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= 009920
(522 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 = 170 bits (430), Expect = 2e-42, Method: Composition-based stats.
Identities = 78/178 (43%), Positives = 118/178 (66%), Gaps = 16/178 (8%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
K+FIGG++WDT E+ L+EYF +YG V + IM+D ATGR+RGFGF+ F P+ + V+
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 67 KHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKYF 126
+H++DG+ ++ K+A+PRD+Q+ +T KIFVGG+ V +F+++F
Sbjct: 65 QHILDGKVIDPKRAIPRDEQD----------------KTGKIFVGGIGPDVRPKEFEEFF 108
Query: 127 DQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHELNGKMVEVKRAVPK 184
Q+GTI D +M D +T + RGFGF+TYDS +AVDRV F + + +E+KRA P+
Sbjct: 109 SQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIKRAEPR 166
Score = 77.8 bits (190), Expect = 1e-14, Method: Composition-based stats.
Identities = 35/79 (44%), Positives = 58/79 (73%), Gaps = 1/79 (1%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHK 166
K+F+GGL TE + ++YF ++GT+TD+ +M D T R RGFGF++++ +VD V+ K
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVV-K 63
Query: 167 TFHELNGKMVEVKRAVPKE 185
T H L+GK+++ KRA+P++
Sbjct: 64 TQHILDGKVIDPKRAIPRD 82
Score = 67.0 bits (162), Expect = 2e-11, Method: Composition-based stats.
Identities = 31/79 (39%), Positives = 51/79 (64%), Gaps = 1/79 (1%)
Query: 6 GKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIM 65
GK+F+GGI D + +E+FS++G +++A +M D+ TG++RGFGFV + +RV
Sbjct: 88 GKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ 147
Query: 66 DKHM-IDGRTVEAKKAVPR 83
+K + R +E K+A PR
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 = 138 bits (347), Expect = 9e-33, Method: Compositional matrix adjust.
Identities = 73/187 (39%), Positives = 112/187 (59%), Gaps = 21/187 (11%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFA-----DPAV 59
L KLFIGG+S++T +E L+ +F ++G + + V+MRD T R+RGFGFV +A D A+
Sbjct: 14 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 73
Query: 60 AERVIMDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRT-KKIFVGGLASTVT 118
R H +DGR VE K+AV R+D PG T KKIFVGG+
Sbjct: 74 NAR----PHKVDGRVVEPKRAVSREDSQ-----------RPGAHLTVKKIFVGGIKEDTE 118
Query: 119 ESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHELNGKMVEV 178
E + YF+Q+G I + +M D + + RGF F+T+D ++VD+++ + +H +NG EV
Sbjct: 119 EHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 178
Query: 179 KRAVPKE 185
++A+ K+
Sbjct: 179 RKALSKQ 185
Score = 89.4 bits (220), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 43/97 (44%), Positives = 65/97 (67%)
Query: 94 SSIHSSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFIT 153
S S P + +K+F+GGL+ T+ + +F+Q+GT+TD VVM D NT+R RGFGF+T
Sbjct: 3 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 62
Query: 154 YDSEEAVDRVLHKTFHELNGKMVEVKRAVPKEFSPGP 190
Y + E VD ++ H+++G++VE KRAV +E S P
Sbjct: 63 YATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP 99
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 137 bits (346), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 73/187 (39%), Positives = 112/187 (59%), Gaps = 21/187 (11%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFA-----DPAV 59
L KLFIGG+S++T +E L+ +F ++G + + V+MRD T R+RGFGFV +A D A+
Sbjct: 12 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 71
Query: 60 AERVIMDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRT-KKIFVGGLASTVT 118
R H +DGR VE K+AV R+D PG T KKIFVGG+
Sbjct: 72 NAR----PHKVDGRVVEPKRAVSREDSQ-----------RPGAHLTVKKIFVGGIKEDTE 116
Query: 119 ESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHELNGKMVEV 178
E + YF+Q+G I + +M D + + RGF F+T+D ++VD+++ + +H +NG EV
Sbjct: 117 EHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 176
Query: 179 KRAVPKE 185
++A+ K+
Sbjct: 177 RKALSKQ 183
Score = 89.4 bits (220), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 43/97 (44%), Positives = 65/97 (67%)
Query: 94 SSIHSSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFIT 153
S S P + +K+F+GGL+ T+ + +F+Q+GT+TD VVM D NT+R RGFGF+T
Sbjct: 1 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 60
Query: 154 YDSEEAVDRVLHKTFHELNGKMVEVKRAVPKEFSPGP 190
Y + E VD ++ H+++G++VE KRAV +E S P
Sbjct: 61 YATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP 97
>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 = 137 bits (346), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 73/187 (39%), Positives = 112/187 (59%), Gaps = 21/187 (11%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFA-----DPAV 59
L KLFIGG+S++T +E L+ +F ++G + + V+MRD T R+RGFGFV +A D A+
Sbjct: 13 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 72
Query: 60 AERVIMDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRT-KKIFVGGLASTVT 118
R H +DGR VE K+AV R+D PG T KKIFVGG+
Sbjct: 73 NAR----PHKVDGRVVEPKRAVSREDSQ-----------RPGAHLTVKKIFVGGIKEDTE 117
Query: 119 ESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHELNGKMVEV 178
E + YF+Q+G I + +M D + + RGF F+T+D ++VD+++ + +H +NG EV
Sbjct: 118 EHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 177
Query: 179 KRAVPKE 185
++A+ K+
Sbjct: 178 RKALSKQ 184
Score = 89.4 bits (220), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 43/97 (44%), Positives = 65/97 (67%)
Query: 94 SSIHSSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFIT 153
S S P + +K+F+GGL+ T+ + +F+Q+GT+TD VVM D NT+R RGFGF+T
Sbjct: 2 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 61
Query: 154 YDSEEAVDRVLHKTFHELNGKMVEVKRAVPKEFSPGP 190
Y + E VD ++ H+++G++VE KRAV +E S P
Sbjct: 62 YATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP 98
>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 = 137 bits (344), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 73/187 (39%), Positives = 112/187 (59%), Gaps = 21/187 (11%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFA-----DPAV 59
L KLFIGG+S++T +E L+ +F ++G + + V+MRD T R+RGFGFV +A D A+
Sbjct: 6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 65
Query: 60 AERVIMDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRT-KKIFVGGLASTVT 118
R H +DGR VE K+AV R+D PG T KKIFVGG+
Sbjct: 66 NAR----PHKVDGRVVEPKRAVSREDSQ-----------RPGAHLTVKKIFVGGIKEDTE 110
Query: 119 ESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHELNGKMVEV 178
E + YF+Q+G I + +M D + + RGF F+T+D ++VD+++ + +H +NG EV
Sbjct: 111 EHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 170
Query: 179 KRAVPKE 185
++A+ K+
Sbjct: 171 RKALSKQ 177
Score = 88.2 bits (217), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 41/89 (46%), Positives = 63/89 (70%)
Query: 102 PGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVD 161
P + +K+F+GGL+ T+ + +F+Q+GT+TD VVM D NT+R RGFGF+TY + E VD
Sbjct: 3 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVD 62
Query: 162 RVLHKTFHELNGKMVEVKRAVPKEFSPGP 190
++ H+++G++VE KRAV +E S P
Sbjct: 63 AAMNARPHKVDGRVVEPKRAVSREDSQRP 91
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 137 bits (344), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 73/187 (39%), Positives = 112/187 (59%), Gaps = 21/187 (11%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFA-----DPAV 59
L KLFIGG+S++T +E L+ +F ++G + + V+MRD T R+RGFGFV +A D A+
Sbjct: 13 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 72
Query: 60 AERVIMDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRT-KKIFVGGLASTVT 118
R H +DGR VE K+AV R+D PG T KKIFVGG+
Sbjct: 73 NAR----PHKVDGRVVEPKRAVSREDSQ-----------RPGAHLTVKKIFVGGIKEDTE 117
Query: 119 ESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHELNGKMVEV 178
E + YF+Q+G I + +M D + + RGF F+T+D ++VD+++ + +H +NG EV
Sbjct: 118 EHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 177
Query: 179 KRAVPKE 185
++A+ K+
Sbjct: 178 RKALSKQ 184
Score = 88.6 bits (218), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 43/97 (44%), Positives = 65/97 (67%)
Query: 94 SSIHSSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFIT 153
S S P + +K+F+GGL+ T+ + +F+Q+GT+TD VVM D NT+R RGFGF+T
Sbjct: 2 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 61
Query: 154 YDSEEAVDRVLHKTFHELNGKMVEVKRAVPKEFSPGP 190
Y + E VD ++ H+++G++VE KRAV +E S P
Sbjct: 62 YATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP 98
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 136 bits (343), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 73/187 (39%), Positives = 112/187 (59%), Gaps = 21/187 (11%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFA-----DPAV 59
L KLFIGG+S++T +E L+ +F ++G + + V+MRD T R+RGFGFV +A D A+
Sbjct: 11 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 70
Query: 60 AERVIMDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRT-KKIFVGGLASTVT 118
R H +DGR VE K+AV R+D PG T KKIFVGG+
Sbjct: 71 NAR----PHKVDGRVVEPKRAVSREDSQ-----------RPGAHLTVKKIFVGGIKEDTE 115
Query: 119 ESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHELNGKMVEV 178
E + YF+Q+G I + +M D + + RGF F+T+D ++VD+++ + +H +NG EV
Sbjct: 116 EHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV 175
Query: 179 KRAVPKE 185
++A+ K+
Sbjct: 176 RKALSKQ 182
Score = 88.2 bits (217), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 42/93 (45%), Positives = 64/93 (68%)
Query: 98 SSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSE 157
S P + +K+F+GGL+ T+ + +F+Q+GT+TD VVM D NT+R RGFGF+TY +
Sbjct: 4 SPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATV 63
Query: 158 EAVDRVLHKTFHELNGKMVEVKRAVPKEFSPGP 190
E VD ++ H+++G++VE KRAV +E S P
Sbjct: 64 EEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP 96
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 44/86 (51%), Positives = 65/86 (75%), Gaps = 1/86 (1%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHK 166
KIFVGG+ E++ ++YF +FG +T+VV++YD QRPRGFGFIT++ E++VD+ ++
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 167 TFHELNGKMVEVKRAVPKE-FSPGPS 191
FH++ GK VEVKRA P++ S GPS
Sbjct: 72 HFHDIMGKKVEVKRAEPRDSKSSGPS 97
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 36/82 (43%), Positives = 51/82 (62%), Gaps = 1/82 (1%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADP-AVAERVIM 65
K+F+GGI + E L+EYF ++G V E V++ D R RGFGF+ F D +V + V M
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 66 DKHMIDGRTVEAKKAVPRDDQN 87
H I G+ VE K+A PRD ++
Sbjct: 72 HFHDIMGKKVEVKRAEPRDSKS 93
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 95.1 bits (235), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 40/81 (49%), Positives = 57/81 (70%), Gaps = 1/81 (1%)
Query: 4 DLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERV 63
++GKLF+GG+ W T +E L+ YFS+YGEVV+ VIM+D+ T ++RGFGFV F DP V
Sbjct: 15 EIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTV 74
Query: 64 IMDK-HMIDGRTVEAKKAVPR 83
+ + H +DGR ++ K PR
Sbjct: 75 LASRPHTLDGRNIDPKPCTPR 95
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 33/86 (38%), Positives = 48/86 (55%), Gaps = 1/86 (1%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHK 166
K+FVGGL + T+ + YF Q+G + D V+M D T + RGFGF+ + V VL
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 167 TFHELNGKMVEVKRAVPKEFSP-GPS 191
H L+G+ ++ K P+ P GPS
Sbjct: 78 RPHTLDGRNIDPKPCTPRGMQPSGPS 103
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 91.7 bits (226), Expect = 9e-19, Method: Composition-based stats.
Identities = 39/74 (52%), Positives = 53/74 (71%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
IFVGGL+ T D K YF+QFG + D ++M+D T R RGFGF+T++SE+ V++V
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 168 FHELNGKMVEVKRA 181
FHE+N KMVE K+A
Sbjct: 62 FHEINNKMVECKKA 75
Score = 67.4 bits (163), Expect = 2e-11, Method: Composition-based stats.
Identities = 32/74 (43%), Positives = 49/74 (66%), Gaps = 1/74 (1%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI-MD 66
+F+GG+S +T E +K YF ++G+V +A++M D+ T R RGFGFV F + E+V +
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 67 KHMIDGRTVEAKKA 80
H I+ + VE KKA
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 = 90.9 bits (224), Expect = 2e-18, Method: Composition-based stats.
Identities = 42/80 (52%), Positives = 59/80 (73%), Gaps = 1/80 (1%)
Query: 2 ESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAE 61
E D GK F+GG+SWDT ++ LK+YF+++GEVV+ I D TGR+RGFGF++F D A E
Sbjct: 8 EEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVE 67
Query: 62 RVIMDK-HMIDGRTVEAKKA 80
+V+ K H +DGR ++ KKA
Sbjct: 68 KVLDQKEHRLDGRVIDPKKA 87
Score = 68.9 bits (167), Expect = 6e-12, Method: Composition-based stats.
Identities = 33/86 (38%), Positives = 52/86 (60%)
Query: 96 IHSSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD 155
I++S K FVGGL+ ++ D K YF +FG + D + D NT R RGFGFI +
Sbjct: 2 INASKNEEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFK 61
Query: 156 SEEAVDRVLHKTFHELNGKMVEVKRA 181
+V++VL + H L+G++++ K+A
Sbjct: 62 DAASVEKVLDQKEHRLDGRVIDPKKA 87
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 85.1 bits (209), Expect = 9e-17, Method: Composition-based stats.
Identities = 42/87 (48%), Positives = 59/87 (67%), Gaps = 1/87 (1%)
Query: 1 MESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVA 60
M S K+FIGG+SW T +E L+EYF ++GEV E ++MRD T R+RGFGFV F D A
Sbjct: 21 MGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGV 80
Query: 61 ERVI-MDKHMIDGRTVEAKKAVPRDDQ 86
++V+ +H +D +T++ K A PR Q
Sbjct: 81 DKVLAQSRHELDSKTIDPKVAFPRRAQ 107
Score = 75.1 bits (183), Expect = 8e-14, Method: Composition-based stats.
Identities = 34/82 (41%), Positives = 54/82 (65%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHK 166
K+F+GGL+ T+ ++YF QFG + + +VM D T+R RGFGF+T+ + VD+VL +
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
Query: 167 TFHELNGKMVEVKRAVPKEFSP 188
+ HEL+ K ++ K A P+ P
Sbjct: 87 SRHELDSKTIDPKVAFPRRAQP 108
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 82.0 bits (201), Expect = 7e-16, Method: Composition-based stats.
Identities = 37/75 (49%), Positives = 54/75 (72%), Gaps = 1/75 (1%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI-M 65
K+FIGG+SW T +E L+EYF ++GEV E ++MRD T R+RGFGFV F D A ++V+
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 66 DKHMIDGRTVEAKKA 80
+H +D +T++ K A
Sbjct: 62 SRHELDSKTIDPKVA 76
Score = 72.4 bits (176), Expect = 6e-13, Method: Composition-based stats.
Identities = 32/75 (42%), Positives = 51/75 (68%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHK 166
K+F+GGL+ T+ ++YF QFG + + +VM D T+R RGFGF+T+ + VD+VL +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 167 TFHELNGKMVEVKRA 181
+ HEL+ K ++ K A
Sbjct: 62 SRHELDSKTIDPKVA 76
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 82.0 bits (201), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 38/82 (46%), Positives = 57/82 (69%), Gaps = 2/82 (2%)
Query: 1 MESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFA--DPA 58
M SD GKLF+GG+S+DT+E+ L++ FS+YG++ E V+++DR T R+RGFGFV F D A
Sbjct: 8 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDA 67
Query: 59 VAERVIMDKHMIDGRTVEAKKA 80
+ M+ +DGR + +A
Sbjct: 68 KDAMMAMNGKSVDGRQIRVDQA 89
Score = 62.0 bits (149), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 50/76 (65%), Gaps = 1/76 (1%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS-EEAVDRVLH 165
K+FVGGL+ E ++ F ++G I++VVV+ D TQR RGFGF+T+++ ++A D ++
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 166 KTFHELNGKMVEVKRA 181
++G+ + V +A
Sbjct: 74 MNGKSVDGRQIRVDQA 89
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 82.0 bits (201), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 39/87 (44%), Positives = 58/87 (66%), Gaps = 1/87 (1%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH 165
+K+F+GGL+ TE + Y++Q+G +TD VVM D ++R RGFGF+T+ S VD +
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA 87
Query: 166 KTFHELNGKMVEVKRAVPKEFS-PGPS 191
H ++G++VE KRAV +E S GPS
Sbjct: 88 ARPHSIDGRVVEPKRAVAREESGSGPS 114
Score = 81.6 bits (200), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 38/80 (47%), Positives = 58/80 (72%), Gaps = 1/80 (1%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
KLFIGG+S++T EE L+ Y+ ++G++ + V+MRD A+ R+RGFGFV F+ A + +
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
Query: 67 K-HMIDGRTVEAKKAVPRDD 85
+ H IDGR VE K+AV R++
Sbjct: 89 RPHSIDGRVVEPKRAVAREE 108
>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 = 77.8 bits (190), Expect = 1e-14, Method: Composition-based stats.
Identities = 34/74 (45%), Positives = 55/74 (74%), Gaps = 1/74 (1%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
+FIGG+SWDT ++ LK+YFS++GEVV+ + D TGR+RGFGFV+F + ++V+ K
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 68 -HMIDGRTVEAKKA 80
H ++G+ ++ K+A
Sbjct: 62 EHKLNGKVIDPKRA 75
Score = 73.6 bits (179), Expect = 2e-13, Method: Composition-based stats.
Identities = 32/74 (43%), Positives = 49/74 (66%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
+F+GGL+ T+ D K YF +FG + D + D T R RGFGF+ + E+VD+V+ +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 168 FHELNGKMVEVKRA 181
H+LNGK+++ KRA
Sbjct: 62 EHKLNGKVIDPKRA 75
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 72.0 bits (175), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 32/68 (47%), Positives = 49/68 (72%), Gaps = 1/68 (1%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
K+F+GG+ + T + L++YF +G++ EAV++ DR TG++RG+GFV AD A AER D
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 67 KH-MIDGR 73
+ +IDGR
Sbjct: 79 PNPIIDGR 86
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 41/75 (54%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHK 166
KIFVGGL T++ +KYF+ FG I + VV+ D T + RG+GF+T A +R
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 167 TFHELNGKMVEVKRA 181
++G+ V A
Sbjct: 79 PNPIIDGRKANVNLA 93
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 52/195 (26%), Positives = 89/195 (45%), Gaps = 22/195 (11%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
+ L++G + D E L E FS G ++ + RD T R+ G+ +V F PA AER +
Sbjct: 15 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 74
Query: 65 --MDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDF 122
M+ +I G+ V M ++ S+ S G G IF+ L ++
Sbjct: 75 DTMNFDVIKGKPVRI----------MWSQRDPSLRKS-GVG---NIFIKNLDKSIDNKAL 120
Query: 123 KKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHELNGKMVEVKRAV 182
F FG I V+ D N +G+GF+ ++++EA +R + K +NG ++ ++
Sbjct: 121 YDTFSAFGNILSCKVVCDENGS--KGYGFVHFETQEAAERAIEK----MNGMLLNDRKVF 174
Query: 183 PKEFSPGPSRSSMIG 197
F R + +G
Sbjct: 175 VGRFKSRKEREAELG 189
>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 = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 52/195 (26%), Positives = 89/195 (45%), Gaps = 22/195 (11%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
+ L++G + D E L E FS G ++ + RD T R+ G+ +V F PA AER +
Sbjct: 10 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 69
Query: 65 --MDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDF 122
M+ +I G+ V M ++ S+ S G G IF+ L ++
Sbjct: 70 DTMNFDVIKGKPVRI----------MWSQRDPSLRKS-GVG---NIFIKNLDKSIDNKAL 115
Query: 123 KKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHELNGKMVEVKRAV 182
F FG I V+ D N +G+GF+ ++++EA +R + K +NG ++ ++
Sbjct: 116 YDTFSAFGNILSCKVVCDENGS--KGYGFVHFETQEAAERAIEK----MNGMLLNDRKVF 169
Query: 183 PKEFSPGPSRSSMIG 197
F R + +G
Sbjct: 170 VGRFKSRKEREAELG 184
>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 = 69.7 bits (169), Expect = 4e-12, Method: Composition-based stats.
Identities = 44/159 (27%), Positives = 80/159 (50%), Gaps = 22/159 (13%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
L + + + +E + F GE+ ++RD+ TG++ G+GFV + DP AE+ I +
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 66 DKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKY 125
+ + +T++ A P +++SI R ++V GL T+T+ + ++
Sbjct: 65 NGLRLQTKTIKVSYARP---------SSASI-------RDANLYVSGLPKTMTQKELEQL 108
Query: 126 FDQFGTITDVVVMYDHNTQRPRGFGFITYD----SEEAV 160
F Q+G I ++ D T RG GFI +D +EEA+
Sbjct: 109 FSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAI 147
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 68.6 bits (166), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 41/159 (25%), Positives = 81/159 (50%), Gaps = 22/159 (13%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
L + + + ++ K F G++ ++RD+ TG++ G+GFV ++DP A++ I +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 66 DKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKY 125
+ + +T++ A P +++SI R ++V GL T+++ + ++
Sbjct: 67 NGLKLQTKTIKVSYARP---------SSASI-------RDANLYVSGLPKTMSQKEMEQL 110
Query: 126 FDQFGTITDVVVMYDHNTQRPRGFGFITYD----SEEAV 160
F Q+G I ++ D T RG GFI +D +EEA+
Sbjct: 111 FSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 149
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 67.4 bits (163), Expect = 2e-11, Method: Composition-based stats.
Identities = 32/80 (40%), Positives = 48/80 (60%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
L + G+ W T E+ LKEYFS +GEV+ + +D TG ++GFGFV F + +V+ +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR 77
Query: 68 HMIDGRTVEAKKAVPRDDQN 87
HMIDGR + K + Q+
Sbjct: 78 HMIDGRWCDCKLPNSKQSQD 97
Score = 45.1 bits (105), Expect = 9e-05, Method: Composition-based stats.
Identities = 29/89 (32%), Positives = 44/89 (49%), Gaps = 2/89 (2%)
Query: 104 RTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRV 163
+T + V GL TE D K+YF FG + V V D T +GFGF+ + E +V
Sbjct: 14 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKV 73
Query: 164 LHKTFHELNGKMVEVKRAVPKEFS-PGPS 191
+ + H ++G+ + K K+ GPS
Sbjct: 74 MSQR-HMIDGRWCDCKLPNSKQSQDSGPS 101
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 43/159 (27%), Positives = 74/159 (46%), Gaps = 22/159 (13%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
L + + + ++ L+ FS GEV A ++RD+ G + G+GFV + AER I +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 66 DKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKY 125
+ + +T++ A P S + +++ GL T+T+ D +
Sbjct: 65 NGLRLQSKTIKVSYARP----------------SSEVIKDANLYISGLPRTMTQKDVEDM 108
Query: 126 FDQFGTITDVVVMYDHNTQRPRGFGFITYD----SEEAV 160
F +FG I + V+ D T RG FI +D +EEA+
Sbjct: 109 FSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
>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 = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 43/159 (27%), Positives = 74/159 (46%), Gaps = 22/159 (13%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
L + + + ++ L+ FS GEV A ++RD+ G + G+GFV + AER I +
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 66 DKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKY 125
+ + +T++ A P S + +++ GL T+T+ D +
Sbjct: 65 NGLRLQSKTIKVSYARP----------------SSEVIKDANLYISGLPRTMTQKDVEDM 108
Query: 126 FDQFGTITDVVVMYDHNTQRPRGFGFITYD----SEEAV 160
F +FG I + V+ D T RG FI +D +EEA+
Sbjct: 109 FSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
>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 = 65.5 bits (158), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 44/187 (23%), Positives = 90/187 (48%), Gaps = 20/187 (10%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
+ ++++G I ++ E+ +++ F+ +G + + D T + +GF FV + P A+ +
Sbjct: 28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLAL 87
Query: 65 --MDKHMIDGRTVEAKK------AVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLAST 116
M+ M+ GR ++ + A P DQ L + + +I+V +
Sbjct: 88 EQMNSVMLGGRNIKVGRPSNIGQAQPIIDQ--LAEEARAFN---------RIYVASVHQD 136
Query: 117 VTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD-SEEAVDRVLHKTFHELNGKM 175
+++ D K F+ FG I + D T + +G+GFI Y+ ++ + D V +L G+
Sbjct: 137 LSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQY 196
Query: 176 VEVKRAV 182
+ V +AV
Sbjct: 197 LRVGKAV 203
>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 = 64.3 bits (155), Expect = 2e-10, Method: Composition-based stats.
Identities = 29/77 (37%), Positives = 45/77 (58%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH 165
KKIFVGGL+ E ++YF FG + + + D+ T + RGF FIT+ EE V +++
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 61
Query: 166 KTFHELNGKMVEVKRAV 182
K +H + E+K A+
Sbjct: 62 KKYHNVGLSKCEIKVAM 78
Score = 54.3 bits (129), Expect = 2e-07, Method: Composition-based stats.
Identities = 23/62 (37%), Positives = 39/62 (62%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
K+F+GG+S DT EE+++EYF +GEV + D T + RGF F+ F + ++++
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
Query: 67 KH 68
K+
Sbjct: 63 KY 64
>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 = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 44/187 (23%), Positives = 90/187 (48%), Gaps = 20/187 (10%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
+ ++++G I ++ E+ +++ F+ +G + + D T + +GF FV + P A+ +
Sbjct: 13 MCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLAL 72
Query: 65 --MDKHMIDGRTVEAKK------AVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLAST 116
M+ M+ GR ++ + A P DQ L + + +I+V +
Sbjct: 73 EQMNSVMLGGRNIKVGRPSNIGQAQPIIDQ--LAEEARAFN---------RIYVASVHQD 121
Query: 117 VTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD-SEEAVDRVLHKTFHELNGKM 175
+++ D K F+ FG I + D T + +G+GFI Y+ ++ + D V +L G+
Sbjct: 122 LSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQY 181
Query: 176 VEVKRAV 182
+ V +AV
Sbjct: 182 LRVGKAV 188
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 50/73 (68%), Gaps = 4/73 (5%)
Query: 6 GKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIM 65
GKLFIGG++ +T+E+ LK F ++G + E ++++DR T ++RGF F+ F +PA A+
Sbjct: 8 GKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAK 66
Query: 66 DKHMIDGRTVEAK 78
D ++G+++ K
Sbjct: 67 D---MNGKSLHGK 76
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 48/90 (53%), Gaps = 8/90 (8%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY----DSEEAVDR 162
K+F+GGL E K F + G I++V+++ D T + RGF FIT+ D++ A
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 163 VLHKTFHELNGKMVEVKRAVPKEFSPGPSR 192
+ K+ H GK ++V++A F G R
Sbjct: 68 MNGKSLH---GKAIKVEQAKKPSFQSGGRR 94
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 60.1 bits (144), Expect = 3e-09, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 42/74 (56%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
IFVGGL+ E ++YF FG + + + D+ T + RGF FIT+ EE V +++ K
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 168 FHELNGKMVEVKRA 181
+H + E+K A
Sbjct: 62 YHNVGLSKCEIKVA 75
Score = 52.0 bits (123), Expect = 8e-07, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 38/61 (62%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
+F+GG+S DT EE+++EYF +GEV + D 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 = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 42/185 (22%), Positives = 84/185 (45%), Gaps = 20/185 (10%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
++++G I ++ E+ +++ F+ +G + D T + +GF FV + P A+ +
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 67 KHMID--------GRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVT 118
+ + GR +A P DQ L + + +I+V + ++
Sbjct: 74 XNSVXLGGRNIKVGRPSNIGQAQPIIDQ--LAEEARAFN---------RIYVASVHQDLS 122
Query: 119 ESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD-SEEAVDRVLHKTFHELNGKMVE 177
+ D K F+ FG I + D T + +G+GFI Y+ ++ + D V +L G+ +
Sbjct: 123 DDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLR 182
Query: 178 VKRAV 182
V +AV
Sbjct: 183 VGKAV 187
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 56.2 bits (134), Expect = 5e-08, Method: Composition-based stats.
Identities = 40/153 (26%), Positives = 65/153 (42%), Gaps = 18/153 (11%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
L + + D + L F G + IMRD TG + G+ FV F ++R I
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAI--- 62
Query: 68 HMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTK--KIFVGGLASTVTESDFKKY 125
+++G TV N+ ++ PG K ++V L T+T+
Sbjct: 63 KVLNGITVR-------------NKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTI 109
Query: 126 FDQFGTITDVVVMYDHNTQRPRGFGFITYDSEE 158
F ++G+I ++ D T RPRG F+ Y+ E
Sbjct: 110 FGKYGSIVQKNILRDKLTGRPRGVAFVRYNKRE 142
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 31/57 (54%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
L++ + +++L F +YG +V+ I+RD+ TGR RG FV + A+ I
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 148
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 43/80 (53%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH 165
+ I+VG L + T K+ F QFG + +V ++YD T++P+GFGF+ E + +
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAK 61
Query: 166 KTFHELNGKMVEVKRAVPKE 185
+ G+ + V A PK+
Sbjct: 62 LDNTDFMGRTIRVTEANPKK 81
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 46/77 (59%), Gaps = 1/77 (1%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI-MD 66
+++G + + E++KE FS++G+V ++ DR T + +GFGFV + +V+E + +D
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLD 63
Query: 67 KHMIDGRTVEAKKAVPR 83
GRT+ +A P+
Sbjct: 64 NTDFMGRTIRVTEANPK 80
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 44/176 (25%), Positives = 78/176 (44%), Gaps = 26/176 (14%)
Query: 3 SDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATG--RARGFGFVVFADPAVA 60
SD K+F+G + E+ L+E F +YG V E ++RDR+ +++G FV F A
Sbjct: 1 SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAA 60
Query: 61 ERVIMDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRT------KKIFVGGLA 114
+EA+ A+ + +L I P +K+F+G ++
Sbjct: 61 --------------LEAQNAL--HNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMIS 104
Query: 115 STVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHE 170
TE+D + F FG I + ++ + RG F+T+ + A+ + K H+
Sbjct: 105 KKCTENDIRVMFSSFGQIEECRILRGPDG-LSRGCAFVTFTT-RAMAQTAIKAMHQ 158
>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 = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 52/95 (54%), Gaps = 8/95 (8%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
+F+GGI DE ++ +F+RYG V E I+ DR TG ++G+GFV F + ++++ +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 68 HMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGP 102
G+ ++ A+ + +N S+ H P P
Sbjct: 71 INFHGKKLKLGPAIRK-------QNLSTYHVQPRP 98
Score = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 49/78 (62%), Gaps = 2/78 (2%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
+FVGG+ + E++ + +F ++G++ +V ++ D T +G+GF+++ ++ V +++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 168 FHELNGKMVEVKRAVPKE 185
+ +GK +++ A+ K+
Sbjct: 71 IN-FHGKKLKLGPAIRKQ 87
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 65/159 (40%), Gaps = 18/159 (11%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
L + + D + L F G + I RD TG + G+ FV F ++R I
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAI--- 73
Query: 68 HMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTK--KIFVGGLASTVTESDFKKY 125
+++G TV N+ ++ PG K ++V L T+T+
Sbjct: 74 KVLNGITVR-------------NKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTI 120
Query: 126 FDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVL 164
F ++G+I ++ D T RPRG F+ Y+ E +
Sbjct: 121 FGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 159
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 45/80 (56%), Gaps = 5/80 (6%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
+F+G + D E+ L+E+FS+YG+V++ I + R F FV FAD +A+ + +
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFIPK-----PFRAFAFVTFADDQIAQSLCGED 62
Query: 68 HMIDGRTVEAKKAVPRDDQN 87
+I G +V A P+ + N
Sbjct: 63 LIIKGISVHISNAEPKHNSN 82
Score = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 42/86 (48%), Gaps = 9/86 (10%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRP-RGFGFITYDSEEAVDRVLHK 166
+FVG +TE + +++F Q+G + DV + +P R F F+T+ ++ + +
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFI------PKPFRAFAFVTFADDQIAQSLCGE 61
Query: 167 TFHELNGKMVEVKRAVPKEFS-PGPS 191
+ G V + A PK S GPS
Sbjct: 62 DLI-IKGISVHISNAEPKHNSNSGPS 86
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 51/96 (53%), Gaps = 3/96 (3%)
Query: 99 SPGPGRTKKI-FVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD-S 156
S G TK++ +VGGLA V + F FG ITD+ + D+ T++ RGF F+ ++ +
Sbjct: 5 SSGMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELA 64
Query: 157 EEAVDRVLHKTFHELNGKMVEVKRAVPKEFSP-GPS 191
E+A + + EL G+ + V A P GPS
Sbjct: 65 EDAAAAIDNMNESELFGRTIRVNLAKPMRIKESGPS 100
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 42/77 (54%), Gaps = 2/77 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF--ADPAVAERVIM 65
L++GG++ + D++ L F +G++ + I D T + RGF FV F A+ A A M
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 66 DKHMIDGRTVEAKKAVP 82
++ + GRT+ A P
Sbjct: 75 NESELFGRTIRVNLAKP 91
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 50/90 (55%), Gaps = 9/90 (10%)
Query: 93 TSSIHSSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFI 152
+S ++P P +F GL+ TE D ++ F ++G I DV ++YD ++R RGF F+
Sbjct: 5 SSGNRANPDPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 62
Query: 153 TY----DSEEAVDRVLHKTFHELNGKMVEV 178
+ D++EA +R EL+G+ + V
Sbjct: 63 YFENVDDAKEAKERA---NGMELDGRRIRV 89
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF--ADPAVAERVIM 65
L + G+S T E L+E FS+YG + + I+ D+ + R+RGF FV F D A +
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 66 DKHMIDGRTV 75
+ +DGR +
Sbjct: 78 NGMELDGRRI 87
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 43/175 (24%), Positives = 77/175 (44%), Gaps = 26/175 (14%)
Query: 4 DLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATG--RARGFGFVVFADPAVAE 61
D K+F+G + E+ L+E F +YG V E ++RDR+ +++G FV F A
Sbjct: 14 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAA- 72
Query: 62 RVIMDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRT------KKIFVGGLAS 115
+EA+ A+ + +L I P +K+F+G ++
Sbjct: 73 -------------LEAQNAL--HNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISK 117
Query: 116 TVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHE 170
TE+D + F FG I + ++ + RG F+T+ + A+ + K H+
Sbjct: 118 KCTENDIRVMFSSFGQIEECRILRGPDG-LSRGCAFVTF-TTRAMAQTAIKAMHQ 170
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 41/160 (25%), Positives = 70/160 (43%), Gaps = 25/160 (15%)
Query: 3 SDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATG--RARGFGFVVFADPAVA 60
SD K F+G + E+ L+E F +YG V E ++RDR+ +++G FV F A
Sbjct: 1 SDAIKXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAA 60
Query: 61 ERVIMDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRT------KKIFVGGLA 114
+EA+ A+ + +L I P +K+F+G ++
Sbjct: 61 --------------LEAQNAL--HNXKVLPGXHHPIQXKPADSEKNNAVEDRKLFIGXIS 104
Query: 115 STVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY 154
TE+D + F FG I + ++ + RG F+T+
Sbjct: 105 KKCTENDIRVXFSSFGQIEECRILRGPDG-LSRGCAFVTF 143
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 52.4 bits (124), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 51/92 (55%), Gaps = 9/92 (9%)
Query: 97 HSSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY-- 154
++P P +F GL+ TE D ++ F ++G I DV ++YD ++R RGF F+ +
Sbjct: 9 RANPDPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 66
Query: 155 --DSEEAVDRVLHKTFHELNGKMVEVKRAVPK 184
D++EA +R EL+G+ + V ++ K
Sbjct: 67 VDDAKEAKERA---NGMELDGRRIRVDFSITK 95
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF--ADPAVAERVIM 65
L + G+S T E L+E FS+YG + + I+ D+ + R+RGF FV F D A +
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 66 DKHMIDGRTV 75
+ +DGR +
Sbjct: 78 NGMELDGRRI 87
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 52.4 bits (124), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 51/91 (56%), Gaps = 9/91 (9%)
Query: 98 SSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY--- 154
++P P +F GL+ TE D ++ F ++G I DV ++YD ++R RGF F+ +
Sbjct: 41 ANPDPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENV 98
Query: 155 -DSEEAVDRVLHKTFHELNGKMVEVKRAVPK 184
D++EA +R EL+G+ + V ++ K
Sbjct: 99 DDAKEAKERA---NGMELDGRRIRVDFSITK 126
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 39/72 (54%), Gaps = 2/72 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF--ADPAVAERVIM 65
L + G+S T E L+E FS+YG + + I+ D+ + R+RGF FV F D A +
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 108
Query: 66 DKHMIDGRTVEA 77
+ +DGR +
Sbjct: 109 NGMELDGRRIRV 120
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 52.4 bits (124), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 34/78 (43%), Positives = 43/78 (55%), Gaps = 5/78 (6%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF--ADPAVAERVIM 65
LF+ G+S DT EE LKE F V A I+ DR TG ++GFGFV F + A A + M
Sbjct: 18 LFVKGLSEDTTEETLKESFDGS---VRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 66 DKHMIDGRTVEAKKAVPR 83
+ IDG V A P+
Sbjct: 75 EDGEIDGNKVTLDWAKPK 92
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 41/81 (50%), Gaps = 4/81 (4%)
Query: 105 TKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVL 164
+K +FV GL+ TE K+ FD G++ +V D T +GFGF+ ++SEE
Sbjct: 15 SKTLFVKGLSEDTTEETLKESFD--GSVRARIVT-DRETGSSKGFGFVDFNSEEDAKAAK 71
Query: 165 HKTFH-ELNGKMVEVKRAVPK 184
E++G V + A PK
Sbjct: 72 EAMEDGEIDGNKVTLDWAKPK 92
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 46/86 (53%), Gaps = 2/86 (2%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHK- 166
++VG L +TE + F+ FG I ++V+M D +T R +G+GFIT+ E R L +
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 167 TFHELNGKMVEVKRAVPK-EFSPGPS 191
EL G+ + V + + GPS
Sbjct: 68 NGFELAGRPMRVGHVTERLDGGSGPS 93
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 45/80 (56%), Gaps = 2/80 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
L++G + ++ E+ L+ F +G++ V+M+D TGR++G+GF+ F+D A R + +
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 66 DKHMIDGRTVEAKKAVPRDD 85
+ + GR + R D
Sbjct: 68 NGFELAGRPMRVGHVTERLD 87
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 52.0 bits (123), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 51/92 (55%), Gaps = 9/92 (9%)
Query: 97 HSSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY-- 154
++P P +F GL+ TE D ++ F ++G I DV ++YD ++R RGF F+ +
Sbjct: 6 RANPDPNCCLGVF--GLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 63
Query: 155 --DSEEAVDRVLHKTFHELNGKMVEVKRAVPK 184
D++EA +R EL+G+ + V ++ K
Sbjct: 64 VDDAKEAKERA---NGMELDGRRIRVDFSITK 92
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF--ADPAVAERVIM 65
L + G+S T E L+E FS+YG + + I+ D+ + R+RGF FV F D A +
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 74
Query: 66 DKHMIDGRTV 75
+ +DGR +
Sbjct: 75 NGMELDGRRI 84
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 47/86 (54%), Gaps = 2/86 (2%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFIT-YDSEEAVDRVLHK 166
+FVG L+ +T D K F FG I+D V+ D T + +G+GF++ Y+ +A + ++H
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 167 TFHELNGKMVEVKRAVPKEFSP-GPS 191
L G+ + A K +P GPS
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPSGPS 103
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 41/62 (66%), Gaps = 2/62 (3%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
+F+G +S + E +K F+ +G++ +A +++D ATG+++G+GFV F + AE I+
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIV-- 75
Query: 68 HM 69
HM
Sbjct: 76 HM 77
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 50.8 bits (120), Expect = 2e-06, Method: Composition-based stats.
Identities = 30/84 (35%), Positives = 45/84 (53%), Gaps = 7/84 (8%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
K+F+G + D E L+++F +YGEVV+ I + R F FV FAD VA+ + +
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP-----FRAFAFVTFADDKVAQSLCGE 67
Query: 67 KHMIDGRTVEAKKAVPRDDQNMLN 90
+I G +V A P+ N LN
Sbjct: 68 DLIIKGISVHISNAEPK--HNKLN 89
Score = 35.0 bits (79), Expect = 0.10, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 14/82 (17%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRP-RGFGFITYDSEEAVDRVLH 165
K+FVG +T + +++F Q+G + DV + +P R F F+T+ A D+V
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFI------PKPFRAFAFVTF----ADDKVAQ 62
Query: 166 KTFHE---LNGKMVEVKRAVPK 184
E + G V + A PK
Sbjct: 63 SLCGEDLIIKGISVHISNAEPK 84
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 43/161 (26%), Positives = 70/161 (43%), Gaps = 27/161 (16%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
+LF+G + D EE K F RYGE E I RD RGFGF+ +AE +
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRLESRTLAE---IA 74
Query: 67 KHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKYF 126
K +DG ++++ R + H + + V L+ V+ ++ F
Sbjct: 75 KAELDGTILKSRPL----------RIRFATHGA-------ALTVKNLSPVVSNELLEQAF 117
Query: 127 DQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
QFG + VV+ D + R G GF+ + ++ + L +
Sbjct: 118 SQFGPVEKAVVVVD-DRGRATGKGFVEFAAKPPARKALERC 157
>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 = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH 165
K +FV + TES ++ F+ +G I + ++Y + +PRG+ FI Y+ E R +H
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHE----RDMH 158
Query: 166 KTFHELNGKMVEVKRAV 182
+ +GK ++ +R +
Sbjct: 159 SAYKHADGKKIDGRRVL 175
Score = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 10/74 (13%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIM-- 65
LF+ +++DT E +L+ F YG + ++ + +G+ RG+ F+ + ER +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYE----HERDMHSA 160
Query: 66 ----DKHMIDGRTV 75
D IDGR V
Sbjct: 161 YKHADGKKIDGRRV 174
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 46/78 (58%), Gaps = 1/78 (1%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
+F+GGI DE ++ +F+RYG V E I+ DR TG ++G+GFV F + ++++ +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 68 HMIDGRTVEAKKAVPRDD 85
G+ ++ A+ + +
Sbjct: 72 INFHGKKLKLGPAIRKQN 89
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 49/78 (62%), Gaps = 2/78 (2%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
+FVGG+ + E++ + +F ++G++ +V ++ D T +G+GF+++ ++ V +++
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 71
Query: 168 FHELNGKMVEVKRAVPKE 185
+ +GK +++ A+ K+
Sbjct: 72 IN-FHGKKLKLGPAIRKQ 88
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 49.3 bits (116), Expect = 6e-06, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 45/79 (56%), Gaps = 2/79 (2%)
Query: 105 TKKI-FVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD-SEEAVDR 162
TK++ +VGGLA V + F FG ITD+ + D+ T++ RGF F+ ++ +E+A
Sbjct: 62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 121
Query: 163 VLHKTFHELNGKMVEVKRA 181
+ + EL G+ + V A
Sbjct: 122 IDNMNESELFGRTIRVNLA 140
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF--ADPAVAERVIM 65
L++GG++ + D++ L F +G++ + I D T + RGF FV F A+ A A M
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 66 DKHMIDGRTVEAKKA 80
++ + GRT+ A
Sbjct: 126 NESELFGRTIRVNLA 140
>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 = 48.9 bits (115), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
L + +++ T + L+ F +YG V + I RDR T +RGF FV F D AE + M
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 66 DKHMIDGRTVEAKKA 80
D ++DGR + + A
Sbjct: 110 DGAVLDGRELRVQMA 124
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 48.9 bits (115), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 39/75 (52%), Gaps = 7/75 (9%)
Query: 99 SPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEE 158
S GP R ++VG L +TE + F+ FG I + +M D T R +G+GFIT+ E
Sbjct: 23 SAGPMR---LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 79
Query: 159 AVDRVLHKTFHELNG 173
+ L +LNG
Sbjct: 80 CAKKAL----EQLNG 90
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 45/81 (55%), Gaps = 2/81 (2%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI-- 64
+L++G + ++ E+ L+ F +G + +M D TGR++G+GF+ F+D A++ +
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 65 MDKHMIDGRTVEAKKAVPRDD 85
++ + GR ++ R D
Sbjct: 88 LNGFELAGRPMKVGHVTERTD 108
>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 = 48.9 bits (115), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
+F+GGI DE ++ +F+RYG V E I+ DR TG ++G+GFV F + ++++ +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 68 HMIDGRTVEAKKAVPRD 84
G+ ++ A+ +
Sbjct: 71 INFHGKKLKLGPAIRKQ 87
Score = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 49/78 (62%), Gaps = 2/78 (2%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
+FVGG+ + E++ + +F ++G++ +V ++ D T +G+GF+++ ++ V +++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70
Query: 168 FHELNGKMVEVKRAVPKE 185
+ +GK +++ A+ K+
Sbjct: 71 IN-FHGKKLKLGPAIRKQ 87
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 36/60 (60%)
Query: 1 MESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVA 60
++ L +F+G I ++ EE+LK+ FS G VV ++ DR TG+ +G+GF + D A
Sbjct: 4 VDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETA 63
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY-DSEEAVDRVL 164
+ +FVG + TE K F + G + ++YD T +P+G+GF Y D E A+ +
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68
Query: 165 HKTFHELNGKMVEVKRA 181
+ E +G+ + V A
Sbjct: 69 NLNGREFSGRALRVDNA 85
>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 = 48.5 bits (114), Expect = 9e-06, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 45/79 (56%), Gaps = 2/79 (2%)
Query: 105 TKKI-FVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD-SEEAVDR 162
TK++ +VGGLA V + F FG ITD+ + D+ T++ RGF F+ ++ +E+A
Sbjct: 6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 65
Query: 163 VLHKTFHELNGKMVEVKRA 181
+ + EL G+ + V A
Sbjct: 66 IDNMNESELFGRTIRVNLA 84
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF--ADPAVAERVIM 65
L++GG++ + D++ L F +G++ + I D T + RGF FV F A+ A A M
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 66 DKHMIDGRTVEAKKA 80
++ + GRT+ A
Sbjct: 70 NESELFGRTIRVNLA 84
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 48.5 bits (114), Expect = 1e-05, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD-SEEAVDRVLHK 166
++VGGLA V + F FG ITD+ + D+ T++ RGF F+ ++ +E+A + +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 167 TFHELNGKMVEVKRA 181
EL G+ + V A
Sbjct: 65 NESELFGRTIRVNLA 79
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF--ADPAVAERVIM 65
L++GG++ + D++ L F +G++ + I D T + RGF FV F A+ A A M
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 66 DKHMIDGRTVEAKKA 80
++ + GRT+ A
Sbjct: 65 NESELFGRTIRVNLA 79
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 48.1 bits (113), Expect = 1e-05, Method: Composition-based stats.
Identities = 26/82 (31%), Positives = 44/82 (53%), Gaps = 1/82 (1%)
Query: 101 GPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD-SEEA 159
G + ++VGGLA V + F FG ITD+ + D+ T++ RGF F+ ++ +E+A
Sbjct: 1 GSTTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDA 60
Query: 160 VDRVLHKTFHELNGKMVEVKRA 181
+ + EL G+ + V A
Sbjct: 61 AAAIDNMNESELFGRTIRVNLA 82
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF--ADPAVAERVIM 65
L++GG++ + D++ L F +G++ + I D T + RGF FV F A+ A A M
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 66 DKHMIDGRTVEAKKA 80
++ + GRT+ A
Sbjct: 68 NESELFGRTIRVNLA 82
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH 165
K +FV + TES ++ F+ +G I + ++Y + +PRG+ FI Y+ E R +H
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHE----RDMH 158
Query: 166 KTFHELNGKMVEVKRAV 182
+ +GK ++ +R +
Sbjct: 159 SAYKHADGKKIDGRRVL 175
Score = 37.4 bits (85), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 10/74 (13%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIM-- 65
LF+ +++DT E +L+ F YG + ++ + +G+ RG+ F+ + ER +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYE----HERDMHSA 160
Query: 66 ----DKHMIDGRTV 75
D IDGR V
Sbjct: 161 YKHADGKKIDGRRV 174
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
+ L + +++ T + L+ F +YG V + I RDR T +RGF FV F D AE +
Sbjct: 70 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 129
Query: 65 --MDKHMIDGRTVEAKKA 80
MD ++DGR + + A
Sbjct: 130 DAMDGAVLDGRELRVQMA 147
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 50/98 (51%), Gaps = 2/98 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
+F+G +S + E +K F+ +G + +A +++D ATG+++G+GFV F + AE I M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 66 DKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPG 103
+ GR + A + +++ S P G
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPKSTYESNTKQSGPSSG 115
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 45/85 (52%), Gaps = 7/85 (8%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFIT----YDSEEAVDRV 163
+FVG L+ +T D K F FG I+D V+ D T + +G+GF++ +D+E A+ ++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 164 LHKTFHELNGKMVEVKRAVPKEFSP 188
+ L G+ + A K +P
Sbjct: 78 GGQW---LGGRQIRTNWATRKPPAP 99
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 42/71 (59%), Gaps = 5/71 (7%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
L++ + D+ERL++ FS +G + A +M + GR++GFGFV F+ P A + + +
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTE- 74
Query: 68 HMIDGRTVEAK 78
++GR V K
Sbjct: 75 --MNGRIVATK 83
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 38/73 (52%), Gaps = 8/73 (10%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS-EEAVDRVLHK 166
++V L + + +K F FGTIT VM + R +GFGF+ + S EEA K
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGG--RSKGFGFVCFSSPEEAT-----K 70
Query: 167 TFHELNGKMVEVK 179
E+NG++V K
Sbjct: 71 AVTEMNGRIVATK 83
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 46.6 bits (109), Expect = 4e-05, Method: Composition-based stats.
Identities = 39/175 (22%), Positives = 73/175 (41%), Gaps = 14/175 (8%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
L++G + E+ LK+YF G + IM D+ + + FV + A +
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIAL--- 58
Query: 68 HMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKYFD 127
++G+ +E N++ N + T +FVG L V + + F
Sbjct: 59 QTLNGKQIE---------NNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFK 109
Query: 128 QFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT-FHELNGKMVEVKRA 181
F + VM+D T RG+GF+++ S++ + +LNG+ + + A
Sbjct: 110 DFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA 164
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 4 DLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERV 63
D LF+G ++ + D+E L+ F + + +M D TG +RG+GFV F A+
Sbjct: 86 DTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNA 145
Query: 64 I--MDKHMIDGR 73
+ M ++GR
Sbjct: 146 MDSMQGQDLNGR 157
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 46.2 bits (108), Expect = 5e-05, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 44/77 (57%), Gaps = 4/77 (5%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAE---RVI 64
+++ + + L FS+YG+VV+ IM+D+ T +++G F++F D A+ R I
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 65 MDKHMIDGRTVEAKKAV 81
+K + GR ++A A+
Sbjct: 79 NNKQLF-GRVIKASIAI 94
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 45.8 bits (107), Expect = 6e-05, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 33/55 (60%)
Query: 2 ESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFAD 56
+ D KLFIG I + DE+ LK F +G++ E +++DR TG +G F+ + +
Sbjct: 10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCE 64
Score = 42.0 bits (97), Expect = 9e-04, Method: Composition-based stats.
Identities = 26/80 (32%), Positives = 42/80 (52%), Gaps = 6/80 (7%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEA---VDRV 163
K+F+G + + E D K F++FG I ++ V+ D T +G F+TY E+
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 164 LH--KTFHELNGKMVEVKRA 181
LH KT +N + ++VK A
Sbjct: 75 LHEQKTLPGMN-RPIQVKPA 93
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/163 (23%), Positives = 70/163 (42%), Gaps = 31/163 (19%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAE--RVI 64
+LF+G + D EE +++ F +YG+ E I +D +GFGF+ +AE +V
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 77
Query: 65 MDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKK 124
+D + G+ + + A HS+ + V L V+ ++
Sbjct: 78 LDNMPLRGKQLRVRFAC---------------HSA-------SLTVRNLPQYVSNELLEE 115
Query: 125 YFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
F FG + VV+ D + RP G G + + + A + L +
Sbjct: 116 AFSVFGQVERAVVIVD-DRGRPSGKGIVEFSGKPAARKALDRC 157
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 45/84 (53%), Gaps = 4/84 (4%)
Query: 1 MESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADP-AV 59
ME+D +++G + + E L+ +F G V I+ D+ +G +GF ++ F+D +V
Sbjct: 1 MEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESV 60
Query: 60 AERVIMDKHMIDGRTVEAKKAVPR 83
+ +D+ + GR + K +P+
Sbjct: 61 RTSLALDESLFRGRQI---KVIPK 81
Score = 36.2 bits (82), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 39/79 (49%), Gaps = 3/79 (3%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH 165
+ I+VG + T + + +F G++ V ++ D + P+GF +I + +E+V L
Sbjct: 6 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA 65
Query: 166 KTFHELNGKMVEVKRAVPK 184
G+ ++V +PK
Sbjct: 66 LDESLFRGRQIKV---IPK 81
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 44/82 (53%), Gaps = 3/82 (3%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEA-VIMRDRATGRARGFGFVVFA--DPAVAERVI 64
+FIG + + DE+ L + FS +G +++ IMRD TG ++G+ F+ FA D + A
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 65 MDKHMIDGRTVEAKKAVPRDDQ 86
M+ + R + A +D +
Sbjct: 68 MNGQYLCNRPITVSYAFKKDSK 89
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 48/90 (53%), Gaps = 8/90 (8%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRV-- 163
K++ V + + D ++ F QFG I DV +++ N + +GFGF+T+++ DR
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSADADRARE 73
Query: 164 -LHKTFHELNGKMVEVKRAVPKEFS-PGPS 191
LH T E G+ +EV A + + GPS
Sbjct: 74 KLHGTVVE--GRKIEVNNATARVMTNSGPS 101
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 44/80 (55%), Gaps = 6/80 (7%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEA-VIMRDRATGRARGFGFVVFADPAVAERVIM 65
+L + I + + L++ F ++G++++ +I +R + +GFGFV F + A A+R
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGS---KGFGFVTFENSADADRARE 73
Query: 66 DKH--MIDGRTVEAKKAVPR 83
H +++GR +E A R
Sbjct: 74 KLHGTVVEGRKIEVNNATAR 93
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 40/69 (57%), Gaps = 4/69 (5%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAV-IMRDRATGRARGFGFVVFADPAVAERVIMD 66
L++G + DE + F+ GE V +V I+R+R TG G+ FV FAD A AE+ +
Sbjct: 12 LWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCL-- 69
Query: 67 KHMIDGRTV 75
H I+G+ +
Sbjct: 70 -HKINGKPL 77
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 5/68 (7%)
Query: 108 IFVGGLASTVTESDFKKYFDQFG-TITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHK 166
+++G L + E+ + F G T+ V ++ + T P G+ F+ + ++ LHK
Sbjct: 12 LWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71
Query: 167 TFHELNGK 174
+NGK
Sbjct: 72 ----INGK 75
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 31/87 (35%), Positives = 48/87 (55%), Gaps = 11/87 (12%)
Query: 98 SSPGPGRTKKI---FVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY 154
SS G K I +VGGL T+TE+D + +F QFG I + V+ QR + FI +
Sbjct: 2 SSGSSGEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVV-----QRQQ-CAFIQF 55
Query: 155 DSEEAVDRVLHKTFHEL--NGKMVEVK 179
+ +A + K+F++L NG+ + VK
Sbjct: 56 ATRQAAEVAAEKSFNKLIVNGRRLNVK 82
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 35/57 (61%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
L++ G+ ++ +++ FS+YG ++ + I+ D+ATG +RG GF+ F AE I
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 60
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD----SEEAV 160
++V GL T+++ + ++ F Q+G I ++ D T RG GFI +D +EEA+
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 60
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 44/82 (53%), Gaps = 7/82 (8%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRV-- 163
K++ V + + D ++ F QFG I DV +++ N + +GFGF+T+++ DR
Sbjct: 30 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSADADRARE 87
Query: 164 -LHKTFHELNGKMVEVKRAVPK 184
LH T E G+ +EV A +
Sbjct: 88 KLHGTVVE--GRKIEVNNATAR 107
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 46/85 (54%), Gaps = 6/85 (7%)
Query: 2 ESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEA-VIMRDRATGRARGFGFVVFADPAVA 60
+S +L + I + + L++ F ++G++++ +I +R + +GFGFV F + A A
Sbjct: 26 KSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGS---KGFGFVTFENSADA 82
Query: 61 ERVIMDKH--MIDGRTVEAKKAVPR 83
+R H +++GR +E A R
Sbjct: 83 DRAREKLHGTVVEGRKIEVNNATAR 107
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 22/60 (36%), Positives = 34/60 (56%)
Query: 5 LGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
L L + I DE +L++ F RYG + I+ DR T ++RG+GFV F + A++ I
Sbjct: 42 LRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAI 101
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 25/93 (26%), Positives = 48/93 (51%), Gaps = 3/93 (3%)
Query: 99 SPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEE 158
+P P + + V + +TV E ++ F+++G I V ++ D T++ RG+GF+ + S
Sbjct: 36 NPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGS 95
Query: 159 AVDRVLH--KTFHELNGKMVEVKRAVPKEFSPG 189
+ + + F+ LN K ++V A PG
Sbjct: 96 SAQQAIAGLNGFNILN-KRLKVALAASGHQRPG 127
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 43/72 (59%), Gaps = 6/72 (8%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD-SEEAVDRVLH 165
++FV L+ T +E D +K F +G ++++ D T++P+GF F+T+ E AV
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAV----- 64
Query: 166 KTFHELNGKMVE 177
K + E++G++ +
Sbjct: 65 KAYAEVDGQVFQ 76
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 37/73 (50%), Gaps = 2/73 (2%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADP--AVAERVI 64
+LF+ +S+ + EE L++ FS YG + E D T + +GF FV F P AV
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 65 MDKHMIDGRTVEA 77
+D + GR +
Sbjct: 70 VDGQVFQGRMLHV 82
>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 = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 45/97 (46%), Gaps = 6/97 (6%)
Query: 101 GPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAV 160
GP + IF+ L ++ F FG I V+ D N +G+GF+ ++++EA
Sbjct: 1 GPLGSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS--KGYGFVHFETQEAA 58
Query: 161 DRVLHKTFHELNGKMVEVKRAVPKEFSPGPSRSSMIG 197
+R + K +NG ++ ++ F R + +G
Sbjct: 59 ERAIEK----MNGMLLNDRKVFVGRFKSRKEREAELG 91
Score = 36.2 bits (82), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 4/72 (5%)
Query: 6 GKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI- 64
G +FI + D + L + FS +G ++ ++ D ++G+GFV F AER I
Sbjct: 6 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIE 63
Query: 65 -MDKHMIDGRTV 75
M+ +++ R V
Sbjct: 64 KMNGMLLNDRKV 75
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
L + + + ++ L+ FS GEV A ++RD+ G + G+GFV + AER I +
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 66 DKHMIDGRTVEAKKAVP 82
+ + +T++ A P
Sbjct: 67 NGLRLQSKTIKVSYARP 83
>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 = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 30/49 (61%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFAD 56
+++G I +D EE++ + S G V+ +M D TGR++G+ F+ F D
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRD 55
Score = 32.0 bits (71), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 15/75 (20%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 105 TKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY-DSEEAVDRV 163
++ +++G + TE G + ++ +M+D T R +G+ FI + D E + V
Sbjct: 4 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 63
Query: 164 LHKTFHELNGKMVEV 178
+ ++L + ++
Sbjct: 64 RNLNGYQLGSRFLKC 78
>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 = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 44/83 (53%), Gaps = 4/83 (4%)
Query: 2 ESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADP-AVA 60
E+D +++G + + E L+ +F G V I+ D+ +G +GF ++ F+D +V
Sbjct: 3 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 62
Query: 61 ERVIMDKHMIDGRTVEAKKAVPR 83
+ +D+ + GR + K +P+
Sbjct: 63 TSLALDESLFRGRQI---KVIPK 82
Score = 37.0 bits (84), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 105 TKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVL 164
+ I+VG + T + + +F G++ V ++ D + P+GF +I + +E+V L
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65
Query: 165 HKTFHELNGKMVEVKRAVPK 184
G+ ++V +PK
Sbjct: 66 ALDESLFRGRQIKV---IPK 82
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 42.4 bits (98), Expect = 6e-04, Method: Composition-based stats.
Identities = 26/84 (30%), Positives = 45/84 (53%), Gaps = 5/84 (5%)
Query: 2 ESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFA--DPAV 59
+ D KLF+G I DE+ LK F +G + E +++DR TG +G F+ + D A+
Sbjct: 12 DHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSAL 71
Query: 60 -AERVIMDKHMIDG--RTVEAKKA 80
A+ + ++ + G R ++ K A
Sbjct: 72 KAQSALHEQKTLPGMNRPIQVKPA 95
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 31/91 (34%), Positives = 46/91 (50%), Gaps = 7/91 (7%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY---DSEEAVDRV 163
K+FVG + + E D K F++FG I ++ V+ D T +G F+TY DS
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 164 LH--KTFHELNGKMVEVKRAVPK-EFSPGPS 191
LH KT +N + ++VK A + GPS
Sbjct: 77 LHEQKTLPGMN-RPIQVKPAASEGRGESGPS 106
>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 = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 30/49 (61%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFAD 56
+++G I +D EE++ + S G V+ +M D TGR++G+ F+ F D
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRD 54
Score = 33.1 bits (74), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/79 (22%), Positives = 37/79 (46%), Gaps = 3/79 (3%)
Query: 101 GPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY-DSEEA 159
GP R +++G + TE G + ++ +M+D T R +G+ FI + D E +
Sbjct: 1 GPSRV--VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESS 58
Query: 160 VDRVLHKTFHELNGKMVEV 178
V + ++L + ++
Sbjct: 59 ASAVRNLNGYQLGSRFLKC 77
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 46/83 (55%), Gaps = 9/83 (10%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIM- 65
KLFIGG+ +++++KE + +G + +++D ATG ++G+ F + D V ++ I
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 175
Query: 66 -------DKHMIDGR-TVEAKKA 80
DK ++ R +V AK A
Sbjct: 176 LNGMQLGDKKLLVQRASVGAKNA 198
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 40/188 (21%), Positives = 85/188 (45%), Gaps = 15/188 (7%)
Query: 7 KLFIGGISWDTDEERLKEYFS---RYGEVVEAV--IMRDRATGRARGFGFVVF-ADPAVA 60
+L++G I + EE + ++F+ R G + +A + + + F F+ F +
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65
Query: 61 ERVIMDKHMIDGRTVEAKKAVPRDDQNM--LNRNTSS----IHSSPGPGRTKKIFVGGLA 114
+ + D + G++++ ++ P D Q + ++ N S + S+ P K+F+GGL
Sbjct: 66 QAMAFDGIIFQGQSLKIRR--PHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLP 123
Query: 115 STVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH-KTFHELNG 173
+ + + K+ FG + ++ D T +G+ F Y D+ + +L
Sbjct: 124 NYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGD 183
Query: 174 KMVEVKRA 181
K + V+RA
Sbjct: 184 KKLLVQRA 191
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 30/49 (61%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFAD 56
+++G I +D EE++ + S G V+ +M D TGR++G+ F+ F D
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRD 53
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/75 (20%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 105 TKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY-DSEEAVDRV 163
++ +++G + TE G + ++ +M+D T R +G+ FI + D E + V
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61
Query: 164 LHKTFHELNGKMVEV 178
+ ++L + ++
Sbjct: 62 RNLNGYQLGSRFLKC 76
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 36/58 (62%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
KLFIGG+ +++++KE + +G + +++D ATG ++G+ F + D V ++ I
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 155
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 42/184 (22%), Positives = 79/184 (42%), Gaps = 27/184 (14%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
+L++G I + EE + ++F+ MR +A G +P +A ++ D
Sbjct: 8 RLYVGNIPFGITEEAMMDFFNAQ--------MRLGGLTQAPG-------NPVLAVQINQD 52
Query: 67 KHM--IDGRTV-EAKKAVPRDD-----QNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVT 118
K+ ++ R+V E +A+ D Q++ R PG K+F+GGL + +
Sbjct: 53 KNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPG---AHKLFIGGLPNYLN 109
Query: 119 ESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH-KTFHELNGKMVE 177
+ K+ FG + ++ D T +G+ F Y D+ + +L K +
Sbjct: 110 DDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLL 169
Query: 178 VKRA 181
V+RA
Sbjct: 170 VQRA 173
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERV--IM 65
+++GG+ E L E F + G VV + +DR TG+ +G+GFV F A+ IM
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 66 DKHMIDGRTVEAKKA 80
D + G+ + KA
Sbjct: 78 DMIKLYGKPIRVNKA 92
Score = 37.0 bits (84), Expect = 0.030, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH-K 166
++VGGL V+E + F Q G + + + D T + +G+GF+ + SEE D +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 167 TFHELNGKMVEVKRA 181
+L GK + V +A
Sbjct: 78 DMIKLYGKPIRVNKA 92
>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 = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 22/83 (26%), Positives = 46/83 (55%), Gaps = 4/83 (4%)
Query: 2 ESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFAD-PAVA 60
E D +++G + + + + L+ +FS G + I+ D+ +G +G+ ++ FA+ +V
Sbjct: 33 EIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVD 92
Query: 61 ERVIMDKHMIDGRTVEAKKAVPR 83
V MD+ + GRT+ K +P+
Sbjct: 93 AAVAMDETVFRGRTI---KVLPK 112
Score = 36.2 bits (82), Expect = 0.042, Method: Composition-based stats.
Identities = 20/89 (22%), Positives = 43/89 (48%), Gaps = 4/89 (4%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH 165
+ ++VG + T D + +F G+I + ++ D + P+G+ +I + +VD +
Sbjct: 37 RSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVA 96
Query: 166 KTFHELNGKMVEVKRAVPKEFS-PGPSRS 193
G+ ++V +PK + PG S +
Sbjct: 97 MDETVFRGRTIKV---LPKRTNMPGISST 122
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 2 ESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAE 61
E D L+I + DE+ L+ +G+V+ I+RD ++G +RG GF E
Sbjct: 22 EQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCE 80
Query: 62 RVI 64
VI
Sbjct: 81 AVI 83
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%)
Query: 4 DLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERV 63
D + + +S DT E L+E F +G + + +D+ TG+++GF F+ F A R
Sbjct: 14 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARA 73
Query: 64 I 64
I
Sbjct: 74 I 74
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 4/70 (5%)
Query: 99 SPGPGR----TKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY 154
S GP R I V L+ E+D ++ F FG+I+ + + D T + +GF FI++
Sbjct: 5 SSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISF 64
Query: 155 DSEEAVDRVL 164
E R +
Sbjct: 65 HRREDAARAI 74
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 36/58 (62%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
KLFIGG+ +++++KE + +G + +++D ATG ++G+ F + D V ++ I
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60
Score = 30.8 bits (68), Expect = 1.8, Method: Composition-based stats.
Identities = 20/83 (24%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHK 166
K+F+GGL + + + K+ FG + ++ D T +G+ F Y D+ +
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 167 TFHELNGKMVEVKRAVPKEFSPG 189
LNG + K+ + + S G
Sbjct: 63 ----LNGMQLGDKKLLVQRASVG 81
>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 = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
L + + + ++ L+ FS GEV A ++RD+ G + G+GFV + AER I +
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 66 DKHMIDGRTVEAKKAVP 82
+ + +T++ A P
Sbjct: 82 NGLRLQSKTIKVSYARP 98
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
LF+G ++ + D+E L+ F + + +M D TG +RG+GFV F A+ + M
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 66 DKHMIDGRTVEAKKAV 81
++GR + A
Sbjct: 64 QGQDLNGRPLRINWAA 79
Score = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 1/82 (1%)
Query: 105 TKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVL 164
T +FVG L V + + F F + VM+D T RG+GF+++ S++ +
Sbjct: 1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM 60
Query: 165 HKTF-HELNGKMVEVKRAVPKE 185
+LNG+ + + A E
Sbjct: 61 DSMQGQDLNGRPLRINWAAKLE 82
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 36/58 (62%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
KLFIGG+ +++++KE + +G + +++D ATG ++G+ F + D V ++ I
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 153
Score = 35.8 bits (81), Expect = 0.057, Method: Composition-based stats.
Identities = 40/182 (21%), Positives = 78/182 (42%), Gaps = 23/182 (12%)
Query: 7 KLFIGGISWDTDEERLKEYFS---RYGEVVEAVIMRDRAT--GRARGFGFVVFAD-PAVA 60
+L++G I + EE + ++F+ R G + +A A + + F F+ F
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65
Query: 61 ERVIMDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTES 120
+ + D + G++++ ++ P D Q P PG K+F+GGL + + +
Sbjct: 66 QAMAFDGIIFQGQSLKIRR--PHDYQ-------------PLPG-AHKLFIGGLPNYLNDD 109
Query: 121 DFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHK-TFHELNGKMVEVK 179
K+ FG + ++ D T +G+ F Y D+ + +L K + V+
Sbjct: 110 QVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQ 169
Query: 180 RA 181
RA
Sbjct: 170 RA 171
>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 = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 20/54 (37%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 3 SDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATG--RARGFGFVVF 54
SD K+F+G + E+ L+E F +YG V E ++RDR+ +++G FV F
Sbjct: 1 SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 54
Score = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 34/55 (61%), Gaps = 2/55 (3%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFG--FITYDSEEA 159
K+FVG + T +E D ++ F+Q+G + ++ V+ D + P+ G F+T+ + +A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKA 59
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 12/79 (15%)
Query: 99 SPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEE 158
S G + K +FV LA+TVTE +K F QFG + V + D + FI +D +
Sbjct: 5 SSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERD 56
Query: 159 AVDRVLHKTFHELNGKMVE 177
K E+NGK +E
Sbjct: 57 GA----VKAMEEMNGKDLE 71
>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 = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 31/57 (54%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
L++ + +++L F +YG +V+ I+RD+ TGR RG FV + A+ I
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 72
Score = 38.5 bits (88), Expect = 0.009, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 97 HSSPGPGRTK--KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY 154
++ PG K ++V L T+T+ F ++G+I ++ D T RPRG F+ Y
Sbjct: 3 YARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRY 62
Query: 155 DSEE 158
+ E
Sbjct: 63 NKRE 66
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 19/77 (24%), Positives = 42/77 (54%), Gaps = 2/77 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
L + + + ++ K F G++ ++RD+ TG++ G+GFV ++DP A++ I +
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 66 DKHMIDGRTVEAKKAVP 82
+ + +T++ A P
Sbjct: 67 NGLKLQTKTIKVSYARP 83
Score = 33.9 bits (76), Expect = 0.21, Method: Composition-based stats.
Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 9/85 (10%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
+ V L +T+ +FK F G I ++ D T + G+GF+ Y D K
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDAD----KA 62
Query: 168 FHELNG-----KMVEVKRAVPKEFS 187
+ LNG K ++V A P S
Sbjct: 63 INTLNGLKLQTKTIKVSYARPSSAS 87
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAE--RVIM 65
L + +++ T + L+ F +YG V + I R+ T RGF FV F D A+ M
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 66 DKHMIDGRTVEAKKA 80
D +DGR + + A
Sbjct: 76 DGAELDGRELRVQVA 90
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFIT-YDSEEAVDRVLHK 166
+ V L + ++ F+++G + DV + + +T+ PRGF F+ +D +A D
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 167 TFHELNGKMVEVKRA 181
EL+G+ + V+ A
Sbjct: 76 DGAELDGRELRVQVA 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 = 39.3 bits (90), Expect = 0.006, Method: Composition-based stats.
Identities = 26/99 (26%), Positives = 48/99 (48%), Gaps = 18/99 (18%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAE--RVI 64
+LF+G + D EE +++ F +YG+ E I +D +GFGF+ +AE +V
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 70
Query: 65 MDKHMIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPG 103
+D + G+ + + A +++S+ S P G
Sbjct: 71 LDNMPLRGKQLRVRFAC----------HSASLTSGPSSG 99
Score = 35.0 bits (79), Expect = 0.11, Method: Composition-based stats.
Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 8/87 (9%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRV-LH 165
++FVG L +TE + +K F+++G +V + D +GFGFI ++ + +
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 70
Query: 166 KTFHELNGKMVEVKRAV-PKEFSPGPS 191
L GK + V+ A + GPS
Sbjct: 71 LDNMPLRGKQLRVRFACHSASLTSGPS 97
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 5/81 (6%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
++F+ + +D + LK+ F+ G V+ A I + G+++G G V F P VAER
Sbjct: 10 QIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERAC-- 65
Query: 67 KHMIDGRTVEAKKAVPRDDQN 87
M++G + ++ R D+N
Sbjct: 66 -RMMNGMKLSGREIDVRIDRN 85
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATG---RARGFGFVVFADPAVAERVI 64
LFI +++ T EE LK FS+ G + I + + + GFGFV + P A++ +
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 65 --MDKHMIDGRTVEAK 78
+ H +DG +E +
Sbjct: 68 KQLQGHTVDGHKLEVR 83
Score = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 4/83 (4%)
Query: 101 GPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQ---RPRGFGFITYDSE 157
G + +F+ L + TE K F + G I + N GFGF+ Y
Sbjct: 1 GSSGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKP 60
Query: 158 EAVDRVLHK-TFHELNGKMVEVK 179
E + L + H ++G +EV+
Sbjct: 61 EQAQKALKQLQGHTVDGHKLEVR 83
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain
In Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 5/80 (6%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
+F+ + +D + LK+ F+ G V+ A I + G+++G G V F P VAER
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERAC--- 62
Query: 68 HMIDGRTVEAKKAVPRDDQN 87
M++G + ++ R D+N
Sbjct: 63 RMMNGMKLSGREIDVRIDRN 82
>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 = 21/66 (31%), Positives = 35/66 (53%), Gaps = 8/66 (12%)
Query: 3 SDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAER 62
S + KLFIG + + E+ ++ F +YG+V+E I+++ +GFV D AE
Sbjct: 6 SGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--------YGFVHIEDKTAAED 57
Query: 63 VIMDKH 68
I + H
Sbjct: 58 AIRNLH 63
Score = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 23/95 (24%), Positives = 46/95 (48%), Gaps = 10/95 (10%)
Query: 99 SPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEE 158
S G K+F+G L TE + + F+Q+G + + ++ + +GF+ + +
Sbjct: 2 SSGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKT 53
Query: 159 AVDRVLHKTFH-ELNGKMVEVKRAVPK-EFSPGPS 191
A + + H +L+G + V+ + K + S GPS
Sbjct: 54 AAEDAIRNLHHYKLHGVNINVEASKNKSKASSGPS 88
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 37.7 bits (86), Expect = 0.015, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 33/57 (57%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
L+I G+ T ++ L + YG++V + D+ T + +G+GFV F P+ A++ +
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64
Score = 35.8 bits (81), Expect = 0.056, Method: Composition-based stats.
Identities = 16/64 (25%), Positives = 30/64 (46%)
Query: 101 GPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAV 160
G + +++ GL T+ D K +G I + D T + +G+GF+ +DS A
Sbjct: 1 GSSGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAA 60
Query: 161 DRVL 164
+ +
Sbjct: 61 QKAV 64
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 8/69 (11%)
Query: 102 PGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMY--DHNTQRPRGFGFITYDSE-- 157
P +K+FVG L +E D ++ F+ FG I + ++ D N+ +G F+ Y S
Sbjct: 12 PPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNS---KGCAFVKYSSHAE 68
Query: 158 -EAVDRVLH 165
+A LH
Sbjct: 69 AQAAINALH 77
Score = 37.0 bits (84), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
KLF+G ++ E+ ++ F +G + E I+R G ++G FV ++ A A+ I
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRG-PDGNSKGCAFVKYSSHAEAQAAINA 75
Query: 67 KH 68
H
Sbjct: 76 LH 77
>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 = 37.0 bits (84), Expect = 0.024, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 34/57 (59%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
L++G +S+ T EE++ E FS+ G++ + ++ D+ A GF FV + A AE +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAM 98
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 37.0 bits (84), Expect = 0.025, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFA--DPAVAERVIM 65
LF+ I + E+ ++E F YGE+ + DR TG ++G+ V + A+A + +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 66 DKHMIDGRTVE 76
+ I G+T++
Sbjct: 89 NGAEIMGQTIQ 99
Score = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 25/108 (23%), Positives = 47/108 (43%), Gaps = 12/108 (11%)
Query: 91 RNTSSIHSSPGPGRTKK---IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPR 147
RN PGP R+ + +FV + E + ++ F +G I ++ + D T +
Sbjct: 9 RNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSK 68
Query: 148 GFGFITYDSEE---AVDRVLHKTFHELNGKMVEVKRAVPKEFSPGPSR 192
G+ + Y++ + A L+ E+ G+ ++V F GP R
Sbjct: 69 GYALVEYETHKQALAAKEALNGA--EIMGQTIQVDWC----FVKGPKR 110
>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 = 37.0 bits (84), Expect = 0.025, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFA--DPAVAERVIM 65
LF+ I + E+ ++E F YGE+ + DR TG ++G+ V + A+A + +
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 66 DKHMIDGRTVE 76
+ I G+T++
Sbjct: 135 NGAEIMGQTIQ 145
Score = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 25/108 (23%), Positives = 47/108 (43%), Gaps = 12/108 (11%)
Query: 91 RNTSSIHSSPGPGRTKK---IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPR 147
RN PGP R+ + +FV + E + ++ F +G I ++ + D T +
Sbjct: 55 RNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSK 114
Query: 148 GFGFITYDSEE---AVDRVLHKTFHELNGKMVEVKRAVPKEFSPGPSR 192
G+ + Y++ + A L+ E+ G+ ++V F GP R
Sbjct: 115 GYALVEYETHKQALAAKEALNGA--EIMGQTIQVDWC----FVKGPKR 156
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 49/99 (49%), Gaps = 3/99 (3%)
Query: 96 IHSSPGPGRTKKI-FVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY 154
+ SS PG K+ ++ L+ VTE D F +F + + T R RG FIT+
Sbjct: 15 MFSSYNPGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITF 74
Query: 155 DSEEAVDRVLHKTF-HELNGKMVEVKRAV-PKEFSPGPS 191
++E + LH ++L GK++ ++ K+ S GPS
Sbjct: 75 PNKEIAWQALHLVNGYKLYGKILVIEFGKNKKQRSSGPS 113
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 39/86 (45%), Gaps = 3/86 (3%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
L++ +S E L F+R+ E I TGR RG F+ F + +A + +
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQAL--- 84
Query: 68 HMIDGRTVEAKKAVPRDDQNMLNRNT 93
H+++G + K V +N R++
Sbjct: 85 HLVNGYKLYGKILVIEFGKNKKQRSS 110
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 36.6 bits (83), Expect = 0.033, Method: Composition-based stats.
Identities = 21/87 (24%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
IF+ L ++ F FG I V+ D N + G+GF+ ++++EA +R + K
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEK- 70
Query: 168 FHELNGKMVEVKRAVPKEFSPGPSRSS 194
+NG ++ ++ F R +
Sbjct: 71 ---MNGMLLNDRKVFVGRFKSRKEREA 94
Score = 35.4 bits (80), Expect = 0.074, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 40/76 (52%), Gaps = 4/76 (5%)
Query: 2 ESDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAE 61
+S +G +FI + D + L + FS +G ++ ++ D ++G+GFV F AE
Sbjct: 8 KSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAE 65
Query: 62 RVI--MDKHMIDGRTV 75
R I M+ +++ R V
Sbjct: 66 RAIEKMNGMLLNDRKV 81
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 36.6 bits (83), Expect = 0.036, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 38/75 (50%), Gaps = 9/75 (12%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQR-----PRGFGFITYDSEEAV 160
+K+FVGGL + E + F +FG + VV + H + P+G+ F+ + E +V
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFGPL---VVDWPHKAESKSYFPPKGYAFLLFQEESSV 65
Query: 161 DRVLHKTFHELNGKM 175
++ E +GK+
Sbjct: 66 QALIDACLEE-DGKL 79
Score = 31.2 bits (69), Expect = 1.5, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 35/62 (56%), Gaps = 6/62 (9%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRA----RGFGFVVFADPAVAER 62
K+F+GG+ D DE+ + F R+G +V V +A ++ +G+ F++F + + +
Sbjct: 10 KVFVGGLPPDIDEDEITASFRRFGPLV--VDWPHKAESKSYFPPKGYAFLLFQEESSVQA 67
Query: 63 VI 64
+I
Sbjct: 68 LI 69
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 36.6 bits (83), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI--M 65
+F+G +S + + F+ +G + +A +++D ATG+++G+GFV F + AE I M
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 66 DKHMIDGRTVEAKKA 80
+ GR + A
Sbjct: 69 GGQWLGGRQIRTNWA 83
Score = 32.7 bits (73), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 35/60 (58%), Gaps = 4/60 (6%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFIT----YDSEEAVDRV 163
+FVG L+ +T + F FG I+D V+ D T + +G+GF++ +D+E A+ ++
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 36.2 bits (82), Expect = 0.042, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 42/86 (48%), Gaps = 8/86 (9%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
+FI +S+D++EE L E ++G++ ++ T ++G F F A++ +
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77
Query: 68 HM--------IDGRTVEAKKAVPRDD 85
+ +DGR ++ AV RD+
Sbjct: 78 SLEAEGGGLKLDGRQLKVDLAVTRDE 103
Score = 35.0 bits (79), Expect = 0.12, Method: Composition-based stats.
Identities = 25/94 (26%), Positives = 44/94 (46%), Gaps = 8/94 (8%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH 165
K +F+ L+ E + QFG + V V+ +T+ +G F + ++EA + L
Sbjct: 16 KTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLA 75
Query: 166 KTFHE-------LNGKMVEVKRAVPK-EFSPGPS 191
E L+G+ ++V AV + E + GPS
Sbjct: 76 AASLEAEGGGLKLDGRQLKVDLAVTRDEAASGPS 109
>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 = 35.8 bits (81), Expect = 0.052, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 100 PGPGRTKK---IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS 156
PGP R+ + +FV G+ TE D F ++G I ++ + D T +G+ + Y++
Sbjct: 14 PGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 73
Score = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF 54
LF+ G+ + EE + + F+ YGE+ + DR TG +G+ V +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 71
>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 = 35.4 bits (80), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 8 LFIGGISWDTDEERLKEYFSRYG--EVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
L+IG ++W T +E L E G +++E +RA G+++GF V A +++++
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLM 129
>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 = 35.4 bits (80), Expect = 0.077, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 100 PGPGRTKK---IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS 156
PGP R+ + +FV G+ TE D F ++G I ++ + D T +G+ + Y++
Sbjct: 1 PGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 60
Score = 34.3 bits (77), Expect = 0.20, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF 54
LF+ G+ + EE + + F+ YGE+ + DR TG +G+ V +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 58
>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 = 35.4 bits (80), Expect = 0.078, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 100 PGPGRTKK---IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS 156
PGP R+ + +FV G+ TE D F ++G I ++ + D T +G+ + Y++
Sbjct: 15 PGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 74
Score = 34.3 bits (77), Expect = 0.20, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF 54
LF+ G+ + EE + + F+ YGE+ + DR TG +G+ V +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 72
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 35.0 bits (79), Expect = 0.096, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAV 160
+ +FVG L + V E + F Q G +T V + D +P+ FGF+ + E+V
Sbjct: 17 RTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREG-KPKSFGFVCFKHPESV 70
Score = 35.0 bits (79), Expect = 0.099, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADP 57
+F+G + EE L E F + G + + I +DR G+ + FGFV F P
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDR-EGKPKSFGFVCFKHP 67
>pdb|2E5G|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 21
Length = 94
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 37/88 (42%), Gaps = 5/88 (5%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH 165
+ +FV G V + +YF FG + VV+ D F + A + VL
Sbjct: 9 RSVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGV-----FAIVEMGDVGAREAVLS 63
Query: 166 KTFHELNGKMVEVKRAVPKEFSPGPSRS 193
++ H L G + V+ KEF S+S
Sbjct: 64 QSQHSLGGHRLRVRPREQKEFQSPASKS 91
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif In Trna Selenocysteine Associated Protein
Length = 104
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 41/80 (51%), Gaps = 5/80 (6%)
Query: 8 LFIGGISWDTDEERLKEYFSR-YGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
LF+G ++ D D+ L E+F + Y ++ D+ TG ++G+GFV F D +R + +
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFTDELEQKRALTE 70
Query: 67 KHMIDG---RTVEAKKAVPR 83
G + V A+P+
Sbjct: 71 CQGAVGLGSKPVRLSVAIPK 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 = 35.0 bits (79), Expect = 0.11, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 8 LFIGGISWDTDEERLKEYFSRYG--EVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
L+IG ++W T +E L E G +++E +RA G+++GF V A +++++
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLM 62
>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 = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 4/73 (5%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
+F+ L + D + F FG + V D T + FGF++YD+ + +
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAI--- 84
Query: 168 FHELNGKMVEVKR 180
+NG + +KR
Sbjct: 85 -QSMNGFQIGMKR 96
>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 = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 43/95 (45%), Gaps = 5/95 (5%)
Query: 69 MIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKYFDQ 128
+++G EA A+ Q+ L S+ P + V L ++T+ F++
Sbjct: 62 LLNGEQAEA--AINAFHQSRLRERELSVQLQPTDA---LLCVANLPPSLTQQQFEELVRP 116
Query: 129 FGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRV 163
FG++ ++Y T + +G+GF Y +++ R
Sbjct: 117 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 12/72 (16%)
Query: 103 GRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDR 162
+ K +FV LA+TVTE +K F +FG + V + D + F+ ++ A
Sbjct: 13 AKVKVLFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVHFEDRGAA-- 62
Query: 163 VLHKTFHELNGK 174
K E+NGK
Sbjct: 63 --VKAMDEMNGK 72
>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 = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF 54
LF+ G+ + EE + + F+ YGE+ + DR TG +G+ V +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 56
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 13/49 (26%), Positives = 25/49 (51%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS 156
+FV G+ TE D F ++G I ++ + D T +G+ + Y++
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 58
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 43/95 (45%), Gaps = 5/95 (5%)
Query: 69 MIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKYFDQ 128
+++G EA A+ Q+ L S+ P + V L ++T+ F++
Sbjct: 64 LLNGEQAEA--AINAFHQSRLRERELSVQLQPTDA---LLCVANLPPSLTQQQFEELVRP 118
Query: 129 FGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRV 163
FG++ ++Y T + +G+GF Y +++ R
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/94 (22%), Positives = 43/94 (45%), Gaps = 5/94 (5%)
Query: 69 MIDGRTVEAKKAVPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKYFDQ 128
+++G EA A+ Q+ L S+ P + V L ++T+ F++
Sbjct: 64 LLNGEQAEA--AINAFHQSRLRERELSVQLQPTDA---LLCVANLPPSLTQQQFEELVRP 118
Query: 129 FGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDR 162
FG++ ++Y T + +G+GF Y +++ R
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAAR 152
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI 64
L++G +S+ T EE++ E FS+ G++ + ++ D+ A GF FV + A AE +
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK-TACGFCFVEYYSRADAENAM 76
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF 54
LF+ G+ + EE + + F+ YGE+ + DR TG +G+ V +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 56
Score = 31.2 bits (69), Expect = 1.4, Method: Composition-based stats.
Identities = 13/49 (26%), Positives = 25/49 (51%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS 156
+FV G+ TE D F ++G I ++ + D T +G+ + Y++
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 58
>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 = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVF 54
LF+ G+ + EE + + F+ YGE+ + DR TG +G+ V +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 56
Score = 31.2 bits (69), Expect = 1.4, Method: Composition-based stats.
Identities = 13/49 (26%), Positives = 25/49 (51%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS 156
+FV G+ TE D F ++G I ++ + D T +G+ + Y++
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYET 58
>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 = 0.21, Method: Composition-based stats.
Identities = 26/91 (28%), Positives = 39/91 (42%), Gaps = 2/91 (2%)
Query: 103 GRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMY--DHNTQRPRGFGFITYDSEEAV 160
G +K+FVG L T+ D +K F+ FGTI + V+ D ++ F T+ +A
Sbjct: 10 GEDRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAA 69
Query: 161 DRVLHKTFHELNGKMVEVKRAVPKEFSPGPS 191
LH + V + E GPS
Sbjct: 70 INTLHSSRTLPGASSSLVVKFADTEKESGPS 100
>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 = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 41/77 (53%), Gaps = 4/77 (5%)
Query: 8 LFIGGISWDTDEERLKEYFSRYG--EVVEAVIMRDRATGRARGFGFVVFADPAVAERV-- 63
+++G SW T +++L + G +VVE +RA G+++G+ VV A ++
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 64 IMDKHMIDGRTVEAKKA 80
++ +++G V+ + A
Sbjct: 118 LLPGKVLNGEKVDVRPA 134
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 33.5 bits (75), Expect = 0.27, Method: Composition-based stats.
Identities = 24/95 (25%), Positives = 44/95 (46%), Gaps = 9/95 (9%)
Query: 98 SSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSE 157
SS G T KIFVG +++ T + + F++ G + + V+ D + F+ + E
Sbjct: 2 SSGSSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKE 53
Query: 158 -EAVDRVLHKTFHELNGKMVEVKRAVPKEFSPGPS 191
+A + E+ GK + V+ + + GPS
Sbjct: 54 ADAKAAIAQLNGKEVKGKRINVELSTKGQKKSGPS 88
Score = 29.3 bits (64), Expect = 5.7, Method: Composition-based stats.
Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 11/73 (15%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
K+F+G +S + L+ F R G V+E +++D + FV A A+ I
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIAQ 62
Query: 67 KHMIDGRTVEAKK 79
++G+ V+ K+
Sbjct: 63 ---LNGKEVKGKR 72
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 33.5 bits (75), Expect = 0.28, Method: Composition-based stats.
Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 4/73 (5%)
Query: 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKT 167
+F+ L T++D F FG + V D T + FGF+++D+ ++ +
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKA- 101
Query: 168 FHELNGKMVEVKR 180
+NG V KR
Sbjct: 102 ---MNGFQVGTKR 111
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 33.1 bits (74), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 41/97 (42%), Gaps = 12/97 (12%)
Query: 81 VPRDDQNMLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYD 140
VPR R + S P + ++V G +T + + F FG I D+
Sbjct: 15 VPRGSHMGPFRRSDSFPERRAPRKGNTLYVYG--EDMTPTLLRGAFSPFGNIIDL----- 67
Query: 141 HNTQRPRGFGFITYDSEEAVDRVLHKTFHELNGKMVE 177
+ PR F+TY+ E+ D+ + ELNG VE
Sbjct: 68 -SMDPPRNCAFVTYEKMESADQAV----AELNGTQVE 99
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 33.1 bits (74), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRA-TGRARGFGFVVFADPAVAER 62
K+ + I + ++ ++E FS +GE+ + + TG RGFGFV F A++
Sbjct: 17 KILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKK 73
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 12/77 (15%)
Query: 101 GPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAV 160
P + ++V G +T + + F FG I D+ + PR F+TY+ E+
Sbjct: 11 APRKGNTLYVYG--EDMTPTLLRGAFSPFGNIIDL------SMDPPRNCAFVTYEKMESA 62
Query: 161 DRVLHKTFHELNGKMVE 177
D+ + ELNG VE
Sbjct: 63 DQAV----AELNGTQVE 75
>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 = 32.0 bits (71), Expect = 0.92, Method: Composition-based stats.
Identities = 21/70 (30%), Positives = 35/70 (50%), Gaps = 17/70 (24%)
Query: 34 EAVIMRDRATGRARGFGFVVFADPAVAERVIMDKHMIDG-RTVEAKKAVPRDDQNMLNRN 92
E +MR++++G++RGF FV F+ H+ D R +EA + N+L +
Sbjct: 31 EVRLMRNKSSGQSRGFAFVEFS------------HLQDATRWMEANQ----HSLNILGQK 74
Query: 93 TSSIHSSPGP 102
S +S P P
Sbjct: 75 VSMHYSDPKP 84
Score = 30.0 bits (66), Expect = 3.3, Method: Composition-based stats.
Identities = 19/75 (25%), Positives = 33/75 (44%), Gaps = 3/75 (4%)
Query: 113 LASTVTESDFKKYFDQFGT-ITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHKTFHEL 171
L TE D + G +V +M + ++ + RGF F+ + + R + H L
Sbjct: 9 LPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSL 68
Query: 172 N--GKMVEVKRAVPK 184
N G+ V + + PK
Sbjct: 69 NILGQKVSMHYSDPK 83
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 8/69 (11%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMD 66
K+++G + + ++ L+ F YG + + R+ GF FV F DP A + D
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPP-----GFAFVEFEDPRDAADAVRD 129
Query: 67 KHMIDGRTV 75
+DGRT+
Sbjct: 130 ---LDGRTL 135
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 4/91 (4%)
Query: 103 GRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFIT-YDSEEAVD 161
G+ + ++VG L+ VTE + F Q G ++ +H + P + F+ Y+ +A
Sbjct: 13 GQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVEFYEHRDAAA 70
Query: 162 RVLHKTFHELNGKMVEVKRA-VPKEFSPGPS 191
+ ++ GK V+V A P GPS
Sbjct: 71 ALAAMNGRKILGKEVKVNWATTPSSQKSGPS 101
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 105 TKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVL 164
T +++VGGL + + + FD+FG+I + DH + F +I Y+S +A
Sbjct: 17 TTRLWVGGLGPNTSLAALAREFDRFGSIRTI----DH--VKGDSFAYIQYESLDAAQAAC 70
Query: 165 HK 166
K
Sbjct: 71 AK 72
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/81 (23%), Positives = 39/81 (48%), Gaps = 13/81 (16%)
Query: 97 HSSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS 156
SSP + ++ GG+AS +T+ ++ F FG I ++ V + +G+ F+ + +
Sbjct: 20 QSSP---KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFST 70
Query: 157 EEAVDRVLHKTFHELNGKMVE 177
E+ + +NG +E
Sbjct: 71 HESAAHAIVS----VNGTTIE 87
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 37/69 (53%), Gaps = 9/69 (13%)
Query: 8 LFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDK 67
++ GGI+ ++ +++ FS +G+++E + + +G+ FV F+ A I+
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVS- 80
Query: 68 HMIDGRTVE 76
++G T+E
Sbjct: 81 --VNGTTIE 87
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 31.2 bits (69), Expect = 1.4, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 6/58 (10%)
Query: 101 GPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEE 158
P R ++G + TE+D F FG I D + H + +G FI YD+ E
Sbjct: 23 APPRVTTAYIGNIPHFATEADLIPLFQNFGFILD----FKHYPE--KGCCFIKYDTHE 74
>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 = 30.8 bits (68), Expect = 1.9, Method: Composition-based stats.
Identities = 13/60 (21%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLHK 166
K+F+ GL + T+ + ++ GT+ D+ ++ + +P+G ++ Y++E + + K
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMK 77
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 30.4 bits (67), Expect = 2.7, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 26/50 (52%)
Query: 19 EERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDKH 68
++ L FS+ G+VV D ATG+ +GF FV A+++I H
Sbjct: 26 KKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFH 75
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 30.4 bits (67), Expect = 2.8, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 26/50 (52%)
Query: 19 EERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVIMDKH 68
++ L FS+ G+VV D ATG+ +GF FV A+++I H
Sbjct: 26 KKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFH 75
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 30.0 bits (66), Expect = 3.6, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 23/35 (65%)
Query: 22 LKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFAD 56
L+++FS G+V + I+ DR + R++G +V F +
Sbjct: 42 LEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCE 76
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHN 142
K+ V L V+++D ++ F +FGT+ V YD +
Sbjct: 90 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRS 125
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 29.3 bits (64), Expect = 4.9, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRA 42
KL +G IS + L+ F YG V+E I++D A
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDYA 47
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 29.3 bits (64), Expect = 5.5, Method: Composition-based stats.
Identities = 20/87 (22%), Positives = 37/87 (42%), Gaps = 12/87 (13%)
Query: 88 MLNRNTSSIHSSPGPGRTKKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPR 147
++ R + H G ++FV V ES+ + F FG + +V ++
Sbjct: 14 LVPRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------N 65
Query: 148 GFGFITYDSEEAVDRVLHKTFHELNGK 174
GF F+ ++ E+ K E++GK
Sbjct: 66 GFAFVEFEEAESA----AKAIEEVHGK 88
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 29.3 bits (64), Expect = 6.2, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 106 KKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDRVLH 165
+K+FVG L +E D + F FG I + V+ + +G F+ + S +H
Sbjct: 16 RKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSS-KGCAFVKFSSHTEAQAAIH 74
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 28.9 bits (63), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 8/70 (11%)
Query: 3 SDLGKLFIGGISWDTDEERLKEYFSRYGEVVEAV--------IMRDRATGRARGFGFVVF 54
SD +F+ G+ + E + +YF + G + + DR TG+ +G V F
Sbjct: 5 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSF 64
Query: 55 ADPAVAERVI 64
DP A+ I
Sbjct: 65 DDPPSAKAAI 74
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor
9g8
Length = 101
Score = 28.9 bits (63), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 37/81 (45%), Gaps = 9/81 (11%)
Query: 7 KLFIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATGRARGFGFVVFADPAVAERVI-- 64
K+++G + + L+ FS YG + I R+ GF FV F DP AE +
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPP-----GFAFVEFEDPRDAEDAVRG 56
Query: 65 MDKHMIDGR--TVEAKKAVPR 83
+D +I G VE +PR
Sbjct: 57 LDGKVICGSRVRVELSTGMPR 77
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 28.5 bits (62), Expect = 8.6, Method: Composition-based stats.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHN 142
K+ V L V+++D ++ F +FGT+ V YD +
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRS 65
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of
Eukaryotic Initiation Factor 4b
Length = 104
Score = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 9 FIGGISWDTDEERLKEYFSRYGEVVEAVIMRDRATG--RARGFGFVVF 54
F+G + +D EE +KE+F G + AV + + R +GFG+ F
Sbjct: 19 FLGNLPYDVTEESIKEFFR--GLNISAVRLPREPSNPERLKGFGYAEF 64
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.136 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,252,338
Number of Sequences: 62578
Number of extensions: 669521
Number of successful extensions: 1815
Number of sequences better than 100.0: 172
Number of HSP's better than 100.0 without gapping: 130
Number of HSP's successfully gapped in prelim test: 42
Number of HSP's that attempted gapping in prelim test: 1481
Number of HSP's gapped (non-prelim): 293
length of query: 522
length of database: 14,973,337
effective HSP length: 103
effective length of query: 419
effective length of database: 8,527,803
effective search space: 3573149457
effective search space used: 3573149457
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)