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= 020844
(320 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 114 bits (285), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 51/90 (56%), Positives = 70/90 (77%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
+SGQ++DTS HF++FVGDLSPE+T + A F+ + SDARV+ D TG+S+G+GFVSF
Sbjct: 5 SSGQKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSF 64
Query: 83 RNQQDAQSAINDLTGKWLGSRQIRCNWATK 112
N+ DA++AI + G+WLG RQIR NWAT+
Sbjct: 65 FNKWDAENAIQQMGGQWLGGRQIRTNWATR 94
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/106 (31%), Positives = 58/106 (54%), Gaps = 18/106 (16%)
Query: 132 TNGSSEDGKETTNTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLG----AGVIEEVR 187
++GSS K+T+N + V+VG+L+PE+T D+ F G A V++++
Sbjct: 2 SSGSSGQKKDTSN---------HFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMA 52
Query: 188 VQRDKGFGFVRYSTHAEAALAI-QMGNTTQSSYLFGKQMKCSWGSK 232
+ KG+GFV + +A AI QMG +L G+Q++ +W ++
Sbjct: 53 TGKSKGYGFVSFFNKWDAENAIQQMGG----QWLGGRQIRTNWATR 94
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 113 bits (283), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 50/90 (55%), Positives = 70/90 (77%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
+SGQ++DTS HF++FVGDLSPE+T + + F+ + SDARV+ D TG+S+G+GFVSF
Sbjct: 5 SSGQKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSF 64
Query: 83 RNQQDAQSAINDLTGKWLGSRQIRCNWATK 112
N+ DA++AI + G+WLG RQIR NWAT+
Sbjct: 65 YNKLDAENAIVHMGGQWLGGRQIRTNWATR 94
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 57/106 (53%), Gaps = 18/106 (16%)
Query: 132 TNGSSEDGKETTNTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLG----AGVIEEVR 187
++GSS K+T+N + V+VG+L+PE+T D+ F G A V++++
Sbjct: 2 SSGSSGQKKDTSN---------HFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMA 52
Query: 188 VQRDKGFGFVRYSTHAEAALAI-QMGNTTQSSYLFGKQMKCSWGSK 232
+ KG+GFV + +A AI MG +L G+Q++ +W ++
Sbjct: 53 TGKSKGYGFVSFYNKLDAENAIVHMGG----QWLGGRQIRTNWATR 94
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 108 bits (269), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 51/112 (45%), Positives = 73/112 (65%), Gaps = 1/112 (0%)
Query: 1 MAILSLNGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSC 60
+A+ +LNG+ + +K+NWA+ S Q+ + FN+FVGDL+ V D TL F +PS
Sbjct: 56 IALQTLNGKQIENNIVKINWAFQS-QQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSY 114
Query: 61 SDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNWATK 112
VMWD +TG SRG+GFVSF +Q DAQ+A++ + G+ L R +R NWA K
Sbjct: 115 LSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK 166
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 45/201 (22%), Positives = 87/201 (43%), Gaps = 41/201 (20%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG+L +T+ L F V ++ ++M D K ++ + FV + DA A+ L
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMID-KNNKNVNYAFVEYHQSHDANIALQTL 61
Query: 96 TGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQYT 155
GK + + ++ NWA + +QSS +T N
Sbjct: 62 NGKQIENNIVKINWAFQS------QQSS---------------SDDTFN----------- 89
Query: 156 TVYVGNLAPEVTQLDLHRHFHS----LGAGVIEEVRVQRDKGFGFVRYSTHAEAALAIQM 211
++VG+L V L F L V+ +++ +G+GFV +++ +A A+
Sbjct: 90 -LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM-- 146
Query: 212 GNTTQSSYLFGKQMKCSWGSK 232
++ Q L G+ ++ +W +K
Sbjct: 147 -DSMQGQDLNGRPLRINWAAK 166
>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 = 90.9 bits (224), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 46/80 (57%), Positives = 62/80 (77%)
Query: 33 HFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAI 92
HF++FVGDLSPE+T A + A F+ + SDARV+ D TG+S+G+GFVSF N+ DA++AI
Sbjct: 6 HFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAI 65
Query: 93 NDLTGKWLGSRQIRCNWATK 112
+ G+WLG RQIR NWAT+
Sbjct: 66 QQMGGQWLGGRQIRTNWATR 85
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 46/81 (56%), Gaps = 9/81 (11%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLG----AGVIEEVRVQRDKGFGFVRYSTHAEAALAI-QM 211
V+VG+L+PE+T + F G A V++++ + KG+GFV + +A AI QM
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 212 GNTTQSSYLFGKQMKCSWGSK 232
G +L G+Q++ +W ++
Sbjct: 69 G----GQWLGGRQIRTNWATR 85
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 87.8 bits (216), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 41/79 (51%), Positives = 53/79 (67%)
Query: 34 FNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIN 93
FN+FVGDL+ V D TL F +PS VMWD +TG SRG+GFVSF +Q DAQ+A++
Sbjct: 2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 61
Query: 94 DLTGKWLGSRQIRCNWATK 112
+ G+ L R +R NWA K
Sbjct: 62 SMQGQDLNGRPLRINWAAK 80
Score = 30.8 bits (68), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 40/80 (50%), Gaps = 7/80 (8%)
Query: 157 VYVGNLAPEVTQLDLHRHFHS----LGAGVIEEVRVQRDKGFGFVRYSTHAEAALAIQMG 212
++VG+L V L F L V+ +++ +G+GFV +++ +A A+
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM--- 60
Query: 213 NTTQSSYLFGKQMKCSWGSK 232
++ Q L G+ ++ +W +K
Sbjct: 61 DSMQGQDLNGRPLRINWAAK 80
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 68.2 bits (165), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 35/81 (43%), Positives = 50/81 (61%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FVG LS + + +L FS Y S+ V+ D++T RSRGFGFV+F N DA+ A+ +
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 96 TGKWLGSRQIRCNWATKGAGN 116
GK + RQIR + A K + N
Sbjct: 75 NGKSVDGRQIRVDQAGKSSDN 95
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 7/80 (8%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLG----AGVIEEVRVQRDKGFGFVRYSTHAEAALAIQMG 212
++VG L+ + + L + F G V+++ QR +GFGFV + +A A+
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 213 NTTQSSYLFGKQMKCSWGSK 232
N + G+Q++ K
Sbjct: 75 N---GKSVDGRQIRVDQAGK 91
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 65.5 bits (158), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 48/183 (26%), Positives = 76/183 (41%), Gaps = 39/183 (21%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
N+ V L ++TD L+A F + R+M D KTG S G+ FV F ++ D+Q AI
Sbjct: 5 NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKV 64
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
L G + +++++ ++A G + +D
Sbjct: 65 LNGITVRNKRLKVSYARPGGESIKD----------------------------------- 89
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGA----GVIEEVRVQRDKGFGFVRYSTHAEAALAIQ 210
T +YV NL +T L F G+ ++ + R +G FVRY+ EA AI
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 149
Query: 211 MGN 213
N
Sbjct: 150 ALN 152
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 52/95 (54%), Gaps = 5/95 (5%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASGQR-EDTSGHFNIFVGDLSPEVTDATLFACFSVYPSC 60
AI LNG + + +KV++A G+ +DT N++V +L +TD L F Y S
Sbjct: 61 AIKVLNGITVRNKRLKVSYARPGGESIKDT----NLYVTNLPRTITDDQLDTIFGKYGSI 116
Query: 61 SDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++ D+ TGR RG FV + +++AQ AI+ L
Sbjct: 117 VQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 151
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 63.2 bits (152), Expect = 2e-10, Method: Composition-based stats.
Identities = 35/92 (38%), Positives = 55/92 (59%), Gaps = 3/92 (3%)
Query: 25 GQREDTSGHFNIFVGDLSPEVTDATLFACF-SVYPSCSDARVMWDQKTGRSRGFGFVSFR 83
G + +++FVGDL+P+V D L+ F VYPSC +V+ DQ TG S+G+GFV F
Sbjct: 1 GSSGSSGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFT 59
Query: 84 NQQDAQSAINDLTGK-WLGSRQIRCNWATKGA 114
++ + + A+ + G LGS+ +R + A A
Sbjct: 60 DELEQKRALTECQGAVGLGSKPVRLSVAIPKA 91
Score = 28.5 bits (62), Expect = 5.6, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 36/66 (54%), Gaps = 9/66 (13%)
Query: 150 NNPQYTTVYVGNLAPEVTQLDLHRHFHSL------GAGVIEEVRVQRDKGFGFVRYSTHA 203
+ P+Y+ ++VG+L P+V L+ F + G V+++ V KG+GFV+++
Sbjct: 6 SGPEYS-LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVS--KGYGFVKFTDEL 62
Query: 204 EAALAI 209
E A+
Sbjct: 63 EQKRAL 68
>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 = 61.2 bits (147), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 47/183 (25%), Positives = 74/183 (40%), Gaps = 39/183 (21%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
N+ V L + TD L+A F + R+ D KTG S G+ FV F ++ D+Q AI
Sbjct: 16 NLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKV 75
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
L G + +++++ ++A G + +D
Sbjct: 76 LNGITVRNKRLKVSYARPGGESIKD----------------------------------- 100
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGA----GVIEEVRVQRDKGFGFVRYSTHAEAALAIQ 210
T +YV NL +T L F G+ ++ + R +G FVRY+ EA AI
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 160
Query: 211 MGN 213
N
Sbjct: 161 ALN 163
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 52/95 (54%), Gaps = 5/95 (5%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASGQR-EDTSGHFNIFVGDLSPEVTDATLFACFSVYPSC 60
AI LNG + + +KV++A G+ +DT N++V +L +TD L F Y S
Sbjct: 72 AIKVLNGITVRNKRLKVSYARPGGESIKDT----NLYVTNLPRTITDDQLDTIFGKYGSI 127
Query: 61 SDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++ D+ TGR RG FV + +++AQ AI+ L
Sbjct: 128 VQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 162
>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 = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 48/186 (25%), Positives = 75/186 (40%), Gaps = 39/186 (20%)
Query: 32 GHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSA 91
G N+ V L +T L + FS A+++ D+ G S G+GFV++ +DA+ A
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 92 INDLTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENN 151
IN L G L S+ I+ ++A SSE K+
Sbjct: 61 INTLNGLRLQSKTIKVSYA----------------------RPSSEVIKD---------- 88
Query: 152 PQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR----DKGFGFVRYSTHAEAAL 207
+Y+ L +TQ D+ F G + V V + +G F+R+ +EA
Sbjct: 89 ---ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEE 145
Query: 208 AIQMGN 213
AI N
Sbjct: 146 AITSFN 151
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 49/96 (51%), Gaps = 3/96 (3%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCS 61
AI +LNG L + IKV++A S + N+++ L +T + FS +
Sbjct: 60 AINTLNGLRLQSKTIKVSYARPSSE---VIKDANLYISGLPRTMTQKDVEDMFSRFGRII 116
Query: 62 DARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTG 97
++RV+ DQ TG SRG F+ F + +A+ AI G
Sbjct: 117 NSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 39/82 (47%), Gaps = 11/82 (13%)
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDK------GFGFVRYSTHAEAALA 208
T + V L +TQ +L F S+G +E ++ RDK G+GFV Y T +A A
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGE--VESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 209 IQMGNTTQSSYLFGKQMKCSWG 230
I NT L K +K S+
Sbjct: 61 I---NTLNGLRLQSKTIKVSYA 79
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 48/186 (25%), Positives = 75/186 (40%), Gaps = 39/186 (20%)
Query: 32 GHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSA 91
G N+ V L +T L + FS A+++ D+ G S G+GFV++ +DA+ A
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 92 INDLTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENN 151
IN L G L S+ I+ ++A SSE K+
Sbjct: 61 INTLNGLRLQSKTIKVSYA----------------------RPSSEVIKD---------- 88
Query: 152 PQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR----DKGFGFVRYSTHAEAAL 207
+Y+ L +TQ D+ F G + V V + +G F+R+ +EA
Sbjct: 89 ---ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEE 145
Query: 208 AIQMGN 213
AI N
Sbjct: 146 AITSFN 151
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 49/96 (51%), Gaps = 3/96 (3%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCS 61
AI +LNG L + IKV++A S + N+++ L +T + FS +
Sbjct: 60 AINTLNGLRLQSKTIKVSYARPSSE---VIKDANLYISGLPRTMTQKDVEDMFSRFGRII 116
Query: 62 DARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTG 97
++RV+ DQ TG SRG F+ F + +A+ AI G
Sbjct: 117 NSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNG 152
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 39/82 (47%), Gaps = 11/82 (13%)
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDK------GFGFVRYSTHAEAALA 208
T + V L +TQ +L F S+G +E ++ RDK G+GFV Y T +A A
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGE--VESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 209 IQMGNTTQSSYLFGKQMKCSWG 230
I NT L K +K S+
Sbjct: 61 I---NTLNGLRLQSKTIKVSYA 79
>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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 41/180 (22%), Positives = 73/180 (40%), Gaps = 39/180 (21%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
N+ V L +T + F +++ D+ TG+S G+GFV++ + +DA+ AIN
Sbjct: 4 NLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINT 63
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
L G L ++ I+ ++A + + D
Sbjct: 64 LNGLRLQTKTIKVSYARPSSASIRD----------------------------------- 88
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR----DKGFGFVRYSTHAEAALAIQ 210
+YV L +TQ +L + F G + + V + +G GF+R+ EA AI+
Sbjct: 89 ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK 148
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 51/97 (52%), Gaps = 3/97 (3%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCS 61
AI +LNG L + IKV++A S + N++V L +T L FS Y
Sbjct: 60 AINTLNGLRLQTKTIKVSYARPSSA---SIRDANLYVSGLPKTMTQKELEQLFSQYGRII 116
Query: 62 DARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTGK 98
+R++ DQ TG SRG GF+ F + +A+ AI L G+
Sbjct: 117 TSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQ 153
>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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 45/181 (24%), Positives = 76/181 (41%), Gaps = 35/181 (19%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+++VGDL P+VT+A L+ FS RV D T RS G+ +V+F+ DA+ A++
Sbjct: 17 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 76
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
+ + + +R W+ + S KS V
Sbjct: 77 MNFDVIKGKPVRIMWSQ--------RDPSLRKSGV------------------------- 103
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD--KGFGFVRYSTHAEAALAIQMG 212
+++ NL + L+ F + G + +V + KG+GFV + T A AI+
Sbjct: 104 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM 163
Query: 213 N 213
N
Sbjct: 164 N 164
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 31/107 (28%), Positives = 59/107 (55%), Gaps = 9/107 (8%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASGQREDT---SGHFNIFVGDLSPEVTDATLFACFSVYP 58
A+ ++N + G+P+++ W+ QR+ + SG NIF+ +L + + L+ FS +
Sbjct: 73 ALDTMNFDVIKGKPVRIMWS----QRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFG 128
Query: 59 SCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQI 105
+ +V+ D+ S+G+GFV F Q+ A+ AI + G L R++
Sbjct: 129 NILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKMNGMLLNDRKV 173
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 44/89 (49%), Gaps = 13/89 (14%)
Query: 152 PQY--TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDK------GFGFVRYSTHA 203
P Y ++YVG+L P+VT+ L+ F AG I +RV RD G+ +V + A
Sbjct: 11 PSYPMASLYVGDLHPDVTEAMLYEKFSP--AGPILSIRVCRDMITRRSLGYAYVNFQQPA 68
Query: 204 EAALAIQMGNTTQSSYLFGKQMKCSWGSK 232
+A A+ +T + GK ++ W +
Sbjct: 69 DAERAL---DTMNFDVIKGKPVRIMWSQR 94
>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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 45/181 (24%), Positives = 76/181 (41%), Gaps = 35/181 (19%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+++VGDL P+VT+A L+ FS RV D T RS G+ +V+F+ DA+ A++
Sbjct: 12 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 71
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
+ + + +R W+ + S KS V
Sbjct: 72 MNFDVIKGKPVRIMWSQ--------RDPSLRKSGV------------------------- 98
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD--KGFGFVRYSTHAEAALAIQMG 212
+++ NL + L+ F + G + +V + KG+GFV + T A AI+
Sbjct: 99 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM 158
Query: 213 N 213
N
Sbjct: 159 N 159
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 31/107 (28%), Positives = 59/107 (55%), Gaps = 9/107 (8%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASGQREDT---SGHFNIFVGDLSPEVTDATLFACFSVYP 58
A+ ++N + G+P+++ W+ QR+ + SG NIF+ +L + + L+ FS +
Sbjct: 68 ALDTMNFDVIKGKPVRIMWS----QRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFG 123
Query: 59 SCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQI 105
+ +V+ D+ S+G+GFV F Q+ A+ AI + G L R++
Sbjct: 124 NILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKMNGMLLNDRKV 168
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 44/89 (49%), Gaps = 13/89 (14%)
Query: 152 PQY--TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDK------GFGFVRYSTHA 203
P Y ++YVG+L P+VT+ L+ F AG I +RV RD G+ +V + A
Sbjct: 6 PSYPMASLYVGDLHPDVTEAMLYEKFSP--AGPILSIRVCRDMITRRSLGYAYVNFQQPA 63
Query: 204 EAALAIQMGNTTQSSYLFGKQMKCSWGSK 232
+A A+ +T + GK ++ W +
Sbjct: 64 DAERAL---DTMNFDVIKGKPVRIMWSQR 89
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+F+G L+ E + L A F + S+ ++ D +T +SRGF F++F N DA++A D+
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKD-RTSKSRGFAFITFENPADAKNAAKDM 68
Query: 96 TGKWLGSRQIRCNWATK 112
GK L + I+ A K
Sbjct: 69 NGKSLHGKAIKVEQAKK 85
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 42/75 (56%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG L+ EV D L A F + +D ++ D +T + RGF FV F +DA +AI+++
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 125
Query: 96 TGKWLGSRQIRCNWA 110
L R IR N A
Sbjct: 126 NESELFGRTIRVNLA 140
Score = 36.2 bits (82), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 11/77 (14%)
Query: 156 TVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYSTHAEAALAI 209
+YVG LA EV LH F G I ++++ D +GF FV + +AA AI
Sbjct: 65 VLYVGGLAEEVDDKVLHAAFIPFGD--ITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 122
Query: 210 QMGNTTQSSYLFGKQMK 226
N ++ LFG+ ++
Sbjct: 123 DNMNESE---LFGRTIR 136
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 34/172 (19%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+F+G LS E TD +L + F + + +D VM D T RSRGFGFV++ ++ +A+N
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 75
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
K G VVE S + +++ P +
Sbjct: 76 RPHKVDG-------------------------RVVEPKRAVSRE-----DSQRPGAHLTV 105
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR----DKGFGFVRYSTH 202
++VG + + + L +F G + E+ R +GF FV + H
Sbjct: 106 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 157
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 4/71 (5%)
Query: 143 TNTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGA----GVIEEVRVQRDKGFGFVR 198
+ +E+P+ Q +++G L+ E T L HF G V+ + +R +GFGFV
Sbjct: 3 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 62
Query: 199 YSTHAEAALAI 209
Y+T E A+
Sbjct: 63 YATVEEVDAAM 73
Score = 35.0 bits (79), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAI 92
IFVG + + + L F Y +M D+ +G+ RGF FV+F + +
Sbjct: 107 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 164
>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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 34/172 (19%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+F+G LS E TD +L + F + + +D VM D T RSRGFGFV++ ++ +A+N
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
K G VVE S + +++ P +
Sbjct: 75 RPHKVDG-------------------------RVVEPKRAVSRE-----DSQRPGAHLTV 104
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR----DKGFGFVRYSTH 202
++VG + + + L +F G + E+ R +GF FV + H
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 156
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 4/71 (5%)
Query: 143 TNTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGA----GVIEEVRVQRDKGFGFVR 198
+ +E+P+ Q +++G L+ E T L HF G V+ + +R +GFGFV
Sbjct: 2 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 61
Query: 199 YSTHAEAALAI 209
Y+T E A+
Sbjct: 62 YATVEEVDAAM 72
Score = 35.0 bits (79), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAI 92
IFVG + + + L F Y +M D+ +G+ RGF FV+F + +
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
>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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 34/172 (19%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+F+G LS E TD +L + F + + +D VM D T RSRGFGFV++ ++ +A+N
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
K G VVE S + +++ P +
Sbjct: 74 RPHKVDG-------------------------RVVEPKRAVSRE-----DSQRPGAHLTV 103
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR----DKGFGFVRYSTH 202
++VG + + + L +F G + E+ R +GF FV + H
Sbjct: 104 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 155
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 4/71 (5%)
Query: 143 TNTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGA----GVIEEVRVQRDKGFGFVR 198
+ +E+P+ Q +++G L+ E T L HF G V+ + +R +GFGFV
Sbjct: 1 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 60
Query: 199 YSTHAEAALAI 209
Y+T E A+
Sbjct: 61 YATVEEVDAAM 71
Score = 35.0 bits (79), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAI 92
IFVG + + + L F Y +M D+ +G+ RGF FV+F + +
Sbjct: 105 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 162
>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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 34/172 (19%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+F+G LS E TD +L + F + + +D VM D T RSRGFGFV++ ++ +A+N
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
K G VVE S + +++ P +
Sbjct: 68 RPHKVDG-------------------------RVVEPKRAVSRE-----DSQRPGAHLTV 97
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR----DKGFGFVRYSTH 202
++VG + + + L +F G + E+ R +GF FV + H
Sbjct: 98 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 149
Score = 35.0 bits (79), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAI 92
IFVG + + + L F Y +M D+ +G+ RGF FV+F + +
Sbjct: 99 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 156
Score = 34.7 bits (78), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 153 QYTTVYVGNLAPEVTQLDLHRHFHSLG----AGVIEEVRVQRDKGFGFVRYSTHAEAALA 208
Q +++G L+ E T L HF G V+ + +R +GFGFV Y+T E A
Sbjct: 5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 64
Query: 209 I 209
+
Sbjct: 65 M 65
>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 = 54.7 bits (130), Expect = 6e-08, Method: Composition-based stats.
Identities = 28/75 (37%), Positives = 42/75 (56%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG L+ EV D L A F + +D ++ D +T + RGF FV F +DA +AI+++
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 96 TGKWLGSRQIRCNWA 110
L R IR N A
Sbjct: 65 NESELFGRTIRVNLA 79
Score = 35.8 bits (81), Expect = 0.034, Method: Composition-based stats.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 11/76 (14%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRV------QRDKGFGFVRYSTHAEAALAIQ 210
+YVG LA EV LH F G I ++++ ++ +GF FV + +AA AI
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGD--ITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 62
Query: 211 MGNTTQSSYLFGKQMK 226
N ++ LFG+ ++
Sbjct: 63 NMNESE---LFGRTIR 75
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 49/186 (26%), Positives = 77/186 (41%), Gaps = 35/186 (18%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+F+G LS E TD +L + F + + +D VM D T RSRGFGFV++ ++ +A+N
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
K G R + K A + ED Q A V+
Sbjct: 75 RPHKVDG-RVV----EPKRAVSREDSQRPGAHLTVK------------------------ 105
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR----DKGFGFVRYSTHAEA-ALAI 209
++VG + + + L +F G + E+ R +GF FV + H + I
Sbjct: 106 -KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 164
Query: 210 QMGNTT 215
Q +T
Sbjct: 165 QKYHTV 170
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 4/71 (5%)
Query: 143 TNTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLG----AGVIEEVRVQRDKGFGFVR 198
+ +E+P+ Q +++G L+ E T L HF G V+ + +R +GFGFV
Sbjct: 2 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 61
Query: 199 YSTHAEAALAI 209
Y+T E A+
Sbjct: 62 YATVEEVDAAM 72
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 49/186 (26%), Positives = 77/186 (41%), Gaps = 35/186 (18%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+F+G LS E TD +L + F + + +D VM D T RSRGFGFV++ ++ +A+N
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
K G R + K A + ED Q A V+
Sbjct: 73 RPHKVDG-RVV----EPKRAVSREDSQRPGAHLTVK------------------------ 103
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR----DKGFGFVRYSTHAEA-ALAI 209
++VG + + + L +F G + E+ R +GF FV + H + I
Sbjct: 104 -KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 162
Query: 210 QMGNTT 215
Q +T
Sbjct: 163 QKYHTV 168
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 4/70 (5%)
Query: 144 NTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLG----AGVIEEVRVQRDKGFGFVRY 199
+E+P+ Q +++G L+ E T L HF G V+ + +R +GFGFV Y
Sbjct: 1 KSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 60
Query: 200 STHAEAALAI 209
+T E A+
Sbjct: 61 ATVEEVDAAM 70
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 54.7 bits (130), Expect = 7e-08, Method: Composition-based stats.
Identities = 28/75 (37%), Positives = 42/75 (56%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG L+ EV D L A F + +D ++ D +T + RGF FV F +DA +AI+++
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67
Query: 96 TGKWLGSRQIRCNWA 110
L R IR N A
Sbjct: 68 NESELFGRTIRVNLA 82
Score = 35.4 bits (80), Expect = 0.038, Method: Composition-based stats.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 11/76 (14%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRV------QRDKGFGFVRYSTHAEAALAIQ 210
+YVG LA EV LH F G I ++++ ++ +GF FV + +AA AI
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGD--ITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 65
Query: 211 MGNTTQSSYLFGKQMK 226
N ++ LFG+ ++
Sbjct: 66 NMNESE---LFGRTIR 78
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 54.7 bits (130), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 32/84 (38%), Positives = 47/84 (55%), Gaps = 5/84 (5%)
Query: 149 ENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDKGFGFVRYSTHAEAALA 208
+++P+ TVY G +A +T + + F G I E+RV +KG+ FVR+STH AA A
Sbjct: 20 QSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQ--IMEIRVFPEKGYSFVRFSTHESAAHA 77
Query: 209 IQMGNTTQSSYLFGKQMKCSWGSK 232
I N T + G +KC WG +
Sbjct: 78 IVSVNGTT---IEGHVVKCYWGKE 98
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
++ G ++ +TD + FS + + RV + +G+ FV F + A AI
Sbjct: 27 TVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVS 80
Query: 95 LTGKWLGSRQIRCNWA 110
+ G + ++C W
Sbjct: 81 VNGTTIEGHVVKCYWG 96
>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 = 54.7 bits (130), Expect = 7e-08, Method: Composition-based stats.
Identities = 28/75 (37%), Positives = 42/75 (56%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG L+ EV D L A F + +D ++ D +T + RGF FV F +DA +AI+++
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 69
Query: 96 TGKWLGSRQIRCNWA 110
L R IR N A
Sbjct: 70 NESELFGRTIRVNLA 84
Score = 35.4 bits (80), Expect = 0.039, Method: Composition-based stats.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 11/76 (14%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRV------QRDKGFGFVRYSTHAEAALAIQ 210
+YVG LA EV LH F G I ++++ ++ +GF FV + +AA AI
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGD--ITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 67
Query: 211 MGNTTQSSYLFGKQMK 226
N ++ LFG+ ++
Sbjct: 68 NMNESE---LFGRTIR 80
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 54.3 bits (129), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 36/102 (35%), Positives = 54/102 (52%), Gaps = 4/102 (3%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCS 61
AI +LNG L + IKV++A S + N++V L ++ + FS Y
Sbjct: 62 AINTLNGLKLQTKTIKVSYARPSSA---SIRDANLYVSGLPKTMSQKEMEQLFSQYGRII 118
Query: 62 DARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTG-KWLGS 102
+R++ DQ TG SRG GF+ F + +A+ AI L G K LG+
Sbjct: 119 TSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGA 160
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 38/180 (21%), Positives = 71/180 (39%), Gaps = 39/180 (21%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
N+ V L +T + F +++ D+ TG+S G+GFV++ + DA AIN
Sbjct: 6 NLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINT 65
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
L G L ++ I+ ++A + + D
Sbjct: 66 LNGLKLQTKTIKVSYARPSSASIRD----------------------------------- 90
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR----DKGFGFVRYSTHAEAALAIQ 210
+YV L ++Q ++ + F G + + + + +G GF+R+ EA AI+
Sbjct: 91 ANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK 150
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 38/81 (46%), Gaps = 11/81 (13%)
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDK------GFGFVRYSTHAEAALA 208
T + V L +TQ + F S+G IE ++ RDK G+GFV YS +A A
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGD--IESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
Query: 209 IQMGNTTQSSYLFGKQMKCSW 229
I NT L K +K S+
Sbjct: 63 I---NTLNGLKLQTKTIKVSY 80
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 53.9 bits (128), Expect = 1e-07, Method: Composition-based stats.
Identities = 27/80 (33%), Positives = 45/80 (56%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
N+ V L ++TD L+A F + R+M D KTG S G+ FV F ++ D+Q AI
Sbjct: 5 NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKV 64
Query: 95 LTGKWLGSRQIRCNWATKGA 114
L G + +++++ ++A G
Sbjct: 65 LNGITVRNKRLKVSYARPGG 84
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 45/83 (54%)
Query: 30 TSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQ 89
++G ++VG L +T+ L F + ++M D +TGRS+G+GF++F + + A+
Sbjct: 23 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAK 82
Query: 90 SAINDLTGKWLGSRQIRCNWATK 112
A+ L G L R ++ T+
Sbjct: 83 KALEQLNGFELAGRPMKVGHVTE 105
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 11/77 (14%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQ------RDKGFGFVRYSTHAEAALAIQ 210
+YVG+L +T+ L F G IE +++ R KG+GF+ +S A A++
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGR--IESIQLMMDSETGRSKGYGFITFSDSECAKKALE 86
Query: 211 MGNTTQSSYLFGKQMKC 227
N + L G+ MK
Sbjct: 87 QLNGFE---LAGRPMKV 100
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 53.9 bits (128), Expect = 1e-07, Method: Composition-based stats.
Identities = 29/91 (31%), Positives = 53/91 (58%), Gaps = 5/91 (5%)
Query: 30 TSGHFNIFVGDLSPEVTDATLFACFSVYPSC-SDARVMWDQKTGRSRGFGFVSFRNQQDA 88
+SG IF+G+L PE+ + L+ FS + ++M D TG S+G+ F++F + +
Sbjct: 2 SSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDAS 61
Query: 89 QSAINDLTGKWLGSRQIRCNWA----TKGAG 115
+AI + G++L +R I ++A +KG+G
Sbjct: 62 DAAIEAMNGQYLCNRPITVSYAFKKDSKGSG 92
Score = 32.7 bits (73), Expect = 0.30, Method: Composition-based stats.
Identities = 20/82 (24%), Positives = 42/82 (51%), Gaps = 10/82 (12%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYSTHAEAALAIQ 210
+++GNL PE+ + L+ F + G +++ ++ RD KG+ F+ +++ + AI+
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGV-ILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIE 66
Query: 211 MGNTTQSSYLFGKQMKCSWGSK 232
N YL + + S+ K
Sbjct: 67 AMN---GQYLCNRPITVSYAFK 85
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 53.1 bits (126), Expect = 2e-07, Method: Composition-based stats.
Identities = 28/75 (37%), Positives = 42/75 (56%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG L+ EV D L A F + +D ++ D +T + RGF FV F +DA +AI+++
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 74
Query: 96 TGKWLGSRQIRCNWA 110
L R IR N A
Sbjct: 75 NESELFGRTIRVNLA 89
Score = 34.3 bits (77), Expect = 0.099, Method: Composition-based stats.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 11/76 (14%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRV------QRDKGFGFVRYSTHAEAALAIQ 210
+YVG LA EV LH F G I ++++ ++ +GF FV + +AA AI
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGD--ITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 72
Query: 211 MGNTTQSSYLFGKQMK 226
N ++ LFG+ ++
Sbjct: 73 NMNESE---LFGRTIR 85
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 53.1 bits (126), Expect = 2e-07, Method: Composition-based stats.
Identities = 31/88 (35%), Positives = 47/88 (53%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
+SG R + + + V LS T+ L FS Y +D +++DQ++ RSRGF FV F
Sbjct: 5 SSGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYF 64
Query: 83 RNQQDAQSAINDLTGKWLGSRQIRCNWA 110
N DA+ A G L R+IR +++
Sbjct: 65 ENVDDAKEAKERANGMELDGRRIRVDFS 92
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 53.1 bits (126), Expect = 2e-07, Method: Composition-based stats.
Identities = 27/95 (28%), Positives = 50/95 (52%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
++FVG++ E T+ L FS R+++D++TG+ +G+GF +++Q+ A SA+ +
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVV 129
L G+ R +R + A E K V+
Sbjct: 70 LNGREFSGRALRVDNAASEKNKEELKSLGTGAPVI 104
Score = 28.1 bits (61), Expect = 6.9, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 148 PENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGV----IEEVRVQRDKGFGFVRYSTHA 203
P + +V+VGN+ E T+ L F +G V + + + KG+GF Y
Sbjct: 2 PAVDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQE 61
Query: 204 EAALAIQMGNTTQSS 218
A A++ N + S
Sbjct: 62 TALSAMRNLNGREFS 76
>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 = 53.1 bits (126), Expect = 2e-07, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 47/76 (61%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+++G + + T+ + S + ++M+D +TGRS+G+ F+ FR+ + + SA+ +L
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 96 TGKWLGSRQIRCNWAT 111
G LGSR ++C +++
Sbjct: 67 NGYQLGSRFLKCGYSS 82
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 53.1 bits (126), Expect = 2e-07, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 47/76 (61%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+++G + + T+ + S + ++M+D +TGRS+G+ F+ FR+ + + SA+ +L
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 96 TGKWLGSRQIRCNWAT 111
G LGSR ++C +++
Sbjct: 65 NGYQLGSRFLKCGYSS 80
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 45/86 (52%)
Query: 25 GQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRN 84
G R + + + V LS T+ L FS Y +D +++DQ++ RSRGF FV F N
Sbjct: 38 GNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 97
Query: 85 QQDAQSAINDLTGKWLGSRQIRCNWA 110
DA+ A G L R+IR +++
Sbjct: 98 VDDAKEAKERANGMELDGRRIRVDFS 123
>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 = 52.4 bits (124), Expect = 3e-07, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 47/76 (61%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+++G + + T+ + S + ++M+D +TGRS+G+ F+ FR+ + + SA+ +L
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 96 TGKWLGSRQIRCNWAT 111
G LGSR ++C +++
Sbjct: 66 NGYQLGSRFLKCGYSS 81
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 52.4 bits (124), Expect = 3e-07, Method: Composition-based stats.
Identities = 32/91 (35%), Positives = 47/91 (51%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
+SG R + + + V LS T+ L FS Y +D +++DQ++ RSRGF FV F
Sbjct: 5 SSGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYF 64
Query: 83 RNQQDAQSAINDLTGKWLGSRQIRCNWATKG 113
N DA+ A G L R+IR + + G
Sbjct: 65 ENVDDAKEAKERANGMELDGRRIRVSGPSSG 95
>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 = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 43/85 (50%)
Query: 29 DTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDA 88
D G ++ V +L+ + TL F Y D + D+ T SRGF FV F +++DA
Sbjct: 43 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA 102
Query: 89 QSAINDLTGKWLGSRQIRCNWATKG 113
+ A++ + G L R++R A G
Sbjct: 103 EDAMDAMDGAVLDGRELRVQMARYG 127
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 42/72 (58%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
N+F+ L E TD L + F + + A+V D++T S+ FGFVSF N AQ AI
Sbjct: 42 NLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKA 101
Query: 95 LTGKWLGSRQIR 106
+ G +G+++++
Sbjct: 102 MNGFQVGTKRLK 113
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 52.4 bits (124), Expect = 4e-07, Method: Composition-based stats.
Identities = 30/86 (34%), Positives = 45/86 (52%)
Query: 25 GQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRN 84
G R + + + V LS T+ L FS Y +D +++DQ++ RSRGF FV F N
Sbjct: 4 GSRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 63
Query: 85 QQDAQSAINDLTGKWLGSRQIRCNWA 110
DA+ A G L R+IR +++
Sbjct: 64 VDDAKEAKERANGMELDGRRIRVDFS 89
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 43/85 (50%)
Query: 29 DTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDA 88
D G ++ V +L+ + TL F Y D + D+ T SRGF FV F +++DA
Sbjct: 66 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA 125
Query: 89 QSAINDLTGKWLGSRQIRCNWATKG 113
+ A++ + G L R++R A G
Sbjct: 126 EDAMDAMDGAVLDGRELRVQMARYG 150
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 51.6 bits (122), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 47/80 (58%), Gaps = 9/80 (11%)
Query: 153 QYTTVYVGNLAPEVTQLDLHRHFHSLG-AGVIEEVRVQRDKGFGFVRYSTHAEAALA-IQ 210
Q + ++VGNL P++T+ ++ + F G AG EV + +DKGFGF+R T A +A ++
Sbjct: 21 QRSRLFVGNLPPDITEEEMRKLFEKYGKAG---EVFIHKDKGFGFIRLETRTLAEIAKVE 77
Query: 211 MGNTTQSSYLFGKQMKCSWG 230
+ N L GKQ++ +
Sbjct: 78 LDNMP----LRGKQLRVRFA 93
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 37/80 (46%), Gaps = 6/80 (7%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+FVG+L P++T+ + F Y + + D +GFGF+ + A+ A +
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 77
Query: 95 LTGKWLGSRQIRCNWATKGA 114
L L +Q+R +A A
Sbjct: 78 LDNMPLRGKQLRVRFACHSA 97
>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 = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 43/173 (24%), Positives = 70/173 (40%), Gaps = 45/173 (26%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+F+G L+ + T+ L F Y + +D ++M D TGRSRGFGF+SF
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSF------------ 52
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
++ S VV+ + DGK A + Q
Sbjct: 53 -------------------------EKPSSVDEVVKTQH--ILDGKVIDPKRAIPRDEQD 85
Query: 155 TT--VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD----KGFGFVRYST 201
T ++VG + P+V + F G + ++ + +D +GFGFV Y +
Sbjct: 86 KTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDS 138
>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 = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 45/85 (52%), Gaps = 1/85 (1%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
A Q+E G N+F+ L E D L F + + A+V D++T S+ FGFVS+
Sbjct: 16 AGSQKEGPEGA-NLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSY 74
Query: 83 RNQQDAQSAINDLTGKWLGSRQIRC 107
N AQ+AI + G +G ++++
Sbjct: 75 DNPVSAQAAIQSMNGFQIGMKRLKV 99
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 4/69 (5%)
Query: 152 PQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR----DKGFGFVRYSTHAEAAL 207
P+ +++ +L E DL + F G V +V + + K FGFV Y A
Sbjct: 23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQA 82
Query: 208 AIQMGNTTQ 216
AIQ N Q
Sbjct: 83 AIQSMNGFQ 91
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 44/83 (53%)
Query: 30 TSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQ 89
+SG ++VG L +T+ L F + + +M D TGRS+G+GF++F + + A+
Sbjct: 2 SSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECAR 61
Query: 90 SAINDLTGKWLGSRQIRCNWATK 112
A+ L G L R +R T+
Sbjct: 62 RALEQLNGFELAGRPMRVGHVTE 84
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 43/80 (53%), Gaps = 1/80 (1%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
IFVG L TDA+L F + +A V+ D++TG+SRG+GFV+ ++ A+ A D
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 95 LTGKWLGSRQIRCNWATKGA 114
+ R+ N A GA
Sbjct: 79 -PNPIIDGRKANVNLAYLGA 97
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 4/69 (5%)
Query: 149 ENNPQYTTVYVGNLAPEVTQLDLHRHFHSLG----AGVIEEVRVQRDKGFGFVRYSTHAE 204
+ + +T ++VG L T L ++F G A VI + + + +G+GFV + A
Sbjct: 12 QKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAA 71
Query: 205 AALAIQMGN 213
A A + N
Sbjct: 72 AERACKDPN 80
>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 = 48.5 bits (114), Expect = 5e-06, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 43/79 (54%)
Query: 32 GHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSA 91
G N+ V L +T L + FS A+++ D+ G S G+GFV++ +DA+ A
Sbjct: 3 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 62
Query: 92 INDLTGKWLGSRQIRCNWA 110
IN L G L S+ I+ ++A
Sbjct: 63 INTLNGLRLQSKTIKVSYA 81
Score = 35.8 bits (81), Expect = 0.037, Method: Composition-based stats.
Identities = 29/85 (34%), Positives = 40/85 (47%), Gaps = 11/85 (12%)
Query: 152 PQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDK------GFGFVRYSTHAEA 205
P T + V L +TQ +L F S+G +E ++ RDK G+GFV Y T +A
Sbjct: 2 PGRTNLIVNYLPQNMTQDELRSLFSSIGE--VESAKLIRDKVAGHSLGYGFVNYVTAKDA 59
Query: 206 ALAIQMGNTTQSSYLFGKQMKCSWG 230
AI NT L K +K S+
Sbjct: 60 ERAI---NTLNGLRLQSKTIKVSYA 81
>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 = 48.1 bits (113), Expect = 6e-06, Method: Composition-based stats.
Identities = 28/76 (36%), Positives = 46/76 (60%), Gaps = 9/76 (11%)
Query: 153 QYTTVYVGNLAPEVTQLDLHRHFHSLG-AGVIEEVRVQRDKGFGFVRYSTHAEAALA-IQ 210
Q + ++VGNL P++T+ ++ + F G AG EV + +DKGFGF+R T A +A ++
Sbjct: 14 QRSRLFVGNLPPDITEEEMRKLFEKYGKAG---EVFIHKDKGFGFIRLETRTLAEIAKVE 70
Query: 211 MGNTTQSSYLFGKQMK 226
+ N L GKQ++
Sbjct: 71 LDNMP----LRGKQLR 82
Score = 35.4 bits (80), Expect = 0.042, Method: Composition-based stats.
Identities = 21/79 (26%), Positives = 37/79 (46%), Gaps = 6/79 (7%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FVG+L P++T+ + F Y + + D +GFGF+ + A+ A +L
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVEL 71
Query: 96 TGKWLGSRQIRCNWATKGA 114
L +Q+R +A A
Sbjct: 72 DNMPLRGKQLRVRFACHSA 90
>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 = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 32 GHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSA 91
G NIF+ +L + + L+ FS + + +V+ D+ S+G+GFV F Q+ A+ A
Sbjct: 4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERA 61
Query: 92 INDLTGKWLGSRQI 105
I + G L R++
Sbjct: 62 IEKMNGMLLNDRKV 75
>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 = 47.8 bits (112), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 41/176 (23%), Positives = 75/176 (42%), Gaps = 8/176 (4%)
Query: 36 IFVGDLSPE-VTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+ V +L+PE VT +LF F VY ++++++K V + AQ A++
Sbjct: 37 LLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKEN-----ALVQMADGNQAQLAMSH 91
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
L G L + IR + + D + N K+ + P
Sbjct: 92 LNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPS 151
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVR-VQRDKGFGFVRYSTHAEAALAI 209
T+++ N+ P V++ DL F S G GV++ + Q+D+ ++ + EA A+
Sbjct: 152 ATLHLSNIPPSVSEEDLKVLFSSNG-GVVKGFKFFQKDRKMALIQMGSVEEAVQAL 206
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 47.8 bits (112), Expect = 8e-06, Method: Composition-based stats.
Identities = 29/100 (29%), Positives = 54/100 (54%), Gaps = 6/100 (6%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
+SG R N++V +L + D L FS + + + A+VM + GRS+GFGFV F
Sbjct: 5 SSGDRITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVM--MEGGRSKGFGFVCF 62
Query: 83 RNQQDAQSAINDLTGKWLGSRQIRCNWATKGAGNNEDKQS 122
+ ++A A+ ++ G+ + ++ + A + E++QS
Sbjct: 63 SSPEEATKAVTEMNGRIVATKPLYVALAQR----KEERQS 98
Score = 30.8 bits (68), Expect = 0.91, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 153 QYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQ--RDKGFGFVRYSTHAEAALAIQ 210
Q +YV NL + L + F G +V ++ R KGFGFV +S+ EA A+
Sbjct: 14 QVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVT 73
Query: 211 MGN 213
N
Sbjct: 74 EMN 76
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+FVG+L ++T+ F Y S+ + R RGFGF+ ++ A+ A +
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEIAKAE 77
Query: 95 LTGKWLGSRQIRCNWATKGAG 115
L G L SR +R +AT GA
Sbjct: 78 LDGTILKSRPLRIRFATHGAA 98
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 153 QYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDKGFGFVRYSTHAEAALA 208
Q ++VGNL ++T+ D R F G EV + RD+GFGF+R + A +A
Sbjct: 21 QRCRLFVGNLPTDITEEDFKRLFERYGEP--SEVFINRDRGFGFIRLESRTLAEIA 74
Score = 35.8 bits (81), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 46/93 (49%), Gaps = 10/93 (10%)
Query: 1 MAILSLNGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSC 60
+A L+G L +P+++ +A T G + V +LSP V++ L FS +
Sbjct: 73 IAKAELDGTILKSRPLRIRFA--------THGA-ALTVKNLSPVVSNELLEQAFSQFGPV 123
Query: 61 SDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIN 93
A V+ D + GR+ G GFV F + A+ A+
Sbjct: 124 EKAVVVVDDR-GRATGKGFVEFAAKPPARKALE 155
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 41/176 (23%), Positives = 75/176 (42%), Gaps = 8/176 (4%)
Query: 36 IFVGDLSPE-VTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+ V +L+PE VT +LF F VY ++++++K V + AQ A++
Sbjct: 6 LLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKEN-----ALVQMADGNQAQLAMSH 60
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
L G L + IR + + D + N K+ + P
Sbjct: 61 LNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPS 120
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVR-VQRDKGFGFVRYSTHAEAALAI 209
T+++ N+ P V++ DL F S G GV++ + Q+D+ ++ + EA A+
Sbjct: 121 ATLHLSNIPPSVSEEDLKVLFSSNG-GVVKGFKFFQKDRKMALIQMGSVEEAVQAL 175
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 47.0 bits (110), Expect = 1e-05, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 31 SGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQS 90
SG NIF+ +L + + L+ FS + + +V+ D+ S+G+GFV F Q+ A+
Sbjct: 9 SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAER 66
Query: 91 AINDLTGKWLGSRQI 105
AI + G L R++
Sbjct: 67 AIEKMNGMLLNDRKV 81
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 39/78 (50%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+ V +L P +T + S +++ ++TG+S+G+GF + + A A +DL
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 96 TGKWLGSRQIRCNWATKG 113
GK LG R + +W G
Sbjct: 158 LGKPLGPRTLYVHWTDAG 175
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 39/78 (50%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+ V +L P +T + S +++ ++TG+S+G+GF + + A A +DL
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
Query: 96 TGKWLGSRQIRCNWATKG 113
GK LG R + +W G
Sbjct: 158 LGKPLGPRTLYVHWTDAG 175
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 39/78 (50%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+ V +L P +T + S +++ ++TG+S+G+GF + + A A +DL
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 155
Query: 96 TGKWLGSRQIRCNWATKG 113
GK LG R + +W G
Sbjct: 156 LGKPLGPRTLYVHWTDAG 173
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 34/170 (20%), Positives = 69/170 (40%), Gaps = 32/170 (18%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG + E+ + T+ F+ + + WD T + +GF FV + + AQ A+ +
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 96 TGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQYT 155
LG R I+ + A+ +++ + E +
Sbjct: 91 NSVMLGGRNIKVGRPSN---------IGQAQPIID---------------QLAEEARAFN 126
Query: 156 TVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRY 199
+YV ++ +++ D+ F + G I+ + RD KG+GF+ Y
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGK--IKSATLARDPTTGKHKGYGFIEY 174
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 28/119 (23%), Positives = 53/119 (44%), Gaps = 8/119 (6%)
Query: 1 MAILSLNGRHLFGQPIKVNWAYASGQR--------EDTSGHFNIFVGDLSPEVTDATLFA 52
+A+ +N L G+ IKV GQ E+ I+V + +++D + +
Sbjct: 85 LALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKS 144
Query: 53 CFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNWAT 111
F + A + D TG+ +G+GF+ + Q +Q A++ + LG + +R A
Sbjct: 145 VFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAV 203
>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 = 46.2 bits (108), Expect = 2e-05, Method: Composition-based stats.
Identities = 26/76 (34%), Positives = 41/76 (53%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
N+ V L T L + FS A+++ D+ G S G+GFV++ +DA+ AIN
Sbjct: 21 NLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINT 80
Query: 95 LTGKWLGSRQIRCNWA 110
L G L S+ I+ ++A
Sbjct: 81 LNGLRLQSKTIKVSYA 96
Score = 33.9 bits (76), Expect = 0.11, Method: Composition-based stats.
Identities = 29/84 (34%), Positives = 39/84 (46%), Gaps = 11/84 (13%)
Query: 153 QYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDK------GFGFVRYSTHAEAA 206
Q T + V L TQ +L F S+G +E ++ RDK G+GFV Y T +A
Sbjct: 18 QGTNLIVNYLPQNXTQDELRSLFSSIGE--VESAKLIRDKVAGHSLGYGFVNYVTAKDAE 75
Query: 207 LAIQMGNTTQSSYLFGKQMKCSWG 230
AI NT L K +K S+
Sbjct: 76 RAI---NTLNGLRLQSKTIKVSYA 96
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 47/79 (59%), Gaps = 2/79 (2%)
Query: 29 DTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDA 88
+++ FN+F+G+L+P + A L S + +D V+ D +TG +R FG+V F + +D
Sbjct: 9 ESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDL 67
Query: 89 QSAINDLTGKWLGSRQIRC 107
+ A+ +LTG + +I+
Sbjct: 68 EKAL-ELTGLKVFGNEIKL 85
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 21/106 (19%), Positives = 48/106 (45%), Gaps = 6/106 (5%)
Query: 4 LSLNGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDA 63
L L G +FG IK+ ++ + + +LS +T+ L V+ +
Sbjct: 71 LELTGLKVFGNEIKLEKPKGRDSKKVRAAR-TLLAKNLSFNITEDELK---EVFEDALEI 126
Query: 64 RVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNW 109
R++ + G+S+G ++ F+++ DA+ + + G + R + +
Sbjct: 127 RLV--SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYY 170
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 45.8 bits (107), Expect = 3e-05, Method: Composition-based stats.
Identities = 27/88 (30%), Positives = 47/88 (53%), Gaps = 3/88 (3%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
+SG + +FV LS + T+ TL F AR++ D++TG S+GFGFV F
Sbjct: 5 SSGPNARSQPSKTLFVKGLSEDTTEETLKESFD---GSVRARIVTDRETGSSKGFGFVDF 61
Query: 83 RNQQDAQSAINDLTGKWLGSRQIRCNWA 110
+++DA++A + + ++ +WA
Sbjct: 62 NSEEDAKAAKEAMEDGEIDGNKVTLDWA 89
>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 = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 34/171 (19%), Positives = 70/171 (40%), Gaps = 32/171 (18%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
++VG + E+ + T+ F+ + + WD T + +GF FV + + AQ A+
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 95 LTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQY 154
+ LG R I+ + S+ + + +E+ + +
Sbjct: 75 MNSVMLGGRNIKVG------------RPSNIGQAQPIIDQLAEEARA------------F 110
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRY 199
+YV ++ +++ D+ F + G I+ + RD KG+GF+ Y
Sbjct: 111 NRIYVASVHQDLSDDDIKSVFEAFGK--IKSCTLARDPTTGKHKGYGFIEY 159
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/122 (26%), Positives = 56/122 (45%), Gaps = 14/122 (11%)
Query: 1 MAILSLNGRHLFGQPIKVNWAYASGQR--------EDTSGHFNIFVGDLSPEVTD---AT 49
+A+ +N L G+ IKV GQ E+ I+V + +++D +
Sbjct: 70 LALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKS 129
Query: 50 LFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNW 109
+F F SC+ AR D TG+ +G+GF+ + Q +Q A++ + LG + +R
Sbjct: 130 VFEAFGKIKSCTLAR---DPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGK 186
Query: 110 AT 111
A
Sbjct: 187 AV 188
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 41/79 (51%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
N+ V + V + L F Y +++ D++T +SRG+GFV F++ AQ AI
Sbjct: 44 NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAG 103
Query: 95 LTGKWLGSRQIRCNWATKG 113
L G + +++++ A G
Sbjct: 104 LNGFNILNKRLKVALAASG 122
>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 = 44.7 bits (104), Expect = 8e-05, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 34/61 (55%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
N++V +L +TD L F Y S ++ D+ TGR RG FV + +++AQ AI+
Sbjct: 15 NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISA 74
Query: 95 L 95
L
Sbjct: 75 L 75
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 44.3 bits (103), Expect = 8e-05, Method: Composition-based stats.
Identities = 27/90 (30%), Positives = 49/90 (54%), Gaps = 11/90 (12%)
Query: 8 GRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMW 67
G H+ P+ + +++ FN+F+G+L+P + A L S + +D V+
Sbjct: 1 GSHMLEDPV---------EGSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVV- 50
Query: 68 DQKTGRSRGFGFVSFRNQQDAQSAINDLTG 97
D +TG +R FG+V F + +D + A+ +LTG
Sbjct: 51 DVRTGTNRKFGYVDFESAEDLEKAL-ELTG 79
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 44.3 bits (103), Expect = 8e-05, Method: Composition-based stats.
Identities = 22/49 (44%), Positives = 29/49 (59%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRN 84
+FVG L T TL + FS Y D +M D+ T +SRGFGFV F++
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKD 67
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 44.3 bits (103), Expect = 9e-05, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 35/64 (54%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
N++V L ++ + FS Y +R++ DQ TG SRG GF+ F + +A+ AI
Sbjct: 3 NLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKG 62
Query: 95 LTGK 98
L G+
Sbjct: 63 LNGQ 66
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 41/76 (53%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG L +V++ L+ F + + D+ TG+ +G+GFV F +++DA AI +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 96 TGKWLGSRQIRCNWAT 111
L + IR N A+
Sbjct: 78 DMIKLYGKPIRVNKAS 93
>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 = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 39/70 (55%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FV ++ + T++ L F VY +++ +++G+ RG+ F+ + +++D SA
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 96 TGKWLGSRQI 105
GK + R++
Sbjct: 165 DGKKIDGRRV 174
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 34/58 (58%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAI 92
+F+G LS E T+ +L + + +D VM D + RSRGFGFV+F + + +A+
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM 86
Score = 35.0 bits (79), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 153 QYTTVYVGNLAPEVTQLDLHRHFHSLG----AGVIEEVRVQRDKGFGFVRYSTHAEAALA 208
Q+ +++G L+ E T+ L ++ G V+ + +R +GFGFV +S+ AE A
Sbjct: 26 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAA 85
Query: 209 I 209
+
Sbjct: 86 M 86
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 39/70 (55%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FV ++ + T++ L F VY +++ +++G+ RG+ F+ + +++D SA
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 96 TGKWLGSRQI 105
GK + R++
Sbjct: 165 DGKKIDGRRV 174
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
IFVG LS T + F + DA +M+D+ T R RGFGFV+F + +D + ++
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFES-EDIVEKVCEI 60
Query: 96 TGKWLGSRQIRCNWA 110
+ ++ + C A
Sbjct: 61 HFHEINNKMVECKKA 75
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 25/82 (30%), Positives = 44/82 (53%), Gaps = 7/82 (8%)
Query: 152 PQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDKGFGFVRYSTHAEAALAIQM 211
P+ TT Y+GN+ T+ DL F + G I + + +KG F++Y TH +AA+ I
Sbjct: 25 PRVTTAYIGNIPHFATEADLIPLFQNF--GFILDFKHYPEKGCCFIKYDTHEQAAVCI-- 80
Query: 212 GNTTQSSYLF-GKQMKCSWGSK 232
+++ F G+ ++ WG +
Sbjct: 81 --VALANFPFQGRNLRTGWGKE 100
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 40/76 (52%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
N+ V L +T + F +++ D+ TG+S G+GFV++ + DA AIN
Sbjct: 6 NLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINT 65
Query: 95 LTGKWLGSRQIRCNWA 110
L G L ++ I+ ++A
Sbjct: 66 LNGLKLQTKTIKVSYA 81
Score = 30.8 bits (68), Expect = 1.0, Method: Composition-based stats.
Identities = 28/82 (34%), Positives = 38/82 (46%), Gaps = 11/82 (13%)
Query: 155 TTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDK------GFGFVRYSTHAEAALA 208
T + V L +TQ + F S+G IE ++ RDK G+GFV YS +A A
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGD--IESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
Query: 209 IQMGNTTQSSYLFGKQMKCSWG 230
I NT L K +K S+
Sbjct: 63 I---NTLNGLKLQTKTIKVSYA 81
>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 = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 34/170 (20%), Positives = 68/170 (40%), Gaps = 32/170 (18%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG + E+ + T+ F+ + WD T + +GF FV + + AQ A+
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 96 TGKWLGSRQIRCNWATKGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQYT 155
LG R I+ + S+ + + +E+ + +
Sbjct: 75 NSVXLGGRNIKVG------------RPSNIGQAQPIIDQLAEEARA------------FN 110
Query: 156 TVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRY 199
+YV ++ +++ D+ F + G I+ + RD KG+GF+ Y
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGK--IKSCTLARDPTTGKHKGYGFIEY 158
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/116 (27%), Positives = 54/116 (46%), Gaps = 19/116 (16%)
Query: 1 MAILSLNGRHLFGQPIKVNWAYASGQR--------EDTSGHFNIFVGDLSPEVTD---AT 49
+A+ N L G+ IKV GQ E+ I+V + +++D +
Sbjct: 69 LALEQXNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKS 128
Query: 50 LFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIN-----DLTGKWL 100
+F F SC+ AR D TG+ +G+GF+ + Q +Q A++ DL G++L
Sbjct: 129 VFEAFGKIKSCTLAR---DPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYL 181
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 47/89 (52%), Gaps = 2/89 (2%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
+SG ED ++VG+LS +VT+ + FS C +++ + + + FV F
Sbjct: 5 SSGMMEDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVEF 62
Query: 83 RNQQDAQSAINDLTGKWLGSRQIRCNWAT 111
+DA +A+ + G+ + ++++ NWAT
Sbjct: 63 YEHRDAAAALAAMNGRKILGKEVKVNWAT 91
Score = 28.5 bits (62), Expect = 4.6, Method: Composition-based stats.
Identities = 23/85 (27%), Positives = 47/85 (55%), Gaps = 5/85 (5%)
Query: 149 ENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR--DKGFGFVRYSTHAEAA 206
E++ Q T+YVGNL+ +VT++ + + F +G ++ + + + FV + H +AA
Sbjct: 10 EDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAA 69
Query: 207 LAIQMGNTTQSSYLFGKQMKCSWGS 231
A+ N + + GK++K +W +
Sbjct: 70 AALAAMNGRK---ILGKEVKVNWAT 91
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 35/63 (55%), Gaps = 7/63 (11%)
Query: 152 PQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR-----DKGFGFVRYSTHAEAA 206
P + ++VG L + ++ D+ R F + G IEE + R KG FV+YS+HAEA
Sbjct: 13 PSHRKLFVGMLNKQQSEDDVRRLFEAFGN--IEECTILRGPDGNSKGCAFVKYSSHAEAQ 70
Query: 207 LAI 209
AI
Sbjct: 71 AAI 73
Score = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
+SG H +FVG L+ + ++ + F + + + ++ G S+G FV +
Sbjct: 5 SSGCLRQPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRG-PDGNSKGCAFVKY 63
Query: 83 RNQQDAQSAINDLTG 97
+ +AQ+AIN L G
Sbjct: 64 SSHAEAQAAINALHG 78
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 2/84 (2%)
Query: 28 EDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQD 87
E+ S + V ++ D L F + D ++++++ S+GFGFV+F N D
Sbjct: 24 ENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSAD 81
Query: 88 AQSAINDLTGKWLGSRQIRCNWAT 111
A A L G + R+I N AT
Sbjct: 82 ADRAREKLHGTVVEGRKIEVNNAT 105
Score = 27.7 bits (60), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 149 ENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGV-IEEVRVQR-DKGFGFVRYSTHAEAA 206
EN Q ++V N+ DL + F G + +E + +R KGFGFV + A+A
Sbjct: 24 ENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADAD 83
Query: 207 LA 208
A
Sbjct: 84 RA 85
>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 = 41.6 bits (96), Expect = 5e-04, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 30/58 (51%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIN 93
+F+G LS + T L FS + D + D TGRSRGFGFV F+ + ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD 59
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 47/92 (51%), Gaps = 5/92 (5%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+++ +LSP VT+ L + F+ + + + TGR RG F++F N++ A A++ +
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLV 87
Query: 96 TGKWLGSRQIRCNWATKGAGNNEDKQSSDAKS 127
G L + + + G N+ ++SS S
Sbjct: 88 NGYKLYGKILVIEF-----GKNKKQRSSGPSS 114
>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 = 41.2 bits (95), Expect = 7e-04, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAI 92
+FVG + + + + + F+ Y S + +++ D +TG S+G+GFVSF N D Q +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIV 67
>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 = 7e-04, Method: Composition-based stats.
Identities = 26/88 (29%), Positives = 42/88 (47%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
+SG + I V +LS + + L F + S S + D+ TG+S+GF F+SF
Sbjct: 5 SSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISF 64
Query: 83 RNQQDAQSAINDLTGKWLGSRQIRCNWA 110
++DA AI ++G + WA
Sbjct: 65 HRREDAARAIAGVSGFGYDHLILNVEWA 92
Score = 28.5 bits (62), Expect = 5.7, Method: Composition-based stats.
Identities = 25/82 (30%), Positives = 37/82 (45%), Gaps = 14/82 (17%)
Query: 134 GSSEDGKETTNTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDK- 192
GSS G N A +N T+ V NL+ + + DL F G+ I + + +DK
Sbjct: 1 GSS--GSSGPNRRADDN----ATIRVTNLSEDTRETDLQELFRPFGS--ISRIYLAKDKT 52
Query: 193 -----GFGFVRYSTHAEAALAI 209
GF F+ + +AA AI
Sbjct: 53 TGQSKGFAFISFHRREDAARAI 74
>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 = 41.2 bits (95), Expect = 8e-04, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAI 92
+FVG + + + + + F+ Y S + +++ D +TG S+G+GFVSF N D Q +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIV 67
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAI 92
+FVG + + + + + F+ Y S + +++ D +TG S+G+GFVSF N D Q +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFYNDVDVQKIV 68
>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 = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 38/75 (50%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FV + E T+ + F+ Y + + D++TG +G+ V + ++AQ+A+ L
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 96 TGKWLGSRQIRCNWA 110
G+ L + I +W
Sbjct: 85 NGQDLMGQPISVDWC 99
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 2 AILSLNGRHLFGQPIKVNWAYA 23
A+ LNG+ L GQPI V+W +
Sbjct: 80 AMEGLNGQDLMGQPISVDWCFV 101
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 43/100 (43%), Gaps = 15/100 (15%)
Query: 136 SEDGKETTNTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD---- 191
+DG E P+ + + ++V + E T+ D+H F G I+ + + D
Sbjct: 8 EQDGDEP----GPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGE--IKNIHLNLDRRTG 61
Query: 192 --KGFGFVRYSTHAEAALAIQMGNTTQSSYLFGKQMKCSW 229
KG+ V Y T+ EA A++ N L G+ + W
Sbjct: 62 YLKGYTLVEYETYKEAQAAMEGLNGQD---LMGQPISVDW 98
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 25/85 (29%), Positives = 38/85 (44%)
Query: 29 DTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDA 88
D G + V +L+ + +L F Y D + + T RGF FV F +++DA
Sbjct: 9 DVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDA 68
Query: 89 QSAINDLTGKWLGSRQIRCNWATKG 113
Q A + G L R++R A G
Sbjct: 69 QDAEAAMDGAELDGRELRVQVARYG 93
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 21/50 (42%), Positives = 28/50 (56%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQ 85
+F+G LS + T L F + + VM D T RSRGFGFV+F +Q
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQ 52
Score = 28.5 bits (62), Expect = 4.5, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 8/53 (15%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYSTHA 203
+++G L+ + TQ L +F G ++E V RD +GFGFV + A
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGE--VKECLVMRDPLTKRSRGFGFVTFMDQA 53
>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 = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 34/71 (47%), Gaps = 3/71 (4%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
AS ED FVG LS + + L F+ + D + D TGRSRGFGF+ F
Sbjct: 4 ASKNEEDAG---KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILF 60
Query: 83 RNQQDAQSAIN 93
++ + ++
Sbjct: 61 KDAASVEKVLD 71
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 38/75 (50%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FV + E T+ + F+ Y + + D++TG +G+ V + ++AQ+A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 96 TGKWLGSRQIRCNWA 110
G+ L + I +W
Sbjct: 70 NGQDLMGQPISVDWC 84
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 39/88 (44%), Gaps = 11/88 (12%)
Query: 148 PENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYST 201
P+ + + ++V + E T+ D+H F G I+ + + D KG+ V Y T
Sbjct: 1 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGE--IKNIHLNLDRRTGYLKGYTLVEYET 58
Query: 202 HAEAALAIQMGNTTQSSYLFGKQMKCSW 229
+ EA A++ N L G+ + W
Sbjct: 59 YKEAQAAMEGLNGQD---LMGQPISVDW 83
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 2 AILSLNGRHLFGQPIKVNWAYA 23
A+ LNG+ L GQPI V+W +
Sbjct: 65 AMEGLNGQDLMGQPISVDWCFV 86
>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 = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 45/92 (48%), Gaps = 3/92 (3%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG+LS T+ ++ FS + D+ + GF FV + ++ DA++A+ +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 96 TGKWLGSRQIRCNWATKGAGNNEDKQSSDAKS 127
G L R IR +W AG E +Q +S
Sbjct: 102 NGTRLDDRIIRTDWD---AGFKEGRQYGRGRS 130
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 41/79 (51%), Gaps = 8/79 (10%)
Query: 144 NTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDK------GFGFV 197
N E + + T+YVGNL+ T+ ++ F +G I+++ + DK GF FV
Sbjct: 29 NEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSK--SGDIKKIIMGLDKMKKTACGFCFV 86
Query: 198 RYSTHAEAALAIQMGNTTQ 216
Y + A+A A++ N T+
Sbjct: 87 EYYSRADAENAMRYINGTR 105
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 20/67 (29%), Positives = 35/67 (52%), Gaps = 4/67 (5%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIN-- 93
IFVG + + L F + ++ +++D + R RGFGF++F ++Q A+N
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMH 72
Query: 94 --DLTGK 98
D+ GK
Sbjct: 73 FHDIMGK 79
Score = 28.1 bits (61), Expect = 6.7, Method: Composition-based stats.
Identities = 14/59 (23%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAG----VIEEVRVQRDKGFGFVRYSTHAEAALAIQM 211
++VG + + +L +F G +I + QR +GFGF+ + A+ M
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 28/51 (54%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQ 85
+F+G LS + T L F + + VM D T RSRGFGFV+F +Q
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQ 77
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 8/53 (15%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYSTHA 203
+++G L+ + TQ L +F G ++E V RD +GFGFV + A
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGE--VKECLVMRDPLTKRSRGFGFVTFMDQA 78
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 31/66 (46%)
Query: 30 TSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQ 89
+SG +++ L P TD L Y + + D+ T + +G+GFV F + AQ
Sbjct: 2 SSGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQ 61
Query: 90 SAINDL 95
A+ L
Sbjct: 62 KAVTAL 67
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 40/80 (50%), Gaps = 4/80 (5%)
Query: 151 NPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDKGFGFVRYSTHAEAALAIQ 210
+ TT+YVG L +T+ DL HF+ G I + V + + F++++T A +A +
Sbjct: 9 DKTITTLYVGGLGDTITETDLRNHFYQFGE--IRTITVVQRQQCAFIQFATRQAAEVAAE 66
Query: 211 MGNTTQSSYLFGKQMKCSWG 230
+ + G+++ WG
Sbjct: 67 --KSFNKLIVNGRRLNVKWG 84
>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 = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 38/74 (51%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FV + E T+ + F+ Y + + D++TG +G+ V + ++AQ+A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 96 TGKWLGSRQIRCNW 109
G+ L + I +W
Sbjct: 70 NGQDLMGQPISVDW 83
Score = 31.2 bits (69), Expect = 0.71, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASG 25
A+ LNG+ L GQPI V+W + G
Sbjct: 65 AMEGLNGQDLMGQPISVDWCFVRG 88
Score = 30.0 bits (66), Expect = 1.8, Method: Composition-based stats.
Identities = 22/88 (25%), Positives = 39/88 (44%), Gaps = 11/88 (12%)
Query: 148 PENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYST 201
P+ + + ++V + E T+ D+H F G I+ + + D KG+ V Y T
Sbjct: 1 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGE--IKNIHLNLDRRTGYLKGYTLVEYET 58
Query: 202 HAEAALAIQMGNTTQSSYLFGKQMKCSW 229
+ EA A++ N L G+ + W
Sbjct: 59 YKEAQAAMEGLNGQD---LMGQPISVDW 83
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 38/74 (51%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FV + E T+ + F+ Y + + D++TG +G+ V + ++AQ+A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 96 TGKWLGSRQIRCNW 109
G+ L + I +W
Sbjct: 70 NGQDLMGQPISVDW 83
Score = 31.2 bits (69), Expect = 0.77, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASG 25
A+ LNG+ L GQPI V+W + G
Sbjct: 65 AMEGLNGQDLMGQPISVDWCFVRG 88
Score = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 22/88 (25%), Positives = 39/88 (44%), Gaps = 11/88 (12%)
Query: 148 PENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYST 201
P+ + + ++V + E T+ D+H F G I+ + + D KG+ V Y T
Sbjct: 1 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGE--IKNIHLNLDRRTGYLKGYTLVEYET 58
Query: 202 HAEAALAIQMGNTTQSSYLFGKQMKCSW 229
+ EA A++ N L G+ + W
Sbjct: 59 YKEAQAAMEGLNGQD---LMGQPISVDW 83
>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 = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 38/74 (51%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FV + E T+ + F+ Y + + D++TG +G+ V + ++AQ+A+ L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 96 TGKWLGSRQIRCNW 109
G+ L + I +W
Sbjct: 72 NGQDLMGQPISVDW 85
Score = 31.2 bits (69), Expect = 0.78, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASG 25
A+ LNG+ L GQPI V+W + G
Sbjct: 67 AMEGLNGQDLMGQPISVDWCFVRG 90
Score = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 22/89 (24%), Positives = 39/89 (43%), Gaps = 11/89 (12%)
Query: 147 APENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYS 200
P+ + + ++V + E T+ D+H F G I+ + + D KG+ V Y
Sbjct: 2 GPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGE--IKNIHLNLDRRTGYLKGYTLVEYE 59
Query: 201 THAEAALAIQMGNTTQSSYLFGKQMKCSW 229
T+ EA A++ N L G+ + W
Sbjct: 60 TYKEAQAAMEGLNGQD---LMGQPISVDW 85
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 38.5 bits (88), Expect = 0.006, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 38/74 (51%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FV + E T+ + F+ Y + + D++TG +G+ V + ++AQ+A+ L
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 96 TGKWLGSRQIRCNW 109
G+ L + I +W
Sbjct: 86 NGQDLMGQPISVDW 99
Score = 31.2 bits (69), Expect = 0.81, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 2 AILSLNGRHLFGQPIKVNWAYASG 25
A+ LNG+ L GQPI V+W + G
Sbjct: 81 AMEGLNGQDLMGQPISVDWCFVRG 104
Score = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 25/99 (25%), Positives = 43/99 (43%), Gaps = 15/99 (15%)
Query: 137 EDGKETTNTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD----- 191
+DG E P+ + + ++V + E T+ D+H F G I+ + + D
Sbjct: 10 QDGDEP----GPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGE--IKNIHLNLDRRTGY 63
Query: 192 -KGFGFVRYSTHAEAALAIQMGNTTQSSYLFGKQMKCSW 229
KG+ V Y T+ EA A++ N L G+ + W
Sbjct: 64 LKGYTLVEYETYKEAQAAMEGLNGQD---LMGQPISVDW 99
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 38.5 bits (88), Expect = 0.006, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 1/76 (1%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
NI+VG+L T + FS + + ++++D++T + +GFGFV + ++ AI
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQ-EESVSEAIAK 61
Query: 95 LTGKWLGSRQIRCNWA 110
L R IR A
Sbjct: 62 LDNTDFMGRTIRVTEA 77
Score = 28.5 bits (62), Expect = 4.8, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 4/62 (6%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLG----AGVIEEVRVQRDKGFGFVRYSTHAEAALAIQMG 212
+YVGNL T + F G +I + ++ KGFGFV + + ++
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLD 63
Query: 213 NT 214
NT
Sbjct: 64 NT 65
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 38.1 bits (87), Expect = 0.006, Method: Composition-based stats.
Identities = 25/87 (28%), Positives = 39/87 (44%), Gaps = 2/87 (2%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+ V ++ D L F + D ++++++ S+GFGFV+F N DA A L
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKL 75
Query: 96 TGKWLGSRQIRCNWATKGAGNNEDKQS 122
G + R+I N AT N S
Sbjct: 76 HGTVVEGRKIEVNNATARVMTNSGPSS 102
>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 = 37.7 bits (86), Expect = 0.009, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 27/51 (52%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQ 86
IFVG LSP+ + + F + + D KT + RGF F++F+ ++
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEE 54
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 37.7 bits (86), Expect = 0.009, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 27/51 (52%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQ 86
IFVG LSP+ + + F + + D KT + RGF F++F+ ++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEE 52
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 8/114 (7%)
Query: 4 LSLNGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDA 63
L L G +FG IK+ +++ + +L +VT L F ++
Sbjct: 65 LELTGLKVFGNEIKLEKPKGKDSKKERDAR-TLLAKNLPYKVTQDELKEVFE---DAAEI 120
Query: 64 RVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNWA--TKGAG 115
R++ K G+S+G ++ F+ + DA+ + G + R I + KG G
Sbjct: 121 RLV--SKDGKSKGIAYIEFKTEADAEKTFEEKQGTEIDGRSISLYYTGEPKGEG 172
>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 = 37.0 bits (84), Expect = 0.014, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 40/76 (52%), Gaps = 5/76 (6%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDAR--VMWDQKTGRSRGFGFVSFRNQQDAQSAIN 93
++VG+LS T+ ++ FS D + +M K + GF FV + ++ DA++A+
Sbjct: 21 LYVGNLSFYTTEEQIYELFS---KSGDIKKIIMGLDKMKTACGFCFVEYYSRADAENAMR 77
Query: 94 DLTGKWLGSRQIRCNW 109
+ G L R IR +W
Sbjct: 78 YINGTRLDDRIIRTDW 93
Score = 31.2 bits (69), Expect = 0.72, Method: Composition-based stats.
Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 7/66 (10%)
Query: 156 TVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDK-----GFGFVRYSTHAEAALAIQ 210
T+YVGNL+ T+ ++ F +G I+++ + DK GF FV Y + A+A A++
Sbjct: 20 TLYVGNLSFYTTEEQIYELFSK--SGDIKKIIMGLDKMKTACGFCFVEYYSRADAENAMR 77
Query: 211 MGNTTQ 216
N T+
Sbjct: 78 YINGTR 83
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 8/80 (10%)
Query: 34 FNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIN 93
+ IFVG++S T L + F + V+ D + FV + DA++AI
Sbjct: 10 WKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIA 61
Query: 94 DLTGKWLGSRQIRCNWATKG 113
L GK + ++I +TKG
Sbjct: 62 QLNGKEVKGKRINVELSTKG 81
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 38/90 (42%), Gaps = 2/90 (2%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQK-TGRSRGFGFVS 81
+SGQ I V ++ + + FS + R+ TG RGFGFV
Sbjct: 5 SSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVD 64
Query: 82 FRNQQDAQSAINDLT-GKWLGSRQIRCNWA 110
F +QDA+ A N L L R++ WA
Sbjct: 65 FITKQDAKKAFNALCHSTHLYGRRLVLEWA 94
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 36.2 bits (82), Expect = 0.022, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 35/76 (46%), Gaps = 5/76 (6%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG+L L FS Y R +W + GF FV F + +DA+ A+ L
Sbjct: 3 VYVGNLGTGAGKGELERAFSYY---GPLRTVWIARN--PPGFAFVEFEDPRDAEDAVRGL 57
Query: 96 TGKWLGSRQIRCNWAT 111
GK + ++R +T
Sbjct: 58 DGKVICGSRVRVELST 73
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 7/66 (10%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR-----DKGFGFVRYSTHAEAALAIQM 211
++VG L + ++ D+ R F G VI+E V R KG FV++S+H EA AI
Sbjct: 18 LFVGMLNKQQSEEDVLRLFQPFG--VIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHA 75
Query: 212 GNTTQS 217
+ +Q+
Sbjct: 76 LHGSQT 81
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 33/66 (50%), Gaps = 7/66 (10%)
Query: 35 NIFVGDLSPEVTDAT---LFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSA 91
+FVG L+ + ++ LF F V C+ R G S+G FV F + +AQ+A
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLR----GPDGSSKGCAFVKFSSHTEAQAA 72
Query: 92 INDLTG 97
I+ L G
Sbjct: 73 IHALHG 78
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 35.8 bits (81), Expect = 0.036, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 7/81 (8%)
Query: 152 PQYTTVYVGNLAPEVTQLDLHRHFHSLG----AGVIEEVRVQRDKGFGFVRYSTHAEAAL 207
P +TVYV NL +T DL+R F G ++++ ++ KG F+ + A
Sbjct: 14 PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQN 73
Query: 208 AIQMGNTTQSSYLFGKQMKCS 228
+ N Q LFG+ +K S
Sbjct: 74 CTRAINNKQ---LFGRVIKAS 91
>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 = 35.8 bits (81), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 36/81 (44%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+F+G L + D + + + ++ D TG S+G+ F + + AI L
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 176
Query: 96 TGKWLGSRQIRCNWATKGAGN 116
G LG +++ A+ GA N
Sbjct: 177 NGMQLGDKKLLVQRASVGAKN 197
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 35.0 bits (79), Expect = 0.056, Method: Composition-based stats.
Identities = 26/67 (38%), Positives = 34/67 (50%), Gaps = 10/67 (14%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQR-----DKGFGFVRYSTHAEAALAIQM 211
++VG L + T D+ + F G I+E V R KG FV++ THAEA AI
Sbjct: 15 LFVGMLGKQQTDEDVRKMFEPFGT--IDECTVLRGPDGTSKGCAFVKFQTHAEAQAAI-- 70
Query: 212 GNTTQSS 218
NT SS
Sbjct: 71 -NTLHSS 76
Score = 32.7 bits (73), Expect = 0.24, Method: Composition-based stats.
Identities = 20/60 (33%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FVG L + TD + F + + + V+ G S+G FV F+ +AQ+AIN L
Sbjct: 15 LFVGMLGKQQTDEDVRKMFEPFGTIDECTVL-RGPDGTSKGCAFVKFQTHAEAQAAINTL 73
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 34.7 bits (78), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 33/78 (42%), Gaps = 16/78 (20%)
Query: 38 VGDLSPEVTDATLFAC---------------FSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
V +LSPE DA C FS D R++ D+ + RS+G +V F
Sbjct: 15 VDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEF 74
Query: 83 RNQQDAQSAINDLTGKWL 100
Q AI LTG+ L
Sbjct: 75 CEIQSVPLAIG-LTGQRL 91
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10
From Homo Sapiens
Length = 131
Score = 34.7 bits (78), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 36 IFVGDLSPEVTDATLFACFSVYP--SCSDARVMWDQKTGRSRGFGFVSFRNQQDAQ 89
I + +L+P T ++ + Y S S+ RV+ D++T +RGF F+ + AQ
Sbjct: 26 IILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTIEAAQ 81
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 34.3 bits (77), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 34/75 (45%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FV + E + + F Y + + D++TG S+G+ V + + A +A L
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 96 TGKWLGSRQIRCNWA 110
G + + I+ +W
Sbjct: 89 NGAEIMGQTIQVDWC 103
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 34.3 bits (77), Expect = 0.096, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 3/71 (4%)
Query: 30 TSGHFNIFVGDLSPEVTDATLFACFS---VYPSCSDARVMWDQKTGRSRGFGFVSFRNQQ 86
+SG +F+ +L+ T+ TL FS SC+ ++ S GFGFV ++ +
Sbjct: 2 SSGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPE 61
Query: 87 DAQSAINDLTG 97
AQ A+ L G
Sbjct: 62 QAQKALKQLQG 72
>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 = 0.10, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 34/75 (45%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FV + E + + F Y + + D++TG S+G+ V + + A +A L
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 96 TGKWLGSRQIRCNWA 110
G + + I+ +W
Sbjct: 135 NGAEIMGQTIQVDWC 149
Score = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 29/125 (23%), Positives = 49/125 (39%), Gaps = 19/125 (15%)
Query: 112 KGAGNNEDKQSSDAKSVVELTNGSSEDGKETTNTEAPENNPQYTTVYVGNLAPEVTQLDL 171
KG G D + +A E +D E P+ + + ++V ++ E + ++
Sbjct: 34 KGRGFGSDSNTREAIHSYERVRNEDDDELEP----GPQRSVEGWILFVTSIHEEAQEDEI 89
Query: 172 HRHFHSLGAGVIEEVRVQRD------KGFGFVRYSTHAEAALAIQ-------MGNTTQSS 218
F G I+ + + D KG+ V Y TH +A A + MG T Q
Sbjct: 90 QEKFCDYGE--IKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVD 147
Query: 219 YLFGK 223
+ F K
Sbjct: 148 WCFVK 152
>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 = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 1/86 (1%)
Query: 7 NGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVM 66
N + L G + A ++ + +F+G +S + T+ + FS + + R++
Sbjct: 69 NXKVLPGXHHPIQXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQIEECRIL 128
Query: 67 WDQKTGRSRGFGFVSFRNQQDAQSAI 92
G SRG FV+F + AQ+AI
Sbjct: 129 RG-PDGLSRGCAFVTFTTRAXAQTAI 153
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDKG---FGFVRYSTHAEAALAI 209
+YVGNL P++ D+ F+ GA I ++ ++ +G F FV + +A A+
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGA--IRDIDLKNRRGGPPFAFVEFEDPRDAEDAV 78
Score = 32.0 bits (71), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 3/80 (3%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
I+VG+L P++ + F Y + D + +++ G F FV F + +DA+ A+
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDID-LKNRRGGPP--FAFVEFEDPRDAEDAVYGR 81
Query: 96 TGKWLGSRQIRCNWATKGAG 115
G ++R + G G
Sbjct: 82 DGYDYDGYRLRVEFPRSGRG 101
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 41/89 (46%), Gaps = 1/89 (1%)
Query: 7 NGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVM 66
N + L G + A ++ + +F+G +S + T+ + FS + + R++
Sbjct: 69 NMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRIL 128
Query: 67 WDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
G SRG FV+F + AQ+AI +
Sbjct: 129 RG-PDGLSRGCAFVTFTTRAMAQTAIKAM 156
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 1/86 (1%)
Query: 7 NGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVM 66
N + L G + A ++ + +F+G +S + T+ + FS + + R++
Sbjct: 81 NMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRIL 140
Query: 67 WDQKTGRSRGFGFVSFRNQQDAQSAI 92
G SRG FV+F + AQ+AI
Sbjct: 141 RG-PDGLSRGCAFVTFTTRAMAQTAI 165
>pdb|2DIT|A Chain A, Solution Structure Of The Rrm_1 Domain Of Hiv Tat Specific
Factor 1 Variant
Length = 112
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 76 GFGFVSFRNQQDAQSAINDLTGKWLGSRQI 105
G VSFR+ ++A I L G+W G RQI
Sbjct: 65 GVASVSFRDPEEADYCIQTLDGRWFGGRQI 94
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 36/80 (45%), Gaps = 3/80 (3%)
Query: 23 ASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF 82
+SG + ++ V L + T+ L FS + +V D KTG S+GFGFV F
Sbjct: 5 SSGVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRF 64
Query: 83 ---RNQQDAQSAINDLTGKW 99
Q S + + G+W
Sbjct: 65 TEYETQVKVMSQRHMIDGRW 84
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 8/52 (15%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYSTH 202
+ V L + T+ DL +F + G ++ V+V++D KGFGFVR++ +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLM--VQVKKDLKTGHSKGFGFVRFTEY 67
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 1/74 (1%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+FV +L +V L FS+ A ++ D K G+SRG G V+F +A AI+
Sbjct: 17 TVFVANLDYKVGWKKLKEVFSMAGVVVRADILED-KDGKSRGIGTVTFEQSIEAVQAISM 75
Query: 95 LTGKWLGSRQIRCN 108
G+ L R +
Sbjct: 76 FNGQLLFDRPMHVK 89
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 20/81 (24%), Positives = 36/81 (44%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+F+G L + D + + + ++ D TG S+G+ F + + AI L
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 96 TGKWLGSRQIRCNWATKGAGN 116
G LG +++ A+ GA N
Sbjct: 64 NGMQLGDKKLLVQRASVGAKN 84
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG+L L F Y R +W + GF FV F + +DA A+ DL
Sbjct: 76 VYVGNLGNNGNKTELERAFGYY---GPLRSVWVARN--PPGFAFVEFEDPRDAADAVRDL 130
Query: 96 TGKWLGSRQIR 106
G+ L ++R
Sbjct: 131 DGRTLCGCRVR 141
Score = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 152 PQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD-KGFGFVRYSTHAEAALAIQ 210
P VYVGNL + +L R F G + V V R+ GF FV + +AA A++
Sbjct: 71 PLDCKVYVGNLGNNGNKTELERAFGYYGP--LRSVWVARNPPGFAFVEFEDPRDAADAVR 128
>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 = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/108 (20%), Positives = 45/108 (41%), Gaps = 3/108 (2%)
Query: 4 LSLNGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDA 63
++ +G GQ +K+ + + G +F+G L + D + + +
Sbjct: 70 MAFDGIIFQGQSLKIRRPH---DYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAF 126
Query: 64 RVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNWAT 111
++ D TG S+G+ F + + AI L G LG +++ A+
Sbjct: 127 NLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS 174
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 22/108 (20%), Positives = 45/108 (41%), Gaps = 3/108 (2%)
Query: 4 LSLNGRHLFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDA 63
++ +G GQ +K+ + + G +F+G L + D + + +
Sbjct: 68 MAFDGIIFQGQSLKIRRPH---DYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAF 124
Query: 64 RVMWDQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNWAT 111
++ D TG S+G+ F + + AI L G LG +++ A+
Sbjct: 125 NLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS 172
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 32.7 bits (73), Expect = 0.31, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 33/70 (47%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
+FV +LS ++ L FS Y S+ D T + +GF FV+F + A A ++
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 96 TGKWLGSRQI 105
G+ R +
Sbjct: 71 DGQVFQGRML 80
>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 = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 20/27 (74%)
Query: 62 DARVMWDQKTGRSRGFGFVSFRNQQDA 88
+ R+M ++ +G+SRGF FV F + QDA
Sbjct: 31 EVRLMRNKSSGQSRGFAFVEFSHLQDA 57
>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 = 31.6 bits (70), Expect = 0.57, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 35/77 (45%), Gaps = 12/77 (15%)
Query: 156 TVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYSTHAEAALAI 209
++YVGN+ T +L HFH G G + V + D KGF ++ +S ++
Sbjct: 7 SIYVGNVDYGATAEELEAHFH--GCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 64
Query: 210 QMGNTTQSSYLFGKQMK 226
+ S G+Q+K
Sbjct: 65 AL----DESLFRGRQIK 77
Score = 29.6 bits (65), Expect = 2.0, Method: Composition-based stats.
Identities = 17/72 (23%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+I+VG++ T L A F S + ++ D+ +G +GF ++ F +++ ++++
Sbjct: 7 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA- 65
Query: 95 LTGKWLGSRQIR 106
L RQI+
Sbjct: 66 LDESLFRGRQIK 77
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 31.6 bits (70), Expect = 0.60, Method: Composition-based stats.
Identities = 26/86 (30%), Positives = 40/86 (46%), Gaps = 10/86 (11%)
Query: 148 PENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD-----KGFGFVRYSTH 202
P TV+VGNL V + L+ F L AG + +V + +D K FGFV +
Sbjct: 10 PAQEEADRTVFVGNLEARVREEILYELF--LQAGPLTKVTICKDREGKPKSFGFVCFKHP 67
Query: 203 AEAALAIQMGNTTQSSYLFGKQMKCS 228
+ AI + N + L+G+ + S
Sbjct: 68 ESVSYAIALLNGIR---LYGRPINVS 90
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 31.6 bits (70), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 1/79 (1%)
Query: 34 FNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIN 93
F +++ L E + + F D+ + G++ G GFV FRN+ D ++A+
Sbjct: 26 FCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC 85
Query: 94 DLTGKWLGSRQIRCNWATK 112
+++G+R I+ + TK
Sbjct: 86 R-HKQYMGNRFIQVHPITK 103
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 31.2 bits (69), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 152 PQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD-KGFGFVRYSTHAEAALAIQ 210
P VYVGNL + +L R F G + V V R+ GF FV + +AA A++
Sbjct: 71 PLDCKVYVGNLGNNGNKTELERAFGYYGP--LRSVWVARNPPGFAFVEFEDPRDAADAVR 128
Score = 31.2 bits (69), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAINDL 95
++VG+L L F Y R +W + GF FV F + +DA A+ +L
Sbjct: 76 VYVGNLGNNGNKTELERAFGYY---GPLRSVWVARN--PPGFAFVEFEDPRDAADAVREL 130
Query: 96 TGKWLGSRQIR 106
G+ L ++R
Sbjct: 131 DGRTLCGCRVR 141
>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 = 31.2 bits (69), Expect = 0.74, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 35/77 (45%), Gaps = 12/77 (15%)
Query: 156 TVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYSTHAEAALAI 209
++YVGN+ T +L HFH G G + V + D KGF ++ +S ++
Sbjct: 8 SIYVGNVDYGATAEELEAHFH--GCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65
Query: 210 QMGNTTQSSYLFGKQMK 226
+ S G+Q+K
Sbjct: 66 AL----DESLFRGRQIK 78
Score = 29.6 bits (65), Expect = 2.6, Method: Composition-based stats.
Identities = 17/72 (23%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQSAIND 94
+I+VG++ T L A F S + ++ D+ +G +GF ++ F +++ ++++
Sbjct: 8 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLA- 66
Query: 95 LTGKWLGSRQIR 106
L RQI+
Sbjct: 67 LDESLFRGRQIK 78
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 31.2 bits (69), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 28/47 (59%)
Query: 68 DQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNWATKGA 114
D++TG+ +G VSF + A++AI+ GK I+ ++AT+ A
Sbjct: 50 DRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFATRRA 96
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 30.8 bits (68), Expect = 0.93, Method: Composition-based stats.
Identities = 12/37 (32%), Positives = 23/37 (62%)
Query: 70 KTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIR 106
+ G+S+G+ F+ F + +DA+ A+N + + R IR
Sbjct: 48 QNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIR 84
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 30.8 bits (68), Expect = 0.99, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCS--DARVMWDQKTGRSRGFGFVSFRNQQDAQSAIN 93
I + +++P ++ S Y S + + R++ D++T ++RGF FV + DA +
Sbjct: 12 IILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQ 71
Query: 94 DL 95
L
Sbjct: 72 IL 73
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 6/69 (8%)
Query: 30 TSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQ 89
+SG +++G+LSP VT L F D ++ + G+ FV + +Q A
Sbjct: 5 SSGMNKLYIGNLSPAVTADDLRQLF------GDRKLPLAGQVLLKSGYAFVDYPDQNWAI 58
Query: 90 SAINDLTGK 98
AI L+GK
Sbjct: 59 RAIETLSGK 67
Score = 28.1 bits (61), Expect = 6.2, Method: Composition-based stats.
Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 10/80 (12%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDKGFGFVRYSTHAEAALAIQM----- 211
+Y+GNL+P VT DL + F + +V ++ G+ FV Y A AI+
Sbjct: 11 LYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLK--SGYAFVDYPDQNWAIRAIETLSGKV 68
Query: 212 ---GNTTQSSYLFGKQMKCS 228
G + Y K+++ S
Sbjct: 69 ELHGKIMEVDYSVSKKLRSS 88
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 19/75 (25%), Positives = 33/75 (44%), Gaps = 9/75 (12%)
Query: 36 IFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGR-----SRGFGFVSFRNQQDAQS 90
+ +G L+ VT + FS Y M D R S+G+ +V F N +A+
Sbjct: 7 VHIGRLTRNVTKDHIMEIFSTYGKIK----MIDMPVERMHPHLSKGYAYVEFENPDEAEK 62
Query: 91 AINDLTGKWLGSRQI 105
A+ + G + ++I
Sbjct: 63 ALKHMDGGQIDGQEI 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 = 1.9, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 8/65 (12%)
Query: 156 TVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD------KGFGFVRYSTHAEAALAI 209
+VYVGN+ T DL HF S G+ I + + D KG+ ++ ++ A+
Sbjct: 38 SVYVGNVDYGSTAQDLEAHFSSCGS--INRITILCDKFSGHPKGYAYIEFAERNSVDAAV 95
Query: 210 QMGNT 214
M T
Sbjct: 96 AMDET 100
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 35 NIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSF--RNQQDAQSAI 92
+++VG++ T L A FS S + ++ D+ +G +G+ ++ F RN DA A+
Sbjct: 38 SVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAM 97
Query: 93 ND 94
++
Sbjct: 98 DE 99
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/83 (21%), Positives = 36/83 (43%), Gaps = 4/83 (4%)
Query: 18 VNWAYASGQREDTSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGF 77
V A Q +D + N+++ +L + + L + R++ D +G SRG
Sbjct: 13 VQAQMAKQQEQDPT---NLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGV 68
Query: 78 GFVSFRNQQDAQSAINDLTGKWL 100
GF + + ++ I GK++
Sbjct: 69 GFARMESTEKCEAVIGHFNGKFI 91
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 29.6 bits (65), Expect = 2.4, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 26/44 (59%)
Query: 68 DQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNWAT 111
D++TG+ +G VSF + A++AI+ GK I+ ++AT
Sbjct: 56 DRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFAT 99
>pdb|1JMT|A Chain A, X-Ray Structure Of A Core U2af65U2AF35 HETERODIMER
Length = 104
Score = 29.3 bits (64), Expect = 2.7, Method: Composition-based stats.
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 79 FVSFRNQQDAQSAINDLTGKWLGSRQI 105
+V FR ++DA+ A+ DL +W + I
Sbjct: 72 YVKFRREEDAEKAVIDLNNRWFNGQPI 98
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 29.3 bits (64), Expect = 2.9, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 30 TSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQ 89
+SG +FVG + ++T+ L FS Y D + R F FV+F + Q AQ
Sbjct: 2 SSGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFI-----PKPFRAFAFVTFADDQIAQ 56
Query: 90 S 90
S
Sbjct: 57 S 57
>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 = 29.3 bits (64), Expect = 3.0, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 68 DQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWL 100
D+ TG+++GF FV + DA+ I GK L
Sbjct: 47 DEATGKTKGFLFVECGSMNDAKKIIKSFHGKRL 79
>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 = 29.3 bits (64), Expect = 3.0, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 68 DQKTGRSRGFGFVSFRNQQDAQSAINDLTGKWL 100
D+ TG+++GF FV + DA+ I GK L
Sbjct: 47 DEATGKTKGFLFVECGSMNDAKKIIKSFHGKRL 79
>pdb|3QCW|A Chain A, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), No
Splice Inserts
pdb|3QCW|B Chain B, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), No
Splice Inserts
Length = 1245
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 19/40 (47%)
Query: 11 LFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATL 50
LF ++ W +R D + +FVG L PE+ A L
Sbjct: 98 LFIDQVEAKWVEVKSKRRDMTVFSGLFVGGLPPELRAAAL 137
>pdb|2EK6|A Chain A, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|B Chain B, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|C Chain C, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|D Chain D, Crystal Structure Of Human Rna-Binding Protein 12
Length = 95
Score = 28.9 bits (63), Expect = 3.7, Method: Composition-based stats.
Identities = 12/44 (27%), Positives = 26/44 (59%)
Query: 70 KTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNWATKG 113
+ G G V+F ++ +A +A+ DL + +GSR+++ + + G
Sbjct: 52 EKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPSSG 95
>pdb|3R05|A Chain A, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
Splice Insert Ss3
pdb|3R05|B Chain B, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
Splice Insert Ss3
Length = 1254
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 19/40 (47%)
Query: 11 LFGQPIKVNWAYASGQREDTSGHFNIFVGDLSPEVTDATL 50
LF ++ W +R D + +FVG L PE+ A L
Sbjct: 98 LFIDQVEAKWVEVKSKRRDMTVFSGLFVGGLPPELRAAAL 137
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 28.9 bits (63), Expect = 4.5, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 21/42 (50%)
Query: 69 QKTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNWA 110
++ + R + FV F N++DA A+ L GK L I A
Sbjct: 45 ERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLA 86
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 28.5 bits (62), Expect = 4.7, Method: Composition-based stats.
Identities = 24/98 (24%), Positives = 41/98 (41%), Gaps = 13/98 (13%)
Query: 30 TSGHFNIFVGDLSPEVTDATLFACFSVYPSCSDARVMWDQKTGRSRGFGFVSFRNQQDAQ 89
+SG +F+G+L E T+ + + F Y + ++ + +GFV ++ A+
Sbjct: 5 SSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAE 56
Query: 90 SAINDLTGKWLGSRQIRCNWATKGAGNNEDKQSSDAKS 127
AI +L L I A N+ K SS S
Sbjct: 57 DAIRNLHHYKLHGVNINVE-----ASKNKSKASSGPSS 89
>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 = 28.5 bits (62), Expect = 5.4, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 6/55 (10%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRV------QRDKGFGFVRYSTHAEA 205
+Y+GNL T DL HSLG I E++ + KGF V + A +
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASS 58
>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 = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 6/61 (9%)
Query: 157 VYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRV------QRDKGFGFVRYSTHAEAALAIQ 210
+Y+GNL T DL HSLG I E++ + KGF V + A + +
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 130
Query: 211 M 211
+
Sbjct: 131 L 131
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 28.5 bits (62), Expect = 5.6, Method: Composition-based stats.
Identities = 25/72 (34%), Positives = 30/72 (41%), Gaps = 15/72 (20%)
Query: 134 GSSEDGKETTNTEAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRD-- 191
GSS + TE P T YVGNL Q D+ F L I VR+ RD
Sbjct: 1 GSSGSSGKELPTEPP------YTAYVGNLPFNTVQGDIDAIFKDLS---IRSVRLVRDKD 51
Query: 192 ----KGFGFVRY 199
KGF +V +
Sbjct: 52 TDKFKGFCYVEF 63
>pdb|2EK1|A Chain A, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|B Chain B, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|C Chain C, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|D Chain D, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|E Chain E, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|F Chain F, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|G Chain G, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|H Chain H, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
Length = 95
Score = 28.5 bits (62), Expect = 5.9, Method: Composition-based stats.
Identities = 12/44 (27%), Positives = 26/44 (59%)
Query: 70 KTGRSRGFGFVSFRNQQDAQSAINDLTGKWLGSRQIRCNWATKG 113
+ G G V+F ++ +A +A+ DL + +GSR+++ + + G
Sbjct: 52 EKGXPTGEAXVAFESRDEATAAVIDLNDRPIGSRKVKLSGPSSG 95
>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 = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 24/53 (45%)
Query: 146 EAPENNPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVIEEVRVQRDKGFGFVR 198
EA N + TTV V NL Q ++++F G + +V K F F R
Sbjct: 33 EALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFAR 85
>pdb|1ZXF|A Chain A, Solution Structure Of A Self-Sacrificing Resistance
Protein, Calc From Micromonospora Echinospora
pdb|2GKD|A Chain A, Structural Insight Into Self-Sacrifice Mechanism Of
Enediyne Resistance
pdb|2L65|A Chain A, Haddock Calculated Model Of The Complex Of The Resistance
Protein Calc And Calicheamicin-Gamma
Length = 155
Score = 27.7 bits (60), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 148 PENNPQYTTVYVGNLAPEVTQLDL-HRHFHSLGAGVIEEVRVQRDKGF 194
P+N+ ++T +V + + T++D+ H HF +G + VR DKG+
Sbjct: 91 PDNSSEFTVTFVAD-GQKKTRVDVEHTHFDRMGTKHAKRVRNGMDKGW 137
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation Initiation
Factor 4b
Length = 100
Score = 27.7 bits (60), Expect = 9.2, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 151 NPQYTTVYVGNLAPEVTQLDLHRHFHSLGAGVI----EEVRVQRDKGFGFVRY 199
+P YT ++GNL +VT+ + F L + E +R KGFG+ +
Sbjct: 17 SPPYTA-FLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEF 68
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
0.316 0.130 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,891,207
Number of Sequences: 62578
Number of extensions: 351712
Number of successful extensions: 1134
Number of sequences better than 100.0: 162
Number of HSP's better than 100.0 without gapping: 138
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 822
Number of HSP's gapped (non-prelim): 307
length of query: 320
length of database: 14,973,337
effective HSP length: 99
effective length of query: 221
effective length of database: 8,778,115
effective search space: 1939963415
effective search space used: 1939963415
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)