDKVSGKSKGYGFILFKTRSG 184
IFV GLG + E++ D FKQ G I+ K D+ +GK KG + F
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 185 ARKAL 189
A+ A+
Sbjct: 76 AKAAI 80
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 33.1 bits (74), Expect = 0.31, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 34/62 (54%)
Query: 246 TQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKA 305
T+R ++V + E++ + L A F +G+I + + +D T K +GF ++ + A A
Sbjct: 62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 121
Query: 306 LE 307
++
Sbjct: 122 ID 123
Score = 32.3 bits (72), Expect = 0.61, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 30/59 (50%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
R ++V GL + + L AF +G+I D + D + K +G+ F+ F+ A A+
Sbjct: 64 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 122
>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 = 33.1 bits (74), Expect = 0.34, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 34/62 (54%)
Query: 246 TQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKA 305
T+R ++V + E++ + L A F +G+I + + +D T K +GF ++ + A A
Sbjct: 6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 65
Query: 306 LE 307
++
Sbjct: 66 ID 67
Score = 32.0 bits (71), Expect = 0.64, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 30/59 (50%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
R ++V GL + + L AF +G+I D + D + K +G+ F+ F+ A A+
Sbjct: 8 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 66
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 33.1 bits (74), Expect = 0.36, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAV--------CDKVSGKSKGYGFILFKTRSG 184
IFV GLG + E++ D FKQ G I+ K D+ +GK KG + F
Sbjct: 10 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 69
Query: 185 ARKAL 189
A+ A+
Sbjct: 70 AKAAI 74
>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 = 33.1 bits (74), Expect = 0.36, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 29/55 (52%)
Query: 135 VHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
V L + T +TL F++YG + D D+ + +S+G+ F+ F + A A+
Sbjct: 52 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 106
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 33.1 bits (74), Expect = 0.37, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 34/62 (54%)
Query: 246 TQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKA 305
T+R ++V + E++ + L A F +G+I + + +D T K +GF ++ + A A
Sbjct: 4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 63
Query: 306 LE 307
++
Sbjct: 64 ID 65
Score = 32.0 bits (71), Expect = 0.70, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 30/59 (50%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
R ++V GL + + L AF +G+I D + D + K +G+ F+ F+ A A+
Sbjct: 6 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 64
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 32.7 bits (73), Expect = 0.40, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 29/58 (50%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
+ V+ L D L F+ G I C+ + D +G S GY F+ F + +++A+K
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 32.7 bits (73), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 8/59 (13%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
+FV L E L +F ++G++E K K K Y F+ F+ R A KA+ E
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVK--------KLKDYAFVHFEDRGAAVKAMDE 68
>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 = 32.3 bits (72), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 37/81 (45%), Gaps = 1/81 (1%)
Query: 126 EDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGA 185
E P +F++ L + + L+ F +G + K DK + SK +GF+ + A
Sbjct: 21 EGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSA 80
Query: 186 RKALKEPQK-KIGNRMTACQL 205
+ A++ +IG + QL
Sbjct: 81 QAAIQSMNGFQIGMKRLKVQL 101
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEE 308
+F+ ++ E Q LL F +G + + IDK T K F Y +A+ A++
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQS 86
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 32.3 bits (72), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 29/65 (44%)
Query: 126 EDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGA 185
E P +F++ L + L F +G + K DK + SK +GF+ F A
Sbjct: 36 EGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSA 95
Query: 186 RKALK 190
+ A+K
Sbjct: 96 QVAIK 100
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 249 KIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEE 308
K+F+ + E + L A F K+G I E L D+ T K +GF ++ AK A ++
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 309 PH-KNFEGHILNCQRA 323
+ K+ G + ++A
Sbjct: 68 MNGKSLHGKAIKVEQA 83
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 32.3 bits (72), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 4/66 (6%)
Query: 130 HRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
+ + + L + ETL + F++ I+ V +GKSKGY FI F + A++AL
Sbjct: 15 SKTLVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEAL 70
Query: 190 KEPQKK 195
K+
Sbjct: 71 NSCNKR 76
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 32.3 bits (72), Expect = 0.60, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 34/62 (54%)
Query: 246 TQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKA 305
T+R ++V + E++ + L A F +G+I + + +D T K +GF ++ + A A
Sbjct: 11 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 70
Query: 306 LE 307
++
Sbjct: 71 ID 72
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 30/59 (50%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
R ++V GL + + L AF +G+I D + D + K +G+ F+ F+ A A+
Sbjct: 13 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 71
>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 = 32.3 bits (72), Expect = 0.61, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 30/59 (50%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKAL 189
R ++V GL + + L AF +G+I D + D + K +G+ F+ F+ A A+
Sbjct: 3 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 61
Score = 32.0 bits (71), Expect = 0.79, Method: Composition-based stats.
Identities = 15/62 (24%), Positives = 34/62 (54%)
Query: 246 TQRKIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKA 305
++R ++V + E++ + L A F +G+I + + +D T K +GF ++ + A A
Sbjct: 1 SKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 60
Query: 306 LE 307
++
Sbjct: 61 ID 62
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 32.0 bits (71), Expect = 0.79, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 126 EDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFK 180
++ R +FV L + E L + F Q G + +C GK K +GF+ FK
Sbjct: 12 QEEADRTVFVGNLEARVREEILYELFLQAGPLTKV-TICKDREGKPKSFGFVCFK 65
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 32.0 bits (71), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 133 IFVHGLGWDTKAETLIDAFKQYG--EIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
++V W T + LI + G ++ + K ++ +G+SKGY ++ + + K L+
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 191 EPQKKIGN 198
K+ N
Sbjct: 118 LLPGKVLN 125
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 31.6 bits (70), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%)
Query: 249 KIFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEE 308
K+F+ + L+ + L F ++G+I E + D+ TG KG Y ++A KA
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 309 PHK 311
H+
Sbjct: 75 LHE 77
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 123 VADEDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTR 182
+ D D + K+F+ + + + L F+++G+I + + D+ +G KG F+ + R
Sbjct: 8 MKDHDAI--KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCER 65
Query: 183 SGARKA 188
A KA
Sbjct: 66 ESALKA 71
>pdb|1NB8|A Chain A, Structure Of The Catalytic Domain Of Usp7 (Hausp)
pdb|1NB8|B Chain B, Structure Of The Catalytic Domain Of Usp7 (Hausp)
Length = 353
Score = 31.6 bits (70), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 128 PVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKG 173
PV K GW+T +D+F Q+ E C+ + D V K KG
Sbjct: 66 PVGTKKLTKSFGWET-----LDSFXQHDVQELCRVLLDNVENKXKG 106
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 31.6 bits (70), Expect = 1.0, Method: Composition-based stats.
Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 133 IFVHGLGWDTKAETLIDAF-KQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
+FV L D L + F K Y K V D+ +G SKGYGF+ F ++AL E
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFTDELEQKRALTE 70
Query: 192 PQKKIG 197
Q +G
Sbjct: 71 CQGAVG 76
>pdb|1NBF|A Chain A, Crystal Structure Of A Ubp-Family Deubiquitinating Enzyme
In Isolation And In Complex With Ubiquitin Aldehyde
pdb|1NBF|B Chain B, Crystal Structure Of A Ubp-Family Deubiquitinating Enzyme
In Isolation And In Complex With Ubiquitin Aldehyde
pdb|1NBF|E Chain E, Crystal Structure Of A Ubp-Family Deubiquitinating Enzyme
In Isolation And In Complex With Ubiquitin Aldehyde
Length = 353
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 128 PVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKG 173
PV K GW+T +D+F Q+ E C+ + D V K KG
Sbjct: 66 PVGTKKLTKSFGWET-----LDSFMQHDVQELCRVLLDNVENKMKG 106
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 125 DEDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSG 184
D D + K+FV + + L F+++G I + + D+++G KG F+ + R
Sbjct: 12 DHDAI--KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDS 69
Query: 185 ARKA 188
A KA
Sbjct: 70 ALKA 73
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 128 PVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKG 173
PV K GW+T +D+F Q+ E C+ + D V K KG
Sbjct: 235 PVGTKKLTKSFGWET-----LDSFMQHDVQELCRVLLDNVENKMKG 275
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 30/59 (50%), Gaps = 8/59 (13%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
K+F+ L + + + F+QYG++ +C + K YGF+ + ++ A A++
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIR 60
>pdb|1WG5|A Chain A, Solution Structure Of The First Rrm Domain In
Heterogeneous Nuclear Ribonucleoprotein H
Length = 104
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 33/65 (50%)
Query: 135 VHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKEPQK 194
+ GL + E ++ F + + + G+S G F+ F ++ A KALK+ ++
Sbjct: 20 LRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKE 79
Query: 195 KIGNR 199
+IG+R
Sbjct: 80 RIGHR 84
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 152 KQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKA 188
+ +G +E C V + +G+SKGYGF + + A +A
Sbjct: 117 RPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 30.4 bits (67), Expect = 1.9, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 12/63 (19%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCD---KVSGKS----KGYGFILFKTRS 183
RK+FV GL D + + +F+++G + V D K KS KGY F+LF+ S
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFGPL-----VVDWPHKAESKSYFPPKGYAFLLFQEES 63
Query: 184 GAR 186
+
Sbjct: 64 SVQ 66
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/99 (20%), Positives = 44/99 (44%), Gaps = 6/99 (6%)
Query: 90 ILSLLEPFSKDQLVNLLREAAENHRDVASRVRQVADEDPVHRKIFVHGLGWDTKAETLID 149
++LL + +N ++ R+++ +++ P + V L + +
Sbjct: 61 FVTLLNGEQAEAAINAFHQSRLRERELSVQLQ------PTDALLCVANLPPSLTQQQFEE 114
Query: 150 AFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKA 188
+ +G +E C V + +G+SKGYGF + + A +A
Sbjct: 115 LVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 36/83 (43%), Gaps = 9/83 (10%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGP--------LGIDKATGKPKGFCLFVYKTVDA 301
I+V + + L FF + G ++ + +DK TGKPKG Y+
Sbjct: 18 IYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPT 77
Query: 302 AKKALEE-PHKNFEGHILNCQRA 323
AK A+E K+F+G L A
Sbjct: 78 AKAAVEWFDGKDFQGSKLKVSLA 100
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 8/74 (10%)
Query: 125 DEDPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAV--------CDKVSGKSKGYGF 176
DED + I+V GL + L D FKQ G ++ K DK +GK KG
Sbjct: 10 DEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDAT 69
Query: 177 ILFKTRSGARKALK 190
+ ++ A+ A++
Sbjct: 70 VSYEDPPTAKAAVE 83
>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 = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 152 KQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKA 188
+ +G +E C V + +G+SKGYGF + + A +A
Sbjct: 115 RPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 30.0 bits (66), Expect = 2.7, Method: Composition-based stats.
Identities = 25/72 (34%), Positives = 34/72 (47%), Gaps = 8/72 (11%)
Query: 126 EDPVHRKIFVHGLGWDTKAET-LIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSG 184
ED ++V GLG DT ET L + F Q+GEI V + + FI F TR
Sbjct: 8 EDKTITTLYVGGLG-DTITETDLRNHFYQFGEIRTITVV------QRQQCAFIQFATRQA 60
Query: 185 ARKALKEPQKKI 196
A A ++ K+
Sbjct: 61 AEVAAEKSFNKL 72
>pdb|3S8S|A Chain A, Crystal Structure Of The Rrm Domain Of Human Setd1a
Length = 110
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 141 DTKAETLI-DAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
D ET + D ++YGE+E+ + + + K G +LF + GA++ +K
Sbjct: 16 DNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVK 66
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 270 KYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKALEEPH-KNFEGHILNCQRAIDG 326
KYGE+EE + + T K G ++ + AK+ ++ H + G+I++ Q I G
Sbjct: 29 KYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDIKG 86
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 5/63 (7%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
R + L ++ + L + F+ EI GKSKG +I FK+ + A K L+
Sbjct: 100 RTLLAKNLSFNITEDELKEVFEDALEIRLVSQ-----DGKSKGIAYIEFKSEADAEKNLE 154
Query: 191 EPQ 193
E Q
Sbjct: 155 EKQ 157
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 27/63 (42%), Gaps = 5/63 (7%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
R + L + + L + F+ EI GKSKG +I FKT + A K +
Sbjct: 94 RTLLAKNLPYKVTQDELKEVFEDAAEIRLVSK-----DGKSKGIAYIEFKTEADAEKTFE 148
Query: 191 EPQ 193
E Q
Sbjct: 149 EKQ 151
>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 = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 39/84 (46%), Gaps = 2/84 (2%)
Query: 127 DPVHRKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGAR 186
D H K+F+ GL + + + +G ++ V D +G SKGY F + +
Sbjct: 112 DSAH-KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTD 170
Query: 187 KALKEPQ-KKIGNRMTACQLASIG 209
+A+ ++G++ Q AS+G
Sbjct: 171 QAIAGLNGMQLGDKKLLVQRASVG 194
>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 = 28.9 bits (63), Expect = 5.7, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 250 IFVSNVGSELEPQKLLAFFSKYGEIEEGPLGIDKATGKPKGFCLFVYKTVDAAKKAL 306
++V N+ +++ FSK G+I++ +G+DK GFC Y + A+ A+
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK-TACGFCFVEYYSRADAENAM 76
>pdb|1DG3|A Chain A, Structure Of Human Guanylate Binding Protein-1 In
Nucleotide Free Form
pdb|1F5N|A Chain A, Human Guanylate Binding Protein-1 In Complex With The Gtp
Analogue, Gmppnp
Length = 592
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 16/31 (51%)
Query: 286 GKPKGFCLFVYKTVDAAKKALEEPHKNFEGH 316
KP G+ LFV K D KK EEP K +
Sbjct: 428 SKPGGYRLFVQKLQDLKKKYYEEPRKGIQAE 458
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 28.5 bits (62), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGK-SKGYGFILFKTRSGARKALK 190
K+ + L + + +++ F YG+I+ +++ SKGY ++ F+ A KALK
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 28.5 bits (62), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKS--KGYGFILFKTRSGARKAL 189
KI V + + + + F +GE++ + + K++G +G+GF+ F T+ A+KA
Sbjct: 17 KILVRNIPFQANQREIRELFSTFGELKTVR-LPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 28.1 bits (61), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 132 KIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALKE 191
K+ V L + + + F ++G ++ D+ SG+S G + F+ R+ A KA+K+
Sbjct: 90 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMKQ 148
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 28.1 bits (61), Expect = 9.9, Method: Composition-based stats.
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 5/63 (7%)
Query: 131 RKIFVHGLGWDTKAETLIDAFKQYGEIEDCKAVCDKVSGKSKGYGFILFKTRSGARKALK 190
R + L ++ + L + F+ EI GKSKG +I FK+ + A K L+
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALEIRLVSQ-----DGKSKGIAYIEFKSEADAEKNLE 71
Query: 191 EPQ 193
E Q
Sbjct: 72 EKQ 74
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.316 0.134 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,511,789
Number of Sequences: 62578
Number of extensions: 284523
Number of successful extensions: 968
Number of sequences better than 100.0: 144
Number of HSP's better than 100.0 without gapping: 106
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 701
Number of HSP's gapped (non-prelim): 291
length of query: 453
length of database: 14,973,337
effective HSP length: 102
effective length of query: 351
effective length of database: 8,590,381
effective search space: 3015223731
effective search space used: 3015223731
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)