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= 026421
(238 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 58.5 bits (140), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 45/75 (60%)
Query: 68 NPGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAER 127
+P L V GLS TERDL + FSK G +A +V + ++R SRGFAFV + V+DA+
Sbjct: 44 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKE 103
Query: 128 CIKYLNQSVLEGRYI 142
+ N L+GR I
Sbjct: 104 AKERANGMELDGRRI 118
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 45/75 (60%)
Query: 68 NPGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAER 127
+P L V GLS TERDL + FSK G +A +V + ++R SRGFAFV + V+DA+
Sbjct: 13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKE 72
Query: 128 CIKYLNQSVLEGRYI 142
+ N L+GR I
Sbjct: 73 AKERANGMELDGRRI 87
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 45/75 (60%)
Query: 68 NPGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAER 127
+P L V GLS TERDL + FSK G +A +V + ++R SRGFAFV + V+DA+
Sbjct: 10 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKE 69
Query: 128 CIKYLNQSVLEGRYI 142
+ N L+GR I
Sbjct: 70 AKERANGMELDGRRI 84
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 45/75 (60%)
Query: 68 NPGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAER 127
+P L V GLS TERDL + FSK G +A +V + ++R SRGFAFV + V+DA+
Sbjct: 13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKE 72
Query: 128 CIKYLNQSVLEGRYI 142
+ N L+GR I
Sbjct: 73 AKERANGMELDGRRI 87
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 57.4 bits (137), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 44/70 (62%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L+V GLS E+ LE+ FSK G+++ +V + T+ SRGF FVT + ++DA+ + +
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 133 NQSVLEGRYI 142
N ++GR I
Sbjct: 75 NGKSVDGRQI 84
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 64 TETGNPGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVE 123
E +PG L++ GL+ E+ L+ F K G ++ L+ + RT SRGFAF+T +
Sbjct: 2 VEADHPG-KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKD-RTSKSRGFAFITFENPA 59
Query: 124 DAERCIKYLNQSVLEGRYI 142
DA+ K +N L G+ I
Sbjct: 60 DAKNAAKDMNGKSLHGKAI 78
>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 = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 40/61 (65%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
LYV+GL +T+++LE+ FS+ G++ + ++V+ T +SRG F+ D +AE IK L
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 133 N 133
N
Sbjct: 151 N 151
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 34/70 (48%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L V L +T+ + F G++ SC LV + T S G+ FV +DAE+ I L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 133 NQSVLEGRYI 142
N L+ + I
Sbjct: 65 NGLRLQTKTI 74
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 39/71 (54%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
T+YV+ L +T DL + FSK GKV ++ + TR S+G AF+ + A+ C +
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRA 77
Query: 132 LNQSVLEGRYI 142
+N L GR I
Sbjct: 78 INNKQLFGRVI 88
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 38/61 (62%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
LY++GL +T++D+E FS+ G++ + ++V+ T +SRG AF+ D +AE I
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 133 N 133
N
Sbjct: 151 N 151
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 34/70 (48%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L V L +T+ +L FS G+V S L+ + S G+ FV +DAER I L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 133 NQSVLEGRYI 142
N L+ + I
Sbjct: 65 NGLRLQSKTI 74
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 38/61 (62%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
LY++GL +T++D+E FS+ G++ + ++V+ T +SRG AF+ D +AE I
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 133 N 133
N
Sbjct: 151 N 151
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 34/70 (48%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L V L +T+ +L FS G+V S L+ + S G+ FV +DAER I L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 133 NQSVLEGRYI 142
N L+ + I
Sbjct: 65 NGLRLQSKTI 74
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ GLS T+ L HF + G + C ++ +P T+ SRGF FVT VE+ + +
Sbjct: 17 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 76
Query: 133 NQSVLEGRYI 142
V +GR +
Sbjct: 77 PHKV-DGRVV 85
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
++V G+ E L +F + GK+ ++ + + RGFAFVT D + ++ +
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 164
>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 = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ GLS T+ L HF + G + C ++ +P T+ SRGF FVT VE+ + +
Sbjct: 15 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 74
Query: 133 NQSVLEGRYI 142
V +GR +
Sbjct: 75 PHKV-DGRVV 83
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
++V G+ E L +F + GK+ ++ + + RGFAFVT D + ++ +
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 162
>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 = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ GLS T+ L HF + G + C ++ +P T+ SRGF FVT VE+ + +
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 75
Query: 133 NQSVLEGRYI 142
V +GR +
Sbjct: 76 PHKV-DGRVV 84
Score = 32.0 bits (71), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
++V G+ E L +F + GK+ ++ + + RGFAFVT D + ++ +
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 40/62 (64%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
LYV+GL ++++++E+ FS+ G++ + ++++ T +SRG F+ D +AE IK
Sbjct: 3 NLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKG 62
Query: 132 LN 133
LN
Sbjct: 63 LN 64
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ GLS T+ L HF + G + C ++ +P T+ SRGF FVT VE+ + +
Sbjct: 14 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 73
Query: 133 NQSVLEGRYI 142
V +GR +
Sbjct: 74 PHKV-DGRVV 82
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
++V G+ E L +F + GK+ ++ + + RGFAFVT D + ++ +
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 161
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ GLS T+ L HF + G + C ++ +P T+ SRGF FVT VE+ + +
Sbjct: 16 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 75
Query: 133 NQSVLEGRYI 142
V +GR +
Sbjct: 76 PHKV-DGRVV 84
Score = 32.0 bits (71), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
++V G+ E L +F + GK+ ++ + + RGFAFVT D + ++ +
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
>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 = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
L++ GLS T+ L HF + G + C ++ +P T+ SRGF FVT VE+ + +
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 65
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 29/57 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
++V G+ E L +F + GK+ ++ + + RGFAFVT D + ++ +
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 156
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 64 TETGNPGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVE 123
+ G+ G +++ GLS + T+ L ++F + G+V C ++ +P T+ SRGF FVT
Sbjct: 19 SHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF---M 75
Query: 124 DAERCIKYLNQS 135
D K L QS
Sbjct: 76 DQAGVDKVLAQS 87
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 40/62 (64%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
LYV+GL ++++++E+ FS+ G++ + ++++ T +SRG F+ D +AE IK
Sbjct: 92 NLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKG 151
Query: 132 LN 133
LN
Sbjct: 152 LN 153
Score = 36.2 bits (82), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 33/71 (46%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
L V L +T+ + + F G + SC LV + T S G+ FV DA++ I
Sbjct: 6 NLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINT 65
Query: 132 LNQSVLEGRYI 142
LN L+ + I
Sbjct: 66 LNGLKLQTKTI 76
>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 = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 41/71 (57%), Gaps = 5/71 (7%)
Query: 74 YVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYLN 133
+V GLS +++DL+ +F+K G+V C + +P T SRGF F+ +DA K L+
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILF---KDAASVEKVLD 71
Query: 134 QSV--LEGRYI 142
Q L+GR I
Sbjct: 72 QKEHRLDGRVI 82
>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 = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 35/57 (61%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
+++ GLS T++DL+ +FSK G+V C L ++P T SRGF FV E ++ +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVM 58
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 36/71 (50%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
LYV GL+ V ++ L F G + + ++ T RGFAFV + EDA I
Sbjct: 14 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 73
Query: 132 LNQSVLEGRYI 142
+N+S L GR I
Sbjct: 74 MNESELFGRTI 84
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 39/70 (55%), Gaps = 1/70 (1%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ GLS TE L ++ + GK+ C ++ +P ++ SRGF FVT + + + +
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAAR 89
Query: 133 NQSVLEGRYI 142
S+ +GR +
Sbjct: 90 PHSI-DGRVV 98
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 37/71 (52%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
TL V L+ R + L + F K G+V ++ EP T+ RGFAFV DA+
Sbjct: 15 TLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAA 74
Query: 132 LNQSVLEGRYI 142
++ + L+GR +
Sbjct: 75 MDGAELDGREL 85
>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 = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 38/70 (54%)
Query: 71 NTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIK 130
+L V L+ R + L + F K G+V ++ + T+ SRGFAFV DAE +
Sbjct: 48 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMD 107
Query: 131 YLNQSVLEGR 140
++ +VL+GR
Sbjct: 108 AMDGAVLDGR 117
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 64 TETGNPGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVE 123
TE + L+V+ + R + DL + F + GK+ ++ R S+GF FVT +
Sbjct: 23 TENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSA 80
Query: 124 DAERCIKYLNQSVLEGRYI 142
DA+R + L+ +V+EGR I
Sbjct: 81 DADRAREKLHGTVVEGRKI 99
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 36/71 (50%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
LYV GL+ V ++ L F G + + ++ T RGFAFV + EDA I
Sbjct: 7 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66
Query: 132 LNQSVLEGRYI 142
+N+S L GR I
Sbjct: 67 MNESELFGRTI 77
>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 = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 36/71 (50%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
LYV GL+ V ++ L F G + + ++ T RGFAFV + EDA I
Sbjct: 9 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 68
Query: 132 LNQSVLEGRYI 142
+N+S L GR I
Sbjct: 69 MNESELFGRTI 79
>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 = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 37/71 (52%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
TLYV LS TE + + FSK G + + ++ + + GF FV DAE ++Y
Sbjct: 41 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRY 100
Query: 132 LNQSVLEGRYI 142
+N + L+ R I
Sbjct: 101 INGTRLDDRII 111
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 40/70 (57%), Gaps = 2/70 (2%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L+V+ + R + DL + F + GK+ ++ R S+GF FVT + DA+R + L
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKL 75
Query: 133 NQSVLEGRYI 142
+ +V+EGR I
Sbjct: 76 HGTVVEGRKI 85
>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 = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 38/72 (52%)
Query: 69 PGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERC 128
P +LYV L VTE L + FS G + S + + TR S G+A+V DAER
Sbjct: 14 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 73
Query: 129 IKYLNQSVLEGR 140
+ +N V++G+
Sbjct: 74 LDTMNFDVIKGK 85
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 2/71 (2%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
+++ L + + L FS G + SC +V + S+G+ FV + E AER I+
Sbjct: 105 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEK 162
Query: 132 LNQSVLEGRYI 142
+N +L R +
Sbjct: 163 MNGMLLNDRKV 173
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 43.9 bits (102), Expect = 8e-05, Method: Composition-based stats.
Identities = 26/70 (37%), Positives = 36/70 (51%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
LYV GL+ V ++ L F G + + ++ T RGFAFV + EDA I +
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 133 NQSVLEGRYI 142
N+S L GR I
Sbjct: 65 NESELFGRTI 74
>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 = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 38/72 (52%)
Query: 69 PGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERC 128
P +LYV L VTE L + FS G + S + + TR S G+A+V DAER
Sbjct: 9 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 68
Query: 129 IKYLNQSVLEGR 140
+ +N V++G+
Sbjct: 69 LDTMNFDVIKGK 80
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 2/71 (2%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
+++ L + + L FS G + SC +V + S+G+ FV + E AER I+
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEK 157
Query: 132 LNQSVLEGRYI 142
+N +L R +
Sbjct: 158 MNGMLLNDRKV 168
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 38/69 (55%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
+L V L+ R + L + F K G+V ++ + T+ SRGFAFV DAE +
Sbjct: 72 SLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDA 131
Query: 132 LNQSVLEGR 140
++ +VL+GR
Sbjct: 132 MDGAVLDGR 140
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 37/70 (52%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L+V LS +E DLEK FS G ++ ++ T+ +GFAFVT E A + +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 133 NQSVLEGRYI 142
+ V +GR +
Sbjct: 71 DGQVFQGRML 80
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 43.5 bits (101), Expect = 1e-04, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 31/46 (67%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVT 118
+++ GLS + T+ L ++F + G+V C ++ +P T+ SRGF FVT
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVT 48
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 36/71 (50%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
LYV GL+ V ++ L F G + + ++ T RGFAFV + EDA I
Sbjct: 65 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 124
Query: 132 LNQSVLEGRYI 142
+N+S L GR I
Sbjct: 125 MNESELFGRTI 135
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 37/70 (52%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
++V LS +T D++ F+ GK++ +V + T S+G+ FV+ DAE I ++
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 133 NQSVLEGRYI 142
L GR I
Sbjct: 78 GGQWLGGRQI 87
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 37/70 (52%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
++V LS +T D++ F+ G+++ +V + T S+G+ FV+ DAE I+ +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 133 NQSVLEGRYI 142
L GR I
Sbjct: 78 GGQWLGGRQI 87
>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 = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
+++ GL+ TE +L ++F K G V ++ +P T SRGF F++ + + +K
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK-- 63
Query: 133 NQSVLEGRYI 142
Q +L+G+ I
Sbjct: 64 TQHILDGKVI 73
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERC 128
++V G+ V ++ E+ FS+ G + L+++ T SRGF FVT D + +R
Sbjct: 90 IFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRV 145
>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 = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 38/72 (52%)
Query: 71 NTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIK 130
N +YV + +++ D++ F GK+ SC L +P T +G+ F+ + + ++ +
Sbjct: 111 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 170
Query: 131 YLNQSVLEGRYI 142
+N L G+Y+
Sbjct: 171 SMNLFDLGGQYL 182
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 35/70 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
+YV + + E + + F+ G + S + + T +GFAFV + E A+ ++ +
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 133 NQSVLEGRYI 142
N +L GR I
Sbjct: 76 NSVMLGGRNI 85
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 32/58 (55%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
T+ VT LS E DL++ F G ++ +L + T S+GFAF++ EDA R I
Sbjct: 17 TIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
++V GL T+ L K+F G + ++ + +T SRG+ FVTM AER K
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP 79
Query: 133 NQSVLEGR 140
N +++GR
Sbjct: 80 N-PIIDGR 86
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 40/73 (54%)
Query: 70 GNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
G L+VTG+ TE D+ F++ G++ + L ++ RT +G+ V + ++A+ +
Sbjct: 23 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 82
Query: 130 KYLNQSVLEGRYI 142
+ LN L G+ I
Sbjct: 83 EGLNGQDLMGQPI 95
>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 = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 37/72 (51%)
Query: 71 NTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIK 130
N +YV + +++ D++ F GK+ SC L +P T +G+ F+ + + ++ +
Sbjct: 110 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 169
Query: 131 YLNQSVLEGRYI 142
N L G+Y+
Sbjct: 170 SXNLFDLGGQYL 181
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 32/70 (45%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
+YV + + E + + F+ G + S + T +GFAFV + E A+ ++
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 133 NQSVLEGRYI 142
N L GR I
Sbjct: 75 NSVXLGGRNI 84
>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 = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
TLYV LS TE + + FSK G + + ++ + + + GF FV DAE ++Y
Sbjct: 20 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLD-KMKTACGFCFVEYYSRADAENAMRY 78
Query: 132 LNQSVLEGRYI 142
+N + L+ R I
Sbjct: 79 INGTRLDDRII 89
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 40/73 (54%)
Query: 70 GNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
G L+VTG+ TE D+ F++ G++ + L ++ RT +G+ V + ++A+ +
Sbjct: 9 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 68
Query: 130 KYLNQSVLEGRYI 142
+ LN L G+ I
Sbjct: 69 EGLNGQDLMGQPI 81
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 34/68 (50%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
LYVT L +T+ L+ F K G + ++ + T RG AFV + E+A+ I
Sbjct: 15 NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISA 74
Query: 132 LNQSVLEG 139
LN + EG
Sbjct: 75 LNNVIPEG 82
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 40/73 (54%)
Query: 70 GNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
G L+VTG+ TE D+ F++ G++ + L ++ RT +G+ V + ++A+ +
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 130 KYLNQSVLEGRYI 142
+ LN L G+ I
Sbjct: 67 EGLNGQDLMGQPI 79
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 40/73 (54%)
Query: 70 GNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
G L+VTG+ TE D+ F++ G++ + L ++ RT +G+ V + ++A+ +
Sbjct: 22 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 81
Query: 130 KYLNQSVLEGRYI 142
+ LN L G+ I
Sbjct: 82 EGLNGQDLMGQPI 94
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 69 PGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERC 128
P TL+V GLS TE L++ F +G V +V + T S+GF FV + EDA+
Sbjct: 14 PSKTLFVKGLSEDTTEETLKESF--DGSV-RARIVTDRETGSSKGFGFVDFNSEEDAKAA 70
Query: 129 IKYLNQSVLEGRYI 142
+ + ++G +
Sbjct: 71 KEAMEDGEIDGNKV 84
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 40/73 (54%)
Query: 70 GNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
G L+VTG+ TE D+ F++ G++ + L ++ RT +G+ V + ++A+ +
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 130 KYLNQSVLEGRYI 142
+ LN L G+ I
Sbjct: 67 EGLNGQDLMGQPI 79
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 36/68 (52%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
LYV L +TE L F G++ S L+++ T S+G+ F+T E A++ ++ L
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 133 NQSVLEGR 140
N L GR
Sbjct: 89 NGFELAGR 96
>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 = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 34/68 (50%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
LYVT L +T+ L+ F K G + ++ + T RG AFV + E+A+ I
Sbjct: 102 NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISA 161
Query: 132 LNQSVLEG 139
LN + EG
Sbjct: 162 LNNVIPEG 169
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
L V L T+R+L F G + +C + + +T S G+AFV D++R IK
Sbjct: 16 NLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKV 75
Query: 132 LN 133
LN
Sbjct: 76 LN 77
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 34/68 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
LYV L +TE L F GK+ + L+ + T S+G+ F+T E A R ++ L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 133 NQSVLEGR 140
N L GR
Sbjct: 68 NGFELAGR 75
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFV 117
L+V GL T+ L +FS+ G+V C ++ + T SRGF FV
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFV 63
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 34/67 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
LYVT L +T+ L+ F K G + ++ + T RG AFV + E+A+ I L
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 151
Query: 133 NQSVLEG 139
N + EG
Sbjct: 152 NNVIPEG 158
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L V L +T+R+L F G + +C ++ + +T S G+AFV D++R IK L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 133 N 133
N
Sbjct: 66 N 66
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 40/73 (54%)
Query: 70 GNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
G L+VTG+ TE D+ F++ G++ + L ++ RT +G+ V + ++A+ +
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 130 KYLNQSVLEGRYI 142
+ LN L G+ I
Sbjct: 67 EGLNGQDLMGQPI 79
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 30/55 (54%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAER 127
++V GLS T D++ +F + GKV L+ + T RGF FVT + + E+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEK 56
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
TL ++ LS TE L++ F K A+ V + + S+G+AF+ EDA+ +
Sbjct: 17 TLVLSNLSYSATEETLQEVFEK----ATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNS 72
Query: 132 LNQSVLEGRYI 142
N+ +EGR I
Sbjct: 73 CNKREIEGRAI 83
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 37/72 (51%)
Query: 71 NTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIK 130
N +YV + +++ D++ F GK+ S L +P T +G+ F+ + + ++ +
Sbjct: 126 NRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVS 185
Query: 131 YLNQSVLEGRYI 142
+N L G+Y+
Sbjct: 186 SMNLFDLGGQYL 197
Score = 33.5 bits (75), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 35/70 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
+YV + + E + + F+ G + S + + T +GFAFV + E A+ ++ +
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 133 NQSVLEGRYI 142
N +L GR I
Sbjct: 91 NSVMLGGRNI 100
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 67 GNPGNT-LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDA 125
G+ G++ LY+ GL T++DL K GK+ S +++ T +G+ FV D A
Sbjct: 1 GSSGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAA 60
Query: 126 ERCIKYLNQSVLEGR 140
++ + L S ++ +
Sbjct: 61 QKAVTALKASGVQAQ 75
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 36/76 (47%)
Query: 67 GNPGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAE 126
G P LY+ LS RVTERDL F++ + + T RG AF+T E A
Sbjct: 22 GEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAW 81
Query: 127 RCIKYLNQSVLEGRYI 142
+ + +N L G+ +
Sbjct: 82 QALHLVNGYKLYGKIL 97
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 34/67 (50%)
Query: 67 GNPGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAE 126
G G L++ L ++DL + F G V S + ++ +T +S+ F FV+ D A+
Sbjct: 22 GPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQ 81
Query: 127 RCIKYLN 133
I+ +N
Sbjct: 82 AAIQSMN 88
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L V L +T+R+L F G + +C ++ + +T S G+AFV D++R IK L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 133 N 133
N
Sbjct: 66 N 66
>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 = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 69 PGNT-LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAER 127
PG T L V L +T+ +L FS G+V S L+ + S G+ FV +DAER
Sbjct: 2 PGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAER 61
Query: 128 CIKYLNQSVLEGRYI 142
I LN L+ + I
Sbjct: 62 AINTLNGLRLQSKTI 76
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 41/79 (51%), Gaps = 10/79 (12%)
Query: 66 TGNPGNT--LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVE 123
+G+ GNT ++V +S T ++L F + G+V C +V + +AFV M+
Sbjct: 3 SGSSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVV--------KDYAFVHMEKEA 54
Query: 124 DAERCIKYLNQSVLEGRYI 142
DA+ I LN ++G+ I
Sbjct: 55 DAKAAIAQLNGKEVKGKRI 73
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ +S + TE D+ FS G++ C ++ P +SRG AFVT A+ IK +
Sbjct: 110 LFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDG-LSRGCAFVTFTTRAMAQTAIKAM 168
Query: 133 NQS-VLEG 139
+Q+ +EG
Sbjct: 169 HQAQTMEG 176
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ +S + TE D+ FS G++ C ++ P +SRG AFVT A+ IK +
Sbjct: 98 LFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDG-LSRGCAFVTFTTRAMAQTAIKAM 156
Query: 133 NQS-VLEG 139
+Q+ +EG
Sbjct: 157 HQAQTMEG 164
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 33/66 (50%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
T++ L+ R+ RDLE FS GKV ++ + +R S+G A+V ++ I
Sbjct: 27 TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGL 86
Query: 132 LNQSVL 137
Q +L
Sbjct: 87 TGQRLL 92
>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 = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 34/73 (46%)
Query: 70 GNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
G L V L T+ +L FS G+V S L+ + S G+ FV +DAER I
Sbjct: 19 GTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 78
Query: 130 KYLNQSVLEGRYI 142
LN L+ + I
Sbjct: 79 NTLNGLRLQSKTI 91
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 71 NTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIK 130
NT++V G+ R+ E ++ F++ G V ++ + RT +S+G+ FV+ D ++ ++
Sbjct: 11 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVE 69
>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 = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 2/71 (2%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
+++ L + + L FS G + SC +V + S+G+ FV + E AER I+
Sbjct: 7 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEK 64
Query: 132 LNQSVLEGRYI 142
+N +L R +
Sbjct: 65 MNGMLLNDRKV 75
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 71 NTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIK 130
NT++V G+ R+ E ++ F++ G V ++ + RT +S+G+ FV+ D ++ ++
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVE 68
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 2/71 (2%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
+++ L + + L FS G + SC +V + S+G+ FV + E AER I+
Sbjct: 13 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEK 70
Query: 132 LNQSVLEGRYI 142
+N +L R +
Sbjct: 71 MNGMLLNDRKV 81
>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 = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 71 NTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIK 130
NT++V G+ R+ E ++ F++ G V ++ + RT +S+G+ FV+ D ++ ++
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIVE 68
>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 = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ +S + TE D+ FS G++ C ++ P +SRG AFVT A+ IK
Sbjct: 98 LFIGXISKKCTENDIRVXFSSFGQIEECRILRGPDG-LSRGCAFVTFTTRAXAQTAIKAX 156
Query: 133 NQS 135
+Q+
Sbjct: 157 HQA 159
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 36.2 bits (82), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 33/70 (47%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L V L +T+ + + F G + SC LV + T S G+ FV DA++ I L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 133 NQSVLEGRYI 142
N L+ + I
Sbjct: 67 NGLKLQTKTI 76
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 67 GNPGNT-LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPR---TRISRGFAFVTMDGV 122
G+ G++ L++ L+ TE L+ FSK G + SC + + +S GF FV
Sbjct: 1 GSSGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKP 60
Query: 123 EDAERCIKYLNQSVLEGRYI 142
E A++ +K L ++G +
Sbjct: 61 EQAQKALKQLQGHTVDGHKL 80
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 41/70 (58%), Gaps = 4/70 (5%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L V GL + TE+DL+++FS G+V + + +T S+GF FV + E +K +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRF---TEYETQVKVM 74
Query: 133 NQ-SVLEGRY 141
+Q +++GR+
Sbjct: 75 SQRHMIDGRW 84
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 8/71 (11%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
L+V L+ VTE LEK FS+ GK+ R + + +AF+ D + A + ++
Sbjct: 13 VLFVRNLANTVTEEILEKAFSQFGKL--------ERVKKLKDYAFIHFDERDGAVKAMEE 64
Query: 132 LNQSVLEGRYI 142
+N LEG I
Sbjct: 65 MNGKDLEGENI 75
>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 = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 33/71 (46%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
TL+V ++ TE L + F G + +V R+ RG+AF+ + D K+
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 132 LNQSVLEGRYI 142
+ ++GR +
Sbjct: 164 ADGKKIDGRRV 174
>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 = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 35/76 (46%)
Query: 67 GNPGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAE 126
G+ TL+V ++ TE L + F G + +V R+ RG+AF+ + D
Sbjct: 99 GDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMH 158
Query: 127 RCIKYLNQSVLEGRYI 142
K+ + ++GR +
Sbjct: 159 SAYKHADGKKIDGRRV 174
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 42/71 (59%), Gaps = 1/71 (1%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVE-PRTRISRGFAFVTMDGVEDAERCIKY 131
+++ L+ VT+ + + FS GK+ + VE +S+G+A+V + ++AE+ +K+
Sbjct: 7 VHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKH 66
Query: 132 LNQSVLEGRYI 142
++ ++G+ I
Sbjct: 67 MDGGQIDGQEI 77
>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
Length = 161
Score = 34.7 bits (78), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
TL++T T+R++ VA + R SR FA++ + EDA C++
Sbjct: 82 TLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEK 141
Query: 132 LNQSVLEG 139
LN +EG
Sbjct: 142 LNGLKIEG 149
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 34.7 bits (78), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 5/67 (7%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
+YV L T + +LE+ FS G + + ++ P GFAFV + DAE ++ L
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPP-----GFAFVEFEDPRDAEDAVRGL 57
Query: 133 NQSVLEG 139
+ V+ G
Sbjct: 58 DGKVICG 64
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 34.7 bits (78), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 31/68 (45%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
TL+ T T+R++ VA + R SR FA++ + EDA C++
Sbjct: 119 TLWXTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEK 178
Query: 132 LNQSVLEG 139
LN +EG
Sbjct: 179 LNGLKIEG 186
>pdb|2KH9|A Chain A, Solution Structure Of Yeast Prp24-Rrm2 Bound To A Fragment
Of U6 Rna
Length = 92
Score = 34.7 bits (78), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
TL++T T+R++ VA + R SR FA++ + EDA C++
Sbjct: 5 TLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEK 64
Query: 132 LNQSVLEG 139
LN +EG
Sbjct: 65 LNGLKIEG 72
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 34.7 bits (78), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 14/67 (20%), Positives = 32/67 (47%)
Query: 71 NTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIK 130
N ++V G+ E +L ++F K G V ++ + + RGF F+T + + ++ +
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN 70
Query: 131 YLNQSVL 137
++
Sbjct: 71 MHFHDIM 77
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 34.3 bits (77), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 8/68 (11%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L+V +S T ++L F + G V C +V + +AFV M+ EDA I+ L
Sbjct: 13 LHVGNISPTCTNQELRAKFEEYGPVIECDIV--------KDYAFVHMERAEDAVEAIRGL 64
Query: 133 NQSVLEGR 140
+ + +G+
Sbjct: 65 DNTEFQGK 72
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 34.3 bits (77), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 38/73 (52%)
Query: 70 GNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
G L+VT + E ++++ F G++ + L ++ RT S+G+A V + + A
Sbjct: 26 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAK 85
Query: 130 KYLNQSVLEGRYI 142
+ LN + + G+ I
Sbjct: 86 EALNGAEIMGQTI 98
>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 = 34.3 bits (77), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%)
Query: 69 PGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERC 128
P +Y+ + TE + S G V + ++ +P+T S+G+AF+ +E +
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 62
Query: 129 IKYLNQSVLEGRYI 142
++ LN L R++
Sbjct: 63 VRNLNGYQLGSRFL 76
>pdb|2CPI|A Chain A, Solution Structure Of The Rna Recognition Motif Of Cnot4
Length = 111
Score = 34.3 bits (77), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 6/76 (7%)
Query: 71 NTLYVTGLSTRVTERDLEK---HFSKEGKVASCFLVVEPRTRISRG---FAFVTMDGVED 124
N ++V GLS R+ + ++ K +F K GK+ + S+G A+VT ED
Sbjct: 16 NLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSED 75
Query: 125 AERCIKYLNQSVLEGR 140
A R I+ +N V++GR
Sbjct: 76 ALRAIQCVNNVVVDGR 91
>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 = 34.3 bits (77), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 38/73 (52%)
Query: 70 GNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
G L+VT + E ++++ F G++ + L ++ RT S+G+A V + + A
Sbjct: 72 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAK 131
Query: 130 KYLNQSVLEGRYI 142
+ LN + + G+ I
Sbjct: 132 EALNGAEIMGQTI 144
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 34.3 bits (77), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 33/72 (45%), Gaps = 10/72 (13%)
Query: 73 LYVTGLSTRVTERDLEKHFS--KEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIK 130
LYV L +E +EK F+ K G V R + R +AFV EDA +K
Sbjct: 18 LYVRNLMLSTSEEMIEKEFNNIKPGAVE--------RVKKIRDYAFVHFSNREDAVEAMK 69
Query: 131 YLNQSVLEGRYI 142
LN VL+G I
Sbjct: 70 ALNGKVLDGSPI 81
>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 = 33.9 bits (76), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%)
Query: 69 PGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERC 128
P +Y+ + TE + S G V + ++ +P+T S+G+AF+ +E +
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 61
Query: 129 IKYLNQSVLEGRYI 142
++ LN L R++
Sbjct: 62 VRNLNGYQLGSRFL 75
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 33.9 bits (76), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 34/70 (48%), Gaps = 1/70 (1%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
+YV L T +++ FS+ GKV + L+ + T+ +GF FV M E I L
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAKL 62
Query: 133 NQSVLEGRYI 142
+ + GR I
Sbjct: 63 DNTDFMGRTI 72
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 33.9 bits (76), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 36/74 (48%)
Query: 69 PGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERC 128
P +Y+ + TE + S G V + ++ +P+T S+G+AF+ +E +
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 129 IKYLNQSVLEGRYI 142
++ LN L R++
Sbjct: 61 VRNLNGYQLGSRFL 74
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
LYV L +TE L+++F G +A+ ++++ + + +AFV DA ++
Sbjct: 2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNK-NVNYAFVEYHQSHDANIALQT 60
Query: 132 LNQSVLEGRYI 142
LN +E +
Sbjct: 61 LNGKQIENNIV 71
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 31/69 (44%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
L+V L+ V + L F S ++ + +T SRG+ FV+ +DA+ +
Sbjct: 89 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 148
Query: 132 LNQSVLEGR 140
+ L GR
Sbjct: 149 MQGQDLNGR 157
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 7/75 (9%)
Query: 68 NPGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAER 127
+P N LY++ L + E++LE G+V S ++ + + SRG F M+ E E
Sbjct: 24 DPTN-LYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEA 81
Query: 128 CIKYLNQSVLEGRYI 142
I + N G++I
Sbjct: 82 VIGHFN-----GKFI 91
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 37/71 (52%), Gaps = 6/71 (8%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
T+Y G+++ +T++ + + FS G++ +E R +G++FV E A I
Sbjct: 27 TVYCGGIASGLTDQLMRQTFSPFGQI------MEIRVFPEKGYSFVRFSTHESAAHAIVS 80
Query: 132 LNQSVLEGRYI 142
+N + +EG +
Sbjct: 81 VNGTTIEGHVV 91
>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 = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 31/69 (44%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
L+V L+ V + L F S ++ + +T SRG+ FV+ +DA+ +
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 132 LNQSVLEGR 140
+ L GR
Sbjct: 63 MQGQDLNGR 71
>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 = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%)
Query: 82 VTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIK 130
V ++ L FSK GKV + ++ T ++GF FV + DA++ IK
Sbjct: 24 VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIK 72
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 5/69 (7%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
TLYV GL +TE DL HF + G++ + +V + F T E A K
Sbjct: 14 TLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAF---IQFATRQAAEVAAE--KS 68
Query: 132 LNQSVLEGR 140
N+ ++ GR
Sbjct: 69 FNKLIVNGR 77
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 6/68 (8%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L+V L T +TE D ++ F + G+ + F+ RGF F+ ++ AE L
Sbjct: 25 LFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEIAKAEL 78
Query: 133 NQSVLEGR 140
+ ++L+ R
Sbjct: 79 DGTILKSR 86
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI--K 130
++V GLS E + ++F G+V S L ++ +T RGF F+T E ++ + K
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 131 YLN 133
Y N
Sbjct: 62 YHN 64
>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 = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%)
Query: 82 VTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIK 130
V ++ L FSK GKV + ++ T ++GF FV + DA++ IK
Sbjct: 24 VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIK 72
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
LYV L + + L K FS G + S +++E S+GF FV E+A + + +
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGR--SKGFGFVCFSSPEEATKAVTEM 75
Query: 133 NQSVL 137
N ++
Sbjct: 76 NGRIV 80
>pdb|2ADC|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd34 Complexed With Cucucu Rna
pdb|2EVZ|A Chain A, Structure Of Rna Binding Domains 3 And 4 Of Polypyrimidine
Tract Binding Protein
Length = 229
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 69 PGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERC 128
P TL+++ + V+E DL+ FS G V F + R A + M VE+A +
Sbjct: 150 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK----DRKMALIQMGSVEEAVQA 205
Query: 129 I 129
+
Sbjct: 206 L 206
>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 = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI--K 130
++V GLS E + ++F G+V S L ++ +T RGF F+T E ++ + K
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 63
Query: 131 YLN 133
Y N
Sbjct: 64 YHN 66
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 69 PGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERC 128
P TL+++ + V+E DL+ FS G V F + R A + M VE+A +
Sbjct: 119 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK----DRKMALIQMGSVEEAVQA 174
Query: 129 I 129
+
Sbjct: 175 L 175
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 34/70 (48%), Gaps = 3/70 (4%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
LY+ L ++T ++ F K G + + P TR G A+V + + DA+ + +L
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETR---GTAYVVYEDIFDAKNAVDHL 67
Query: 133 NQSVLEGRYI 142
+ + RY+
Sbjct: 68 SGFNVSNRYL 77
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 30.8 bits (68), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 32/71 (45%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
+++V + TE L+ FS+ G V S LV + T +G+ F E A ++
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 132 LNQSVLEGRYI 142
LN GR +
Sbjct: 70 LNGREFSGRAL 80
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 30.8 bits (68), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 9/71 (12%)
Query: 73 LYVTGLSTRVTER-DLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
+++ L+T + ++ D+E FSK G+VA C + +G+AFV A +
Sbjct: 30 VFIGNLNTALVKKSDVETIFSKYGRVAGC--------SVHKGYAFVQYSNERHARAAVLG 81
Query: 132 LNQSVLEGRYI 142
N VL G+ +
Sbjct: 82 ENGRVLAGQTL 92
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical
Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens
At 1.95 A Resolution
Length = 89
Score = 30.4 bits (67), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 33/71 (46%), Gaps = 1/71 (1%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
++YV + T +LE HF G V ++ + + +GFA++ E +
Sbjct: 8 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA- 66
Query: 132 LNQSVLEGRYI 142
L++S+ GR I
Sbjct: 67 LDESLFRGRQI 77
>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 = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
++YV + T +DLE HFS G + ++ + + +G+A++ + +
Sbjct: 38 SVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVA- 96
Query: 132 LNQSVLEGRYI 142
++++V GR I
Sbjct: 97 MDETVFRGRTI 107
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVV-EPRTRISRGFAFVTMDGVEDAERCIKY 131
+++ L + E+ L FS G + ++ +P T S+G+AF+ + ++ I+
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 132 LNQSVLEGRYI 142
+N L R I
Sbjct: 68 MNGQYLCNRPI 78
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 25/55 (45%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAER 127
L V L +T++ E+ G + CFLV RT S+G+ F + A R
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAAR 150
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFV 117
L V L +T++ E+ G + CFLV RT S+G+ F
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFA 142
>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 = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 33/71 (46%), Gaps = 1/71 (1%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
++YV + T +LE HF G V ++ + + +GFA++ E +
Sbjct: 7 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA- 65
Query: 132 LNQSVLEGRYI 142
L++S+ GR I
Sbjct: 66 LDESLFRGRQI 76
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFV 117
L V L +T++ E+ G + CFLV RT S+G+ F
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFA 142
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 9/46 (19%)
Query: 73 LYVTGLSTRVTER-DLEKHFSKEGKVASCFLVVEPRTRISRGFAFV 117
+++ L+T V ++ D+E FSK GK+ C + +GFAFV
Sbjct: 18 VFIGNLNTLVVKKSDVEAIFSKYGKIVGC--------SVHKGFAFV 55
>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 = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 25/48 (52%)
Query: 95 GKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYLNQSVLEGRYI 142
G+++ +V + T S+G+ FV+ DAE I+ + L GR I
Sbjct: 31 GRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI 78
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%)
Query: 70 GNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCI 129
G T+++ LS E L + + G + +V+ P T S+G AF E A++C+
Sbjct: 15 GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCL 74
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 11/63 (17%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
L+V L+T VTE LEK FS+ GK+ R + + +AFV ED +K
Sbjct: 17 VLFVRNLATTVTEEILEKSFSEFGKLE--------RVKKLKDYAFVHF---EDRGAAVKA 65
Query: 132 LNQ 134
+++
Sbjct: 66 MDE 68
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 32/70 (45%), Gaps = 8/70 (11%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ L TE+++ F + GKV C ++ + + FV ++ AE I+ L
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRNL 62
Query: 133 NQSVLEGRYI 142
+ L G I
Sbjct: 63 HHYKLHGVNI 72
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 6/70 (8%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L+V L +TE ++ K F K GK F+ +GF F+ ++ AE L
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGEVFI------HKDKGFGFIRLETRTLAEIAKVEL 78
Query: 133 NQSVLEGRYI 142
+ L G+ +
Sbjct: 79 DNMPLRGKQL 88
>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 = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 6/70 (8%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L+V L +TE ++ K F K GK F+ +GF F+ ++ AE L
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFI------HKDKGFGFIRLETRTLAEIAKVEL 71
Query: 133 NQSVLEGRYI 142
+ L G+ +
Sbjct: 72 DNMPLRGKQL 81
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 20/34 (58%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVE 105
TLYV LS VTE + + FS+ G SC ++ E
Sbjct: 17 TLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITE 50
>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 = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 31/61 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ GL + + +++ + G + + LV + T +S+G+AF + ++ I L
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 158
Query: 133 N 133
N
Sbjct: 159 N 159
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 33/71 (46%), Gaps = 3/71 (4%)
Query: 72 TLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKY 131
LY+ L ++T ++ F K G + + P T RG A+V + + DA+ +
Sbjct: 14 ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPET---RGTAYVVYEDIFDAKNACDH 70
Query: 132 LNQSVLEGRYI 142
L+ + RY+
Sbjct: 71 LSGFNVCNRYL 81
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 3/70 (4%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
LY+ L ++T ++ F K G + + P T RG A+V + + DA+ +L
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPET---RGTAYVVYEDIFDAKNACDHL 77
Query: 133 NQSVLEGRYI 142
+ + RY+
Sbjct: 78 SGFNVCNRYL 87
>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 = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 31/61 (50%)
Query: 73 LYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYL 132
L++ GL + + +++ + G + + LV + T +S+G+AF + ++ I L
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 176
Query: 133 N 133
N
Sbjct: 177 N 177
>pdb|3S8S|A Chain A, Crystal Structure Of The Rrm Domain Of Human Setd1a
Length = 110
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 30/65 (46%)
Query: 78 LSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERCIKYLNQSVL 137
L+ V E L+ K G+V +++ PRTR G A V A+ +K L+ + +
Sbjct: 14 LNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSV 73
Query: 138 EGRYI 142
G I
Sbjct: 74 MGNII 78
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 69 PG-NTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAER 127
PG + L++ GL + + +++ + G + + LV + T +S+G+AF + ++
Sbjct: 92 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 151
Query: 128 CIKYLN 133
I LN
Sbjct: 152 AIAGLN 157
>pdb|3UFB|A Chain A, Crystal Structure Of A Modification Subunit Of A Putative
Type I Restriction Enzyme From Vibrio Vulnificus Yj016
Length = 530
Score = 27.7 bits (60), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 32/72 (44%), Gaps = 4/72 (5%)
Query: 69 PGNTLYVTGLSTRVTERDLEKHFSKEGKVASCFLVVEPRTRISRGFAFVTMDGVEDAERC 128
P TL+ G+S R+ E +L K+F+ V V P T I+ F G D
Sbjct: 363 PNGTLFSDGISARIKE-ELLKNFNLHTIVRLPEGVFAPYTDIAGNLLFFDRSGPTDD--- 418
Query: 129 IKYLNQSVLEGR 140
I Y +V EGR
Sbjct: 419 IWYYQITVPEGR 430
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 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,331,519
Number of Sequences: 62578
Number of extensions: 84872
Number of successful extensions: 345
Number of sequences better than 100.0: 137
Number of HSP's better than 100.0 without gapping: 100
Number of HSP's successfully gapped in prelim test: 37
Number of HSP's that attempted gapping in prelim test: 212
Number of HSP's gapped (non-prelim): 156
length of query: 238
length of database: 14,973,337
effective HSP length: 96
effective length of query: 142
effective length of database: 8,965,849
effective search space: 1273150558
effective search space used: 1273150558
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: 50 (23.9 bits)