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= 026724
(234 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 48/75 (64%), Gaps = 2/75 (2%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFAEEVVADRVSRRS 160
G K+FVGR ++ TAE+L+++F ++G ++DV++PK R F FVTFA++ VA +
Sbjct: 11 GSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPK--PFRAFAFVTFADDKVAQSLCGED 68
Query: 161 HEICGQQVAIDSATP 175
I G V I +A P
Sbjct: 69 LIIKGISVHISNAEP 83
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 50/86 (58%), Gaps = 6/86 (6%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDV---YVPKRTGHRGFGFVTFAEEVVADR-VSR 158
KIFVG +P +LR YF +FG + +V Y ++ RGFGF+TF +E D+ V+
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 159 RSHEICGQQVAIDSATPLD--DAGPS 182
H+I G++V + A P D +GPS
Sbjct: 72 HFHDIMGKKVEVKRAEPRDSKSSGPS 97
Score = 30.8 bits (68), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 11 RGIGFITFASADSVEN-LMVDTHELGGSTVVVDRATPKE 48
RG GFITF SV+ + + H++ G V V RA P++
Sbjct: 52 RGFGFITFEDEQSVDQAVNMHFHDIMGKKVEVKRAEPRD 90
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 58.5 bits (140), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 31/81 (38%), Positives = 49/81 (60%), Gaps = 4/81 (4%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFAEEVVADRVSRRSHEI 163
+FVGR + T ++LR +FS++G ++DV++PK R F FVTFA++ +A + I
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP--FRAFAFVTFADDQIAQSLCGEDLII 65
Query: 164 CGQQVAIDSATPL--DDAGPS 182
G V I +A P ++GPS
Sbjct: 66 KGISVHISNAEPKHNSNSGPS 86
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 35/90 (38%), Positives = 50/90 (55%), Gaps = 6/90 (6%)
Query: 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK--RTGH-RGFGFVTFAEEVVAD 154
Q+ I +G LP + T +DL+ YFS FG +L V V K +TGH +GFGFV F E
Sbjct: 13 QKTSDLIVLG-LPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQV 71
Query: 155 RVSRRSHEICGQ--QVAIDSATPLDDAGPS 182
+V + H I G+ + ++ D+GPS
Sbjct: 72 KVMSQRHMIDGRWCDCKLPNSKQSQDSGPS 101
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/86 (36%), Positives = 50/86 (58%), Gaps = 5/86 (5%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP-KRTGHRGFGFVTFAEEVVADRVSRRS 160
K++ V +P DLR+ F +FG+ILDV + G +GFGFVTF ADR +
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKL 75
Query: 161 H--EICGQQVAIDSATP--LDDAGPS 182
H + G+++ +++AT + ++GPS
Sbjct: 76 HGTVVEGRKIEVNNATARVMTNSGPS 101
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 53.1 bits (126), Expect = 1e-07, Method: Composition-based stats.
Identities = 31/74 (41%), Positives = 41/74 (55%), Gaps = 4/74 (5%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYV--PKRTG-HRGFGFVTFAEEVVADRVSR-R 159
IFVG L T ED++ YF +FG++ D + K T HRGFGFVTF E + ++V
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 160 SHEICGQQVAIDSA 173
HEI + V A
Sbjct: 62 FHEINNKMVECKKA 75
Score = 33.1 bits (74), Expect = 0.12, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 4 DQGSKAHRGIGFITFASADSVENLM-VDTHELGGSTVVVDRA 44
D+ + HRG GF+TF S D VE + + HE+ V +A
Sbjct: 34 DKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKKA 75
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 45/176 (25%), Positives = 75/176 (42%), Gaps = 47/176 (26%)
Query: 3 KDQGSKAHRGIGFITFASADSVENLM-VDTHELGGSTVVVDRATPKEDDFRPVGRMSHGG 61
+D +K RG GF+T+A+ + V+ M H++ G V RA +ED RP
Sbjct: 48 RDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP-------- 99
Query: 62 YGAYNAYISAATRYAALGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRY 121
A+++ KKIFVG + ++ LR Y
Sbjct: 100 ----GAHLTV------------------------------KKIFVGGIKEDTEEHHLRDY 125
Query: 122 FSRFGRI--LDVYVPKRTG-HRGFGFVTFAEEVVADR-VSRRSHEICGQQVAIDSA 173
F ++G+I +++ + +G RGF FVTF + D+ V ++ H + G + A
Sbjct: 126 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 181
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 41/132 (31%), Positives = 62/132 (46%), Gaps = 11/132 (8%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTFA--EEVVADRV 156
+K+F+G L E T E LR +F ++G + D V P RGFGFVT+A EEV A +
Sbjct: 15 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA-AM 73
Query: 157 SRRSHEICGQQVAIDSATPLDDAGPSQNFMMNAAETFGGYGGP-----MRTYGRMYGSLD 211
+ R H++ G+ V A +D+ + GG +R Y YG ++
Sbjct: 74 NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 133
Query: 212 FDDWGYGMGSGR 223
+ GSG+
Sbjct: 134 VIEIMTDRGSGK 145
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 4 DQGSKAHRGIGFITFASADSVENLMVDT-HELGGSTVVVDRATPKED 49
D+GS RG F+TF DSV+ +++ H + G V +A K++
Sbjct: 140 DRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQE 186
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 31/86 (36%), Positives = 45/86 (52%), Gaps = 6/86 (6%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK---RTGHRGFGFVTFAE-EVVADRVSR 158
K+FVG L T E LR YFS++G ++D + K RGFGFV F + V ++
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 159 RSHEICGQQVAIDSATP--LDDAGPS 182
R H + G+ + TP + +GPS
Sbjct: 78 RPHTLDGRNIDPKPCTPRGMQPSGPS 103
>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 = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 45/176 (25%), Positives = 75/176 (42%), Gaps = 47/176 (26%)
Query: 3 KDQGSKAHRGIGFITFASADSVENLM-VDTHELGGSTVVVDRATPKEDDFRPVGRMSHGG 61
+D +K RG GF+T+A+ + V+ M H++ G V RA +ED RP
Sbjct: 47 RDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP-------- 98
Query: 62 YGAYNAYISAATRYAALGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRY 121
A+++ KKIFVG + ++ LR Y
Sbjct: 99 ----GAHLTV------------------------------KKIFVGGIKEDTEEHHLRDY 124
Query: 122 FSRFGRI--LDVYVPKRTG-HRGFGFVTFAEEVVADR-VSRRSHEICGQQVAIDSA 173
F ++G+I +++ + +G RGF FVTF + D+ V ++ H + G + A
Sbjct: 125 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 180
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 41/132 (31%), Positives = 62/132 (46%), Gaps = 11/132 (8%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTFA--EEVVADRV 156
+K+F+G L E T E LR +F ++G + D V P RGFGFVT+A EEV A +
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA-AM 72
Query: 157 SRRSHEICGQQVAIDSATPLDDAGPSQNFMMNAAETFGGYGGP-----MRTYGRMYGSLD 211
+ R H++ G+ V A +D+ + GG +R Y YG ++
Sbjct: 73 NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 132
Query: 212 FDDWGYGMGSGR 223
+ GSG+
Sbjct: 133 VIEIMTDRGSGK 144
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 4 DQGSKAHRGIGFITFASADSVENLMVDT-HELGGSTVVVDRATPKED 49
D+GS RG F+TF DSV+ +++ H + G V +A K++
Sbjct: 139 DRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQE 185
>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 = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 45/176 (25%), Positives = 75/176 (42%), Gaps = 47/176 (26%)
Query: 3 KDQGSKAHRGIGFITFASADSVENLM-VDTHELGGSTVVVDRATPKEDDFRPVGRMSHGG 61
+D +K RG GF+T+A+ + V+ M H++ G V RA +ED RP
Sbjct: 46 RDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP-------- 97
Query: 62 YGAYNAYISAATRYAALGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRY 121
A+++ KKIFVG + ++ LR Y
Sbjct: 98 ----GAHLTV------------------------------KKIFVGGIKEDTEEHHLRDY 123
Query: 122 FSRFGRI--LDVYVPKRTG-HRGFGFVTFAEEVVADR-VSRRSHEICGQQVAIDSA 173
F ++G+I +++ + +G RGF FVTF + D+ V ++ H + G + A
Sbjct: 124 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 179
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 41/132 (31%), Positives = 62/132 (46%), Gaps = 11/132 (8%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTFA--EEVVADRV 156
+K+F+G L E T E LR +F ++G + D V P RGFGFVT+A EEV A +
Sbjct: 13 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA-AM 71
Query: 157 SRRSHEICGQQVAIDSATPLDDAGPSQNFMMNAAETFGGYGGP-----MRTYGRMYGSLD 211
+ R H++ G+ V A +D+ + GG +R Y YG ++
Sbjct: 72 NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 131
Query: 212 FDDWGYGMGSGR 223
+ GSG+
Sbjct: 132 VIEIMTDRGSGK 143
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 4 DQGSKAHRGIGFITFASADSVENLMVDT-HELGGSTVVVDRATPKED 49
D+GS RG F+TF DSV+ +++ H + G V +A K++
Sbjct: 138 DRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQE 184
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 45/176 (25%), Positives = 75/176 (42%), Gaps = 47/176 (26%)
Query: 3 KDQGSKAHRGIGFITFASADSVENLM-VDTHELGGSTVVVDRATPKEDDFRPVGRMSHGG 61
+D +K RG GF+T+A+ + V+ M H++ G V RA +ED RP
Sbjct: 47 RDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP-------- 98
Query: 62 YGAYNAYISAATRYAALGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRY 121
A+++ KKIFVG + ++ LR Y
Sbjct: 99 ----GAHLTV------------------------------KKIFVGGIKEDTEEHHLRDY 124
Query: 122 FSRFGRI--LDVYVPKRTG-HRGFGFVTFAEEVVADR-VSRRSHEICGQQVAIDSA 173
F ++G+I +++ + +G RGF FVTF + D+ V ++ H + G + A
Sbjct: 125 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 180
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 41/132 (31%), Positives = 62/132 (46%), Gaps = 11/132 (8%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTFA--EEVVADRV 156
+K+F+G L E T E LR +F ++G + D V P RGFGFVT+A EEV A +
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA-AM 72
Query: 157 SRRSHEICGQQVAIDSATPLDDAGPSQNFMMNAAETFGGYGGP-----MRTYGRMYGSLD 211
+ R H++ G+ V A +D+ + GG +R Y YG ++
Sbjct: 73 NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 132
Query: 212 FDDWGYGMGSGR 223
+ GSG+
Sbjct: 133 VIEIMTDRGSGK 144
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 4 DQGSKAHRGIGFITFASADSVENLMVDT-HELGGSTVVVDRATPKE 48
D+GS RG F+TF DSV+ +++ H + G V +A K+
Sbjct: 139 DRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQ 184
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 51.2 bits (121), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 45/176 (25%), Positives = 75/176 (42%), Gaps = 47/176 (26%)
Query: 3 KDQGSKAHRGIGFITFASADSVENLM-VDTHELGGSTVVVDRATPKEDDFRPVGRMSHGG 61
+D +K RG GF+T+A+ + V+ M H++ G V RA +ED RP
Sbjct: 45 RDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP-------- 96
Query: 62 YGAYNAYISAATRYAALGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRY 121
A+++ KKIFVG + ++ LR Y
Sbjct: 97 ----GAHLTV------------------------------KKIFVGGIKEDTEEHHLRDY 122
Query: 122 FSRFGRI--LDVYVPKRTG-HRGFGFVTFAEEVVADR-VSRRSHEICGQQVAIDSA 173
F ++G+I +++ + +G RGF FVTF + D+ V ++ H + G + A
Sbjct: 123 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 178
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 41/132 (31%), Positives = 62/132 (46%), Gaps = 11/132 (8%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTFA--EEVVADRV 156
+K+F+G L E T E LR +F ++G + D V P RGFGFVT+A EEV A +
Sbjct: 12 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA-AM 70
Query: 157 SRRSHEICGQQVAIDSATPLDDAGPSQNFMMNAAETFGGYGGP-----MRTYGRMYGSLD 211
+ R H++ G+ V A +D+ + GG +R Y YG ++
Sbjct: 71 NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 130
Query: 212 FDDWGYGMGSGR 223
+ GSG+
Sbjct: 131 VIEIMTDRGSGK 142
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 4 DQGSKAHRGIGFITFASADSVENLMVDT-HELGGSTVVVDRATPKE 48
D+GS RG F+TF DSV+ +++ H + G V +A K+
Sbjct: 137 DRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQ 182
>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 = 51.2 bits (121), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 45/176 (25%), Positives = 75/176 (42%), Gaps = 47/176 (26%)
Query: 3 KDQGSKAHRGIGFITFASADSVENLM-VDTHELGGSTVVVDRATPKEDDFRPVGRMSHGG 61
+D +K RG GF+T+A+ + V+ M H++ G V RA +ED RP
Sbjct: 40 RDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP-------- 91
Query: 62 YGAYNAYISAATRYAALGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRY 121
A+++ KKIFVG + ++ LR Y
Sbjct: 92 ----GAHLTV------------------------------KKIFVGGIKEDTEEHHLRDY 117
Query: 122 FSRFGRI--LDVYVPKRTG-HRGFGFVTFAEEVVADR-VSRRSHEICGQQVAIDSA 173
F ++G+I +++ + +G RGF FVTF + D+ V ++ H + G + A
Sbjct: 118 FEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA 173
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 41/132 (31%), Positives = 62/132 (46%), Gaps = 11/132 (8%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTFA--EEVVADRV 156
+K+F+G L E T E LR +F ++G + D V P RGFGFVT+A EEV A +
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA-AM 65
Query: 157 SRRSHEICGQQVAIDSATPLDDAGPSQNFMMNAAETFGGYGGP-----MRTYGRMYGSLD 211
+ R H++ G+ V A +D+ + GG +R Y YG ++
Sbjct: 66 NARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE 125
Query: 212 FDDWGYGMGSGR 223
+ GSG+
Sbjct: 126 VIEIMTDRGSGK 137
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 4 DQGSKAHRGIGFITFASADSVENLMVDT-HELGGSTVVVDRATPKED 49
D+GS RG F+TF DSV+ +++ H + G V +A K++
Sbjct: 132 DRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQE 178
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 50.8 bits (120), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 44/76 (57%), Gaps = 3/76 (3%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP-KRTGHRGFGFVTFAEEVVADRVSRRS 160
K++ V +P DLR+ F +FG+ILDV + G +GFGFVTF ADR +
Sbjct: 30 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKL 89
Query: 161 H--EICGQQVAIDSAT 174
H + G+++ +++AT
Sbjct: 90 HGTVVEGRKIEVNNAT 105
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 50.4 bits (119), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 45/87 (51%), Gaps = 4/87 (4%)
Query: 93 RGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTFAE 149
RG G K+F+G L + T E LR YF +FG + + V P RGFGFVTF +
Sbjct: 17 RGSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMD 76
Query: 150 EVVADRVSRRS-HEICGQQVAIDSATP 175
+ D+V +S HE+ + + A P
Sbjct: 77 QAGVDKVLAQSRHELDSKTIDPKVAFP 103
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 3 KDQGSKAHRGIGFITFASADSVENLMVDT-HELGGSTVVVDRATPK 47
+D +K RG GF+TF V+ ++ + HEL T+ A P+
Sbjct: 59 RDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVAFPR 104
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 50.4 bits (119), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 45/83 (54%), Gaps = 4/83 (4%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTFAEEVVAD-RVS 157
+K+F+G L E T E LR Y+ ++G++ D V P RGFGFVTF+ D ++
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA 87
Query: 158 RRSHEICGQQVAIDSATPLDDAG 180
R H I G+ V A +++G
Sbjct: 88 ARPHSIDGRVVEPKRAVAREESG 110
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 3 KDQGSKAHRGIGFITFASADSVENLMVDT-HELGGSTVVVDRATPKED 49
+D SK RG GF+TF+S V+ M H + G V RA +E+
Sbjct: 61 RDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAVAREE 108
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 45/79 (56%), Gaps = 3/79 (3%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--TGH-RGFGFVTFAEEVVADRVSRR 159
K+F+G L + T ++LR YF ++G + D+ + K TG RGFGF++F + D V +
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 160 SHEICGQQVAIDSATPLDD 178
H + G+ + A P D+
Sbjct: 65 QHILDGKVIDPKRAIPRDE 83
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 43/177 (24%), Positives = 69/177 (38%), Gaps = 52/177 (29%)
Query: 3 KDQGSKAHRGIGFITFASADSVENLMVDTHELGGSTVVVDRATPKEDDFRPVGRMSHGGY 62
KD + RG GF++F SV+ ++ H L G + RA P+++
Sbjct: 37 KDPATGRSRGFGFLSFEKPSSVDEVVKTQHILDGKVIDPKRAIPRDE------------- 83
Query: 63 GAYNAYISAATRYAALGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYF 122
D G KIFVG + + ++ +F
Sbjct: 84 ---------------------QDKTG--------------KIFVGGIGPDVRPKEFEEFF 108
Query: 123 SRFGRILD--VYVPKRTGH-RGFGFVTFAEEVVADRVSRRSH-EICGQQVAIDSATP 175
S++G I+D + + K TG RGFGFVT+ DRV + + +++ I A P
Sbjct: 109 SQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIKRAEP 165
Score = 27.3 bits (59), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 4 DQGSKAHRGIGFITFASADSVENLMVDTH-ELGGSTVVVDRATPK 47
D+ + RG GF+T+ SAD+V+ + + + + + RA P+
Sbjct: 122 DKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIKRAEPR 166
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 48.5 bits (114), Expect = 3e-06, Method: Composition-based stats.
Identities = 27/65 (41%), Positives = 38/65 (58%), Gaps = 4/65 (6%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTFAEEVVADRVSRR 159
K+F+G L + T E LR YF +FG + + V P RGFGFVTF ++ D+V +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 160 S-HEI 163
S HE+
Sbjct: 62 SRHEL 66
Score = 27.3 bits (59), Expect = 6.5, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 3 KDQGSKAHRGIGFITFASADSVENLMVDT-HELGGSTV 39
+D +K RG GF+TF V+ ++ + HEL T+
Sbjct: 34 RDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTI 71
>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 = 48.5 bits (114), Expect = 3e-06, Method: Composition-based stats.
Identities = 25/69 (36%), Positives = 41/69 (59%), Gaps = 4/69 (5%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTFAEEVVADRV-SRR 159
+F+G L + T +DL+ YFS+FG ++D + P RGFGFV F E D+V ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 160 SHEICGQQV 168
H++ G+ +
Sbjct: 62 EHKLNGKVI 70
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 28/64 (43%), Positives = 37/64 (57%), Gaps = 3/64 (4%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILD--VYVPKRTGH-RGFGFVTFAEEVVADRVSRR 159
KIFVG LP T LR+YF FG I + V ++TG RG+GFVT A+ A+R +
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 160 SHEI 163
+ I
Sbjct: 79 PNPI 82
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 47/84 (55%), Gaps = 9/84 (10%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFAEEVVADRVSRRSH- 161
K+F+G LP+EAT +++R F ++G++L+ + K +GFV ++ A+ R H
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDIIKN-----YGFVHIEDKTAAEDAIRNLHH 64
Query: 162 -EICGQQVAIDSATPLDDA--GPS 182
++ G + ++++ A GPS
Sbjct: 65 YKLHGVNINVEASKNKSKASSGPS 88
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 45/78 (57%), Gaps = 4/78 (5%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDV---YVPKRTGHRGFGFVTFAEEVVADRVSR 158
+ I+VG L AT+E ++ FS+FG++ +V Y + +GFGFV EE V++ +++
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAK 61
Query: 159 RSH-EICGQQVAIDSATP 175
+ + G+ + + A P
Sbjct: 62 LDNTDFMGRTIRVTEANP 79
>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 = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 40/70 (57%), Gaps = 4/70 (5%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTFAEEVVADRV-SR 158
K FVG L + + +DL+ YF++FG ++D + P RGFGF+ F + ++V +
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 159 RSHEICGQQV 168
+ H + G+ +
Sbjct: 73 KEHRLDGRVI 82
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 40/77 (51%), Gaps = 8/77 (10%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP---KRTGHRGFGFVTFAEEVVADRV-S 157
KKIFVG L + E +R YF FG + + +P K RGF F+TF EE ++
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
Query: 158 RRSHEI----CGQQVAI 170
++ H + C +VA+
Sbjct: 62 KKYHNVGLSKCEIKVAM 78
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 3/66 (4%)
Query: 89 SFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFA 148
SF GE + ++FVG LP + T ED +R F R+G +V++ + RGFGF+
Sbjct: 10 SFLKPGEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINR---DRGFGFIRLE 66
Query: 149 EEVVAD 154
+A+
Sbjct: 67 SRTLAE 72
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 32/86 (37%), Positives = 48/86 (55%), Gaps = 7/86 (8%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPK--RTGH-RGFGFVTFAEEVVADR--VSR 158
+FVG L E T ED++ F+ FG+I D V K TG +G+GFV+F ++ A+ V
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 159 RSHEICGQQVAIDSAT--PLDDAGPS 182
+ G+Q+ + AT P +GPS
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPSGPS 103
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRT----GHRGFGFVTF 147
KI V +P +A ++R FS FG + V +PK+ HRGFGFV F
Sbjct: 17 KILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDF 65
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 43.1 bits (100), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVP---KRTGHRGFGFVTFAEEVVADRVSRRS 160
IFVG L + E +R YF FG + + +P K RGF F+TF EE ++ +
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 161 HEICG 165
+ G
Sbjct: 62 YHNVG 66
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 36/63 (57%), Gaps = 3/63 (4%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--TG-HRGFGFVTFAEEVVADRVSRR 159
K+F+G++P+ +DL+ F FG+I ++ V K TG H+G F+T+ E A +
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 160 SHE 162
HE
Sbjct: 75 LHE 77
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/89 (34%), Positives = 47/89 (52%), Gaps = 11/89 (12%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK---RTGHRGFGFVTFAEEVVAD----R 155
K+FVG L + + L + FS++G+I +V V K RGFGFVTF E + D
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTF--ENIDDAKDAM 71
Query: 156 VSRRSHEICGQQVAIDSATPLDD--AGPS 182
++ + G+Q+ +D A D +GPS
Sbjct: 72 MAMNGKSVDGRQIRVDQAGKSSDNRSGPS 100
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 1 MPKDQGSKAHRGIGFITFASADSVENLM--VDTHELGGSTVVVDRATPKEDD 50
+ KD+ ++ RG GF+TF + D ++ M ++ + G + VD+A D+
Sbjct: 44 VVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGKSSDN 95
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 43/76 (56%), Gaps = 5/76 (6%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPK--RTGH-RGFGFVTFAEEVVADRVSRR- 159
+FVG L E T ED++ F+ FGRI D V K TG +G+GFV+F + A+ ++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 160 -SHEICGQQVAIDSAT 174
+ G+Q+ + AT
Sbjct: 78 GGQWLGGRQIRTNWAT 93
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK--RTG-HRGFGFVTFAEEVVADRVSRR 159
K+FVG++P+ +DL+ F FGRI ++ V K TG H+G F+T+ A +
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 160 SHE 162
HE
Sbjct: 77 LHE 79
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 47/84 (55%), Gaps = 5/84 (5%)
Query: 89 SFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFA 148
+F GE + ++FVG LP + T E++R+ F ++G+ +V++ K +GFGF+
Sbjct: 10 NFRKPGEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK---DKGFGFIRLE 66
Query: 149 EEVVAD--RVSRRSHEICGQQVAI 170
+A+ +V + + G+Q+ +
Sbjct: 67 TRTLAEIAKVELDNMPLRGKQLRV 90
>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 = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 43/74 (58%), Gaps = 5/74 (6%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFAEEVVAD--RVSRRS 160
++FVG LP + T E++R+ F ++G+ +V++ K +GFGF+ +A+ +V +
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK---DKGFGFIRLETRTLAEIAKVELDN 73
Query: 161 HEICGQQVAIDSAT 174
+ G+Q+ + A
Sbjct: 74 MPLRGKQLRVRFAC 87
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 8 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKE 57
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKE 61
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKE 61
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKE 60
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 6 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKE 55
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 7 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKE 56
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 9 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKE 58
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKE 60
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKE 60
>pdb|1DRZ|A Chain A, U1a Spliceosomal ProteinHEPATITIS DELTA VIRUS GENOMIC
Ribozyme Complex
Length = 97
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVIFKE 60
>pdb|3CUL|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUL|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3EGZ|A Chain A, Crystal Structure Of An In Vitro Evolved Tetracycline
Aptamer And Artificial Riboswitch
Length = 98
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVIFKE 61
>pdb|1CX0|A Chain A, Hepatitis Delta Virus Ribozyme
Length = 95
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FSRFG+ILD+ V + RG FV F E
Sbjct: 9 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVIFKE 58
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTG--HRGFGFVTFAEEVVADRVSRR 159
+K+F+G + ++ T D+R FS FG+I + + + RG FVTF +A +
Sbjct: 108 RKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKA 167
Query: 160 SHE 162
H+
Sbjct: 168 MHQ 170
Score = 34.3 bits (77), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 5/50 (10%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGH-----RGFGFVTF 147
K+FVG++P+ + +DLR F ++G + ++ V + +G FVTF
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 66
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTG--HRGFGFVTFAEEVVADRVSRR 159
+K+F+G + ++ T D+R FS FG+I + + + RG FVTF +A +
Sbjct: 96 RKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKA 155
Query: 160 SHE 162
H+
Sbjct: 156 MHQ 158
Score = 34.3 bits (77), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 5/50 (10%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGH-----RGFGFVTF 147
K+FVG++P+ + +DLR F ++G + ++ V + +G FVTF
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 54
>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 = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 38/67 (56%), Gaps = 3/67 (4%)
Query: 91 YGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD--VYVPKRTG-HRGFGFVTF 147
Y R S+ ++V LP+ T ++L + FS++GRI+ + V + TG RG GF+ F
Sbjct: 78 YARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRF 137
Query: 148 AEEVVAD 154
+ + A+
Sbjct: 138 DKRIEAE 144
>pdb|1OIA|A Chain A, U1a Rnp Domain 1-95
pdb|1OIA|B Chain B, U1a Rnp Domain 1-95
Length = 95
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FS+FG+ILD+ V + RG FV F E
Sbjct: 12 IYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKE 61
>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 = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 36/71 (50%), Gaps = 8/71 (11%)
Query: 91 YGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD--VYVPKRTG-HRGFGFVTF 147
Y R S +++ LP+ T +D+ FSRFGRI++ V V + TG RG F+ F
Sbjct: 78 YARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
Query: 148 -----AEEVVA 153
AEE +
Sbjct: 138 DKRSEAEEAIT 148
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 33/131 (25%), Positives = 50/131 (38%), Gaps = 16/131 (12%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYV--PKRTGHR-GFGFVTFAEEVVADRVSRRS 160
+ V LPQ T ++LR FS G + + K GH G+GFV + V A R
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNY---VTAKDAERAI 61
Query: 161 HEICGQQVAIDSATPLDDAGPSQNFMMNAAETFGGYGGPMRT---------YGRMYGSLD 211
+ + G ++ + A PS + +A G M +GR+ S
Sbjct: 62 NTLNGLRLQ-SKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRV 120
Query: 212 FDDWGYGMGSG 222
D G+ G
Sbjct: 121 LVDQTTGLSRG 131
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 36/71 (50%), Gaps = 8/71 (11%)
Query: 91 YGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD--VYVPKRTG-HRGFGFVTF 147
Y R S +++ LP+ T +D+ FSRFGRI++ V V + TG RG F+ F
Sbjct: 78 YARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
Query: 148 -----AEEVVA 153
AEE +
Sbjct: 138 DKRSEAEEAIT 148
Score = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 33/132 (25%), Positives = 50/132 (37%), Gaps = 16/132 (12%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYV--PKRTGHR-GFGFVTFAEEVVADRVSRR 159
+ V LPQ T ++LR FS G + + K GH G+GFV + V A R
Sbjct: 4 NLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNY---VTAKDAERA 60
Query: 160 SHEICGQQVAIDSATPLDDAGPSQNFMMNAAETFGGYGGPMRT---------YGRMYGSL 210
+ + G ++ + A PS + +A G M +GR+ S
Sbjct: 61 INTLNGLRLQ-SKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSR 119
Query: 211 DFDDWGYGMGSG 222
D G+ G
Sbjct: 120 VLVDQTTGLSRG 131
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILD--VYVPKRTG-HRGFGFVTF 147
G +F+ LPQE T DL F FG ++ V++ K+T + FGFV+F
Sbjct: 40 GCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSF 89
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ L ++ ++L++ FS+FG+ILD+ V + RG FV F E
Sbjct: 11 IYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKE 60
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTG--HRGFGFVTFAEEVVADRVSRR 159
+K+F+G + ++ T D+R FS FG+I + + + RG FVTF A +
Sbjct: 96 RKLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAXAQTAIKA 155
Query: 160 SHE 162
H+
Sbjct: 156 XHQ 158
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 5/50 (10%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGH-----RGFGFVTF 147
K FVG++P+ + +DLR F ++G + ++ V + +G FVTF
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 54
>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 = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILD--VYVPKRTG-HRGFGFVTFAEEVVA 153
G +F+ LPQE +DL + F FG ++ V++ K+T + FGFV++ V A
Sbjct: 25 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSA 80
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 99 RIGKKIFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
R I++ L ++ ++L++ FS+FG+ILD+ V + RG FV F E
Sbjct: 7 RPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKE 61
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 5/77 (6%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILD---VYVPKRTGHRGFGFVTFAEEVVADRVSR 158
+ +FVG +P EAT E L+ FS G ++ VY + +G+GF + ++ A R
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68
Query: 159 RSH--EICGQQVAIDSA 173
+ E G+ + +D+A
Sbjct: 69 NLNGREFSGRALRVDNA 85
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 36/76 (47%), Gaps = 2/76 (2%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTF--AEEVVADRVSRR 159
K +FV L ++ T E L+ F R V + +GFGFV F E+ A + +
Sbjct: 16 KTLFVKGLSEDTTEETLKESFDGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAME 75
Query: 160 SHEICGQQVAIDSATP 175
EI G +V +D A P
Sbjct: 76 DGEIDGNKVTLDWAKP 91
>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 = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 3/67 (4%)
Query: 91 YGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK---RTGHRGFGFVTF 147
YGR + V L + + LRR F ++GR+ DVY+P+ RGF FV F
Sbjct: 37 YGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRF 96
Query: 148 AEEVVAD 154
++ A+
Sbjct: 97 HDKRDAE 103
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR---TGHRGFGFVTF 147
+ V L + + LRR F ++GR+ DVY+P+ RGF FV F
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRF 62
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 3/50 (6%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPK---RTGHRGFGFVTFAEE 150
+ V L + + LRR F ++GR+ DVY+P+ RGF FV F ++
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDK 122
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHR---GFGFVTFAEEVVADRVSR 158
++V LP T DL R FS++G+++ V + K R G F+ F ++ A +R
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTR 76
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 43/83 (51%), Gaps = 8/83 (9%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFAEEVVADRVSRRSH- 161
KIFVG + T+++LR F R GR+++ V K + FV +E A + +
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVK-----DYAFVHMEKEADAKAAIAQLNG 65
Query: 162 -EICGQQVAIDSATP-LDDAGPS 182
E+ G+++ ++ +T +GPS
Sbjct: 66 KEVKGKRINVELSTKGQKKSGPS 88
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 4/65 (6%)
Query: 94 GESSQRIGKK-IFVGRLPQEATAEDLRRYFSRFGRI--LDVYVPKRTGH-RGFGFVTFAE 149
E + I K+ ++VG + +TA+DL +FS G I + + K +GH +G+ ++ FAE
Sbjct: 28 AEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAE 87
Query: 150 EVVAD 154
D
Sbjct: 88 RNSVD 92
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
+I+VG LP + +D+ F ++G I D+ + R G F FV F +
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFED 70
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 38/68 (55%), Gaps = 3/68 (4%)
Query: 91 YGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD--VYVPKRTG-HRGFGFVTF 147
Y R S+ ++V LP+ + +++ + FS++GRI+ + + + TG RG GF+ F
Sbjct: 80 YARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRF 139
Query: 148 AEEVVADR 155
+ + A+
Sbjct: 140 DKRIEAEE 147
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 35.0 bits (79), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDV-YVPKRTG-HRGFGFVTFAEEVVADRVSRRSH 161
+FVG + ++R +F+R+G + +V + RTG +G+GFV+F +V ++
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVESQI 72
Query: 162 EICGQQVAIDSAT 174
G+++ + A
Sbjct: 73 NFHGKKLKLGPAI 85
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 35.0 bits (79), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 42/81 (51%), Gaps = 5/81 (6%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRI--LDVYVPKRTGH-RGFGFVTFAEEVVADRVSRR 159
+++VG L T + LR F FGRI + + + TG +G+GF+TF++ A + +
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 160 SH--EICGQQVAIDSATPLDD 178
+ E+ G+ + + T D
Sbjct: 88 LNGFELAGRPMKVGHVTERTD 108
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 35.0 bits (79), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 42/82 (51%), Gaps = 5/82 (6%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTG---HRGFGFVTFAEEVVADRVSRRS 160
++VG L T + LR F FG+I ++ + K + +G+GF+TF++ A R +
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 161 H--EICGQQVAIDSATPLDDAG 180
+ E+ G+ + + T D G
Sbjct: 68 NGFELAGRPMRVGHVTERLDGG 89
>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 = 34.3 bits (77), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 5/50 (10%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGH-----RGFGFVTF 147
K+FVG++P+ + +DLR F ++G + ++ V + +G FVTF
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 54
>pdb|1A9N|B Chain B, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
pdb|1A9N|D Chain D, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
Length = 96
Score = 34.3 bits (77), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 104 IFVGRLPQEATAEDLRR----YFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
I++ + + E+L+R FS+FG ++D+ K RG FV F E
Sbjct: 9 IYINNMNDKIKKEELKRSLYALFSQFGHVVDIVALKTMKMRGQAFVIFKE 58
>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 = 34.3 bits (77), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDV-YVPKRTG-HRGFGFVTFAEEVVADRVSRRSH 161
+FVG + ++R +F+R+G + +V + RTG +G+GFV+F +V ++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVESQI 71
Query: 162 EICGQQVAIDSAT 174
G+++ + A
Sbjct: 72 NFHGKKLKLGPAI 84
>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 = 34.3 bits (77), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 42/76 (55%), Gaps = 5/76 (6%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVY--VPKRTGH-RGFGFVTFA--EEVVADR 155
G +FV + +EAT ED+ F+ +G I +++ + +RTG+ +G+ V + +E A
Sbjct: 23 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 82
Query: 156 VSRRSHEICGQQVAID 171
++ GQ +++D
Sbjct: 83 EGLNGQDLMGQPISVD 98
>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 = 34.3 bits (77), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDV-YVPKRTG-HRGFGFVTFAEEVVADRVSRRSH 161
+FVG + ++R +F+R+G + +V + RTG +G+GFV+F +V ++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVESQI 71
Query: 162 EICGQQVAIDSAT 174
G+++ + A
Sbjct: 72 NFHGKKLKLGPAI 84
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 34.3 bits (77), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK--RTGHRGFGFVTFAEEVVA 153
+K+FVG L ++ + +D+RR F FG I + + + +G FV ++ A
Sbjct: 16 RKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFVKYSSHAEA 69
>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 = 33.9 bits (76), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 42/76 (55%), Gaps = 5/76 (6%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVY--VPKRTGH-RGFGFVTFA--EEVVADR 155
G +FV + +EAT ED+ F+ +G I +++ + +RTG+ +G+ V + +E A
Sbjct: 9 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 68
Query: 156 VSRRSHEICGQQVAID 171
++ GQ +++D
Sbjct: 69 EGLNGQDLMGQPISVD 84
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 33.9 bits (76), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTF 147
+K+FVG L ++ T ED+R+ F FG I + V P T +G FV F
Sbjct: 13 RKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTS-KGCAFVKF 60
>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 = 33.9 bits (76), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 42/76 (55%), Gaps = 5/76 (6%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVY--VPKRTGH-RGFGFVTFA--EEVVADR 155
G +FV + +EAT ED+ F+ +G I +++ + +RTG+ +G+ V + +E A
Sbjct: 22 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 81
Query: 156 VSRRSHEICGQQVAID 171
++ GQ +++D
Sbjct: 82 EGLNGQDLMGQPISVD 97
>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 = 33.9 bits (76), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 42/76 (55%), Gaps = 5/76 (6%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVY--VPKRTGH-RGFGFVTFA--EEVVADR 155
G +FV + +EAT ED+ F+ +G I +++ + +RTG+ +G+ V + +E A
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 156 VSRRSHEICGQQVAID 171
++ GQ +++D
Sbjct: 67 EGLNGQDLMGQPISVD 82
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 33.5 bits (75), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 42/76 (55%), Gaps = 5/76 (6%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVY--VPKRTGH-RGFGFVTFA--EEVVADR 155
G +FV + +EAT ED+ F+ +G I +++ + +RTG+ +G+ V + +E A
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 156 VSRRSHEICGQQVAID 171
++ GQ +++D
Sbjct: 67 EGLNGQDLMGQPISVD 82
>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 = 33.5 bits (75), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYV--PKRTGHR-GFGFVTFAEEVVADR 155
G + V LPQ T ++LR FS G + + K GH G+GFV + A+R
Sbjct: 19 GTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAER 76
>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 = 33.5 bits (75), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 42/76 (55%), Gaps = 5/76 (6%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVY--VPKRTGH-RGFGFVTFA--EEVVADR 155
G +FV + +EAT ED+ F+ +G I +++ + +RTG+ +G+ V + +E A
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 156 VSRRSHEICGQQVAID 171
++ GQ +++D
Sbjct: 67 EGLNGQDLMGQPISVD 82
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 34/54 (62%), Gaps = 3/54 (5%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILD--VYVPKRTG-HRGFGFVTFAEEVVAD 154
++V LP+ + +++ + FS++GRI+ + + + TG RG GF+ F + + A+
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAE 57
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--TG-HRGFGFVTFAEEVVAD 154
++VG L ++ + L F + G +++ ++PK TG H+G+GFV F E AD
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDAD 71
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 28/47 (59%), Gaps = 2/47 (4%)
Query: 1 MPKDQGSKAHRGIGFITFASADSVENL--MVDTHELGGSTVVVDRAT 45
MPKD+ + H+G GF+ F S + + ++D +L G + V++A+
Sbjct: 47 MPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKAS 93
>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 = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDV-YVPKRTGHRGFGFVTFAEEVVADR 155
IF+ L + + L FS FG IL V G +G+GFV F + A+R
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAER 60
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDV-YVPKRTGHRGFGFVTFAEEVVADR 155
IF+ L + + L FS FG IL V G +G+GFV F + A+R
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAER 66
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDV-YVPKRTGHRGFGFVTFAEEVVADRVSRRSH 161
IF+ L + + L FS FG IL V G +G+GFV F + A+R + +
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 164
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 41/73 (56%), Gaps = 5/73 (6%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVY--VPKRTG-HRGFGFVTFA--EEVVADRVSR 158
+FV + +EA ++++ F +G I +++ + +RTG +G+ V + ++ +A + +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 159 RSHEICGQQVAID 171
EI GQ + +D
Sbjct: 89 NGAEIMGQTIQVD 101
>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 = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 39/75 (52%), Gaps = 5/75 (6%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYV--PKRTGH-RGFGFVTFAEEVVADRVSR 158
K +FV R+ + T LRR F +G I +++ KR+G RG+ F+ + E +
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 159 RS--HEICGQQVAID 171
+ +I G++V +D
Sbjct: 163 HADGKKIDGRRVLVD 177
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 1/81 (1%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGH-RGFGFVTFAEEVVADRVSRRSH 161
+IFV LP + T + L+ F+ G +L + G +G G V F VA+R R +
Sbjct: 10 QIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMN 69
Query: 162 EICGQQVAIDSATPLDDAGPS 182
+ ID + +GPS
Sbjct: 70 GMKLSGREIDVRIDRNASGPS 90
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 36/81 (44%), Gaps = 1/81 (1%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGH-RGFGFVTFAEEVVADRVSRRSHE 162
IFV LP + T + L+ F+ G +L + G +G G V F VA+R R +
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNG 67
Query: 163 ICGQQVAIDSATPLDDAGPSQ 183
+ ID + +GPS
Sbjct: 68 MKLSGREIDVRIDRNASGPSS 88
>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 = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 41/73 (56%), Gaps = 5/73 (6%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVY--VPKRTG-HRGFGFVTFA--EEVVADRVSR 158
+FV + +EA ++++ F +G I +++ + +RTG +G+ V + ++ +A + +
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 159 RSHEICGQQVAID 171
EI GQ + +D
Sbjct: 135 NGAEIMGQTIQVD 147
>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|B Chain B, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|C Chain C, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|D Chain D, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|E Chain E, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|F Chain F, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|G Chain G, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|H Chain H, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
Length = 190
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDV-YVPKRTGHRGFGFVTFAEEVVADR 155
IF+ L + + L FS FG IL V G +G+GFV F + A+R
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAER 153
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK--RTGHRGFGFVTFAEEVVA 153
+K+FVG L ++ + ED+ R F FG I + V + +G FV F+ A
Sbjct: 16 RKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEA 69
>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 = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTF 147
R +I+V + Q+ + +D++ F FG+I + P H+G+GF+ +
Sbjct: 123 RAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEY 174
>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 = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 17/77 (22%), Positives = 34/77 (44%), Gaps = 3/77 (3%)
Query: 74 RYAALGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYV 133
R +G P+ + R +I+V + Q+ + +D++ F FG+I +
Sbjct: 83 RNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTL 142
Query: 134 ---PKRTGHRGFGFVTF 147
P H+G+GF+ +
Sbjct: 143 ARDPTTGKHKGYGFIEY 159
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGH----RGFGFVTFAEEVVADRVSR 158
K+ +GRL + T + + FS +G+I + +P H +G+ +V F A++ +
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
Query: 159 RSH--EICGQQVA 169
+I GQ++
Sbjct: 66 HMDGGQIDGQEIT 78
>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 = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYV---PKRTGHRGFGFVTF 147
R +I+V + Q+ + +D++ F FG+I + P H+G+GF+ +
Sbjct: 107 RAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEY 158
>pdb|2K3K|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd1
Length = 104
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 122 FSRFGRILDVYVPKRTGHRGFGFVTFAE 149
FS+FG+ILD+ K RG FV F E
Sbjct: 31 FSQFGQILDIVALKTLKMRGQAFVIFKE 58
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRT---GHRGFGFVTF 147
++FV L ++ EDL + FS +G + +++ P + +GF FVTF
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTF 57
>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 = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 40/77 (51%), Gaps = 9/77 (11%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYV--PKRTGH-RGFGFVTFAEEVVADRVSR 158
K +FV R+ + T LRR F +G I +++ KR+G RG+ F+ + E D S
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHE--RDMHSA 160
Query: 159 RSH----EICGQQVAID 171
H +I G++V +D
Sbjct: 161 YKHADGKKIDGRRVLVD 177
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 113 ATAEDLRRYFSRFGRILD---VYVPKRTGHRGFGFVTFAEEVVADRVSRRSH--EICGQQ 167
T DLR FS++G I D VY + RGF FV F A R++ E+ G++
Sbjct: 27 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRR 86
Query: 168 VAID 171
+ +D
Sbjct: 87 IRVD 90
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 113 ATAEDLRRYFSRFGRILD---VYVPKRTGHRGFGFVTFAEEVVADRVSRRSH--EICGQQ 167
T DLR FS++G I D VY + RGF FV F A R++ E+ G++
Sbjct: 58 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRR 117
Query: 168 VAID 171
+ +D
Sbjct: 118 IRVD 121
>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 = 31.6 bits (70), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYV--PKRTGHR-GFGFVTFAEEVVADR 155
+ V LPQ T ++LR FS G + + K GH G+GFV + A+R
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAER 61
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 113 ATAEDLRRYFSRFGRILD---VYVPKRTGHRGFGFVTFAEEVVADRVSRRSH--EICGQQ 167
T DLR FS++G I D VY + RGF FV F A R++ E+ G++
Sbjct: 24 TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRR 83
Query: 168 VAID 171
+ +D
Sbjct: 84 IRVD 87
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 6/83 (7%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILD----VYVPKRTGHRGFGFVTFAEEVVADRV--S 157
IF+G L E + L FS FG IL + P +G+ F+ FA +D +
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 158 RRSHEICGQQVAIDSATPLDDAG 180
+C + + + A D G
Sbjct: 68 MNGQYLCNRPITVSYAFKKDSKG 90
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 30.8 bits (68), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 2/57 (3%)
Query: 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRIL--DVYVPKRTGHRGFGFVTFAEEVVA 153
R+G +FV L + + L+ FS G ++ D+ K RG G VTF + + A
Sbjct: 13 RLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEA 69
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 30.8 bits (68), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFAEEVVADRVSRRS 160
++VG L T DLR +F +FG I + V +R + F+ FA A+ + +S
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEIRTITVVQR---QQCAFIQFATRQAAEVAAEKS 68
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 5/62 (8%)
Query: 114 TAEDLRRYFSRFGRILD---VYVPKRTGHRGFGFVTFAEEVVADRVSRRSH--EICGQQV 168
T DLR FS++G I D VY + RGF FV F A R++ E+ G+++
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 87
Query: 169 AI 170
+
Sbjct: 88 RV 89
>pdb|4A5W|A Chain A, Crystal Structure Of C5b6
Length = 1580
Score = 30.0 bits (66), Expect = 1.1, Method: Composition-based stats.
Identities = 22/87 (25%), Positives = 33/87 (37%), Gaps = 14/87 (16%)
Query: 150 EVVADRVSRRSHEICGQQVAIDSATPLDDAGPSQNFMMNAA--------------ETFGG 195
E+V+D V E CG Q+ + + D P Q +N A +G
Sbjct: 535 ELVSDSVWLNIEEKCGNQLQVHLSPDADAYSPGQTVSLNMATGMDSWVALAAVDSAVYGV 594
Query: 196 YGGPMRTYGRMYGSLDFDDWGYGMGSG 222
G + R++ L+ D G G G G
Sbjct: 595 QRGAKKPLERVFQFLEKSDLGCGAGGG 621
>pdb|3CU7|A Chain A, Human Complement Component 5
pdb|3CU7|B Chain B, Human Complement Component 5
pdb|3KLS|A Chain A, Structure Of Complement C5 In Complex With Ssl7
pdb|3KLS|B Chain B, Structure Of Complement C5 In Complex With Ssl7
pdb|3KM9|A Chain A, Structure Of Complement C5 In Complex With The C-Terminal
Beta-Grasp Domain Of Ssl7
pdb|3KM9|B Chain B, Structure Of Complement C5 In Complex With The C-Terminal
Beta-Grasp Domain Of Ssl7
pdb|4E0S|A Chain A, Crystal Structure Of C5b-6
Length = 1676
Score = 30.0 bits (66), Expect = 1.1, Method: Composition-based stats.
Identities = 22/87 (25%), Positives = 33/87 (37%), Gaps = 14/87 (16%)
Query: 150 EVVADRVSRRSHEICGQQVAIDSATPLDDAGPSQNFMMNAA--------------ETFGG 195
E+V+D V E CG Q+ + + D P Q +N A +G
Sbjct: 553 ELVSDSVWLNIEEKCGNQLQVHLSPDADAYSPGQTVSLNMATGMDSWVALAAVDSAVYGV 612
Query: 196 YGGPMRTYGRMYGSLDFDDWGYGMGSG 222
G + R++ L+ D G G G G
Sbjct: 613 QRGAKKPLERVFQFLEKSDLGCGAGGG 639
>pdb|3PRX|A Chain A, Structure Of Complement C5 In Complex With Cvf And Ssl7
pdb|3PRX|C Chain C, Structure Of Complement C5 In Complex With Cvf And Ssl7
pdb|3PVM|A Chain A, Structure Of Complement C5 In Complex With Cvf
pdb|3PVM|C Chain C, Structure Of Complement C5 In Complex With Cvf
Length = 1676
Score = 30.0 bits (66), Expect = 1.1, Method: Composition-based stats.
Identities = 22/87 (25%), Positives = 33/87 (37%), Gaps = 14/87 (16%)
Query: 150 EVVADRVSRRSHEICGQQVAIDSATPLDDAGPSQNFMMNAA--------------ETFGG 195
E+V+D V E CG Q+ + + D P Q +N A +G
Sbjct: 553 ELVSDSVWLNIEEKCGNQLQVHLSPDADAYSPGQTVSLNMATGMDSWVALAAVDSAVYGV 612
Query: 196 YGGPMRTYGRMYGSLDFDDWGYGMGSG 222
G + R++ L+ D G G G G
Sbjct: 613 QRGAKKPLERVFQFLEKSDLGCGAGGG 639
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 5/54 (9%)
Query: 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGH-----RGFGFVTFAEE 150
+K+FVG LP + +++ F RFG ++ + K +G+ F+ F EE
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEE 62
>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 = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 31/53 (58%), Gaps = 3/53 (5%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRI--LDVYVPKRTGH-RGFGFVTFAEE 150
+ I+VG + ATAE+L +F G + + + K +GH +GF ++ F+++
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDK 58
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 37/81 (45%), Gaps = 8/81 (9%)
Query: 94 GESSQRIGK----KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGH-RGFGFVTFA 148
G S RI + ++V L E LR+ FS FG I V G +GFGFV F+
Sbjct: 4 GSSGDRITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFS 63
Query: 149 EEVVADRVSRRSHEICGQQVA 169
+ ++ E+ G+ VA
Sbjct: 64 S---PEEATKAVTEMNGRIVA 81
>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 = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 37/82 (45%), Gaps = 4/82 (4%)
Query: 103 KIFVGRLPQEATAEDLRRYFSRFGRILDV-YVPKRTGH-RGFGFVTFAEEVVADRVSRRS 160
K+F+ LP T E+L G + D+ V R G +G +V + E A + +
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKM 78
Query: 161 HEICGQQVAIDSATPLDDAGPS 182
+ ++ I A + ++GPS
Sbjct: 79 DGMTIKENIIKVA--ISNSGPS 98
>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 = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 31/53 (58%), Gaps = 3/53 (5%)
Query: 101 GKKIFVGRLPQEATAEDLRRYFSRFGRI--LDVYVPKRTGH-RGFGFVTFAEE 150
+ I+VG + ATAE+L +F G + + + K +GH +GF ++ F+++
Sbjct: 5 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDK 57
>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 = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 36/82 (43%), Gaps = 6/82 (7%)
Query: 119 RRYFSRFGRILDVYVPKRTGHRGFGFVTFAEEVVADRVSRRSHE------ICGQQVAIDS 172
RRY ++F RI D+ + + RG F+TF + AD V + + + +C A S
Sbjct: 15 RRYDNKFARISDIDINQPESWRGRIFLTFDIDWAADFVLQDTIDLIEGAGVCATWFATHS 74
Query: 173 ATPLDDAGPSQNFMMNAAETFG 194
L++ + F + F
Sbjct: 75 TPLLENIRRNPLFELGVHPNFN 96
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 3/47 (6%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVP--KRTGH-RGFGFVTF 147
I V L ++ DL+ F FG I +Y+ K TG +GF F++F
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISF 64
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 105 FVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTF 147
++G +P AT DL F FG ILD K +G F+ +
Sbjct: 31 YIGNIPHFATEADLIPLFQNFGFILDF---KHYPEKGCCFIKY 70
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 93 RGESSQRIGKKIFVGRLPQ------EATAEDLRRYFSRFGRILDVYVPKRTGH-RGFGFV 145
R + + I I V +PQ E + + FS+FG+I + + P+ G +G+ F+
Sbjct: 7 RPQEADGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFL 66
Query: 146 TFA 148
+A
Sbjct: 67 EYA 69
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 33/75 (44%), Gaps = 8/75 (10%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGH------RGFGFVTFAEEVVADRVS 157
+F+ L T E L+ FS+ G I + K+ GFGFV + + A +
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 158 R--RSHEICGQQVAI 170
+ + H + G ++ +
Sbjct: 68 KQLQGHTVDGHKLEV 82
>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 = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 40/76 (52%), Gaps = 5/76 (6%)
Query: 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPK--RTGH-RGFGFVTFAEEVVADRVSRR- 159
+FVG L E T + F+ FGRI D V K TG +G+GFV+F + A+ ++
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 160 -SHEICGQQVAIDSAT 174
+ G+Q+ + AT
Sbjct: 69 GGQWLGGRQIRTNWAT 84
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 8/85 (9%)
Query: 105 FVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGH----RGFGFVTFAEEVVADRVSRRS 160
F+G LP + T E ++ +F R I V +P+ + +GFG+ F + +
Sbjct: 19 FLGNLPYDVTEESIKEFF-RGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLN 77
Query: 161 HEICG-QQVAIDSATPLD--DAGPS 182
E G +++ +D A D+GPS
Sbjct: 78 EESLGNKRIRVDVADQAQDKDSGPS 102
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 6/50 (12%)
Query: 1 MPKDQGSKAHRGIGFITFASAD----SVENLMVDTHELGGSTVVVDRATP 46
+P D ++ HRG F+ F A+ +++N+ + EL G T+ V+ A P
Sbjct: 44 IPLDYETEKHRGFAFVEFELAEDAAAAIDNM--NESELFGRTIRVNLAKP 91
>pdb|3Q9V|A Chain A, Crystal Structure Of Rra C-Terminal Domain(123-221) From
Deinococcus Radiodurans
pdb|3Q9V|B Chain B, Crystal Structure Of Rra C-Terminal Domain(123-221) From
Deinococcus Radiodurans
Length = 133
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 31/63 (49%), Gaps = 6/63 (9%)
Query: 83 LYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFG-RILDVYVPKRTGHRG 141
L PG Y R Q IG++I+ GRLP+ + D+ R R LD Y RT RG
Sbjct: 72 LIRQPGRVYSR----QEIGQEIWQGRLPEGSNVVDVHMANLRAKLRDLDGYGLLRT-VRG 126
Query: 142 FGF 144
G+
Sbjct: 127 VGY 129
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 26/50 (52%)
Query: 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
+ + +++ LP + TAE++ F ++G I + V RG +V + +
Sbjct: 11 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYED 60
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 26/50 (52%)
Query: 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
+ + +++ LP + TAE++ F ++G I + V RG +V + +
Sbjct: 17 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYED 66
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 26/50 (52%)
Query: 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRTGHRGFGFVTFAE 149
+ + +++ LP + TAE++ F ++G I + V RG +V + +
Sbjct: 7 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYED 56
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
0.320 0.139 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,862,747
Number of Sequences: 62578
Number of extensions: 348817
Number of successful extensions: 979
Number of sequences better than 100.0: 140
Number of HSP's better than 100.0 without gapping: 85
Number of HSP's successfully gapped in prelim test: 55
Number of HSP's that attempted gapping in prelim test: 801
Number of HSP's gapped (non-prelim): 199
length of query: 234
length of database: 14,973,337
effective HSP length: 96
effective length of query: 138
effective length of database: 8,965,849
effective search space: 1237287162
effective search space used: 1237287162
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)