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= 035855
(456 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex
With Rna
pdb|2KM8|C Chain C, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 167
Score = 157 bits (396), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 74/182 (40%), Positives = 114/182 (62%), Gaps = 20/182 (10%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
K+FIGG++W+T+E+ LREYF +YG V +M++ TGR RGFGF+ F PS +D V++
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 67 KHSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDGF 126
+H LDG+ ++ KRA+ R+EQ + KIFVGG+ P + F
Sbjct: 65 QHILDGKVIDPKRAIPRDEQDKTG--------------------KIFVGGIGPDVRPKEF 104
Query: 127 RQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTFHDLNGKQVEVKRAL 186
++F +G + D +M D++T + RGFGF+++D+ DAVDRV Q F D +++E+KRA
Sbjct: 105 EEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIKRAE 164
Query: 187 PK 188
P+
Sbjct: 165 PR 166
Score = 80.9 bits (198), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 42/79 (53%), Positives = 55/79 (69%), Gaps = 1/79 (1%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
K+F+GGL TED R+YF YG VTD+ IM D T R RGFGF+SF+ +VD V+ K
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVV-K 63
Query: 171 TFHDLNGKQVEVKRALPKD 189
T H L+GK ++ KRA+P+D
Sbjct: 64 TQHILDGKVIDPKRAIPRD 82
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 32/79 (40%), Positives = 47/79 (59%), Gaps = 1/79 (1%)
Query: 6 GKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQ 65
GK+F+GGI + + E+FSQ+G ++ +M +K TG+ RGFGFV + +DRV Q
Sbjct: 88 GKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ 147
Query: 66 DKH-SLDGRTVEAKRAMSR 83
+K R +E KRA R
Sbjct: 148 NKFIDFKDRKIEIKRAEPR 166
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 149 bits (375), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 76/183 (41%), Positives = 108/183 (59%), Gaps = 15/183 (8%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
KLFIGG+S+ET++E LR +F Q+G + VVMR+ T R RGFGFV +A +D +
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 67 K-HSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDG 125
+ H +DGR VE KRA+SRE+ Q KKIFVGG+ E
Sbjct: 76 RPHKVDGRVVEPKRAVSREDSQ--------------RPGAHLTVKKIFVGGIKEDTEEHH 121
Query: 126 FRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTFHDLNGKQVEVKRA 185
R YFE YG + + IM D+ + + RGF F++FD D+VD+++ + +H +NG EV++A
Sbjct: 122 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 181
Query: 186 LPK 188
L K
Sbjct: 182 LSK 184
Score = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 54/80 (67%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+K+F+GGL T++ R +FE +G +TD V+M D NT+R RGFGF+++ T + VD +
Sbjct: 15 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 74
Query: 170 KTFHDLNGKQVEVKRALPKD 189
H ++G+ VE KRA+ ++
Sbjct: 75 ARPHKVDGRVVEPKRAVSRE 94
>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 = 149 bits (375), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 76/183 (41%), Positives = 108/183 (59%), Gaps = 15/183 (8%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
KLFIGG+S+ET++E LR +F Q+G + VVMR+ T R RGFGFV +A +D +
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 67 K-HSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDG 125
+ H +DGR VE KRA+SRE+ Q KKIFVGG+ E
Sbjct: 74 RPHKVDGRVVEPKRAVSREDSQ--------------RPGAHLTVKKIFVGGIKEDTEEHH 119
Query: 126 FRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTFHDLNGKQVEVKRA 185
R YFE YG + + IM D+ + + RGF F++FD D+VD+++ + +H +NG EV++A
Sbjct: 120 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 179
Query: 186 LPK 188
L K
Sbjct: 180 LSK 182
Score = 75.9 bits (185), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 54/80 (67%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+K+F+GGL T++ R +FE +G +TD V+M D NT+R RGFGF+++ T + VD +
Sbjct: 13 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 72
Query: 170 KTFHDLNGKQVEVKRALPKD 189
H ++G+ VE KRA+ ++
Sbjct: 73 ARPHKVDGRVVEPKRAVSRE 92
>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 = 149 bits (375), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 76/183 (41%), Positives = 108/183 (59%), Gaps = 15/183 (8%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
KLFIGG+S+ET++E LR +F Q+G + VVMR+ T R RGFGFV +A +D +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 67 K-HSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDG 125
+ H +DGR VE KRA+SRE+ Q KKIFVGG+ E
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQ--------------RPGAHLTVKKIFVGGIKEDTEEHH 120
Query: 126 FRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTFHDLNGKQVEVKRA 185
R YFE YG + + IM D+ + + RGF F++FD D+VD+++ + +H +NG EV++A
Sbjct: 121 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 180
Query: 186 LPK 188
L K
Sbjct: 181 LSK 183
Score = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 54/80 (67%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+K+F+GGL T++ R +FE +G +TD V+M D NT+R RGFGF+++ T + VD +
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 170 KTFHDLNGKQVEVKRALPKD 189
H ++G+ VE KRA+ ++
Sbjct: 74 ARPHKVDGRVVEPKRAVSRE 93
>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 = 148 bits (373), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 76/183 (41%), Positives = 108/183 (59%), Gaps = 15/183 (8%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
KLFIGG+S+ET++E LR +F Q+G + VVMR+ T R RGFGFV +A +D +
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 67 K-HSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDG 125
+ H +DGR VE KRA+SRE+ Q KKIFVGG+ E
Sbjct: 68 RPHKVDGRVVEPKRAVSREDSQ--------------RPGAHLTVKKIFVGGIKEDTEEHH 113
Query: 126 FRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTFHDLNGKQVEVKRA 185
R YFE YG + + IM D+ + + RGF F++FD D+VD+++ + +H +NG EV++A
Sbjct: 114 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 173
Query: 186 LPK 188
L K
Sbjct: 174 LSK 176
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 54/80 (67%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+K+F+GGL T++ R +FE +G +TD V+M D NT+R RGFGF+++ T + VD +
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66
Query: 170 KTFHDLNGKQVEVKRALPKD 189
H ++G+ VE KRA+ ++
Sbjct: 67 ARPHKVDGRVVEPKRAVSRE 86
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 147 bits (372), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 76/183 (41%), Positives = 108/183 (59%), Gaps = 15/183 (8%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
KLFIGG+S+ET++E LR +F Q+G + VVMR+ T R RGFGFV +A +D +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 67 K-HSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDG 125
+ H +DGR VE KRA+SRE+ Q KKIFVGG+ E
Sbjct: 75 RPHKVDGRVVEPKRAVSREDSQ--------------RPGAHLTVKKIFVGGIKEDTEEHH 120
Query: 126 FRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTFHDLNGKQVEVKRA 185
R YFE YG + + IM D+ + + RGF F++FD D+VD+++ + +H +NG EV++A
Sbjct: 121 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 180
Query: 186 LPK 188
L K
Sbjct: 181 LSK 183
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 54/80 (67%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+K+F+GGL T++ R +FE +G +TD V+M D NT+R RGFGF+++ T + VD +
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73
Query: 170 KTFHDLNGKQVEVKRALPKD 189
H ++G+ VE KRA+ ++
Sbjct: 74 ARPHKVDGRVVEPKRAVSRE 93
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 147 bits (371), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 76/183 (41%), Positives = 108/183 (59%), Gaps = 15/183 (8%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
KLFIGG+S+ET++E LR +F Q+G + VVMR+ T R RGFGFV +A +D +
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 67 K-HSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDG 125
+ H +DGR VE KRA+SRE+ Q KKIFVGG+ E
Sbjct: 73 RPHKVDGRVVEPKRAVSREDSQ--------------RPGAHLTVKKIFVGGIKEDTEEHH 118
Query: 126 FRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTFHDLNGKQVEVKRA 185
R YFE YG + + IM D+ + + RGF F++FD D+VD+++ + +H +NG EV++A
Sbjct: 119 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 178
Query: 186 LPK 188
L K
Sbjct: 179 LSK 181
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 54/80 (67%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+K+F+GGL T++ R +FE +G +TD V+M D NT+R RGFGF+++ T + VD +
Sbjct: 12 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 71
Query: 170 KTFHDLNGKQVEVKRALPKD 189
H ++G+ VE KRA+ ++
Sbjct: 72 ARPHKVDGRVVEPKRAVSRE 91
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 99.8 bits (247), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 44/80 (55%), Positives = 60/80 (75%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
KIFVGG+P E R+YF+ +G VT+VV++YD QRPRGFGFI+F+ E +VD+ +
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 171 TFHDLNGKQVEVKRALPKDA 190
FHD+ GK+VEVKRA P+D+
Sbjct: 72 HFHDIMGKKVEVKRAEPRDS 91
Score = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/81 (39%), Positives = 48/81 (59%), Gaps = 1/81 (1%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
K+F+GGI E LREYF ++G V + V++ + RPRGFGF+ F D +D+ +
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 67 K-HSLDGRTVEAKRAMSREEQ 86
H + G+ VE KRA R+ +
Sbjct: 72 HFHDIMGKKVEVKRAEPRDSK 92
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 42/82 (51%), Positives = 58/82 (70%), Gaps = 1/82 (1%)
Query: 6 GKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQ 65
GKLF+GG+ W T++E LR YFSQYG+V+ V+M++KTT + RGFGFV F DP+ + VL
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLA 76
Query: 66 DK-HSLDGRTVEAKRAMSREEQ 86
+ H+LDGR ++ K R Q
Sbjct: 77 SRPHTLDGRNIDPKPCTPRGMQ 98
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 34/82 (41%), Positives = 47/82 (57%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
K+FVGGL + T++ R YF YG V D VIM D+ T + RGFGF+ F + V VL
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 171 TFHDLNGKQVEVKRALPKDANP 192
H L+G+ ++ K P+ P
Sbjct: 78 RPHTLDGRNIDPKPCTPRGMQP 99
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 92.4 bits (228), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 44/87 (50%), Positives = 61/87 (70%), Gaps = 1/87 (1%)
Query: 1 MDSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSIL 60
M S K+FIGG+SW+T++E LREYF Q+G+V + +VMR+ T R RGFGFV F D + +
Sbjct: 21 MGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGV 80
Query: 61 DRVL-QDKHSLDGRTVEAKRAMSREEQ 86
D+VL Q +H LD +T++ K A R Q
Sbjct: 81 DKVLAQSRHELDSKTIDPKVAFPRRAQ 107
Score = 78.6 bits (192), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 34/82 (41%), Positives = 55/82 (67%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
K+F+GGL T++G R+YF +G V + ++M D T+R RGFGF++F + VD+VL +
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
Query: 171 TFHDLNGKQVEVKRALPKDANP 192
+ H+L+ K ++ K A P+ A P
Sbjct: 87 SRHELDSKTIDPKVAFPRRAQP 108
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 88.2 bits (217), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 42/80 (52%), Positives = 58/80 (72%), Gaps = 1/80 (1%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
KLFIGG+S+ET+EE LR Y+ Q+G + VVMR+ + R RGFGFV F+ + +D +
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Query: 67 K-HSLDGRTVEAKRAMSREE 85
+ HS+DGR VE KRA++REE
Sbjct: 89 RPHSIDGRVVEPKRAVAREE 108
Score = 76.6 bits (187), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 32/80 (40%), Positives = 52/80 (65%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+K+F+GGL TE+ R Y+E +G +TD V+M D ++R RGFGF++F + VD +
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA 87
Query: 170 KTFHDLNGKQVEVKRALPKD 189
H ++G+ VE KRA+ ++
Sbjct: 88 ARPHSIDGRVVEPKRAVARE 107
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 87.4 bits (215), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 40/75 (53%), Positives = 57/75 (76%), Gaps = 1/75 (1%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVL-Q 65
K+FIGG+SW+T++E LREYF Q+G+V + +VMR+ T R RGFGFV F D + +D+VL Q
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 66 DKHSLDGRTVEAKRA 80
+H LD +T++ K A
Sbjct: 62 SRHELDSKTIDPKVA 76
Score = 69.7 bits (169), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 51/76 (67%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
K+F+GGL T++G R+YF +G V + ++M D T+R RGFGF++F + VD+VL +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 171 TFHDLNGKQVEVKRAL 186
+ H+L+ K ++ K A
Sbjct: 62 SRHELDSKTIDPKVAF 77
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 84.0 bits (206), Expect = 1e-16, Method: Composition-based stats.
Identities = 35/74 (47%), Positives = 52/74 (70%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
IFVGGL T + + YFE +G V D ++M+D+ T R RGFGF++F++ED V++V +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 172 FHDLNGKQVEVKRA 185
FH++N K VE K+A
Sbjct: 62 FHEINNKMVECKKA 75
Score = 65.5 bits (158), Expect = 6e-11, Method: Composition-based stats.
Identities = 30/74 (40%), Positives = 48/74 (64%), Gaps = 1/74 (1%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
+F+GG+S T+ E ++ YF Q+G V ++M +KTT R RGFGFV F I+++V +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 68 -HSLDGRTVEAKRA 80
H ++ + VE K+A
Sbjct: 62 FHEINNKMVECKKA 75
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 83.2 bits (204), Expect = 3e-16, Method: Composition-based stats.
Identities = 35/80 (43%), Positives = 60/80 (75%), Gaps = 1/80 (1%)
Query: 2 DSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILD 61
+ D GK F+GG+SW+TS++ L++YF+++G+V+ + + TGR RGFGF++F D + ++
Sbjct: 8 EEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVE 67
Query: 62 RVL-QDKHSLDGRTVEAKRA 80
+VL Q +H LDGR ++ K+A
Sbjct: 68 KVLDQKEHRLDGRVIDPKKA 87
Score = 61.2 bits (147), Expect = 1e-09, Method: Composition-based stats.
Identities = 31/75 (41%), Positives = 44/75 (58%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
K FVGGL ++ + YF +G V D I D NT R RGFGFI F +V++VL +
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 171 TFHDLNGKQVEVKRA 185
H L+G+ ++ K+A
Sbjct: 73 KEHRLDGRVIDPKKA 87
>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 = 77.4 bits (189), Expect = 1e-14, Method: Composition-based stats.
Identities = 32/74 (43%), Positives = 56/74 (75%), Gaps = 1/74 (1%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVL-QD 66
+FIGG+SW+T+++ L++YFS++G+V+ + + TGR RGFGFV+F + +D+V+ Q
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 67 KHSLDGRTVEAKRA 80
+H L+G+ ++ KRA
Sbjct: 62 EHKLNGKVIDPKRA 75
Score = 65.5 bits (158), Expect = 5e-11, Method: Composition-based stats.
Identities = 30/74 (40%), Positives = 44/74 (59%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+F+GGL T+ + YF +G V D + D T R RGFGF+ F ++VD+V+ +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 172 FHDLNGKQVEVKRA 185
H LNGK ++ KRA
Sbjct: 62 EHKLNGKVIDPKRA 75
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 34/82 (41%), Positives = 55/82 (67%), Gaps = 2/82 (2%)
Query: 1 MDSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF--ADPS 58
M SD+GKLF+GG+S++T+E+ L + FS+YG + + VV++++ T R RGFGFV F D +
Sbjct: 8 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDA 67
Query: 59 ILDRVLQDKHSLDGRTVEAKRA 80
+ + S+DGR + +A
Sbjct: 68 KDAMMAMNGKSVDGRQIRVDQA 89
Score = 66.2 bits (160), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 48/76 (63%), Gaps = 1/76 (1%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQ 169
K+FVGGL E Q F YG +++VV++ D+ TQR RGFGF++F+ +DA D ++
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 170 KTFHDLNGKQVEVKRA 185
++G+Q+ V +A
Sbjct: 74 MNGKSVDGRQIRVDQA 89
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 71/159 (44%), Gaps = 19/159 (11%)
Query: 1 MDSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSIL 60
MDS + L + + +++ + F GD+ ++R+K TG+ G+GFV ++DP+
Sbjct: 1 MDS-KTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDA 59
Query: 61 DRVLQDKHSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPT 120
D+ + + L +T K + +R ++V GLP T
Sbjct: 60 DKAINTLNGLKLQTKTIKVSYARPSS------------------ASIRDANLYVSGLPKT 101
Query: 121 LTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD 159
+++ Q F YG + I+ DQ T RG GFI FD
Sbjct: 102 MSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFD 140
>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 = 69.3 bits (168), Expect = 4e-12, Method: Composition-based stats.
Identities = 30/77 (38%), Positives = 48/77 (62%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
KKIFVGGL P E+ R+YF +G V + + D T + RGF FI+F E+ V ++++
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
Query: 170 KTFHDLNGKQVEVKRAL 186
K +H++ + E+K A+
Sbjct: 62 KKYHNVGLSKCEIKVAM 78
Score = 55.1 bits (131), Expect = 8e-08, Method: Composition-based stats.
Identities = 27/77 (35%), Positives = 47/77 (61%), Gaps = 1/77 (1%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
K+F+GG+S +T EE++REYF +G+V + + T + RGF F+ F + + ++++
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
Query: 67 K-HSLDGRTVEAKRAMS 82
K H++ E K AMS
Sbjct: 63 KYHNVGLSKCEIKVAMS 79
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 68.9 bits (167), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 49/79 (62%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + G+ W+T+E+ L+EYFS +G+VL V ++ TG +GFGFV F + +V+ +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR 77
Query: 68 HSLDGRTVEAKRAMSREEQ 86
H +DGR + K S++ Q
Sbjct: 78 HMIDGRWCDCKLPNSKQSQ 96
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+ V GLP TE ++YF +G V V + D T +GFGF+ F + +V+ +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR 77
Query: 172 FHDLNGKQVEVK 183
H ++G+ + K
Sbjct: 78 -HMIDGRWCDCK 88
>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 = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 40/152 (26%), Positives = 65/152 (42%), Gaps = 18/152 (11%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + + ++E R F G++ ++R+K TG+ G+GFV + DP ++ +
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 68 HSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDGFR 127
+ L +T K + +R ++V GLP T+T+
Sbjct: 65 NGLRLQTKTIKVSYARPSS------------------ASIRDANLYVSGLPKTMTQKELE 106
Query: 128 QYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD 159
Q F YG + I+ DQ T RG GFI FD
Sbjct: 107 QLFSQYGRIITSRILVDQVTGVSRGVGFIRFD 138
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 50/80 (62%), Gaps = 1/80 (1%)
Query: 2 DSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILD 61
D+ K+F+GG+ + T++ LR+YF +GD+ + VV+ ++ TG+ RG+GFV AD + +
Sbjct: 14 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAE 73
Query: 62 RVLQDKH-SLDGRTVEAKRA 80
R +D + +DGR A
Sbjct: 74 RACKDPNPIIDGRKANVNLA 93
Score = 58.5 bits (140), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 44/75 (58%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
KIFVGGLP T+ R+YFE +G + + V++ D+ T + RG+GF++ A +R +
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 171 TFHDLNGKQVEVKRA 185
++G++ V A
Sbjct: 79 PNPIIDGRKANVNLA 93
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 64.7 bits (156), Expect = 1e-10, Method: Composition-based stats.
Identities = 28/74 (37%), Positives = 45/74 (60%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
IFVGGL P E+ R+YF +G V + + D T + RGF FI+F E+ V ++++K
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 172 FHDLNGKQVEVKRA 185
+H++ + E+K A
Sbjct: 62 YHNVGLSKCEIKVA 75
Score = 50.1 bits (118), Expect = 3e-06, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 39/61 (63%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
+F+GG+S +T EE++REYF +G+V + + T + RGF F+ F + + ++++ K
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 68 H 68
+
Sbjct: 62 Y 62
>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 = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 41/183 (22%), Positives = 82/183 (44%), Gaps = 12/183 (6%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
++++G I +E E+ +R+ F+ +G + + T + +GF FV + P L+
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 67 KHS--LDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTED 124
+S L GR ++ R + + Q +I+V + L++D
Sbjct: 74 XNSVXLGGRNIKVGRPSNIGQAQ---------PIIDQLAEEARAFNRIYVASVHQDLSDD 124
Query: 125 GFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQKTFHDLNGKQVEVK 183
+ FEA+G + + D T + +G+GFI ++ + + D V DL G+ + V
Sbjct: 125 DIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRVG 184
Query: 184 RAL 186
+A+
Sbjct: 185 KAV 187
>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 = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 41/183 (22%), Positives = 83/183 (45%), Gaps = 12/183 (6%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
++++G I +E E+ +R+ F+ +G + + + T + +GF FV + P L+
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 89
Query: 67 KHS--LDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTED 124
+S L GR ++ R + + Q +I+V + L++D
Sbjct: 90 MNSVMLGGRNIKVGRPSNIGQAQ---------PIIDQLAEEARAFNRIYVASVHQDLSDD 140
Query: 125 GFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQKTFHDLNGKQVEVK 183
+ FEA+G + + D T + +G+GFI ++ + + D V DL G+ + V
Sbjct: 141 DIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVG 200
Query: 184 RAL 186
+A+
Sbjct: 201 KAV 203
>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 = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 41/183 (22%), Positives = 83/183 (45%), Gaps = 12/183 (6%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
++++G I +E E+ +R+ F+ +G + + + T + +GF FV + P L+
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 67 KHS--LDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTED 124
+S L GR ++ R + + Q +I+V + L++D
Sbjct: 75 MNSVMLGGRNIKVGRPSNIGQAQ---------PIIDQLAEEARAFNRIYVASVHQDLSDD 125
Query: 125 GFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQKTFHDLNGKQVEVK 183
+ FEA+G + + D T + +G+GFI ++ + + D V DL G+ + V
Sbjct: 126 DIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVG 185
Query: 184 RAL 186
+A+
Sbjct: 186 KAV 188
>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 = 58.2 bits (139), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 44/181 (24%), Positives = 78/181 (43%), Gaps = 19/181 (10%)
Query: 5 QGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVL 64
L++G + + +E L E FS G +L V R+ T R G+ +V F P+ +R L
Sbjct: 15 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 74
Query: 65 QDKHSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTED 124
D + D + R M + IF+ L ++
Sbjct: 75 -DTMNFDVIKGKPVRIMWSQRDP---------------SLRKSGVGNIFIKNLDKSIDNK 118
Query: 125 GFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTF-HDLNGKQVEVK 183
F A+G++ ++ D+N + G+GF+ F+T++A +R ++K LN ++V V
Sbjct: 119 ALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKMNGMLLNDRKVFVG 176
Query: 184 R 184
R
Sbjct: 177 R 177
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 44/181 (24%), Positives = 78/181 (43%), Gaps = 19/181 (10%)
Query: 5 QGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVL 64
L++G + + +E L E FS G +L V R+ T R G+ +V F P+ +R L
Sbjct: 10 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 69
Query: 65 QDKHSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTED 124
D + D + R M + IF+ L ++
Sbjct: 70 -DTMNFDVIKGKPVRIMWSQRDP---------------SLRKSGVGNIFIKNLDKSIDNK 113
Query: 125 GFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTF-HDLNGKQVEVK 183
F A+G++ ++ D+N + G+GF+ F+T++A +R ++K LN ++V V
Sbjct: 114 ALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKMNGMLLNDRKVFVG 171
Query: 184 R 184
R
Sbjct: 172 R 172
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 34/152 (22%), Positives = 63/152 (41%), Gaps = 18/152 (11%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + + +++ LR FS G+V ++R+K G G+GFV + +R +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 68 HSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDGFR 127
+ L ++ K + +R + +++ GLP T+T+
Sbjct: 65 NGLRLQSKTIKVSYARPSSEV------------------IKDANLYISGLPRTMTQKDVE 106
Query: 128 QYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD 159
F +G + + ++ DQ T RG FI FD
Sbjct: 107 DMFSRFGRIINSRVLVDQTTGLSRGVAFIRFD 138
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 52/77 (67%), Gaps = 3/77 (3%)
Query: 6 GKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQ 65
GKLFIGG++ ET+E+ L+ F ++G + + ++++++T+ + RGF F+ F +P+ +
Sbjct: 8 GKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTS-KSRGFAFITFENPADAKNAAK 66
Query: 66 DKH--SLDGRTVEAKRA 80
D + SL G+ ++ ++A
Sbjct: 67 DMNGKSLHGKAIKVEQA 83
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 44/76 (57%), Gaps = 2/76 (2%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDT-EDAVDRVLQ 169
K+F+GGL E + F +G +++V+++ D+ T + RGF FI+F+ DA +
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 170 KTFHDLNGKQVEVKRA 185
L+GK ++V++A
Sbjct: 68 MNGKSLHGKAIKVEQA 83
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 34/152 (22%), Positives = 63/152 (41%), Gaps = 18/152 (11%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + + +++ LR FS G+V ++R+K G G+GFV + +R +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 68 HSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDGFR 127
+ L ++ K + +R + +++ GLP T+T+
Sbjct: 65 NGLRLQSKTIKVSYARPSSEV------------------IKDANLYISGLPRTMTQKDVE 106
Query: 128 QYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD 159
F +G + + ++ DQ T RG FI FD
Sbjct: 107 DMFSRFGRIINSRVLVDQTTGLSRGVAFIRFD 138
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 42/69 (60%), Gaps = 4/69 (5%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
++VG L +TED R FE +G + ++V+M D +T R +G+GFI+F + R L++
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQ- 66
Query: 172 FHDLNGKQV 180
LNG ++
Sbjct: 67 ---LNGFEL 72
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 35/58 (60%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQ 65
L++G + + +E+ LR F +G + V+M++ TGR +G+GF+ F+D R L+
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 45/81 (55%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+ I+VG L + T + ++ F +G V +V ++YD+ T++P+GFGF+ E + + +
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAK 61
Query: 170 KTFHDLNGKQVEVKRALPKDA 190
D G+ + V A PK +
Sbjct: 62 LDNTDFMGRTIRVTEANPKKS 82
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 43/74 (58%), Gaps = 1/74 (1%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQ-D 66
+++G + + + E+++E FSQ+G V ++ ++ T +P+GFGFV + S+ + + + D
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLD 63
Query: 67 KHSLDGRTVEAKRA 80
GRT+ A
Sbjct: 64 NTDFMGRTIRVTEA 77
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 42/174 (24%), Positives = 71/174 (40%), Gaps = 18/174 (10%)
Query: 2 DSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRP--RGFGFVVFADPSI 59
D D K+F+G + SE+ LRE F QYG V + V+R+++ P +G FV F
Sbjct: 12 DLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKA 71
Query: 60 LDRVLQDKHSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPP 119
+EA+ A+ + +K+F+G +
Sbjct: 72 --------------ALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISK 117
Query: 120 TLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTFH 173
TE+ R F ++G + + I+ + RG F++F T A+ + K H
Sbjct: 118 KCTENDIRVMFSSFGQIEECRILRGPDG-LSRGCAFVTFTTR-AMAQTAIKAMH 169
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYD--QNTQRPRGFGFISFDTEDAVDRVL 168
K+FVG +P T +E R+ FE YG V ++ ++ D QN + +G F++F T A
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA- 75
Query: 169 QKTFHDL 175
Q H++
Sbjct: 76 QNALHNM 82
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 114 VGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQKTF 172
V GL TE R+ F YG + DV I+YDQ ++R RGF F+ F+ +DA + +
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Query: 173 HDLNGKQVEVKRALPK 188
+L+G+++ V ++ K
Sbjct: 80 MELDGRRIRVDFSITK 95
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + G+S T+E LRE FS+YG + ++ ++ + R RGF FV F + +D + K
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN---VDDAKEAK 74
Query: 68 HSLDGRTVEAKR 79
+G ++ +R
Sbjct: 75 ERANGMELDGRR 86
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 40/70 (57%), Gaps = 4/70 (5%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
+++VG L +TED R FE +G + + +M D T R +G+GFI+F + + L++
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 171 TFHDLNGKQV 180
LNG ++
Sbjct: 88 ----LNGFEL 93
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 41/79 (51%), Gaps = 2/79 (2%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQ- 65
+L++G + + +E+ LR F +G + +M + TGR +G+GF+ F+D + L+
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 66 -DKHSLDGRTVEAKRAMSR 83
+ L GR ++ R
Sbjct: 88 LNGFELAGRPMKVGHVTER 106
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 114 VGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQKTF 172
V GL TE R+ F YG + DV I+YDQ ++R RGF F+ F+ +DA + +
Sbjct: 51 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 110
Query: 173 HDLNGKQVEVKRALPK 188
+L+G+++ V ++ K
Sbjct: 111 MELDGRRIRVDFSITK 126
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + G+S T+E LRE FS+YG + ++ ++ + R RGF FV F + +D + K
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN---VDDAKEAK 105
Query: 68 HSLDGRTVEAKR 79
+G ++ +R
Sbjct: 106 ERANGMELDGRR 117
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 41/70 (58%), Gaps = 1/70 (1%)
Query: 114 VGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQKTF 172
V GL TE R+ F YG + DV I+YDQ ++R RGF F+ F+ +DA + +
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Query: 173 HDLNGKQVEV 182
+L+G+++ V
Sbjct: 80 MELDGRRIRV 89
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + G+S T+E LRE FS+YG + ++ ++ + R RGF FV F + +D + K
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN---VDDAKEAK 74
Query: 68 HSLDGRTVEAKR 79
+G ++ +R
Sbjct: 75 ERANGMELDGRR 86
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 73/173 (42%), Gaps = 18/173 (10%)
Query: 3 SDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRP--RGFGFVVFADPSIL 60
SD K+F+G + SE+ LRE F QYG V + V+R+++ P +G FV F
Sbjct: 1 SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF------ 54
Query: 61 DRVLQDKHSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPT 120
K +L EA+ A+ + +K+F+G +
Sbjct: 55 ---YTRKAAL-----EAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKK 106
Query: 121 LTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTFH 173
TE+ R F ++G + + I+ + RG F++F T A+ + K H
Sbjct: 107 CTENDIRVMFSSFGQIEECRILRGPDG-LSRGCAFVTFTTR-AMAQTAIKAMH 157
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYD--QNTQRPRGFGFISFDTEDAVDRVL 168
K+FVG +P T +E R+ FE YG V ++ ++ D QN + +G F++F T A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA- 63
Query: 169 QKTFHDL 175
Q H++
Sbjct: 64 QNALHNM 70
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 114 VGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQKTF 172
V GL TE R+ F YG + DV I+YDQ ++R RGF F+ F+ +DA + +
Sbjct: 17 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 76
Query: 173 HDLNGKQVEVKRALPK 188
+L+G+++ V ++ K
Sbjct: 77 MELDGRRIRVDFSITK 92
Score = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + G+S T+E LRE FS+YG + ++ ++ + R RGF FV F + +D + K
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN---VDDAKEAK 71
Query: 68 HSLDGRTVEAKR 79
+G ++ +R
Sbjct: 72 ERANGMELDGRR 83
>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 = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 42/160 (26%), Positives = 68/160 (42%), Gaps = 17/160 (10%)
Query: 3 SDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRP--RGFGFVVFADPSIL 60
SD K F+G + SE+ LRE F QYG V + V+R+++ P +G FV F
Sbjct: 1 SDAIKXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF------ 54
Query: 61 DRVLQDKHSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPT 120
K +L EA+ A+ + +K+F+G +
Sbjct: 55 ---YTRKAAL-----EAQNALHNXKVLPGXHHPIQXKPADSEKNNAVEDRKLFIGXISKK 106
Query: 121 LTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDT 160
TE+ R F ++G + + I+ + RG F++F T
Sbjct: 107 CTENDIRVXFSSFGQIEECRILRGPDG-LSRGCAFVTFTT 145
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 32/55 (58%), Gaps = 2/55 (3%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYD--QNTQRPRGFGFISFDTEDA 163
K FVG +P T +E R+ FE YG V ++ ++ D QN + +G F++F T A
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKA 59
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 42/79 (53%), Gaps = 11/79 (13%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
++FVG LPP +TE+ R+ FE YG +V I D +GFGFI +T + + K
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAE--IAK 75
Query: 171 TFHD---LNGKQVEVKRAL 186
D L GKQ+ V+ A
Sbjct: 76 VELDNMPLRGKQLRVRFAC 94
Score = 41.6 bits (96), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 34/171 (19%), Positives = 69/171 (40%), Gaps = 35/171 (20%)
Query: 3 SDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSI--L 60
+ + +LF+G + + +EE +R+ F +YG + + ++K GFGF+ ++ +
Sbjct: 20 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEI 73
Query: 61 DRVLQDKHSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPT 120
+V D L G+ + + A + V LP
Sbjct: 74 AKVELDNMPLRGKQLRVRFACH--------------------------SASLTVRNLPQY 107
Query: 121 LTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
++ + + F +G V V++ D + RP G G + F + A + L +
Sbjct: 108 VSNELLEEAFSVFGQVERAVVIVD-DRGRPSGKGIVEFSGKPAARKALDRC 157
>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 = 49.7 bits (117), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 43/82 (52%), Gaps = 1/82 (1%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFIS-FDTEDAVDRVLQK 170
+FVG L P +T + + F +G ++D ++ D T + +G+GF+S F+ DA + + Q
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 171 TFHDLNGKQVEVKRALPKDANP 192
L G+Q+ A K P
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAP 99
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 42/83 (50%), Gaps = 2/83 (2%)
Query: 3 SDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDR 62
S+ +F+G +S E + E ++ F+ +G + V+++ TG+ +G+GFV F + +
Sbjct: 13 SNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAEN 72
Query: 63 VLQDK--HSLDGRTVEAKRAMSR 83
+Q L GR + A +
Sbjct: 73 AIQQMGGQWLGGRQIRTNWATRK 95
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 49.3 bits (116), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 41/182 (22%), Positives = 78/182 (42%), Gaps = 24/182 (13%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L++G + +E+ L++YF G + +M +K + + FV + + LQ
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNN-KNVNYAFVEYHQSHDANIALQ-- 59
Query: 68 HSLDGRTVE---AKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTED 124
+L+G+ +E K + + QQ S+ +FVG L + ++
Sbjct: 60 -TLNGKQIENNIVKINWAFQSQQSSSDDTF----------------NLFVGDLNVNVDDE 102
Query: 125 GFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTF-HDLNGKQVEVK 183
R F+ + +M+D T RG+GF+SF ++D + DLNG+ + +
Sbjct: 103 TLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRIN 162
Query: 184 RA 185
A
Sbjct: 163 WA 164
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 26/51 (50%)
Query: 4 DQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
D LF+G ++ +E LR F + L VM + TG RG+GFV F
Sbjct: 86 DTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSF 136
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 44/73 (60%), Gaps = 3/73 (4%)
Query: 1 MDSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSIL 60
+D +F+G I +E +EE+L++ FS+ G V+ ++ ++ TG+P+G+GF + D
Sbjct: 4 VDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQ--- 60
Query: 61 DRVLQDKHSLDGR 73
+ L +L+GR
Sbjct: 61 ETALSAMRNLNGR 73
Score = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 40/77 (51%), Gaps = 1/77 (1%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISF-DTEDAVDRVL 168
+ +FVG +P TE+ + F G V ++YD+ T +P+G+GF + D E A+ +
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68
Query: 169 QKTFHDLNGKQVEVKRA 185
+ +G+ + V A
Sbjct: 69 NLNGREFSGRALRVDNA 85
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 48.9 bits (115), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 1/82 (1%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISF-DTEDAVDRVLQK 170
+FVG L P +T + + F +G ++D ++ D T + +G+GF+SF + DA + ++
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 171 TFHDLNGKQVEVKRALPKDANP 192
L G+Q+ A K P
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAP 99
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 32/52 (61%)
Query: 3 SDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
S+ +F+G +S E + E ++ F+ +G + V+++ TG+ +G+GFV F
Sbjct: 13 SNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSF 64
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
K +FV + TE R+ FE YG + + ++Y + + +PRG+ FI ++ E R +
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHE----RDMH 158
Query: 170 KTFHDLNGKQVEVKRAL 186
+ +GK+++ +R L
Sbjct: 159 SAYKHADGKKIDGRRVL 175
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
LF+ ++++T+E +LR F YG + + ++ K +G+PRG+ F+ + + K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAY--K 162
Query: 68 HSLDGRTVEAKRAM 81
H+ DG+ ++ +R +
Sbjct: 163 HA-DGKKIDGRRVL 175
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 40/75 (53%), Gaps = 4/75 (5%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+ + V +P T+ E RQ FE YG + V I+ D+ T++ RG+GF+ F + + Q
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSA----Q 98
Query: 170 KTFHDLNGKQVEVKR 184
+ LNG + KR
Sbjct: 99 QAIAGLNGFNILNKR 113
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
L + I E +LR+ F +YG + ++ ++ T + RG+GFV F
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKF 91
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 5/73 (6%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
+F+G + + +E+ LRE+FSQYGDV+ + + R F FV FAD I + +
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPF-----RAFAFVTFADDQIAQSLCGED 62
Query: 68 HSLDGRTVEAKRA 80
+ G +V A
Sbjct: 63 LIIKGISVHISNA 75
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 38/78 (48%), Gaps = 8/78 (10%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRP-RGFGFISFDTEDAVDRVLQK 170
+FVG +TED R++F YG V DV I +P R F F++F +D + + L
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFI------PKPFRAFAFVTF-ADDQIAQSLCG 60
Query: 171 TFHDLNGKQVEVKRALPK 188
+ G V + A PK
Sbjct: 61 EDLIIKGISVHISNAEPK 78
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
K +FV + TE R+ FE YG + + ++Y + + +PRG+ FI ++ E R +
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHE----RDMH 158
Query: 170 KTFHDLNGKQVEVKRAL 186
+ +GK+++ +R L
Sbjct: 159 SAYKHADGKKIDGRRVL 175
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
LF+ ++++T+E +LR F YG + + ++ K +G+PRG+ F+ + + K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAY--K 162
Query: 68 HSLDGRTVEAKRAM 81
H+ DG+ ++ +R +
Sbjct: 163 HA-DGKKIDGRRVL 175
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 59/155 (38%), Gaps = 18/155 (11%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + + + ++ L F G + +MR+ TG G+ FV F R ++
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK-- 63
Query: 68 HSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDGFR 127
L+G TV KR ++V LP T+T+D
Sbjct: 64 -VLNGITVRNKRL---------------KVSYARPGGESIKDTNLYVTNLPRTITDDQLD 107
Query: 128 QYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTED 162
F YG + I+ D+ T RPRG F+ ++ +
Sbjct: 108 TIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKRE 142
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
++V GLP T+++ Q F YG + I+ DQ T RG GFI FD + ++
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK-- 61
Query: 172 FHDLNGKQ 179
LNG++
Sbjct: 62 --GLNGQK 67
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 30/47 (63%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
L++ G+ S++ + + FSQYG ++ + ++ ++ TG RG GF+ F
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRF 50
>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 = 46.2 bits (108), Expect = 4e-05, Method: Composition-based stats.
Identities = 30/78 (38%), Positives = 42/78 (53%), Gaps = 11/78 (14%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
++FVG LPP +TE+ R+ FE YG +V I D +GFGFI +T + + K
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAE--IAK 68
Query: 171 TFHD---LNGKQVEVKRA 185
D L GKQ+ V+ A
Sbjct: 69 VELDNMPLRGKQLRVRFA 86
Score = 33.5 bits (75), Expect = 0.28, Method: Composition-based stats.
Identities = 19/80 (23%), Positives = 41/80 (51%), Gaps = 8/80 (10%)
Query: 3 SDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILD- 61
+ + +LF+G + + +EE +R+ F +YG + + ++K GFGF+ ++ +
Sbjct: 13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFIRLETRTLAEI 66
Query: 62 -RVLQDKHSLDGRTVEAKRA 80
+V D L G+ + + A
Sbjct: 67 AKVELDNMPLRGKQLRVRFA 86
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 45.4 bits (106), Expect = 6e-05, Method: Composition-based stats.
Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 4/69 (5%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
++V LP +LT + + F YG V V IM D++T++ +G FI F +D+ Q
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSA----QNC 74
Query: 172 FHDLNGKQV 180
+N KQ+
Sbjct: 75 TRAINNKQL 83
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 20/80 (25%), Positives = 42/80 (52%), Gaps = 4/80 (5%)
Query: 5 QGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILD--- 61
+ +++ + + + L FS+YG V++ +M++K T + +G F++F D
Sbjct: 16 KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCT 75
Query: 62 RVLQDKHSLDGRTVEAKRAM 81
R + +K L GR ++A A+
Sbjct: 76 RAINNKQ-LFGRVIKASIAI 94
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVL 168
+ ++VGGL + + F +G +TD+ I D T++ RGF F+ F+ EDA +
Sbjct: 13 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 72
Query: 169 QKTFHDLNGKQVEVKRALP 187
+L G+ + V A P
Sbjct: 73 NMNESELFGRTIRVNLAKP 91
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 29/54 (53%)
Query: 1 MDSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
M + + L++GG++ E ++ L F +GD+ + + T + RGF FV F
Sbjct: 8 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 61
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 124 DGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISF-DTEDAVDRVLQKTFHDLNGKQVEV 182
D R+ FE YG V DV I + +T+ PRGF F+ F D DA D +L+G+++ V
Sbjct: 28 DSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRV 87
Query: 183 KRA 185
+ A
Sbjct: 88 QVA 90
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 35/75 (46%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILD--RVLQ 65
L + +++ TS + LR F +YG V + RE T PRGF FV F D
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 66 DKHSLDGRTVEAKRA 80
D LDGR + + A
Sbjct: 76 DGAELDGRELRVQVA 90
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 31/50 (62%), Gaps = 6/50 (12%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDT 160
++FVG LP +TE+ F++ FE YG ++V I R RGFGFI ++
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLES 67
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 35/169 (20%), Positives = 69/169 (40%), Gaps = 31/169 (18%)
Query: 3 SDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDR 62
+ + +LF+G + + +EE + F +YG+ + + R RGFGF+ ++ +
Sbjct: 20 TQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEI 73
Query: 63 VLQDKHSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLT 122
K LDG ++++ R +A + V L P ++
Sbjct: 74 A---KAELDGTILKSRPLRIRFATHGAA---------------------LTVKNLSPVVS 109
Query: 123 EDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+ Q F +G V V++ D + R G GF+ F + + L++
Sbjct: 110 NELLEQAFSQFGPVEKAVVVVD-DRGRATGKGFVEFAAKPPARKALERC 157
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 35/152 (23%), Positives = 57/152 (37%), Gaps = 18/152 (11%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + + + ++ L F G + + R+ TG G+ FV F R ++
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIK-- 74
Query: 68 HSLDGRTVEAKRAMSREEQQFSAXXXXXXXXXXXXXXXXXXXKKIFVGGLPPTLTEDGFR 127
L+G TV KR ++V LP T+T+D
Sbjct: 75 -VLNGITVRNKRL---------------KVSYARPGGESIKDTNLYVTNLPRTITDDQLD 118
Query: 128 QYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD 159
F YG + I+ D+ T RPRG F+ ++
Sbjct: 119 TIFGKYGSIVQKNILRDKLTGRPRGVAFVRYN 150
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 46/77 (59%), Gaps = 1/77 (1%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
+F+GGI E +R +F++YG V + ++ ++ TG +G+GFV F + + ++++ +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 68 HSLDGRTVEAKRAMSRE 84
+ G+ ++ A+ ++
Sbjct: 72 INFHGKKLKLGPAIRKQ 88
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 46/79 (58%), Gaps = 6/79 (7%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVL--Q 169
+FVGG+ + E R +F YG V +V I+ D+ T +G+GF+SF + V +++ Q
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 170 KTFHDLNGKQVEVKRALPK 188
FH GK++++ A+ K
Sbjct: 72 INFH---GKKLKLGPAIRK 87
>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 = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 46/77 (59%), Gaps = 1/77 (1%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
+F+GGI E +R +F++YG V + ++ ++ TG +G+GFV F + + ++++ +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 68 HSLDGRTVEAKRAMSRE 84
+ G+ ++ A+ ++
Sbjct: 71 INFHGKKLKLGPAIRKQ 87
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 46/77 (59%), Gaps = 2/77 (2%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+FVGG+ + E R +F YG V +V I+ D+ T +G+GF+SF + V ++++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 172 FHDLNGKQVEVKRALPK 188
+ +GK++++ A+ K
Sbjct: 71 I-NFHGKKLKLGPAIRK 86
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 44/85 (51%), Gaps = 10/85 (11%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L++ + +ERLR+ FS +G + VM E GR +GFGFV F+ P + + +
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG--GRSKGFGFVCFSSPEEATKAVTE- 74
Query: 68 HSLDGRTVEAK-----RAMSREEQQ 87
++GR V K A +EE+Q
Sbjct: 75 --MNGRIVATKPLYVALAQRKEERQ 97
>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 = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYD--QNTQRPRGFGFISFDTEDAVDRVL 168
K+FVG +P T +E R+ FE YG V ++ ++ D QN + +G F++F T A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA- 63
Query: 169 QKTFHDL 175
Q H++
Sbjct: 64 QNALHNM 70
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 3 SDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRP--RGFGFVVF 54
SD K+F+G + SE+ LRE F QYG V + V+R+++ P +G FV F
Sbjct: 1 SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 54
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 37/66 (56%), Gaps = 7/66 (10%)
Query: 124 DGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISF----DTEDAVDRVLQKTFHDLNGKQ 179
D R+ FE YG V DV I D+ T+ RGF F+ F D EDA+D + L+G++
Sbjct: 62 DTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAV---LDGRE 118
Query: 180 VEVKRA 185
+ V+ A
Sbjct: 119 LRVQMA 124
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVL--Q 65
L + +++ TS + LR F +YG V + R++ T RGF FV F D + +
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 66 DKHSLDGRTVEAKRA 80
D LDGR + + A
Sbjct: 110 DGAVLDGRELRVQMA 124
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQK 170
++VGGL + + F +G +TD+ I D T++ RGF F+ F+ EDA +
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 171 TFHDLNGKQVEVKRA 185
+L G+ + V A
Sbjct: 126 NESELFGRTIRVNLA 140
Score = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
L++GG++ E ++ L F +GD+ + + T + RGF FV F
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 112
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 46/77 (59%), Gaps = 1/77 (1%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
+F+GGI E +R +F++YG V + ++ ++ TG +G+GFV F + + ++++ +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 68 HSLDGRTVEAKRAMSRE 84
+ G+ ++ A+ ++
Sbjct: 71 INFHGKKLKLGPAIRKQ 87
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 46/79 (58%), Gaps = 6/79 (7%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVL--Q 169
+FVGG+ + E R +F YG V +V I+ D+ T +G+GF+SF + V +++ Q
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 170 KTFHDLNGKQVEVKRALPK 188
FH GK++++ A+ K
Sbjct: 71 INFH---GKKLKLGPAIRK 86
>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 = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQK 170
++VGGL + + F +G +TD+ I D T++ RGF F+ F+ EDA +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 171 TFHDLNGKQVEVKRA 185
+L G+ + V A
Sbjct: 65 NESELFGRTIRVNLA 79
Score = 33.5 bits (75), Expect = 0.23, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
L++GG++ E ++ L F +GD+ + + T + RGF FV F
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 51
>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 = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQK 170
++VGGL + + F +G +TD+ I D T++ RGF F+ F+ EDA +
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 171 TFHDLNGKQVEVKRA 185
+L G+ + V A
Sbjct: 70 NESELFGRTIRVNLA 84
Score = 33.9 bits (76), Expect = 0.20, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 29/54 (53%)
Query: 1 MDSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
M + + L++GG++ E ++ L F +GD+ + + T + RGF FV F
Sbjct: 3 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 56
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 40/76 (52%), Gaps = 7/76 (9%)
Query: 114 VGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISF----DTEDAVDRVLQ 169
V L + D R+ FE YG V DV I D+ T+ RGF F+ F D EDA+D +
Sbjct: 75 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 134
Query: 170 KTFHDLNGKQVEVKRA 185
L+G+++ V+ A
Sbjct: 135 AV---LDGRELRVQMA 147
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVL--Q 65
L + +++ TS + LR F +YG V + R++ T RGF FV F D + +
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 66 DKHSLDGRTVEAKRA 80
D LDGR + + A
Sbjct: 133 DGAVLDGRELRVQMA 147
>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 = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 30/47 (63%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
L++ + ++++L F +YG ++Q ++R+K TGRPRG FV +
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRY 62
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTED 162
++V LP T+T+D F YG + I+ D+ T RPRG F+ ++ +
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKRE 66
>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 = 42.7 bits (99), Expect = 4e-04, Method: Composition-based stats.
Identities = 19/77 (24%), Positives = 42/77 (54%), Gaps = 1/77 (1%)
Query: 1 MDSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADP-SI 59
M++D +++G + + + E L +F G V + ++ +K +G P+GF ++ F+D S+
Sbjct: 1 MEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESV 60
Query: 60 LDRVLQDKHSLDGRTVE 76
+ D+ GR ++
Sbjct: 61 RTSLALDESLFRGRQIK 77
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 3/82 (3%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+ I+VG + T + +F G V V I+ D+ + P+GF +I F +++V L
Sbjct: 6 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA 65
Query: 170 KTFHDLNGKQVEVKRALPKDAN 191
G+Q++V +PK N
Sbjct: 66 LDESLFRGRQIKV---IPKRTN 84
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 42.7 bits (99), Expect = 4e-04, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQK 170
++VGGL + + F +G +TD+ I D T++ RGF F+ F+ EDA +
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 171 TFHDLNGKQVEVKRA 185
+L G+ + V A
Sbjct: 68 NESELFGRTIRVNLA 82
Score = 33.5 bits (75), Expect = 0.26, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
L++GG++ E ++ L F +GD+ + + T + RGF FV F
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEF 54
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 5/81 (6%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
K++ V +P + RQ F +G + DV I++ N + +GFGF++F+ DR +
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSADADRARE 73
Query: 170 KTFHD--LNGKQVEVKRALPK 188
K H + G+++EV A +
Sbjct: 74 K-LHGTVVEGRKIEVNNATAR 93
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 42/80 (52%), Gaps = 6/80 (7%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQT-VVMREKTTGRPRGFGFVVFADPSILDRVLQ 65
+L + I + + LR+ F Q+G +L ++ E+ + +GFGFV F + + DR +
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGS---KGFGFVTFENSADADRARE 73
Query: 66 DKHS--LDGRTVEAKRAMSR 83
H ++GR +E A +R
Sbjct: 74 KLHGTVVEGRKIEVNNATAR 93
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQ-- 65
+++GG+ + SE L E F Q G V+ T + +++ TG+ +G+GFV F D ++
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 66 DKHSLDGRTVEAKRA 80
D L G+ + +A
Sbjct: 78 DMIKLYGKPIRVNKA 92
Score = 35.8 bits (81), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
++VGGL ++E + F G V + + D+ T + +G+GF+ F +E+ D ++
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 172 -FHDLNGKQVEVKRALPKDAN 191
L GK + V +A + N
Sbjct: 78 DMIKLYGKPIRVNKASAHNKN 98
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 5/81 (6%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
K++ V +P + RQ F +G + DV I++ N + +GFGF++F+ DR +
Sbjct: 30 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSADADRARE 87
Query: 170 KTFHD--LNGKQVEVKRALPK 188
K H + G+++EV A +
Sbjct: 88 K-LHGTVVEGRKIEVNNATAR 107
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 42/80 (52%), Gaps = 6/80 (7%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQT-VVMREKTTGRPRGFGFVVFADPSILDRVLQ 65
+L + I + + LR+ F Q+G +L ++ E+ + +GFGFV F + + DR +
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGS---KGFGFVTFENSADADRARE 87
Query: 66 DKHS--LDGRTVEAKRAMSR 83
H ++GR +E A +R
Sbjct: 88 KLHGTVVEGRKIEVNNATAR 107
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 30/51 (58%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADP 57
+LF+ +S+ +SEE L + FS YG + + + T +P+GF FV F P
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFP 60
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 30/48 (62%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISF 158
++FV L T +E+ + F AYG ++++ D T++P+GF F++F
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTF 57
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 44/74 (59%), Gaps = 1/74 (1%)
Query: 4 DQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILD-R 62
D+ +++G + + ++ + L +FS G + + ++ +K +G P+G+ ++ FA+ + +D
Sbjct: 35 DKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAA 94
Query: 63 VLQDKHSLDGRTVE 76
V D+ GRT++
Sbjct: 95 VAMDETVFRGRTIK 108
Score = 36.2 bits (82), Expect = 0.042, Method: Composition-based stats.
Identities = 19/82 (23%), Positives = 39/82 (47%), Gaps = 3/82 (3%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+ ++VG + T +F + G + + I+ D+ + P+G+ +I F ++VD +
Sbjct: 37 RSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVA 96
Query: 170 KTFHDLNGKQVEVKRALPKDAN 191
G+ ++V LPK N
Sbjct: 97 MDETVFRGRTIKV---LPKRTN 115
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 22/83 (26%), Positives = 44/83 (53%), Gaps = 1/83 (1%)
Query: 1 MDSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSIL 60
MDS + L + + +++ + F GD+ ++R+K TG+ G+GFV ++DP+
Sbjct: 1 MDS-KTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDA 59
Query: 61 DRVLQDKHSLDGRTVEAKRAMSR 83
D+ + + L +T K + +R
Sbjct: 60 DKAINTLNGLKLQTKTIKVSYAR 82
Score = 37.7 bits (86), Expect = 0.014, Method: Composition-based stats.
Identities = 23/85 (27%), Positives = 42/85 (49%), Gaps = 9/85 (10%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+ V LP +T+D F+ F + G + ++ D+ T + G+GF+++ + D K
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDAD----KA 62
Query: 172 FHDLNG-----KQVEVKRALPKDAN 191
+ LNG K ++V A P A+
Sbjct: 63 INTLNGLKLQTKTIKVSYARPSSAS 87
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 4/73 (5%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+F+ LP + Q F +G+V + D+ T + FGF+S+D + +Q
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQ-- 85
Query: 172 FHDLNGKQVEVKR 184
+NG Q+ +KR
Sbjct: 86 --SMNGFQIGMKR 96
Score = 35.8 bits (81), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 3/72 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
LFI + E ++ L + F +G+V+ V +K T + FGFV + +P +Q
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQ-- 85
Query: 68 HSLDGRTVEAKR 79
S++G + KR
Sbjct: 86 -SMNGFQIGMKR 96
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 4/73 (5%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+F+ LP T+ F +G+V + D+ T + FGF+SFD D+ Q
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSA----QVA 98
Query: 172 FHDLNGKQVEVKR 184
+NG QV KR
Sbjct: 99 IKAMNGFQVGTKR 111
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
LFI + E ++ L F +G+V+ V +K T + FGFV F +P ++
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIK-- 100
Query: 68 HSLDGRTVEAKR 79
+++G V KR
Sbjct: 101 -AMNGFQVGTKR 111
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 39/74 (52%), Gaps = 8/74 (10%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
++VGGL T+TE R +F +G + + ++ Q FI F T A + +K+
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQFATRQAAEVAAEKS 68
Query: 172 FHDL--NGKQVEVK 183
F+ L NG+++ VK
Sbjct: 69 FNKLIVNGRRLNVK 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 = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 18/76 (23%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 2 DSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADP-SIL 60
++D +++G + + + E L +F G V + ++ +K +G P+GF ++ F+D S+
Sbjct: 3 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 62
Query: 61 DRVLQDKHSLDGRTVE 76
+ D+ GR ++
Sbjct: 63 TSLALDESLFRGRQIK 78
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 3/82 (3%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+ I+VG + T + +F G V V I+ D+ + P+GF +I F +++V L
Sbjct: 7 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA 66
Query: 170 KTFHDLNGKQVEVKRALPKDAN 191
G+Q++V +PK N
Sbjct: 67 LDESLFRGRQIKV---IPKRTN 85
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
+FVG L + ++ R F+ + +M+D T RG+GF+SF ++D +
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 171 T-FHDLNGKQVEVKRA 185
DLNG+ + + A
Sbjct: 63 MQGQDLNGRPLRINWA 78
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFA 55
LF+G ++ +E LR F + L VM + TG RG+GFV F
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFT 51
>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 = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 30/55 (54%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDR 166
+ V LPP+LT+ F + +G + ++Y + T + +G+GF + +D+ R
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAAR 150
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 30/55 (54%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDR 166
+ V LPP+LT+ F + +G + ++Y + T + +G+GF + +D+ R
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAAR 152
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 30/55 (54%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDR 166
+ V LPP+LT+ F + +G + ++Y + T + +G+GF + +D+ R
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAAR 152
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
K +FV GL TE+ ++ F+ G V I+ D+ T +GFGF+ F++E+ + +
Sbjct: 16 KTLFVKGLSEDTTEETLKESFD--GSVR-ARIVTDRETGSSKGFGFVDFNSEEDA-KAAK 71
Query: 170 KTFHD--LNGKQVEVKRALPK 188
+ D ++G +V + A PK
Sbjct: 72 EAMEDGEIDGNKVTLDWAKPK 92
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 38/71 (53%), Gaps = 7/71 (9%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF---ADPSILDRVL 64
LF+ G+S +T+EE L+E F G V +V ++ TG +GFGFV F D +
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSVRARIVT-DRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 65 QDKHSLDGRTV 75
+D +DG V
Sbjct: 75 EDGE-IDGNKV 84
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 30/51 (58%)
Query: 4 DQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
D + + +S +T E L+E F +G + + + ++KTTG+ +GF F+ F
Sbjct: 14 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISF 64
Score = 32.3 bits (72), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 27/57 (47%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVL 168
I V L E ++ F +G ++ + + D+ T + +GF FISF + R +
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 1/54 (1%)
Query: 3 SDQGKLFIGGISWETSEERLREYFSQYGDVLQT-VVMREKTTGRPRGFGFVVFA 55
S +FIG + E E+ L + FS +G +LQT +MR+ TG +G+ F+ FA
Sbjct: 3 SGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFA 56
Score = 36.2 bits (82), Expect = 0.041, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 2/81 (2%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDV-VIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
IF+G L P + E F A+G + IM D +T +G+ FI+F + DA D ++
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 171 -TFHDLNGKQVEVKRALPKDA 190
L + + V A KD+
Sbjct: 68 MNGQYLCNRPITVSYAFKKDS 88
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 41/74 (55%), Gaps = 3/74 (4%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK- 170
IF+ L ++ F A+G++ ++ D+N + G+GF+ F+T++A +R ++K
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKM 71
Query: 171 TFHDLNGKQVEVKR 184
LN ++V V R
Sbjct: 72 NGMLLNDRKVFVGR 85
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 38.5 bits (88), Expect = 0.007, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 31/55 (56%)
Query: 2 DSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFAD 56
D D KLFIG I E+ L+ F ++G + + V++++ TG +G F+ + +
Sbjct: 10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCE 64
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 35/58 (60%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVL 64
KLFIGG+ ++++++E + +G + ++++ TG +G+ F + D ++ D+ +
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 4/81 (4%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
K+F+GGLP L +D ++ ++G + ++ D T +G+ F + + D+ +
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA- 174
Query: 171 TFHDLNGKQVEVKRALPKDAN 191
LNG Q+ K+ L + A+
Sbjct: 175 ---GLNGMQLGDKKLLVQRAS 192
>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 = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 30/49 (61%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFAD 56
+++G I ++ +EE++ + S G V+ +M + TGR +G+ F+ F D
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRD 55
Score = 36.6 bits (83), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISF-DTEDAVDRVL 168
+ +++G +P TE+ G V ++ +M+D T R +G+ FI F D E + V
Sbjct: 5 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV- 63
Query: 169 QKTFHDLNGKQV 180
+LNG Q+
Sbjct: 64 ----RNLNGYQL 71
>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 = 38.1 bits (87), Expect = 0.010, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
IF+ L ++ F A+G++ ++ D+N + G+GF+ F+T++A +R ++K
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEK 64
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFIS-FDTEDAVDRVLQK 170
+FVG L P +T F +G ++D ++ D T + +G+GF+S F+ DA + + Q
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 171 TFHDLNGKQVEVKRALPK 188
L G+Q+ A K
Sbjct: 69 GGQWLGGRQIRTNWATRK 86
Score = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 2/78 (2%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
+F+G +S E + + F+ +G + V+++ TG+ +G+GFV F + + +Q
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 68 --HSLDGRTVEAKRAMSR 83
L GR + A +
Sbjct: 69 GGQWLGGRQIRTNWATRK 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 = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 41/80 (51%), Gaps = 3/80 (3%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYG-HVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
+ + LP TED R +++G +V +M ++++ + RGF F+ F R ++
Sbjct: 4 VMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEA 63
Query: 171 TFHDLN--GKQVEVKRALPK 188
H LN G++V + + PK
Sbjct: 64 NQHSLNILGQKVSMHYSDPK 83
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 2/57 (3%)
Query: 17 TSEERLREYFSQYGDVLQTV-VMREKTTGRPRGFGFVVFADPSILDRVLQ-DKHSLD 71
+E+ +R +G + V +MR K++G+ RGF FV F+ R ++ ++HSL+
Sbjct: 13 ATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLN 69
>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 = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 4/81 (4%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
K+F+GGLP L +D ++ ++G + ++ D T +G+ F + + D+ +
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA- 156
Query: 171 TFHDLNGKQVEVKRALPKDAN 191
LNG Q+ K+ L + A+
Sbjct: 157 ---GLNGMQLGDKKLLVQRAS 174
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 42/75 (56%), Gaps = 3/75 (4%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
KLFIGG+ ++++++E + +G + ++++ TG +G+ F + D ++ D+ +
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA- 156
Query: 67 KHSLDGRTVEAKRAM 81
L+G + K+ +
Sbjct: 157 --GLNGMQLGDKKLL 169
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 4/81 (4%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
K+F+GGLP L +D ++ ++G + ++ D T +G+ F + + D+ +
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA- 154
Query: 171 TFHDLNGKQVEVKRALPKDAN 191
LNG Q+ K+ L + A+
Sbjct: 155 ---GLNGMQLGDKKLLVQRAS 172
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 42/75 (56%), Gaps = 3/75 (4%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
KLFIGG+ ++++++E + +G + ++++ TG +G+ F + D ++ D+ +
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA- 154
Query: 67 KHSLDGRTVEAKRAM 81
L+G + K+ +
Sbjct: 155 --GLNGMQLGDKKLL 167
>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 = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+ V LP +T+D R F + G V ++ D+ G+GF+++ T +R +
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI--- 63
Query: 172 FHDLNGKQVEVKRALPKDANP 192
+ LNG +++ K A P
Sbjct: 64 -NTLNGLRLQSKTIKVSYARP 83
Score = 35.4 bits (80), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 37/71 (52%), Gaps = 3/71 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + + +++ LR FS G+V ++R+K G G+GFV + +R +
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI--- 63
Query: 68 HSLDGRTVEAK 78
++L+G +++K
Sbjct: 64 NTLNGLRLQSK 74
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 37.7 bits (86), Expect = 0.013, Method: Composition-based stats.
Identities = 20/80 (25%), Positives = 39/80 (48%), Gaps = 5/80 (6%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
K+F+G + + + E L+++F QYG+V+ + + R F FV FAD + + +
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPF-----RAFAFVTFADDKVAQSLCGE 67
Query: 67 KHSLDGRTVEAKRAMSREEQ 86
+ G +V A + +
Sbjct: 68 DLIIKGISVHISNAEPKHNK 87
Score = 36.6 bits (83), Expect = 0.027, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 38/79 (48%), Gaps = 8/79 (10%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRP-RGFGFISFDTEDAVDRVLQ 169
K+FVG +T + +Q+F YG V DV I +P R F F++F +D V + L
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFI------PKPFRAFAFVTF-ADDKVAQSLC 65
Query: 170 KTFHDLNGKQVEVKRALPK 188
+ G V + A PK
Sbjct: 66 GEDLIIKGISVHISNAEPK 84
>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 = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 30/47 (63%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
L++G +S+ T+EE++ E FS+ GD+ + ++ +K GF FV +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEY 88
>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 = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 30/49 (61%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFAD 56
+++G I ++ +EE++ + S G V+ +M + TGR +G+ F+ F D
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRD 54
Score = 36.2 bits (82), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISF-DTEDAVDRVL 168
+ +++G +P TE+ G V ++ +M+D T R +G+ FI F D E + V
Sbjct: 4 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV- 62
Query: 169 QKTFHDLNGKQV 180
+LNG Q+
Sbjct: 63 ----RNLNGYQL 70
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 37.7 bits (86), Expect = 0.014, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 4/81 (4%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
K+F+GGLP L +D ++ ++G + ++ D T +G+ F + + D+ +
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA- 61
Query: 171 TFHDLNGKQVEVKRALPKDAN 191
LNG Q+ K+ L + A+
Sbjct: 62 ---GLNGMQLGDKKLLVQRAS 79
Score = 36.6 bits (83), Expect = 0.031, Method: Composition-based stats.
Identities = 14/58 (24%), Positives = 35/58 (60%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVL 64
KLFIGG+ ++++++E + +G + ++++ TG +G+ F + D ++ D+ +
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 37.7 bits (86), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 30/49 (61%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFAD 56
+++G I ++ +EE++ + S G V+ +M + TGR +G+ F+ F D
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRD 53
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISF-DTEDAVDRVL 168
+ +++G +P TE+ G V ++ +M+D T R +G+ FI F D E + V
Sbjct: 3 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV- 61
Query: 169 QKTFHDLNGKQV 180
+LNG Q+
Sbjct: 62 ----RNLNGYQL 69
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 37.7 bits (86), Expect = 0.015, Method: Composition-based stats.
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
KLFIG + E +E+ +R F QYG VL+ +++ +GFV D + + +++
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--------YGFVHIEDKTAAEDAIRN 61
Query: 67 KHSLDGRTVEAKRAMSREEQQFSA 90
H V S+ + + S+
Sbjct: 62 LHHYKLHGVNINVEASKNKSKASS 85
Score = 35.8 bits (81), Expect = 0.050, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 9/74 (12%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
K+F+G LP TE R FE YG V + I+ + +GF+ + + A + ++
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRN 61
Query: 171 TFH-DLNGKQVEVK 183
H L+G + V+
Sbjct: 62 LHHYKLHGVNINVE 75
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 37.4 bits (85), Expect = 0.020, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 5/81 (6%)
Query: 3 SDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTG---RPRGFGFVVFADPSI 59
S LFI +++ T+EE L+ FS+ G + + ++K GFGFV + P
Sbjct: 3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQ 62
Query: 60 LDRVLQ--DKHSLDGRTVEAK 78
+ L+ H++DG +E +
Sbjct: 63 AQKALKQLQGHTVDGHKLEVR 83
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 37.0 bits (84), Expect = 0.024, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADP 57
+F+G + EE L E F Q G + + + +++ G+P+ FGFV F P
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHP 67
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 4/74 (5%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISF-DTEDAVDRVLQ 169
+I+VG LPP + F YG + D+ + +N + F F+ F D DA D V
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL---KNRRGGPPFAFVEFEDPRDAEDAVYG 80
Query: 170 KTFHDLNGKQVEVK 183
+ +D +G ++ V+
Sbjct: 81 RDGYDYDGYRLRVE 94
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 9/81 (11%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTED-AVDRVL 168
K +FV L T+TE+ + F +G + V + D + FI FD D AV +
Sbjct: 12 KVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAME 63
Query: 169 QKTFHDLNGKQVEVKRALPKD 189
+ DL G+ +E+ A P D
Sbjct: 64 EMNGKDLEGENIEIVFAKPPD 84
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 36.6 bits (83), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 9/73 (12%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMY--DQNTQRPRGFGFISFDTEDAVDRV 167
+K+FVG L +ED R+ FEA+G++ + I+ D N+ +G F+ + +
Sbjct: 16 RKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNS---KGCAFVKYSSHAEA--- 69
Query: 168 LQKTFHDLNGKQV 180
Q + L+G Q
Sbjct: 70 -QAAINALHGSQT 81
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFA 55
KLF+G ++ + SE+ +R F +G++ + ++R G +G FV ++
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILR-GPDGNSKGCAFVKYS 64
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 36.2 bits (82), Expect = 0.035, Method: Composition-based stats.
Identities = 26/86 (30%), Positives = 45/86 (52%), Gaps = 5/86 (5%)
Query: 2 DSDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF-ADPSIL 60
D D KLF+G I E+ L+ F ++G + + V++++ TG +G F+ + A S L
Sbjct: 12 DHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSAL 71
Query: 61 --DRVLQDKHSLDG--RTVEAKRAMS 82
L ++ +L G R ++ K A S
Sbjct: 72 KAQSALHEQKTLPGMNRPIQVKPAAS 97
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 36.2 bits (82), Expect = 0.044, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 3 SDQGKLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDR 62
S L+I G+ T+++ L + YG ++ T + +KTT + +G+GFV F PS +
Sbjct: 3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQK 62
Query: 63 VLQDKHSLDGRTVEAKRA 80
+ +L V+A+ A
Sbjct: 63 AVT---ALKASGVQAQMA 77
Score = 35.4 bits (80), Expect = 0.061, Method: Composition-based stats.
Identities = 14/57 (24%), Positives = 30/57 (52%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVL 168
+++ GL P T+ + + YG + + D+ T + +G+GF+ FD+ A + +
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 35.8 bits (81), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 32/50 (64%), Gaps = 3/50 (6%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGR--PRGFGFVVF 54
K+ + I ++ ++ +RE FS +G+ L+TV + +K TG RGFGFV F
Sbjct: 17 KILVRNIPFQANQREIRELFSTFGE-LKTVRLPKKMTGTGAHRGFGFVDF 65
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 34/78 (43%), Gaps = 3/78 (3%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQN-TQRPRGFGFISFDTEDAVDRVLQ 169
KI V +P + R+ F +G + V + T RGFGF+ F T+ +
Sbjct: 17 KILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFN 76
Query: 170 KTFHD--LNGKQVEVKRA 185
H L G+++ ++ A
Sbjct: 77 ALCHSTHLYGRRLVLEWA 94
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 35.8 bits (81), Expect = 0.055, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 33/64 (51%), Gaps = 8/64 (12%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQR-----PRGFGFISFDTEDAV 164
+K+FVGGLPP + ED F +G +V+ + + P+G+ F+ F E +V
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFG---PLVVDWPHKAESKSYFPPKGYAFLLFQEESSV 65
Query: 165 DRVL 168
++
Sbjct: 66 QALI 69
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 35.4 bits (80), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 21/94 (22%), Positives = 47/94 (50%), Gaps = 4/94 (4%)
Query: 1 MDSDQGKLFIGGISWETSEERLREYFSQYG--DVLQTVVMREKTTGRPRGFGFVVFADPS 58
+ + + +++G SW T++++L + G DV++ + G+ +G+ VV A +
Sbjct: 51 LRNRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASEN 110
Query: 59 ILDRVLQ--DKHSLDGRTVEAKRAMSREEQQFSA 90
+ ++L+ L+G V+ + A + QF A
Sbjct: 111 SVHKLLELLPGKVLNGEKVDVRPATRQNLSQFEA 144
>pdb|2E5G|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 21
Length = 94
Score = 35.4 bits (80), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 5/74 (6%)
Query: 110 KKIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQ 169
+ +FV G P + +YF A+G V VV+ D+ F + A + VL
Sbjct: 9 RSVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGV-----FAIVEMGDVGAREAVLS 63
Query: 170 KTFHDLNGKQVEVK 183
++ H L G ++ V+
Sbjct: 64 QSQHSLGGHRLRVR 77
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 35.0 bits (79), Expect = 0.081, Method: Composition-based stats.
Identities = 26/93 (27%), Positives = 42/93 (45%), Gaps = 9/93 (9%)
Query: 2 DSDQGK-LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSIL 60
D +GK +FI +S+++ EE L E Q+GD+ V+ T +G F F
Sbjct: 11 DVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAA 70
Query: 61 DRVLQDKH--------SLDGRTVEAKRAMSREE 85
+ L LDGR ++ A++R+E
Sbjct: 71 QKCLAAASLEAEGGGLKLDGRQLKVDLAVTRDE 103
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYG--DVLQTVVMREKTTGRPRGFGFV 52
L+IG ++W T++E L E G D+L+ + G+ +GF V
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALV 117
>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 = 34.3 bits (77), Expect = 0.14, Method: Composition-based stats.
Identities = 14/60 (23%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQK 170
K+F+ GLP + T++ + +A+G V D+ ++ ++ +P+G ++ ++ E + + K
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMK 77
>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 = 33.9 bits (76), Expect = 0.17, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 37/81 (45%), Gaps = 4/81 (4%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+ V LP T+D R F + G V ++ D+ G+GF+++ T +R +
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI--- 78
Query: 172 FHDLNGKQVEVKRALPKDANP 192
+ LNG +++ K A P
Sbjct: 79 -NTLNGLRLQSKTIKVSYARP 98
Score = 33.9 bits (76), Expect = 0.20, Method: Composition-based stats.
Identities = 18/71 (25%), Positives = 37/71 (52%), Gaps = 3/71 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
L + + +++ LR FS G+V ++R+K G G+GFV + +R +
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI--- 78
Query: 68 HSLDGRTVEAK 78
++L+G +++K
Sbjct: 79 NTLNGLRLQSK 89
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 33.9 bits (76), Expect = 0.20, Method: Composition-based stats.
Identities = 20/77 (25%), Positives = 39/77 (50%), Gaps = 4/77 (5%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTV-VMREKTTGRPRGFGFVVFADPSILDRVLQD 66
L++G + E + F+ G+ + +V ++R + TG P G+ FV FAD + ++ L
Sbjct: 12 LWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCL-- 69
Query: 67 KHSLDGRTVEAKRAMSR 83
H ++G+ + R
Sbjct: 70 -HKINGKPLPGATPAKR 85
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 28/47 (59%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
LF+ G+ E +EE + + F++YG++ + ++ TG +G+ V +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 72
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 32/69 (46%), Gaps = 4/69 (5%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+FV G+ TE+ F YG + ++ + D+ T +G+ + ++T + Q
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY----KEAQAA 81
Query: 172 FHDLNGKQV 180
LNG+ +
Sbjct: 82 MEGLNGQDL 90
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 32.7 bits (73), Expect = 0.38, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYG--DVLQTVVMREKTTGRPRGFGFV 52
L+IG ++W T++E L E G D+L+ + G+ +GF V
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALV 50
>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 = 32.7 bits (73), Expect = 0.38, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
L++G +S+ T+EE++ E FS+ GD+ + ++M GF FV +
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDI-KKIIMGLDKMKTACGFCFVEY 66
>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 = 32.7 bits (73), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 3/68 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
LF+ I E E+ ++E F YG++ + ++ TG +G+ V + + L K
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHK---QALAAK 131
Query: 68 HSLDGRTV 75
+L+G +
Sbjct: 132 EALNGAEI 139
>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 = 32.3 bits (72), Expect = 0.54, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 28/47 (59%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
LF+ G+ E +EE + + F++YG++ + ++ TG +G+ V +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 56
Score = 30.0 bits (66), Expect = 2.6, Method: Composition-based stats.
Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+FV G+ TE+ F YG + ++ + D+ T +G+ + ++T Q
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA----QAA 65
Query: 172 FHDLNGKQV 180
LNG+ +
Sbjct: 66 MEGLNGQDL 74
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 32.3 bits (72), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 2 DSDQGKLFIGGISWETSEERLREYFSQYGDVLQTV--------VMREKTTGRPRGFGFVV 53
DSD +++ G++ + + L ++F Q G V + +K TG+P+G V
Sbjct: 12 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVS 71
Query: 54 FADP 57
+ DP
Sbjct: 72 YEDP 75
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 32.3 bits (72), Expect = 0.54, Method: Composition-based stats.
Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 8/69 (11%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
K+++G + ++ L F YG + V R P GF FV F DP ++D
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRD 129
Query: 67 KHSLDGRTV 75
LDGRT+
Sbjct: 130 ---LDGRTL 135
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 32.3 bits (72), Expect = 0.55, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 12/73 (16%)
Query: 111 KIFVGGLP--PTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVL 168
++F+G LP ED FR F YGH+ + I FGFI FD +V +
Sbjct: 24 RLFIGNLPLKNVSKEDLFR-IFSPYGHIMQINI--------KNAFGFIQFDNPQSVRDAI 74
Query: 169 QKTFHDLN-GKQV 180
+ ++N GK++
Sbjct: 75 EXESQEMNFGKKL 87
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 32.3 bits (72), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 15/70 (21%), Positives = 33/70 (47%), Gaps = 10/70 (14%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
++ GG+ LT+ RQ F +G + ++ + + +G+ F+ F T ++ +
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIV-- 79
Query: 172 FHDLNGKQVE 181
+NG +E
Sbjct: 80 --SVNGTTIE 87
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 32.3 bits (72), Expect = 0.63, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 9/74 (12%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFD-TEDAVDRVLQ 169
K+ VG + PT T R FE YG V + I+ D + F+ + EDAV+ +
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRG 63
Query: 170 KTFHDLNGKQVEVK 183
+ GK++ V+
Sbjct: 64 LDNTEFQGKRMHVQ 77
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 32.0 bits (71), Expect = 0.72, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 12/73 (16%)
Query: 111 KIFVGGLP--PTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVL 168
++F+G LP ED FR F YGH+ + I FGFI FD +V +
Sbjct: 24 RLFIGNLPLKNVSKEDLFR-IFSPYGHIMQINI--------KNAFGFIQFDNPQSVRDAI 74
Query: 169 QKTFHDLN-GKQV 180
+ ++N GK++
Sbjct: 75 ECESQEMNFGKKL 87
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 32.0 bits (71), Expect = 0.72, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 28/47 (59%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
LF+ G+ E +EE + + F++YG++ + ++ TG +G+ V +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 56
Score = 29.6 bits (65), Expect = 3.6, Method: Composition-based stats.
Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+FV G+ TE+ F YG + ++ + D+ T +G+ + ++T Q
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA----QAA 65
Query: 172 FHDLNGKQV 180
LNG+ +
Sbjct: 66 MEGLNGQDL 74
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 32.0 bits (71), Expect = 0.73, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 12/73 (16%)
Query: 111 KIFVGGLP--PTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVL 168
++F+G LP ED FR F YGH+ + I FGFI FD +V +
Sbjct: 4 RLFIGNLPLKNVSKEDLFR-IFSPYGHIMQINI--------KNAFGFIQFDNPQSVRDAI 54
Query: 169 QKTFHDLN-GKQV 180
+ ++N GK++
Sbjct: 55 ECESQEMNFGKKL 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 = 32.0 bits (71), Expect = 0.81, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 28/47 (59%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
LF+ G+ E +EE + + F++YG++ + ++ TG +G+ V +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 56
Score = 29.3 bits (64), Expect = 4.3, Method: Composition-based stats.
Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+FV G+ TE+ F YG + ++ + D+ T +G+ + ++T Q
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA----QAA 65
Query: 172 FHDLNGKQV 180
LNG+ +
Sbjct: 66 MEGLNGQDL 74
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 31.6 bits (70), Expect = 0.88, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 28/47 (59%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
LF+ G+ E +EE + + F++YG++ + ++ TG +G+ V +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 58
Score = 29.3 bits (64), Expect = 4.8, Method: Composition-based stats.
Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+FV G+ TE+ F YG + ++ + D+ T +G+ + ++T Q
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA----QAA 67
Query: 172 FHDLNGKQV 180
LNG+ +
Sbjct: 68 MEGLNGQDL 76
>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 = 31.6 bits (70), Expect = 0.92, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 28/47 (59%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVF 54
LF+ G+ E +EE + + F++YG++ + ++ TG +G+ V +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 71
Score = 29.3 bits (64), Expect = 4.9, Method: Composition-based stats.
Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+FV G+ TE+ F YG + ++ + D+ T +G+ + ++T Q
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEA----QAA 80
Query: 172 FHDLNGKQV 180
LNG+ +
Sbjct: 81 MEGLNGQDL 89
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 12/73 (16%)
Query: 111 KIFVGGLP--PTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVL 168
++F+G LP ED FR F YGH+ + I FGFI FD +V +
Sbjct: 12 RLFIGNLPLKNVSKEDLFR-IFSPYGHIMQINI--------KNAFGFIQFDNPQSVRDAI 62
Query: 169 QKTFHDLN-GKQV 180
+ ++N GK++
Sbjct: 63 ECESQEMNFGKKL 75
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
KLF+G + + ++E +R+ F +G + + V+R G +G FV F + +
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLR-GPDGTSKGCAFVKFQTHAEAQAAINT 72
Query: 67 KHS 69
HS
Sbjct: 73 LHS 75
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 3/83 (3%)
Query: 113 FVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTF 172
F+G LP +TE+ +++F + N +R +GFG+ F+ D++ L
Sbjct: 19 FLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNE 78
Query: 173 HDLNGKQVEV---KRALPKDANP 192
L K++ V +A KD+ P
Sbjct: 79 ESLGNKRIRVDVADQAQDKDSGP 101
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFA 55
KLF+G ++ + SEE + F +G + + V+R G +G FV F+
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLR-GPDGSSKGCAFVKFS 64
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 32/69 (46%), Gaps = 8/69 (11%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
K+++G + ++ L F YG + V R P GF FV F DP +++
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRE 129
Query: 67 KHSLDGRTV 75
LDGRT+
Sbjct: 130 ---LDGRTL 135
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 3/68 (4%)
Query: 8 LFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQDK 67
LF+ I E E+ ++E F YG++ + ++ TG +G+ V + + L K
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHK---QALAAK 85
Query: 68 HSLDGRTV 75
+L+G +
Sbjct: 86 EALNGAEI 93
>pdb|3NAP|B Chain B, Structure Of Triatoma Virus (Trv)
Length = 255
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 9 FIGGISWETSEERLREYFS-QYGDVLQTVVMREKTTG 44
FIG W TS+ +E FS + D L + ++REK +G
Sbjct: 89 FIGSFLWNTSDIENKEIFSLKLPDALMSPMIREKLSG 125
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation Initiation
Factor 4b
Length = 100
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 34/73 (46%)
Query: 113 FVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTF 172
F+G LP +TE+ +++F + N +R +GFG+ F+ D++ L
Sbjct: 23 FLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNE 82
Query: 173 HDLNGKQVEVKRA 185
L +++ V A
Sbjct: 83 ESLGNRRIRVDVA 95
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 29.6 bits (65), Expect = 4.0, Method: Composition-based stats.
Identities = 17/76 (22%), Positives = 36/76 (47%), Gaps = 13/76 (17%)
Query: 111 KIFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQR-----PRGFGFISFDTEDAVD 165
K+ +G L +T+D + F YG + M D +R +G+ ++ F+ D +
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIK----MIDMPVERMHPHLSKGYAYVEFENPDEAE 61
Query: 166 RVLQKTFHDLNGKQVE 181
+ L+ ++G Q++
Sbjct: 62 KALKH----MDGGQID 73
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor
9g8
Length = 101
Score = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 8/74 (10%)
Query: 7 KLFIGGISWETSEERLREYFSQYGDVLQTVVMREKTTGRPRGFGFVVFADPSILDRVLQD 66
K+++G + + L FS YG + + R P GF FV F DP + ++
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVR- 55
Query: 67 KHSLDGRTVEAKRA 80
LDG+ + R
Sbjct: 56 --GLDGKVICGSRV 67
>pdb|3HFT|A Chain A, Crystal Structure Of A Putative Polysaccharide Deacetylase
Involved In O-Antigen Biosynthesis (Wbms, Bb0128) From
Bordetella Bronchiseptica At 1.90 A Resolution
Length = 257
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 115 GGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKTFHD 174
G L E R+Y + ++D+ I + RG F++FD + A D VLQ T
Sbjct: 3 AGAAHRLXEARXRRYDNKFARISDIDI---NQPESWRGRIFLTFDIDWAADFVLQDTIDL 59
Query: 175 LNGKQV 180
+ G V
Sbjct: 60 IEGAGV 65
>pdb|2DHX|A Chain A, Solution Structure Of The Rrm Domain In The Human Poly
(Adp- Ribose) Polymerase Family, Member 10 Variant
Length = 104
Score = 28.9 bits (63), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 112 IFVGGLPPTLTEDGFRQYFEAYGHVTDVVIMYDQNTQRPRGFGFISFDTEDAVDRVLQKT 171
+ V GLPP + ++ YFE ++ + QR G ++F +RVL +
Sbjct: 11 VEVRGLPPAVPDELLTLYFENRRRSGGGPVL---SWQRLGCGGVLTFREPADAERVLAQA 67
Query: 172 FHDLNGKQV 180
H+L+G Q+
Sbjct: 68 DHELHGAQL 76
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
0.315 0.133 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,489,378
Number of Sequences: 62578
Number of extensions: 233342
Number of successful extensions: 646
Number of sequences better than 100.0: 149
Number of HSP's better than 100.0 without gapping: 113
Number of HSP's successfully gapped in prelim test: 36
Number of HSP's that attempted gapping in prelim test: 348
Number of HSP's gapped (non-prelim): 271
length of query: 456
length of database: 14,973,337
effective HSP length: 102
effective length of query: 354
effective length of database: 8,590,381
effective search space: 3040994874
effective search space used: 3040994874
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)