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= 013270
(446 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 84.7 bits (208), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 51/171 (29%), Positives = 86/171 (50%), Gaps = 4/171 (2%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
RK+F+ GL ++TT ESL S F G + +C ++ D T +++GF F+ + T + A+
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 167 NPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFG 226
KV+ R+ + A ++ A +KI+V + D E+ LR +FE++G
Sbjct: 74 ARPHKVDGRVVEPKRAVSREDS----QRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYG 129
Query: 227 EIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMFEGHQLQCQKA 277
+IE I D +GK RGFA + + K + + GH + +KA
Sbjct: 130 KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 180
>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 = 84.7 bits (208), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 51/171 (29%), Positives = 86/171 (50%), Gaps = 4/171 (2%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
RK+F+ GL ++TT ESL S F G + +C ++ D T +++GF F+ + T + A+
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66
Query: 167 NPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFG 226
KV+ R+ + A ++ A +KI+V + D E+ LR +FE++G
Sbjct: 67 ARPHKVDGRVVEPKRAVSREDS----QRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYG 122
Query: 227 EIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMFEGHQLQCQKA 277
+IE I D +GK RGFA + + K + + GH + +KA
Sbjct: 123 KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 173
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 51/171 (29%), Positives = 86/171 (50%), Gaps = 4/171 (2%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
RK+F+ GL ++TT ESL S F G + +C ++ D T +++GF F+ + T + A+
Sbjct: 12 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 71
Query: 167 NPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFG 226
KV+ R+ + A ++ A +KI+V + D E+ LR +FE++G
Sbjct: 72 ARPHKVDGRVVEPKRAVSREDS----QRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYG 127
Query: 227 EIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMFEGHQLQCQKA 277
+IE I D +GK RGFA + + K + + GH + +KA
Sbjct: 128 KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 178
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 84.3 bits (207), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 51/171 (29%), Positives = 86/171 (50%), Gaps = 4/171 (2%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
RK+F+ GL ++TT ESL S F G + +C ++ D T +++GF F+ + T + A+
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 167 NPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFG 226
KV+ R+ + A ++ A +KI+V + D E+ LR +FE++G
Sbjct: 74 ARPHKVDGRVVEPKRAVSREDS----QRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYG 129
Query: 227 EIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMFEGHQLQCQKA 277
+IE I D +GK RGFA + + K + + GH + +KA
Sbjct: 130 KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 180
>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 = 84.3 bits (207), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 51/171 (29%), Positives = 86/171 (50%), Gaps = 4/171 (2%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
RK+F+ GL ++TT ESL S F G + +C ++ D T +++GF F+ + T + A+
Sbjct: 13 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 72
Query: 167 NPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFG 226
KV+ R+ + A ++ A +KI+V + D E+ LR +FE++G
Sbjct: 73 ARPHKVDGRVVEPKRAVSREDS----QRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYG 128
Query: 227 EIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMFEGHQLQCQKA 277
+IE I D +GK RGFA + + K + + GH + +KA
Sbjct: 129 KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 179
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 84.3 bits (207), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 51/171 (29%), Positives = 86/171 (50%), Gaps = 4/171 (2%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
RK+F+ GL ++TT ESL S F G + +C ++ D T +++GF F+ + T + A+
Sbjct: 15 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 74
Query: 167 NPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFG 226
KV+ R+ + A ++ A +KI+V + D E+ LR +FE++G
Sbjct: 75 ARPHKVDGRVVEPKRAVSREDS----QRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYG 130
Query: 227 EIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMFEGHQLQCQKA 277
+IE I D +GK RGFA + + K + + GH + +KA
Sbjct: 131 KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 181
>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 = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 47/157 (29%), Positives = 81/157 (51%), Gaps = 9/157 (5%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
S+ + V+ L + TQE S FG GEIE CKLV DK+TG++ G+ F+ + K A KA
Sbjct: 1 SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKA 60
Query: 165 LKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFER 224
+ N + + + +++ P+ +++ +YVS +P+ + +++L F +
Sbjct: 61 I-NTLNGLRLQTKTIKVSYARPSSASIRDAN--------LYVSGLPKTMTQKELEQLFSQ 111
Query: 225 FGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
+G I T I D TG SRG + A +A++
Sbjct: 112 YGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK 148
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 48/163 (29%), Positives = 79/163 (48%), Gaps = 13/163 (7%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNP 168
+ V+ L + TQ+ L S F GE+E KL+ DKV G + G+ F+ + T K A +A+ N
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI-NT 63
Query: 169 QRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEI 228
+ + + +++ P+ +K+ +Y+S +PR + ++ + F RFG I
Sbjct: 64 LNGLRLQSKTIKVSYARPSSEVIKDAN--------LYISGLPRTMTQKDVEDMFSRFGRI 115
Query: 229 ETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMFEGHQ 271
+ D TTG SRG A + R EE F GH+
Sbjct: 116 INSRVLVDQTTGLSRGVAFIRFD----KRSEAEEAITSFNGHK 154
>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 = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 48/163 (29%), Positives = 79/163 (48%), Gaps = 13/163 (7%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNP 168
+ V+ L + TQ+ L S F GE+E KL+ DKV G + G+ F+ + T K A +A+ N
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI-NT 63
Query: 169 QRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEI 228
+ + + +++ P+ +K+ +Y+S +PR + ++ + F RFG I
Sbjct: 64 LNGLRLQSKTIKVSYARPSSEVIKDAN--------LYISGLPRTMTQKDVEDMFSRFGRI 115
Query: 229 ETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMFEGHQ 271
+ D TTG SRG A + R EE F GH+
Sbjct: 116 INSRVLVDQTTGLSRGVAFIRFD----KRSEAEEAITSFNGHK 154
>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 = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 45/174 (25%), Positives = 92/174 (52%), Gaps = 5/174 (2%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK- 166
+++V + ++ ++++ AF G I+ + D VT K KGFAF+ ++ +AA AL+
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 89
Query: 167 -NPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERF 225
N + + +++G P + + A+ +IYV++V +D+ + ++ FE F
Sbjct: 90 MNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAF 149
Query: 226 GEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMFE--GHQLQCQKA 277
G+I++ + D TTGK +G+ Y+ + ++ A+ +F+ G L+ KA
Sbjct: 150 GKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSS-MNLFDLGGQYLRVGKA 202
>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 = 72.4 bits (176), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 45/170 (26%), Positives = 86/170 (50%), Gaps = 11/170 (6%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
K+F+ GL WDTT+++L FG G + + K++ D TG+++GF F+ F+ + ++V +
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFE-KPSSVDEVVK 63
Query: 168 PQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGE 227
Q ++ ++ + A P EQ KI+V + DV ++ FF ++G
Sbjct: 64 TQHILDGKVIDPKRAI--PR----DEQDKTG----KIFVGGIGPDVRPKEFEEFFSQWGT 113
Query: 228 IETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMFEGHQLQCQKA 277
I + D TG+SRGF Y + + + + F+ +++ ++A
Sbjct: 114 IIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIKRA 163
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 72.0 bits (175), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 43/157 (27%), Positives = 80/157 (50%), Gaps = 9/157 (5%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
S+ + V+ L + TQ+ S FG G+IE CKLV DK+TG++ G+ F+ + A KA
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
Query: 165 LKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFER 224
+ N + + + +++ P+ +++ +YVS +P+ + ++++ F +
Sbjct: 63 I-NTLNGLKLQTKTIKVSYARPSSASIRDAN--------LYVSGLPKTMSQKEMEQLFSQ 113
Query: 225 FGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
+G I T I D TG SRG + A +A++
Sbjct: 114 YGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 150
>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 = 72.0 bits (175), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 39/155 (25%), Positives = 84/155 (54%), Gaps = 2/155 (1%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
+++V + ++ ++++ AF G I+ + D VT K KGFAF+ ++ +AA AL+
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 168 PQRKV--NNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERF 225
+ + + +++G P + + A+ +IYV++V +D+ + ++ FE F
Sbjct: 75 MNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAF 134
Query: 226 GEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
G+I++ + D TTGK +G+ Y+ + ++ A+
Sbjct: 135 GKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 169
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 83/155 (53%), Gaps = 2/155 (1%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK- 166
+++V + ++ ++++ AF G I+ D VT K KGFAF+ ++ +AA AL+
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 167 -NPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERF 225
N + + +++G P + + A+ +IYV++V +D+ + ++ FE F
Sbjct: 74 XNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAF 133
Query: 226 GEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
G+I++ + D TTGK +G+ Y+ + ++ A+
Sbjct: 134 GKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 168
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 34/60 (56%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
+I+V + D + + + S F G+I+ C L D TGK KG+ FI ++ +++ A+ +
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 170
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 6/72 (8%)
Query: 197 AAQGER------KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVY 250
AAQ +R ++YV ++ ++ ++ +R F FG I++ +D T K +GFA Y
Sbjct: 2 AAQRQRALAIXCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEY 61
Query: 251 KTVEGARKALEE 262
+ E A+ ALE+
Sbjct: 62 EVPEAAQLALEQ 73
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 68.9 bits (167), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 34/84 (40%), Positives = 51/84 (60%)
Query: 102 RDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAA 161
+D + KIFV GL + TT SL F G G+IEE ++ D+ TGK++G+ F+ R AA
Sbjct: 13 KDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAA 72
Query: 162 VKALKNPQRKVNNRMASCQLASVG 185
+A K+P ++ R A+ LA +G
Sbjct: 73 ERACKDPNPIIDGRKANVNLAYLG 96
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 37/78 (47%)
Query: 203 KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEE 262
KI+V +P LR +FE FG+IE + D TGKSRG+ A +A ++
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 263 PQKMFEGHQLQCQKAAEG 280
P + +G + A G
Sbjct: 79 PNPIIDGRKANVNLAYLG 96
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 67.4 bits (163), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 43/156 (27%), Positives = 74/156 (47%), Gaps = 9/156 (5%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
S + V+ L D T L + F G I C+++ D TG + G+AF+ F + + +A
Sbjct: 2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 61
Query: 165 LKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFER 224
+K + R +++ P G +K+ +YV+N+PR + ++L F +
Sbjct: 62 IK-VLNGITVRNKRLKVSYARPGGESIKDTN--------LYVTNLPRTITDDQLDTIFGK 112
Query: 225 FGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
+G I I D TG+ RG A Y E A++A+
Sbjct: 113 YGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 148
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%)
Query: 104 VSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVK 163
+ ++V L T + L + FG G I + ++ DK+TG+ +G AF+ + R+ A +
Sbjct: 87 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQE 146
Query: 164 AL 165
A+
Sbjct: 147 AI 148
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 206 VSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
V+ +P+D+ +L F G I T I D TG S G+A + + +++A++
Sbjct: 8 VNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
>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 = 65.9 bits (159), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 74/160 (46%), Gaps = 9/160 (5%)
Query: 101 DRDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKA 160
D S + V+ L D T L + F G I C++ D TG + G+AF+ F +
Sbjct: 9 DPRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXD 68
Query: 161 AVKALKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRG 220
+ +A+K + R +++ P G +K+ +YV+N+PR + ++L
Sbjct: 69 SQRAIK-VLNGITVRNKRLKVSYARPGGESIKDTN--------LYVTNLPRTITDDQLDT 119
Query: 221 FFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
F ++G I I D TG+ RG A Y E A++A+
Sbjct: 120 IFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 159
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 29/58 (50%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
+ V+ +P+D +L F G I T I D TG S G+A + + +++A++
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIK 74
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 62.0 bits (149), Expect = 7e-10, Method: Composition-based stats.
Identities = 24/68 (35%), Positives = 44/68 (64%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNP 168
+F+ GL WDTT++ L F GE+ +C L +D +TG+++GF F++FK ++ K +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 169 QRKVNNRM 176
+ K+N ++
Sbjct: 62 EHKLNGKV 69
Score = 46.2 bits (108), Expect = 4e-05, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 39/74 (52%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEP 263
+++ + D K+ L+ +F +FGE+ + D TG+SRGF ++K E K +++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 264 QKMFEGHQLQCQKA 277
+ G + ++A
Sbjct: 62 EHKLNGKVIDPKRA 75
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 45/75 (60%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
K+F+ GL W TTQE L FG GE++EC ++ D +T +++GF F+ F + K L
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
Query: 168 PQRKVNNRMASCQLA 182
+ +++++ ++A
Sbjct: 87 SRHELDSKTIDPKVA 101
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 30/60 (50%)
Query: 203 KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEE 262
K+++ + +E LR +F +FGE++ + D T +SRGF + G K L +
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 57.4 bits (137), Expect = 2e-08, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 45/75 (60%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
K+F+ GL W TTQE L FG GE++EC ++ D +T +++GF F+ F + K L
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 168 PQRKVNNRMASCQLA 182
+ +++++ ++A
Sbjct: 62 SRHELDSKTIDPKVA 76
Score = 35.0 bits (79), Expect = 0.093, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 31/62 (50%)
Query: 203 KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEE 262
K+++ + +E LR +F +FGE++ + D T +SRGF + G K L +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 263 PQ 264
+
Sbjct: 62 SR 63
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 57.4 bits (137), Expect = 2e-08, Method: Composition-based stats.
Identities = 30/85 (35%), Positives = 45/85 (52%), Gaps = 3/85 (3%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
K+FV GL W TTQE+L S F GE+ +C ++ DK T +++GF F+ FK L +
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 168 PQRKVNNRM---ASCQLASVGPTGP 189
++ R C + P+GP
Sbjct: 78 RPHTLDGRNIDPKPCTPRGMQPSGP 102
Score = 35.4 bits (80), Expect = 0.061, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 27/49 (55%)
Query: 203 KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYK 251
K++V + +E LR +F ++GE+ I D TT +SRGF +K
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFK 66
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 42/175 (24%), Positives = 81/175 (46%), Gaps = 11/175 (6%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
R ++V L T++ L F G I K++IDK K +AF+ + A AL+
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQ 59
Query: 167 NPQ-RKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERF 225
+++ N + A + Q +++ ++V ++ +V+ E LR F+ F
Sbjct: 60 TLNGKQIENNIVKINWA--------FQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDF 111
Query: 226 GEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQ-KMFEGHQLQCQKAAE 279
+G + +D+ TG SRG+ + + + A+ A++ Q + G L+ AA+
Sbjct: 112 PSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK 166
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 55.5 bits (132), Expect = 6e-08, Method: Composition-based stats.
Identities = 25/69 (36%), Positives = 41/69 (59%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
K FV GL WDT+++ L F GE+ +C + D TG+++GF FI+FK + K L
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 168 PQRKVNNRM 176
+ +++ R+
Sbjct: 73 KEHRLDGRV 81
Score = 48.9 bits (115), Expect = 6e-06, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 39/75 (52%)
Query: 203 KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEE 262
K +V + D K+ L+ +F +FGE+ I D TG+SRGF ++K K L++
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 263 PQKMFEGHQLQCQKA 277
+ +G + +KA
Sbjct: 73 KEHRLDGRVIDPKKA 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 = 53.5 bits (127), Expect = 2e-07, Method: Composition-based stats.
Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 2/75 (2%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
+KIFV GL DT +E + FGG GE+E +L +D T K +GF FI FK + K ++
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
Query: 167 NPQRKVNNRMASCQL 181
V ++ C++
Sbjct: 62 KKYHNVG--LSKCEI 74
Score = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 35/61 (57%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
+KI+V + D +EK+R +F FGE+E+ + D T K RGF +K E +K +E
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
Query: 262 E 262
+
Sbjct: 62 K 62
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 51.2 bits (121), Expect = 1e-06, Method: Composition-based stats.
Identities = 27/73 (36%), Positives = 40/73 (54%), Gaps = 2/73 (2%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNP 168
IFV GL DT +E + FGG GE+E +L +D T K +GF FI FK + K ++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 169 QRKVNNRMASCQL 181
V ++ C++
Sbjct: 62 YHNVG--LSKCEI 72
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/59 (35%), Positives = 33/59 (55%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEE 262
I+V + D +EK+R +F FGE+E+ + D T K RGF +K E +K +E+
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 50.8 bits (120), Expect = 2e-06, Method: Composition-based stats.
Identities = 24/74 (32%), Positives = 41/74 (55%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNP 168
IFV GL +TT E + F G++++ L+ DK T + +GF F+ F++ K +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 169 QRKVNNRMASCQLA 182
++NN+M C+ A
Sbjct: 62 FHEINNKMVECKKA 75
Score = 42.0 bits (97), Expect = 8e-04, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 38/74 (51%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEP 263
I+V + + E ++ +FE+FG+++ + FD TT + RGF +++ + K E
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 264 QKMFEGHQLQCQKA 277
++C+KA
Sbjct: 62 FHEINNKMVECKKA 75
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 50.4 bits (119), Expect = 2e-06, Method: Composition-based stats.
Identities = 25/70 (35%), Positives = 44/70 (62%), Gaps = 2/70 (2%)
Query: 193 EQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKT 252
++G+A G ++YV ++ ++ ++ LRG FE FG IE+ + D TG+S+G+ +
Sbjct: 20 QKGSA--GPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSD 77
Query: 253 VEGARKALEE 262
E A+KALE+
Sbjct: 78 SECAKKALEQ 87
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/59 (35%), Positives = 36/59 (61%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
+++V L ++ T++ L F G IE +L++D TG++KG+ FI F + A KAL+
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALE 86
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 46/171 (26%), Positives = 79/171 (46%), Gaps = 15/171 (8%)
Query: 103 DVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTG--KAKGFAFIVFKTRKA 160
D+ K+FV + +++ L F G + E ++ D+ ++KG F+ F TRKA
Sbjct: 12 DLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKA 71
Query: 161 AVKALKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRG 220
A++A Q ++N + P E+ A + +RK+++ + + + +R
Sbjct: 72 ALEA----QNALHNMKVLPGMHHPIQMKPADSEKNNAVE-DRKLFIGMISKKCTENDIRV 126
Query: 221 FFERFGEIETGPI--GFDITTGKSRGFAIFVYKT---VEGARKALEEPQKM 266
F FG+IE I G D G SRG A + T + A KA+ + Q M
Sbjct: 127 MFSSFGQIEECRILRGPD---GLSRGCAFVTFTTRAMAQTAIKAMHQAQTM 174
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 44/83 (53%), Gaps = 6/83 (7%)
Query: 89 IPLLHDHI-LETADRD----VSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKV 143
+P +H I ++ AD + V RK+F+ + T+ + F G+IEEC+ ++
Sbjct: 85 LPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECR-ILRGP 143
Query: 144 TGKAKGFAFIVFKTRKAAVKALK 166
G ++G AF+ F TR A A+K
Sbjct: 144 DGLSRGCAFVTFTTRAMAQTAIK 166
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 49.3 bits (116), Expect = 5e-06, Method: Composition-based stats.
Identities = 24/61 (39%), Positives = 37/61 (60%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
S+ + V+ L + TQ+ S FG G+IE CKLV DK+TG++ G+ F+ + A KA
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
Query: 165 L 165
+
Sbjct: 63 I 63
Score = 32.0 bits (71), Expect = 0.76, Method: Composition-based stats.
Identities = 15/57 (26%), Positives = 31/57 (54%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
+ V+ +P+++ +++ + F G+IE+ + D TG+S G+ Y A KA+
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 45/166 (27%), Positives = 77/166 (46%), Gaps = 15/166 (9%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTG--KAKGFAFIVFKTRKAAVKAL 165
K+FV + +++ L F G + E ++ D+ ++KG F+ F TRKAA++A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA- 63
Query: 166 KNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERF 225
Q ++N + P E+ A + +RK+++ + + + +R F F
Sbjct: 64 ---QNALHNMKVLPGMHHPIQMKPADSEKNNAVE-DRKLFIGMISKKCTENDIRVMFSSF 119
Query: 226 GEIETGPI--GFDITTGKSRGFAIFVYKT---VEGARKALEEPQKM 266
G+IE I G D G SRG A + T + A KA+ + Q M
Sbjct: 120 GQIEECRILRGPD---GLSRGCAFVTFTTRAMAQTAIKAMHQAQTM 162
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 44/83 (53%), Gaps = 6/83 (7%)
Query: 89 IPLLHDHI-LETADRD----VSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKV 143
+P +H I ++ AD + V RK+F+ + T+ + F G+IEEC+ ++
Sbjct: 73 LPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECR-ILRGP 131
Query: 144 TGKAKGFAFIVFKTRKAAVKALK 166
G ++G AF+ F TR A A+K
Sbjct: 132 DGLSRGCAFVTFTTRAMAQTAIK 154
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 47.0 bits (110), Expect = 2e-05, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 38/65 (58%)
Query: 103 DVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAV 162
D S R +FV + ++ T+E L F G + +LV D+ TGK KG+ F ++ ++ A+
Sbjct: 5 DRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETAL 64
Query: 163 KALKN 167
A++N
Sbjct: 65 SAMRN 69
Score = 45.4 bits (106), Expect = 6e-05, Method: Composition-based stats.
Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 1/83 (1%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
R ++V N+P + +E+L+ F G + + + +D TGK +G+ Y+ E A A+
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68
Query: 262 EPQ-KMFEGHQLQCQKAAEGKNR 283
+ F G L+ AA KN+
Sbjct: 69 NLNGREFSGRALRVDNAASEKNK 91
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 32/57 (56%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
++FV L + +++E L F G + E ID +T K KGFAF+ F + AVKA
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKA 66
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 46.2 bits (108), Expect = 4e-05, Method: Composition-based stats.
Identities = 22/66 (33%), Positives = 39/66 (59%)
Query: 197 AAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGA 256
+ G +YV ++ ++ ++ LRG FE FG+I+ + D TG+S+G+ + E A
Sbjct: 1 GSSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECA 60
Query: 257 RKALEE 262
R+ALE+
Sbjct: 61 RRALEQ 66
Score = 36.6 bits (83), Expect = 0.030, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 34/58 (58%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
++V L ++ T++ L F G+I+ L+ D TG++KG+ FI F + A +AL+
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 45.4 bits (106), Expect = 6e-05, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 46/81 (56%), Gaps = 1/81 (1%)
Query: 97 LETADRDVSQ-RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVF 155
LE R+ Q RK+F+ GL ++TT+ESL + + G++ +C ++ D + +++GF F+ F
Sbjct: 17 LERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTF 76
Query: 156 KTRKAAVKALKNPQRKVNNRM 176
+ A+ ++ R+
Sbjct: 77 SSMAEVDAAMAARPHSIDGRV 97
Score = 33.9 bits (76), Expect = 0.19, Method: Composition-based stats.
Identities = 15/76 (19%), Positives = 39/76 (51%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
RK+++ + + +E LR ++E++G++ + D + +SRGF + ++ A+
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA 87
Query: 262 EPQKMFEGHQLQCQKA 277
+G ++ ++A
Sbjct: 88 ARPHSIDGRVVEPKRA 103
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 45.1 bits (105), Expect = 8e-05, Method: Composition-based stats.
Identities = 22/58 (37%), Positives = 35/58 (60%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKAL 165
K+FV GL +DT ++SL F G+I E +V D+ T +++GF F+ F+ A A+
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAM 71
Score = 38.5 bits (88), Expect = 0.007, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 43/86 (50%), Gaps = 1/86 (1%)
Query: 198 AQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGAR 257
A E K++V + D ++ L F ++G+I + D T +SRGF ++ ++ A+
Sbjct: 9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAK 68
Query: 258 KALEEPQ-KMFEGHQLQCQKAAEGKN 282
A+ K +G Q++ +A + +
Sbjct: 69 DAMMAMNGKSVDGRQIRVDQAGKSSD 94
>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 = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 39/163 (23%), Positives = 70/163 (42%), Gaps = 17/163 (10%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNP 168
++V L D T+ L F +G I ++ D +T ++ G+A++ F+ A +AL
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 77
Query: 169 QRKVNN----RMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFER 224
V R+ Q P +++ G I++ N+ + ++ + L F
Sbjct: 78 NFDVIKGKPVRIMWSQ------RDPSLRKSGVG-----NIFIKNLDKSIDNKALYDTFSA 126
Query: 225 FGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMF 267
FG I + + D K GF F +T E A +A+E+ M
Sbjct: 127 FGNILSCKVVCDENGSKGYGFVHF--ETQEAAERAIEKMNGML 167
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 36/60 (60%), Gaps = 1/60 (1%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
K+F+ GL +T ++ L + FG G I E L+ D+ T K++GFAFI F+ A A K+
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/163 (23%), Positives = 70/163 (42%), Gaps = 17/163 (10%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNP 168
++V L D T+ L F +G I ++ D +T ++ G+A++ F+ A +AL
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 169 QRKVNN----RMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFER 224
V R+ Q P +++ G I++ N+ + ++ + L F
Sbjct: 73 NFDVIKGKPVRIMWSQ------RDPSLRKSGVG-----NIFIKNLDKSIDNKALYDTFSA 121
Query: 225 FGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMF 267
FG I + + D K GF F +T E A +A+E+ M
Sbjct: 122 FGNILSCKVVCDENGSKGYGFVHF--ETQEAAERAIEKMNGML 162
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
R +++ + +D T+E +L G + K++ D TG++KG+AFI F+ +++ A++
Sbjct: 3 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVR 62
Query: 167 NPQ-RKVNNRMASCQLAS 183
N ++ +R C +S
Sbjct: 63 NLNGYQLGSRFLKCGYSS 80
Score = 36.2 bits (82), Expect = 0.035, Method: Composition-based stats.
Identities = 18/71 (25%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
R +Y+ ++P D +E++ G + + FD TG+S+G+A ++ +E + A+
Sbjct: 3 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV- 61
Query: 262 EPQKMFEGHQL 272
+ G+QL
Sbjct: 62 ---RNLNGYQL 69
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/69 (37%), Positives = 41/69 (59%), Gaps = 6/69 (8%)
Query: 102 RDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTR--- 158
R + +FV GL DTT+E+L +F GS ++V D+ TG +KGF F+ F +
Sbjct: 11 RSQPSKTLFVKGLSEDTTEETLKESFDGS---VRARIVTDRETGSSKGFGFVDFNSEEDA 67
Query: 159 KAAVKALKN 167
KAA +A+++
Sbjct: 68 KAAKEAMED 76
Score = 29.3 bits (64), Expect = 4.3, Method: Composition-based stats.
Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 8/80 (10%)
Query: 182 ASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGK 241
S G +GP A +Q + ++V + D +E L+ E F I D TG
Sbjct: 1 GSSGSSGPN-----ARSQPSKTLFVKGLSEDTTEETLK---ESFDGSVRARIVTDRETGS 52
Query: 242 SRGFAIFVYKTVEGARKALE 261
S+GF + + E A+ A E
Sbjct: 53 SKGFGFVDFNSEEDAKAAKE 72
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
R +++ + +D T+E +L G + K++ D TG++KG+AFI F+ +++ A++
Sbjct: 5 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVR 64
Query: 167 NPQ-RKVNNRMASCQLAS 183
N ++ +R C +S
Sbjct: 65 NLNGYQLGSRFLKCGYSS 82
Score = 36.2 bits (82), Expect = 0.039, Method: Composition-based stats.
Identities = 18/71 (25%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
R +Y+ ++P D +E++ G + + FD TG+S+G+A ++ +E + A+
Sbjct: 5 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV- 63
Query: 262 EPQKMFEGHQL 272
+ G+QL
Sbjct: 64 ---RNLNGYQL 71
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
R +++ + +D T+E +L G + K++ D TG++KG+AFI F+ +++ A++
Sbjct: 4 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVR 63
Query: 167 NPQ-RKVNNRMASCQLAS 183
N ++ +R C +S
Sbjct: 64 NLNGYQLGSRFLKCGYSS 81
Score = 36.2 bits (82), Expect = 0.041, Method: Composition-based stats.
Identities = 18/71 (25%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
R +Y+ ++P D +E++ G + + FD TG+S+G+A ++ +E + A+
Sbjct: 4 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV- 62
Query: 262 EPQKMFEGHQL 272
+ G+QL
Sbjct: 63 ---RNLNGYQL 70
>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 = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 34/57 (59%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKAL 165
+ V+ L + TQ+ L S F GE+E KL+ DKV G + G+ F+ + T K A +A+
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 78
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 42/158 (26%), Positives = 72/158 (45%), Gaps = 12/158 (7%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTG--KAKGFAFIVFKTRKAAVKAL 165
K FV + +++ L F G + E ++ D+ ++KG F+ F TRKAA++A
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA- 63
Query: 166 KNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERF 225
Q ++N P E+ A + +RK+++ + + + +R F F
Sbjct: 64 ---QNALHNXKVLPGXHHPIQXKPADSEKNNAVE-DRKLFIGXISKKCTENDIRVXFSSF 119
Query: 226 GEIETGPI--GFDITTGKSRGFAIFVYKTVEGARKALE 261
G+IE I G D G SRG A + T A+ A++
Sbjct: 120 GQIEECRILRGPD---GLSRGCAFVTFTTRAXAQTAIK 154
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 104 VSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVK 163
V RK+F+ + T+ + F G+IEEC+ ++ G ++G AF+ F TR A
Sbjct: 93 VEDRKLFIGXISKKCTENDIRVXFSSFGQIEECR-ILRGPDGLSRGCAFVTFTTRAXAQT 151
Query: 164 ALK 166
A+K
Sbjct: 152 AIK 154
>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 = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 34/57 (59%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKAL 165
+ V+ L + TQ+ L S F GE+E KL+ DKV G + G+ F+ + T K A +A+
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 63
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 36/59 (61%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
R + V+ +P V++ +LR FER+G IE+ I D T +SRG+ +++ A++A+
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAI 101
Score = 36.6 bits (83), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
R + V+ + + L F G IE K+V D+ T +++G+ F+ F++ +A +A+
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIA 102
Query: 167 --NPQRKVNNRMASCQLASVGPTGPGV 191
N +N R+ LA+ G PG+
Sbjct: 103 GLNGFNILNKRL-KVALAASGHQRPGI 128
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Query: 102 RDVSQR-KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKA 160
+D S +FV L + T E + SAF G+I + ++V D TGK+KG+ F+ F +
Sbjct: 10 KDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLD 69
Query: 161 AVKAL 165
A A+
Sbjct: 70 AENAI 74
Score = 31.6 bits (70), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 16/77 (20%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFA-IFVYKTVEGARKALEE 262
++V ++ ++ E ++ F FG+I + D+ TGKS+G+ + Y ++ +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 263 PQKMFEGHQLQCQKAAE 279
+ G Q++ A
Sbjct: 78 GGQWLGGRQIRTNWATR 94
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 42.0 bits (97), Expect = 7e-04, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNP 168
+ V GL W TT++ L F GE+ ++ D TG +KGF F+ F + VK +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ- 76
Query: 169 QRKVNNRMASCQL 181
+ ++ R C+L
Sbjct: 77 RHMIDGRWCDCKL 89
Score = 36.2 bits (82), Expect = 0.035, Method: Composition-based stats.
Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 4/86 (4%)
Query: 190 GVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFV 249
GVK A Q + V +P ++ L+ +F FGE+ + D+ TG S+GF
Sbjct: 7 GVKR---AVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVR 63
Query: 250 YKTVEGARKALEEPQKMFEGHQLQCQ 275
+ E K + + + M +G C+
Sbjct: 64 FTEYETQVKVMSQ-RHMIDGRWCDCK 88
>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 = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 33/63 (52%)
Query: 103 DVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAV 162
+ R I+V + + T E L + F G G + ++ DK +G KGFA+I F +++
Sbjct: 2 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 61
Query: 163 KAL 165
+L
Sbjct: 62 TSL 64
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 32/72 (44%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
R IYV NV E+L F G + I D +G +GFA + E R +L
Sbjct: 6 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA 65
Query: 262 EPQKMFEGHQLQ 273
+ +F G Q++
Sbjct: 66 LDESLFRGRQIK 77
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 33/61 (54%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
+ +FV + +DTT+ L F G I+ +V K +GK +G+AFI ++ + A K
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 167 N 167
+
Sbjct: 163 H 163
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 198 AQGE--RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYK 251
AQG+ + ++V+ V D + KLR FE +G I+ + + +GK RG+A Y+
Sbjct: 97 AQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYE 152
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 24/57 (42%), Positives = 30/57 (52%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKAL 165
I V L DT + L F G I L DK TG++KGFAFI F R+ A +A+
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 182 ASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGK 241
S G +GP + A I V+N+ D + L+ F FG I + D TTG+
Sbjct: 1 GSSGSSGPNRR-----ADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQ 55
Query: 242 SRGFAIFVYKTVEGARKAL 260
S+GFA + E A +A+
Sbjct: 56 SKGFAFISFHRREDAARAI 74
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
+ +FV + +DTT+ L F G I+ +V K +GK +G+AFI ++ + A K
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 167 NPQ-RKVNNR 175
+ +K++ R
Sbjct: 163 HADGKKIDGR 172
Score = 32.0 bits (71), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 198 AQGE--RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYK 251
AQG+ + ++V+ V D + KLR FE +G I+ + + +GK RG+A Y+
Sbjct: 97 AQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYE 152
>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 = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 93 HDHILETADRDVSQRKI-----FVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKA 147
+D + + D QR + FV G+ + T+E + F GEI+ L +D+ TG
Sbjct: 4 YDSVEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYL 63
Query: 148 KGFAFIVFKTRKAAVKALK 166
KG+ + ++T K A A++
Sbjct: 64 KGYTLVEYETYKEAQAAME 82
Score = 34.7 bits (78), Expect = 0.097, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 32/58 (55%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
++V+ V + +E + F +GEI+ + D TG +G+ + Y+T + A+ A+E
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 82
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical
Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens
At 1.95 A Resolution
Length = 89
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 19/63 (30%), Positives = 33/63 (52%)
Query: 103 DVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAV 162
+ R I+V + + T E L + F G G + ++ DK +G KGFA+I F +++
Sbjct: 3 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 62
Query: 163 KAL 165
+L
Sbjct: 63 TSL 65
Score = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 32/72 (44%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
R IYV NV E+L F G + I D +G +GFA + E R +L
Sbjct: 7 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA 66
Query: 262 EPQKMFEGHQLQ 273
+ +F G Q++
Sbjct: 67 LDESLFRGRQIK 78
>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 = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 93 HDHILETADRDVSQRKI-----FVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKA 147
+D + + D QR + FV G+ + T+E + F GEI+ L +D+ TG
Sbjct: 5 YDSVEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYL 64
Query: 148 KGFAFIVFKTRKAAVKALK 166
KG+ + ++T K A A++
Sbjct: 65 KGYTLVEYETYKEAQAAME 83
Score = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 32/58 (55%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
++V+ V + +E + F +GEI+ + D TG +G+ + Y+T + A+ A+E
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 83
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKAL 165
+++ GL TT + L+ G+I K ++DK T K KG+ F+ F + AA KA+
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 44/165 (26%), Positives = 70/165 (42%), Gaps = 29/165 (17%)
Query: 101 DRDVSQR-KIFVHGLGWDTTQES---LLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFK 156
++ +QR ++FV L D T+E L +G +GE+ K KGF FI +
Sbjct: 16 EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEV---------FIHKDKGFGFIRLE 66
Query: 157 TRKAAVKALKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKE 216
TR A +A +L ++ G ++ + A + V N+P+ V E
Sbjct: 67 TRTLA-------------EIAKVELDNMPLRGKQLRVRFACHSA--SLTVRNLPQYVSNE 111
Query: 217 KLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
L F FG++E + D G+ G I + ARKAL+
Sbjct: 112 LLEEAFSVFGQVERAVVIVD-DRGRPSGKGIVEFSGKPAARKALD 155
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 7/77 (9%)
Query: 203 KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEE 262
+++V N+P D+ +E++R FE++G+ ++ K +GF +T A A E
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGK------AGEVFIHKDKGFGFIRLETRTLAEIAKVE 77
Query: 263 PQKM-FEGHQLQCQKAA 278
M G QL+ + A
Sbjct: 78 LDNMPLRGKQLRVRFAC 94
>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 = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 21/66 (31%), Positives = 35/66 (53%)
Query: 195 GAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVE 254
G + + +YV+N+PR + ++L F ++G I I D TG+ RG A Y E
Sbjct: 7 GGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKRE 66
Query: 255 GARKAL 260
A++A+
Sbjct: 67 EAQEAI 72
Score = 36.2 bits (82), Expect = 0.035, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 34/62 (54%)
Query: 104 VSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVK 163
+ ++V L T + L + FG G I + ++ DK+TG+ +G AF+ + R+ A +
Sbjct: 11 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQE 70
Query: 164 AL 165
A+
Sbjct: 71 AI 72
>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 = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 17/64 (26%), Positives = 35/64 (54%)
Query: 102 RDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAA 161
+++ +R ++V + + +T + L + F G I ++ DK +G KG+A+I F R +
Sbjct: 32 KEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSV 91
Query: 162 VKAL 165
A+
Sbjct: 92 DAAV 95
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 33/58 (56%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
+FV L + T E + +AF G I + ++V D TGK+KG+ F+ F + A A++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 75
Score = 32.0 bits (71), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 30/59 (50%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEE 262
++V ++ ++ E ++ F FG I + D+ TGKS+G+ + A A+++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ 76
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 32/57 (56%)
Query: 203 KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKA 259
K+++ +PR+++++ L+ FE FG+I + D TG +G A Y E A KA
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKA 71
Score = 35.8 bits (81), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 35/63 (55%)
Query: 102 RDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAA 161
+D K+F+ + + ++ L F G+I E ++ D+ TG KG AF+ + R++A
Sbjct: 9 KDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESA 68
Query: 162 VKA 164
+KA
Sbjct: 69 LKA 71
>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 = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 35/65 (53%)
Query: 102 RDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAA 161
R V +FV G+ + T+E + F GEI+ L +D+ TG KG+ + ++T K A
Sbjct: 3 RSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA 62
Query: 162 VKALK 166
A++
Sbjct: 63 QAAME 67
Score = 35.0 bits (79), Expect = 0.094, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 32/58 (55%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
++V+ V + +E + F +GEI+ + D TG +G+ + Y+T + A+ A+E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 38/71 (53%), Gaps = 4/71 (5%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
S+ ++V L + T L F G++ + ++ DK T K+KG AFI+F + +A
Sbjct: 15 SKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSA--- 71
Query: 165 LKNPQRKVNNR 175
+N R +NN+
Sbjct: 72 -QNCTRAINNK 81
Score = 32.3 bits (72), Expect = 0.58, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 30/60 (50%)
Query: 198 AQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGAR 257
A + +YVSN+P + L F ++G++ I D T KS+G A ++ + A+
Sbjct: 13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQ 72
>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 = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 37/63 (58%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
S+R ++V GL + + L +AF G+I + ++ +D T K +GFAF+ F+ + A A
Sbjct: 1 SKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 60
Query: 165 LKN 167
+ N
Sbjct: 61 IDN 63
Score = 36.6 bits (83), Expect = 0.032, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 31/61 (50%)
Query: 201 ERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
+R +YV + +V+ + L F FG+I I D T K RGFA ++ E A A+
Sbjct: 2 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 61
Query: 261 E 261
+
Sbjct: 62 D 62
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 35/65 (53%)
Query: 102 RDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAA 161
R V +FV G+ + T+E + F GEI+ L +D+ TG KG+ + ++T K A
Sbjct: 3 RSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA 62
Query: 162 VKALK 166
A++
Sbjct: 63 QAAME 67
Score = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 32/58 (55%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
++V+ V + +E + F +GEI+ + D TG +G+ + Y+T + A+ A+E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
>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 = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 35/65 (53%)
Query: 102 RDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAA 161
R V +FV G+ + T+E + F GEI+ L +D+ TG KG+ + ++T K A
Sbjct: 3 RSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA 62
Query: 162 VKALK 166
A++
Sbjct: 63 QAAME 67
Score = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 32/58 (55%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
++V+ V + +E + F +GEI+ + D TG +G+ + Y+T + A+ A+E
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 = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 35/65 (53%)
Query: 102 RDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAA 161
R V +FV G+ + T+E + F GEI+ L +D+ TG KG+ + ++T K A
Sbjct: 5 RSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA 64
Query: 162 VKALK 166
A++
Sbjct: 65 QAAME 69
Score = 34.3 bits (77), Expect = 0.14, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 32/58 (55%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
++V+ V + +E + F +GEI+ + D TG +G+ + Y+T + A+ A+E
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 69
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 37/64 (57%)
Query: 104 VSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVK 163
++R ++V GL + + L +AF G+I + ++ +D T K +GFAF+ F+ + A
Sbjct: 10 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 69
Query: 164 ALKN 167
A+ N
Sbjct: 70 AIDN 73
Score = 35.8 bits (81), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%)
Query: 198 AQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGAR 257
A +R +YV + +V+ + L F FG+I I D T K RGFA ++ E A
Sbjct: 9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 68
Query: 258 KALE 261
A++
Sbjct: 69 AAID 72
>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 = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 34/67 (50%)
Query: 195 GAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVE 254
G+ A +R +YV + +V+ + L F FG+I I D T K RGFA ++ E
Sbjct: 1 GSMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 60
Query: 255 GARKALE 261
A A++
Sbjct: 61 DAAAAID 67
Score = 38.5 bits (88), Expect = 0.009, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 37/63 (58%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
++R ++V GL + + L +AF G+I + ++ +D T K +GFAF+ F+ + A A
Sbjct: 6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 65
Query: 165 LKN 167
+ N
Sbjct: 66 IDN 68
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 44/170 (25%), Positives = 75/170 (44%), Gaps = 35/170 (20%)
Query: 97 LETADRDV-SQRKIFVHGLGWDTTQE---SLLSAFGGSGEIEECKLVIDKVTGKAKGFAF 152
LE +R ++RKI + GL D T + LLS + E++ C +DK KG AF
Sbjct: 12 LEHTERQFRNRRKILIRGLPGDVTNQEVHDLLSDY----ELKYC--FVDKY----KGTAF 61
Query: 153 IVF---KTRKAAVKALKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNV 209
+ + +AA+ A Q ++ R S QL PT + + V+N+
Sbjct: 62 VTLLNGEQAEAAINAFH--QSRLRERELSVQLQ---PT-------------DALLCVANL 103
Query: 210 PRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKA 259
P + +++ FG +E + + TG+S+G+ Y + A +A
Sbjct: 104 PPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 44/170 (25%), Positives = 75/170 (44%), Gaps = 35/170 (20%)
Query: 97 LETADRDV-SQRKIFVHGLGWDTTQE---SLLSAFGGSGEIEECKLVIDKVTGKAKGFAF 152
LE +R ++RKI + GL D T + LLS + E++ C +DK KG AF
Sbjct: 12 LEHTERQFRNRRKILIRGLPGDVTNQEVHDLLSDY----ELKYC--FVDKY----KGTAF 61
Query: 153 IVF---KTRKAAVKALKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNV 209
+ + +AA+ A Q ++ R S QL PT + + V+N+
Sbjct: 62 VTLLNGEQAEAAINAFH--QSRLRERELSVQLQ---PT-------------DALLCVANL 103
Query: 210 PRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKA 259
P + +++ FG +E + + TG+S+G+ Y + A +A
Sbjct: 104 PPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>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 = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 44/170 (25%), Positives = 75/170 (44%), Gaps = 35/170 (20%)
Query: 97 LETADRDV-SQRKIFVHGLGWDTTQE---SLLSAFGGSGEIEECKLVIDKVTGKAKGFAF 152
LE +R ++RKI + GL D T + LLS + E++ C +DK KG AF
Sbjct: 10 LEHTERQFRNRRKILIRGLPGDVTNQEVHDLLSDY----ELKYC--FVDKY----KGTAF 59
Query: 153 IVF---KTRKAAVKALKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQGERKIYVSNV 209
+ + +AA+ A Q ++ R S QL PT + + V+N+
Sbjct: 60 VTLLNGEQAEAAINAFH--QSRLRERELSVQLQ---PT-------------DALLCVANL 101
Query: 210 PRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKA 259
P + +++ FG +E + + TG+S+G+ Y + A +A
Sbjct: 102 PPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 37/63 (58%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
++R ++V GL + + L +AF G+I + ++ +D T K +GFAF+ F+ + A A
Sbjct: 62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 121
Query: 165 LKN 167
+ N
Sbjct: 122 IDN 124
Score = 37.4 bits (85), Expect = 0.017, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 32/64 (50%)
Query: 198 AQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGAR 257
A +R +YV + +V+ + L F FG+I I D T K RGFA ++ E A
Sbjct: 60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 119
Query: 258 KALE 261
A++
Sbjct: 120 AAID 123
>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 = 38.5 bits (88), Expect = 0.007, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 42/77 (54%), Gaps = 1/77 (1%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEP 263
++V ++ +V+ E LR F+ F +G + +D+ TG SRG+ + + + A+ A++
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 264 Q-KMFEGHQLQCQKAAE 279
Q + G L+ AA+
Sbjct: 64 QGQDLNGRPLRINWAAK 80
>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 = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 34/58 (58%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
++V L + TT+E + F SG+I++ + +DK+ A GF F+ + +R A A++
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMR 99
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 38.5 bits (88), Expect = 0.008, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 37/63 (58%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
++R ++V GL + + L +AF G+I + ++ +D T K +GFAF+ F+ + A A
Sbjct: 4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 63
Query: 165 LKN 167
+ N
Sbjct: 64 IDN 66
Score = 36.2 bits (82), Expect = 0.041, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 31/61 (50%)
Query: 201 ERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
+R +YV + +V+ + L F FG+I I D T K RGFA ++ E A A+
Sbjct: 5 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 64
Query: 261 E 261
+
Sbjct: 65 D 65
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%)
Query: 203 KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKA 259
K++V +PR ++++ L+ FE FG I + D TG +G A Y + A KA
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKA 73
Score = 34.7 bits (78), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 33/63 (52%)
Query: 102 RDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAA 161
+D K+FV + ++ L F G I E ++ D++TG KG AF+ + R +A
Sbjct: 11 KDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSA 70
Query: 162 VKA 164
+KA
Sbjct: 71 LKA 73
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 199 QGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDIT-TGKSRGFAIFVYKTVEGAR 257
Q KI V N+P + ++R F FGE++T + +T TG RGF + T + A+
Sbjct: 13 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAK 72
Query: 258 KAL 260
KA
Sbjct: 73 KAF 75
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 32/58 (55%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
++V GL +Q+ + F G I ++++D+ TG ++G FI F R A +A+K
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
+YVS +P+ + ++++ F ++G I T I D TG SRG + A +A++
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 61
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 57/126 (45%), Gaps = 13/126 (10%)
Query: 139 VIDKVTGKAKGFAFIVFKTRKAAVKALKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAA 198
V+D G + F ++ F++ + KAL+ KV ++ P G K++ A
Sbjct: 39 VVDVRIGMTRKFGYVDFESAEDLEKALELTGLKV----FGNEIKLEKPKGKDSKKERDA- 93
Query: 199 QGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARK 258
R + N+P V +++L+ FE EI + D GKS+G A +KT A K
Sbjct: 94 ---RTLLAKNLPYKVTQDELKEVFEDAAEIRL--VSKD---GKSKGIAYIEFKTEADAEK 145
Query: 259 ALEEPQ 264
EE Q
Sbjct: 146 TFEEKQ 151
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 45/94 (47%), Gaps = 11/94 (11%)
Query: 101 DRDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKA 160
+RD R + L + TQ+ L F + EI +LV GK+KG A+I FKT
Sbjct: 90 ERDA--RTLLAKNLPYKVTQDELKEVFEDAAEI---RLV--SKDGKSKGIAYIEFKTEAD 142
Query: 161 AVKALKNPQ-RKVNNRMASCQLASVG-PTGPGVK 192
A K + Q +++ R S L G P G G++
Sbjct: 143 AEKTFEEKQGTEIDGR--SISLYYTGEPKGEGLE 174
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 37.0 bits (84), Expect = 0.022, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 32/62 (51%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
S + V+ L D T L + F G I C+++ D TG + G+AF+ F + + +A
Sbjct: 2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 61
Query: 165 LK 166
+K
Sbjct: 62 IK 63
Score = 30.4 bits (67), Expect = 1.8, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
+ V+ +P+D+ +L F G I T I D TG S G+A + + +++A++
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 37.0 bits (84), Expect = 0.024, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 36/71 (50%)
Query: 94 DHILETADRDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFI 153
D + R V +FV + + ++ + F GEI+ L +D+ TG +KG+A +
Sbjct: 14 DELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALV 73
Query: 154 VFKTRKAAVKA 164
++T K A+ A
Sbjct: 74 EYETHKQALAA 84
Score = 33.5 bits (75), Expect = 0.26, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 36/58 (62%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
++V+++ + ++++++ F +GEI+ + D TG S+G+A+ Y+T + A A E
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 86
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 36.6 bits (83), Expect = 0.025, Method: Composition-based stats.
Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 7/69 (10%)
Query: 103 DVSQRK-----IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKT 157
D S RK IF+ L ++L F G I CK+V D+ +KG+ F+ F+T
Sbjct: 3 DPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFET 60
Query: 158 RKAAVKALK 166
++AA +A++
Sbjct: 61 QEAAERAIE 69
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 20/79 (25%), Positives = 36/79 (45%), Gaps = 7/79 (8%)
Query: 189 PGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIF 248
P +++ G I++ N+ + ++ + L F FG I + + D K GF F
Sbjct: 4 PSLRKSGVG-----NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHF 58
Query: 249 VYKTVEGARKALEEPQKMF 267
+T E A +A+E+ M
Sbjct: 59 --ETQEAAERAIEKMNGML 75
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Query: 103 DVSQRK-IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAA 161
DV++ K +F+ L +D+ +E+L G+++ ++V+ T +KG AF F T++AA
Sbjct: 11 DVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAA 70
Query: 162 VKAL 165
K L
Sbjct: 71 QKCL 74
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
+ +++ N+ D E+E L ++FG+++ + T S+G A + T E A+K L
Sbjct: 16 KTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCL 74
>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 = 36.6 bits (83), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
+FV + + ++ + F GEI+ L +D+ TG +KG+A + ++T K A+ A
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 130
Score = 32.3 bits (72), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 36/58 (62%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
++V+++ + ++++++ F +GEI+ + D TG S+G+A+ Y+T + A A E
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 132
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 36.6 bits (83), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 106 QRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKAL 165
RK+FV LG T E + F G I+EC V+ G +KG AF+ F+T A A+
Sbjct: 12 DRKLFVGMLGKQQTDEDVRKMFEPFGTIDEC-TVLRGPDGTSKGCAFVKFQTHAEAQAAI 70
Query: 166 KN 167
Sbjct: 71 NT 72
>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 = 36.6 bits (83), Expect = 0.032, Method: Composition-based stats.
Identities = 29/103 (28%), Positives = 50/103 (48%), Gaps = 9/103 (8%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNP 168
IF+ L ++L F G I CK+V D+ +KG+ F+ F+T++AA +A++
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIE-- 63
Query: 169 QRKVNNRMASCQLASVG---PTGPGVKEQGAAAQGERKIYVSN 208
K+N + + + VG E GA A+ +Y+ N
Sbjct: 64 --KMNGMLLNDRKVFVGRFKSRKEREAELGARAKEFTNVYIKN 104
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 19/68 (27%), Positives = 32/68 (47%), Gaps = 2/68 (2%)
Query: 200 GERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKA 259
G I++ N+ + ++ + L F FG I + + D K GF F +T E A +A
Sbjct: 4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHF--ETQEAAERA 61
Query: 260 LEEPQKMF 267
+E+ M
Sbjct: 62 IEKMNGML 69
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 36.2 bits (82), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 33/66 (50%), Gaps = 7/66 (10%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKA-----KGFAFIVFKTRKAAVK 163
+F+ L + TT+E+L F G I+ C I K KA GF F+ +K + A K
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSC--TISKKKNKAGVLLSMGFGFVEYKKPEQAQK 65
Query: 164 ALKNPQ 169
ALK Q
Sbjct: 66 ALKQLQ 71
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 4/82 (4%)
Query: 198 AQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGK---SRGFAIFVYKTVE 254
+ G +++ N+ +E L+G F + G I++ I S GF YK E
Sbjct: 2 SSGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPE 61
Query: 255 GARKALEEPQ-KMFEGHQLQCQ 275
A+KAL++ Q +GH+L+ +
Sbjct: 62 QAQKALKQLQGHTVDGHKLEVR 83
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 36.2 bits (82), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 40/97 (41%), Gaps = 27/97 (27%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKAL--- 165
+FV L T+E L AF G++E K K K +AFI F R AVKA+
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVK--------KLKDYAFIHFDERDGAVKAMEEM 65
Query: 166 ---------------KNPQRKVNNRMASCQLASVGPT 187
K P +K R A Q AS GP+
Sbjct: 66 NGKDLEGENIEIVFAKPPDQKRKERKAQRQAAS-GPS 101
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 35.8 bits (81), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 44/86 (51%), Gaps = 2/86 (2%)
Query: 103 DVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAV 162
+ + K+F+ GL + T+E L G +++ +LV ++ GK KG A++ ++ A
Sbjct: 14 SLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRA-GKPKGLAYVEYENESQAS 72
Query: 163 KA-LKNPQRKVNNRMASCQLASVGPT 187
+A +K + + +++ GP+
Sbjct: 73 QAVMKMDGMTIKENIIKVAISNSGPS 98
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 35.8 bits (81), Expect = 0.055, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 218 LRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKM-FEGHQLQCQK 276
LR F ++G I I +D + +SRGFA ++ V+ A++A E M +G +++
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSG 91
Query: 277 AAEG 280
+ G
Sbjct: 92 PSSG 95
Score = 34.7 bits (78), Expect = 0.11, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 29/54 (53%)
Query: 111 VHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
V GL TT+ L F G I + +V D+ + +++GFAF+ F+ A +A
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
>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 = 0.055, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTR---KAA 161
S RK+FV L +++ + F G IEEC ++ G +KG AF+ + + +AA
Sbjct: 14 SHRKLFVGMLNKQQSEDDVRRLFEAFGNIEEC-TILRGPDGNSKGCAFVKYSSHAEAQAA 72
Query: 162 VKALKNPQ 169
+ AL Q
Sbjct: 73 INALHGSQ 80
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
RK++V + + ++ +R FE FG IE I G S+G A Y + A+ A+
Sbjct: 16 RKLFVGMLNKQQSEDDVRRLFEAFGNIEECTI-LRGPDGNSKGCAFVKYSSHAEAQAAI 73
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 35.4 bits (80), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEE 262
+YV N+ ++ E+LR F FG I + + + G+S+GF + + E A KA+ E
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTE 74
Score = 32.0 bits (71), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKAL 165
++V L E L AF G I K++++ G++KGF F+ F + + A KA+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG--GRSKGFGFVCFSSPEEATKAV 72
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 35.4 bits (80), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTR---KAAVK 163
RK+FV L ++E +L F G I+EC V+ G +KG AF+ F + +AA+
Sbjct: 16 RKLFVGMLNKQQSEEDVLRLFQPFGVIDECT-VLRGPDGSSKGCAFVKFSSHTEAQAAIH 74
Query: 164 ALKNPQ 169
AL Q
Sbjct: 75 ALHGSQ 80
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 35.4 bits (80), Expect = 0.070, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 29/54 (53%)
Query: 111 VHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
V GL TT+ L F G I + +V D+ + +++GFAF+ F+ A +A
Sbjct: 17 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 70
Score = 35.4 bits (80), Expect = 0.072, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 27/49 (55%)
Query: 218 LRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKM 266
LR F ++G I I +D + +SRGFA ++ V+ A++A E M
Sbjct: 29 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGM 77
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 35.4 bits (80), Expect = 0.072, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 29/54 (53%)
Query: 111 VHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
V GL TT+ L F G I + +V D+ + +++GFAF+ F+ A +A
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Score = 35.0 bits (79), Expect = 0.076, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 27/49 (55%)
Query: 218 LRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKM 266
LR F ++G I I +D + +SRGFA ++ V+ A++A E M
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGM 80
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 35.0 bits (79), Expect = 0.078, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 25/47 (53%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFI 153
R I+V L + T E + F G++ KL+ D+ T K KGF F+
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFV 48
Score = 32.0 bits (71), Expect = 0.68, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
R IYV N+ E+++ F +FG++ + +D T K +GF FV E +A+
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFG-FVEMQEESVSEAI 59
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 35.0 bits (79), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 94 DHILETADRDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFI 153
H+ + ++S ++FV D + L FG G ++E K++ GFAF+
Sbjct: 19 SHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFV 70
Query: 154 VFKTRKAAVKALK 166
F+ ++A KA++
Sbjct: 71 EFEEAESAAKAIE 83
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 35.0 bits (79), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 1/84 (1%)
Query: 199 QGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARK 258
+G + V N+ + LR FE++G + I D T +SRGFA + A
Sbjct: 68 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAED 127
Query: 259 ALEEPQ-KMFEGHQLQCQKAAEGK 281
A++ + +G +L+ Q A G+
Sbjct: 128 AMDAMDGAVLDGRELRVQMARYGR 151
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 111 VHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNPQR 170
V L + T+ ++L F G + + + D+ T +++GFAF+ F ++ A A+
Sbjct: 75 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 134
Query: 171 KV-NNRMASCQLASVG 185
V + R Q+A G
Sbjct: 135 AVLDGRELRVQMARYG 150
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 8/57 (14%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKAL 165
+FV L T+E L +F G++E K K K +AF+ F+ R AAVKA+
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVK--------KLKDYAFVHFEDRGAAVKAM 66
>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 = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 57/126 (45%), Gaps = 13/126 (10%)
Query: 139 VIDKVTGKAKGFAFIVFKTRKAAVKALKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAA 198
V+D TG + F ++ F++ + KAL+ KV ++ P G K+ AA
Sbjct: 45 VVDVRTGTNRKFGYVDFESAEDLEKALELTGLKV----FGNEIKLEKPKGRDSKKVRAA- 99
Query: 199 QGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARK 258
R + N+ ++ +++L+ FE EI GKS+G A +K+ A K
Sbjct: 100 ---RTLLAKNLSFNITEDELKEVFEDALEIRLVS-----QDGKSKGIAYIEFKSEADAEK 151
Query: 259 ALEEPQ 264
LEE Q
Sbjct: 152 NLEEKQ 157
Score = 31.6 bits (70), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 5/63 (7%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
R + L ++ T++ L F + EI +LV GK+KG A+I FK+ A K L+
Sbjct: 100 RTLLAKNLSFNITEDELKEVFEDALEI---RLV--SQDGKSKGIAYIEFKSEADAEKNLE 154
Query: 167 NPQ 169
Q
Sbjct: 155 EKQ 157
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 34.7 bits (78), Expect = 0.11, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 29/54 (53%)
Query: 111 VHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKA 164
V GL TT+ L F G I + +V D+ + +++GFAF+ F+ A +A
Sbjct: 51 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 104
Score = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 27/49 (55%)
Query: 218 LRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKM 266
LR F ++G I I +D + +SRGFA ++ V+ A++A E M
Sbjct: 63 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGM 111
>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 = 34.3 bits (77), Expect = 0.13, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 34/58 (58%), Gaps = 1/58 (1%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
++V L + TT+E + F SG+I++ + +DK+ A GF F+ + +R A A++
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK-TACGFCFVEYYSRADAENAMR 77
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large
Subunit
Length = 87
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 39/80 (48%), Gaps = 5/80 (6%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFE---RFGEIETGPIG--FDITTGKSRGFAIFVYKTVEGA 256
R++YV N+P + +E + FF R G + P + + + FA +++V+
Sbjct: 7 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 66
Query: 257 RKALEEPQKMFEGHQLQCQK 276
+A+ +F+G L+ ++
Sbjct: 67 TQAMAFDGIIFQGQSLKIRR 86
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
R +Y+ N+P + E++ F ++G I +G T ++RG A VY+ + A+ A++
Sbjct: 9 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNAVD 65
>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 = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 1/84 (1%)
Query: 199 QGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARK 258
+G + V N+ + LR FE++G + I D T +SRGFA + A
Sbjct: 45 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAED 104
Query: 259 ALEEPQ-KMFEGHQLQCQKAAEGK 281
A++ + +G +L+ Q A G+
Sbjct: 105 AMDAMDGAVLDGRELRVQMARYGR 128
Score = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 111 VHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNPQR 170
V L + T+ ++L F G + + + D+ T +++GFAF+ F ++ A A+
Sbjct: 52 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 111
Query: 171 KV-NNRMASCQLASVG 185
V + R Q+A G
Sbjct: 112 AVLDGRELRVQMARYG 127
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 39/80 (48%), Gaps = 5/80 (6%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFE---RFGEIETGPIG--FDITTGKSRGFAIFVYKTVEGA 256
R++YV N+P + +E + FF R G + P + + + FA +++V+
Sbjct: 2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 61
Query: 257 RKALEEPQKMFEGHQLQCQK 276
+A+ +F+G L+ ++
Sbjct: 62 TQAMAFDGIIFQGQSLKIRR 81
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 33.9 bits (76), Expect = 0.17, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 7 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKMRGQAFVIFKEVSSA 60
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 61 TNALRSMQ 68
>pdb|1CX0|A Chain A, Hepatitis Delta Virus Ribozyme
Length = 95
Score = 33.9 bits (76), Expect = 0.17, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 9 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKXRGQAFVIFKEVSSA 62
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 63 TNALRSXQ 70
>pdb|1DRZ|A Chain A, U1a Spliceosomal ProteinHEPATITIS DELTA VIRUS GENOMIC
Ribozyme Complex
Length = 97
Score = 33.9 bits (76), Expect = 0.17, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKXRGQAFVIFKEVSSA 64
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 65 TNALRSXQ 72
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 33.9 bits (76), Expect = 0.17, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 6 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKMRGQAFVIFKEVSSA 59
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 60 TNALRSMQ 67
>pdb|3CUL|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUL|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3EGZ|A Chain A, Crystal Structure Of An In Vitro Evolved Tetracycline
Aptamer And Artificial Riboswitch
Length = 98
Score = 33.9 bits (76), Expect = 0.17, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKXRGQAFVIFKEVSSA 65
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 66 TNALRSXQ 73
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 33.9 bits (76), Expect = 0.18, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 8 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKMRGQAFVIFKEVSSA 61
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 62 TNALRSMQ 69
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 33.9 bits (76), Expect = 0.18, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKMRGQAFVIFKEVSSA 64
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 65 TNALRSMQ 72
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 33.9 bits (76), Expect = 0.18, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKMRGQAFVIFKEVSSA 65
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 66 TNALRSMQ 73
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 33.9 bits (76), Expect = 0.19, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 9 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKMRGQAFVIFKEVSSA 62
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 63 TNALRSMQ 70
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 33.9 bits (76), Expect = 0.19, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKMRGQAFVIFKEVSSA 64
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 65 TNALRSMQ 72
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
+F++ L + T L S F G + K+ IDK T +K F F+ F +A A+K
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIK 100
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 33.5 bits (75), Expect = 0.23, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKMRGQAFVIFKEVSSA 64
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 65 TNALRSMQ 72
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 33.5 bits (75), Expect = 0.23, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
R +Y+ N+P + E++ F ++G I +G T ++RG A VY+ + A+ A +
Sbjct: 19 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNACD 75
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 33.5 bits (75), Expect = 0.23, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
R +Y+ N+P + E++ F ++G I +G T ++RG A VY+ + A+ A +
Sbjct: 13 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNACD 69
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 33.5 bits (75), Expect = 0.23, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 204 IYVSNVPRDVEKEKLR----GFFERFGEIETGPIGFDITTGKS---RGFAIFVYKTVEGA 256
IY++N+ ++K++L+ F RFG+I DI +S RG A ++K V A
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQI------LDILVSRSLKMRGQAFVIFKEVSSA 65
Query: 257 RKALEEPQ 264
AL Q
Sbjct: 66 TNALRSMQ 73
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 8/64 (12%)
Query: 103 DVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAV 162
++S ++FV D + L FG G ++E K++ GFAF+ F+ ++A
Sbjct: 1 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAA 52
Query: 163 KALK 166
KA++
Sbjct: 53 KAIE 56
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 32.7 bits (73), Expect = 0.38, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 6/66 (9%)
Query: 194 QGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTV 253
+G A + +IYV N+P D+ + + F ++G I DI RG F +
Sbjct: 15 RGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIR------DIDLKNRRGGPPFAFVEF 68
Query: 254 EGARKA 259
E R A
Sbjct: 69 EDPRDA 74
>pdb|2E5G|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 21
Length = 94
Score = 32.7 bits (73), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 9/76 (11%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRG-FAIFVYKTVEGARKA- 259
R ++VS PR V+ +L +F FG + + + K +G FAI V GAR+A
Sbjct: 9 RSVFVSGFPRGVDSAQLSEYFLAFGPVAS------VVMDKDKGVFAIVEMGDV-GAREAV 61
Query: 260 LEEPQKMFEGHQLQCQ 275
L + Q GH+L+ +
Sbjct: 62 LSQSQHSLGGHRLRVR 77
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 32.7 bits (73), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 35/67 (52%), Gaps = 4/67 (5%)
Query: 104 VSQRK----IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRK 159
+S+R ++V GL ++ L F +G + + D+VTG+ +G+ F+ F + +
Sbjct: 9 ISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEE 68
Query: 160 AAVKALK 166
A A+K
Sbjct: 69 DADYAIK 75
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 32.3 bits (72), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 31/58 (53%)
Query: 203 KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
KI+V +P + + +LR +F++FG + + +D + RGF ++ + +A+
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV 69
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 32.0 bits (71), Expect = 0.64, Method: Composition-based stats.
Identities = 9/33 (27%), Positives = 24/33 (72%)
Query: 196 AAAQGERKIYVSNVPRDVEKEKLRGFFERFGEI 228
+ + G K+++ N+PR+ ++++R FE++G++
Sbjct: 3 SGSSGMVKLFIGNLPREATEQEIRSLFEQYGKV 35
Score = 28.5 bits (62), Expect = 8.2, Method: Composition-based stats.
Identities = 15/60 (25%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
K+F+ L + T++ + S F G++ EC ++ K + F+ + + AA A++N
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRN 61
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 32.0 bits (71), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 39/82 (47%), Gaps = 2/82 (2%)
Query: 107 RKIFVHGLGWDTTQESLL-SAFGGSGEIEECKLVI-DKVTGKAKGFAFIVFKTRKAAVKA 164
R+I + L + E+LL +F G G IE+ + K AF VF+ + +A +A
Sbjct: 211 REIXIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFXVFENKDSAERA 270
Query: 165 LKNPQRKVNNRMASCQLASVGP 186
L+ + + NR S LA P
Sbjct: 271 LQXNRSLLGNREISVSLADKKP 292
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 32.0 bits (71), Expect = 0.70, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 197 AAQGERKIYVSNVPRDVEKEKLRGFFERFGEI-ETGPIGFDITTGKSRGFAIFVYKTVEG 255
+ G I++ N+ +++++ L F FG I +T I D TG S+G+A + + +
Sbjct: 1 GSSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDA 60
Query: 256 ARKALE 261
+ A+E
Sbjct: 61 SDAAIE 66
Score = 28.5 bits (62), Expect = 7.6, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEI-EECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
IF+ L + ++ L F G I + K++ D TG +KG+AFI F + A+ A++
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIE 66
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
Length = 88
Score = 32.0 bits (71), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 108 KIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTG--KAKGFAFIVFKTRKAAVKA 164
K+FV + +++ L F G + E ++ D+ ++KG F+ F TRKAA++A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
>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 = 32.0 bits (71), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 131 GEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
G I + ++V D TGK+KG+ F+ F + A A++
Sbjct: 31 GRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 66
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 31.6 bits (70), Expect = 0.83, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 8/78 (10%)
Query: 95 HILE---TADRDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFA 151
H+LE T+ + + R + L ++ T++ L F + EI +LV GK+KG A
Sbjct: 2 HMLEDPCTSKKVRAARTLLAKNLSFNITEDELKEVFEDALEI---RLVSQD--GKSKGIA 56
Query: 152 FIVFKTRKAAVKALKNPQ 169
+I FK+ A K L+ Q
Sbjct: 57 YIEFKSEADAEKNLEEKQ 74
>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 = 31.6 bits (70), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 28/48 (58%)
Query: 120 QESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
+++L S F +G++ + ID+ TGK KGF F+ + A K +K+
Sbjct: 26 KKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKS 73
Score = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 6/88 (6%)
Query: 188 GPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAI 247
GP +Q G I + VP V K+ L F + G++ D TGK++GF
Sbjct: 1 GPLGSDQYIVVNGAPVIPSAKVP--VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLF 58
Query: 248 FVYKTVEGARKALEEPQKMFEGHQLQCQ 275
++ A+K + K F G +L +
Sbjct: 59 VECGSMNDAKKII----KSFHGKRLDLK 82
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 31.6 bits (70), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 190 GVKEQGAAAQGE--RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAI 247
GV+ Q A Q + +Y+SN+P +++++L + FG++ + I D ++G SRG
Sbjct: 12 GVQAQMAKQQEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGF 70
Query: 248 FVYKTVE 254
++ E
Sbjct: 71 ARMESTE 77
>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 = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 28/48 (58%)
Query: 120 QESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
+++L S F +G++ + ID+ TGK KGF F+ + A K +K+
Sbjct: 26 KKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKS 73
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 6/88 (6%)
Query: 188 GPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAI 247
GP +Q G I + VP V K+ L F + G++ D TGK++GF
Sbjct: 1 GPLGSDQYIVVNGAPVIPSAKVP--VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLF 58
Query: 248 FVYKTVEGARKALEEPQKMFEGHQLQCQ 275
++ A+K + K F G +L +
Sbjct: 59 VECGSMNDAKKII----KSFHGKRLDLK 82
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 7/83 (8%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALK 166
+ + + L + T+E+L F + I+ V GK+KG+AFI F + + A +AL
Sbjct: 16 KTLVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEALN 71
Query: 167 N-PQRKVNNRMASCQLASVGPTG 188
+ +R++ R +L GP G
Sbjct: 72 SCNKREIEGRAIRLELQ--GPRG 92
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 11/74 (14%)
Query: 101 DRDVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECK--------LVIDKVTGKAKGFAF 152
D D I+V GL T + L F G ++ K + +DK TGK KG A
Sbjct: 10 DEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDAT 69
Query: 153 IVFK---TRKAAVK 163
+ ++ T KAAV+
Sbjct: 70 VSYEDPPTAKAAVE 83
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
Length = 99
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 40/83 (48%), Gaps = 7/83 (8%)
Query: 203 KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEE 262
+++V N+P D+ +E++R FE++G+ ++ K +GF +T A A E
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGK------AGEVFIHKDKGFGFIRLETRTLAEIAKVE 70
Query: 263 PQKM-FEGHQLQCQKAAEGKNRT 284
M G QL+ + A + T
Sbjct: 71 LDNMPLRGKQLRVRFACHSASLT 93
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 3/77 (3%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
++++VSN+P LR F +FG+I I F+ S+GF ++ A +A E
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN--ERGSKGFGFVTFENSADADRARE 73
Query: 262 EPQ-KMFEGHQLQCQKA 277
+ + EG +++ A
Sbjct: 74 KLHGTVVEGRKIEVNNA 90
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 3/77 (3%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
++++VSN+P LR F +FG+I I F+ S+GF ++ A +A E
Sbjct: 30 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN--ERGSKGFGFVTFENSADADRARE 87
Query: 262 EPQ-KMFEGHQLQCQKA 277
+ + EG +++ A
Sbjct: 88 KLHGTVVEGRKIEVNNA 104
>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 = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 31/69 (44%), Gaps = 8/69 (11%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGSGEIEECK--------LVIDKVTGKAKGFAFIVFK 156
IFV GLG + T ES+ F G I+ K L D+ TGK KG A + F
Sbjct: 12 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFD 71
Query: 157 TRKAAVKAL 165
+A A+
Sbjct: 72 DPPSAKAAI 80
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 24/65 (36%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECK--------LVIDKVTGKAKGFAFIVFKTRKA 160
IFV GLG + T ES+ F G I+ K L D+ TGK KG A + F +
Sbjct: 10 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 69
Query: 161 AVKAL 165
A A+
Sbjct: 70 AKAAI 74
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 6/43 (13%)
Query: 203 KIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGF 245
+++V N+P D+ +E + FER+GE ++ + RGF
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPS------EVFINRDRGF 60
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 111 VHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
V L + E L AF G +E+ +V+D G+A G F+ F + A KAL+
Sbjct: 101 VKNLSPVVSNELLEQAFSQFGPVEKAVVVVDD-RGRATGKGFVEFAAKPPARKALER 156
>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 = 30.4 bits (67), Expect = 2.0, Method: Composition-based stats.
Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 2/79 (2%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEP 263
++V + +++ ++R FF R+G ++ I D TG S+G+ + +K +E
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVES- 69
Query: 264 QKMFEGHQLQCQKAAEGKN 282
Q F G +L+ A +N
Sbjct: 70 QINFHGKKLKLGPAIRKQN 88
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
R + + N+P + E++ F ++G I +G T ++RG A VY+ + A+ A +
Sbjct: 19 RILMIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNACD 75
>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 = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 37/190 (19%), Positives = 76/190 (40%), Gaps = 16/190 (8%)
Query: 107 RKIFVHGLGWDTTQESLLSAFGGS---GEIEEC--KLVIDKVTGKAKGFAFIVFKTRKAA 161
R+++V + + T+E+++ F G + + V+ + K FAF+ F++
Sbjct: 5 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 64
Query: 162 VKALK------NPQRKVNNRMASCQLASVGPTGPGVKEQGAAA----QGERKIYVSNVPR 211
+A+ Q R Q P V G + K+++ +P
Sbjct: 65 TQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPN 124
Query: 212 DVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEPQKMFEGH- 270
+ ++++ FG ++ + D TG S+G+A Y + +A+ M G
Sbjct: 125 YLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDK 184
Query: 271 QLQCQKAAEG 280
+L Q+A+ G
Sbjct: 185 KLLVQRASVG 194
Score = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 41/87 (47%), Gaps = 11/87 (12%)
Query: 105 SQRKIFVHGLGW---DTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAF---IVFKTR 158
S K+F+ GL D + LL++FG ++ LV D TG +KG+AF +
Sbjct: 113 SAHKLFIGGLPNYLNDDQVKELLTSFG---PLKAFNLVKDSATGLSKGYAFCEYVDINVT 169
Query: 159 KAAVKALKNPQRKVNNRMASCQLASVG 185
A+ L Q + ++ Q ASVG
Sbjct: 170 DQAIAGLNGMQ--LGDKKLLVQRASVG 194
>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 = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 30/59 (50%)
Query: 109 IFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKN 167
+F++ L + + LL F G + K+ IDK T +K F F+ + +A A+++
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQS 86
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 12/42 (28%), Positives = 26/42 (61%)
Query: 132 EIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNPQRKVN 173
+ E +L+ +K +G+++GFAF+ F + A + ++ Q +N
Sbjct: 28 QAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLN 69
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 2/79 (2%)
Query: 204 IYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALEEP 263
++V + +++ ++R FF R+G ++ I D TG S+G+ + +K +E
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVES- 70
Query: 264 QKMFEGHQLQCQKAAEGKN 282
Q F G +L+ A +N
Sbjct: 71 QINFHGKKLKLGPAIRKQN 89
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKALE 261
K+++ +P + ++++ FG ++ + D TG S+G+A Y + +A+
Sbjct: 2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61
Query: 262 EPQKMFEGH-QLQCQKAAEG 280
M G +L Q+A+ G
Sbjct: 62 GLNGMQLGDKKLLVQRASVG 81
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 30/172 (17%), Positives = 68/172 (39%), Gaps = 37/172 (21%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGS---GEIEEC--KLVIDKVTGKAKGFAFIVFKTRK 159
S R+++V + + T+E+++ F G + + V+ + K FAF+ F++
Sbjct: 5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 64
Query: 160 AAVKALKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQ-----------GERKIYVSN 208
+A+ G+ QG + + G K+++
Sbjct: 65 ETTQAM---------------------AFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGG 103
Query: 209 VPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
+P + ++++ FG ++ + D TG S+G+A Y + +A+
Sbjct: 104 LPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 155
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 30/172 (17%), Positives = 68/172 (39%), Gaps = 37/172 (21%)
Query: 105 SQRKIFVHGLGWDTTQESLLSAFGGS---GEIEEC--KLVIDKVTGKAKGFAFIVFKTRK 159
S R+++V + + T+E+++ F G + + V+ + K FAF+ F++
Sbjct: 3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62
Query: 160 AAVKALKNPQRKVNNRMASCQLASVGPTGPGVKEQGAAAQ-----------GERKIYVSN 208
+A+ G+ QG + + G K+++
Sbjct: 63 ETTQAM---------------------AFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGG 101
Query: 209 VPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGARKAL 260
+P + ++++ FG ++ + D TG S+G+A Y + +A+
Sbjct: 102 LPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 153
>pdb|1WG5|A Chain A, Solution Structure Of The First Rrm Domain In
Heterogeneous Nuclear Ribonucleoprotein H
Length = 104
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 40/82 (48%), Gaps = 3/82 (3%)
Query: 111 VHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKAKGFAFIVFKTRKAAVKALKNPQR 170
+ GL + ++E ++ F G + + G++ G AF+ F +++ A KALK +
Sbjct: 20 LRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKE 79
Query: 171 KVNNR---MASCQLASVGPTGP 189
++ +R + A V +GP
Sbjct: 80 RIGHRYIEIFKSSRAEVRTSGP 101
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 29.3 bits (64), Expect = 5.2, Method: Composition-based stats.
Identities = 9/27 (33%), Positives = 19/27 (70%)
Query: 202 RKIYVSNVPRDVEKEKLRGFFERFGEI 228
RK++V +P D++++++ F RFG +
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFGPL 35
>pdb|1S79|A Chain A, Solution Structure Of The Central Rrm Of Human La Protein
Length = 103
Score = 28.9 bits (63), Expect = 5.7, Method: Composition-based stats.
Identities = 18/70 (25%), Positives = 35/70 (50%), Gaps = 3/70 (4%)
Query: 103 DVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKA-KGFAFIVFKTRKAA 161
DV R +++ G D T + + G++ + + + KA KG F+VF + ++A
Sbjct: 8 DVKNRSVYIKGFPTDATLDDIKEWLEDKGQV--LNIQMRRTLHKAFKGSIFVVFDSIESA 65
Query: 162 VKALKNPQRK 171
K ++ P +K
Sbjct: 66 KKFVETPGQK 75
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 28.9 bits (63), Expect = 6.1, Method: Composition-based stats.
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 196 AAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEG 255
+ + G +I+V N+P D + L+ F G + I + GKS+G + +++ E
Sbjct: 3 SGSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEV 60
Query: 256 ARKALEEPQKMFEGHQL 272
A +A +M G +L
Sbjct: 61 AERAC----RMMNGMKL 73
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 28.9 bits (63), Expect = 6.3, Method: Composition-based stats.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 12/103 (11%)
Query: 182 ASVGPTGPGVKEQGAAAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGK 241
S G +GP V G + V N+ + LR FE++G + I + T
Sbjct: 1 GSSGSSGPDV-------DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKA 53
Query: 242 SRGFAIFVY---KTVEGARKALEEPQKMFEGHQLQCQKAAEGK 281
RGFA + + + A A++ + +G +L+ Q A G+
Sbjct: 54 PRGFAFVRFHDRRDAQDAEAAMDGAE--LDGRELRVQVARYGR 94
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 28.5 bits (62), Expect = 7.9, Method: Composition-based stats.
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 6/76 (7%)
Query: 197 AAQGERKIYVSNVPRDVEKEKLRGFFERFGEIETGPIGFDITTGKSRGFAIFVYKTVEGA 256
+ G I+V N+P D + L+ F G + I + GKS+G + +++ E A
Sbjct: 1 GSSGSSGIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVA 58
Query: 257 RKALEEPQKMFEGHQL 272
+A +M G +L
Sbjct: 59 ERAC----RMMNGMKL 70
>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VOD|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VON|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VON|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VOO|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOO|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOP|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auuuu
Length = 193
Score = 28.1 bits (61), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 35/70 (50%), Gaps = 3/70 (4%)
Query: 103 DVSQRKIFVHGLGWDTTQESLLSAFGGSGEIEECKLVIDKVTGKA-KGFAFIVFKTRKAA 161
DV R +++ G D T + + G++ + + + KA KG F+VF + ++A
Sbjct: 106 DVKNRSVYIKGFPTDATLDDIKEWLEDKGQV--LNIQMRRTLHKAFKGSIFVVFDSIESA 163
Query: 162 VKALKNPQRK 171
K ++ P +K
Sbjct: 164 KKFVETPGQK 173
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
0.318 0.136 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,007,483
Number of Sequences: 62578
Number of extensions: 376098
Number of successful extensions: 1033
Number of sequences better than 100.0: 169
Number of HSP's better than 100.0 without gapping: 108
Number of HSP's successfully gapped in prelim test: 61
Number of HSP's that attempted gapping in prelim test: 734
Number of HSP's gapped (non-prelim): 298
length of query: 446
length of database: 14,973,337
effective HSP length: 102
effective length of query: 344
effective length of database: 8,590,381
effective search space: 2955091064
effective search space used: 2955091064
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)