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= psy3994
(282 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DIW|A Chain A, Solution Structure Of The Rpr Domain Of Putative Rna-
Binding Protein 16
Length = 152
Score = 187 bits (476), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 91/140 (65%), Positives = 104/140 (74%), Gaps = 1/140 (0%)
Query: 1 MDVIKTFNQELSSLYDTKPPISXXXXXXXXXXXXXXXXFYKHVVQSVEKFIIKCKPEYKV 60
M+ +KTFN EL SL D KPPIS FYKHVVQSVEKFI KCKPEYKV
Sbjct: 10 MEAVKTFNSELYSLNDYKPPISKAKMTQITKAAIKAIKFYKHVVQSVEKFIQKCKPEYKV 69
Query: 61 PALYVIDSLVRQSRHQF-QDKDVFGPRFARNLKATFQHLYQCPPEDKSKIIRVLNLWQKN 119
P LYVIDS+VRQSRHQF Q+KDVF PRF+ N+ +TFQ+LY+CP +DKSKI+RVLNLWQKN
Sbjct: 70 PGLYVIDSIVRQSRHQFGQEKDVFAPRFSNNIISTFQNLYRCPGDDKSKIVRVLNLWQKN 129
Query: 120 EVFTPDIIHPLFDMADPNHP 139
VF +II PL DMA + P
Sbjct: 130 NVFKSEIIQPLLDMAAGSGP 149
>pdb|3D9I|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9I|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
Length = 145
Score = 186 bits (473), Expect = 9e-48, Method: Compositional matrix adjust.
Identities = 90/135 (66%), Positives = 102/135 (75%), Gaps = 1/135 (0%)
Query: 1 MDVIKTFNQELSSLYDTKPPISXXXXXXXXXXXXXXXXFYKHVVQSVEKFIIKCKPEYKV 60
M+ +KTFN EL SL D KPPIS FYKHVVQSVEKFI KCKPEYKV
Sbjct: 1 MEAVKTFNSELYSLMDMKPPISKAKMTQITKAAIKAIKFYKHVVQSVEKFIQKCKPEYKV 60
Query: 61 PALYVIDSLVRQSRHQF-QDKDVFGPRFARNLKATFQHLYQCPPEDKSKIIRVLNLWQKN 119
P LYVIDS+VRQSRHQF Q+KDVF PRF+ N+ +TFQ+LY+CP +DKSKI+RVLNLWQKN
Sbjct: 61 PGLYVIDSIVRQSRHQFGQEKDVFAPRFSNNIISTFQNLYRCPGDDKSKIVRVLNLWQKN 120
Query: 120 EVFTPDIIHPLFDMA 134
VF +II PL DMA
Sbjct: 121 NVFKSEIIQPLLDMA 135
>pdb|3D9J|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9J|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9K|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9K|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9L|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9L|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9M|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9M|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9N|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9N|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
Length = 145
Score = 185 bits (470), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 90/135 (66%), Positives = 102/135 (75%), Gaps = 1/135 (0%)
Query: 1 MDVIKTFNQELSSLYDTKPPISXXXXXXXXXXXXXXXXFYKHVVQSVEKFIIKCKPEYKV 60
M+ +KTFN EL SL D KPPIS FYKHVVQSVEKFI KCKPEYKV
Sbjct: 1 MEAVKTFNSELYSLNDYKPPISKAKMTQITKAAIKAIKFYKHVVQSVEKFIQKCKPEYKV 60
Query: 61 PALYVIDSLVRQSRHQF-QDKDVFGPRFARNLKATFQHLYQCPPEDKSKIIRVLNLWQKN 119
P LYVIDS+VRQSRHQF Q+KDVF PRF+ N+ +TFQ+LY+CP +DKSKI+RVLNLWQKN
Sbjct: 61 PGLYVIDSIVRQSRHQFGQEKDVFAPRFSNNIISTFQNLYRCPGDDKSKIVRVLNLWQKN 120
Query: 120 EVFTPDIIHPLFDMA 134
VF +II PL DMA
Sbjct: 121 NVFKSEIIQPLLDMA 135
>pdb|3D9P|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9P|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
Length = 145
Score = 182 bits (463), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 89/135 (65%), Positives = 101/135 (74%), Gaps = 1/135 (0%)
Query: 1 MDVIKTFNQELSSLYDTKPPISXXXXXXXXXXXXXXXXFYKHVVQSVEKFIIKCKPEYKV 60
M+ +KTFN EL SL D KPPIS FYKHVVQSVEKFI KCKPEYKV
Sbjct: 1 MEAVKTFNSELYSLNDYKPPISKAKMTQITKAAIKAIKFYKHVVQSVEKFIQKCKPEYKV 60
Query: 61 PALYVIDSLVRQSRHQF-QDKDVFGPRFARNLKATFQHLYQCPPEDKSKIIRVLNLWQKN 119
P LYVIDS+VRQSRHQF Q+KDVF PRF+ N+ +TFQ+LY+CP +DKSKI+ VLNLWQKN
Sbjct: 61 PGLYVIDSIVRQSRHQFGQEKDVFAPRFSNNIISTFQNLYRCPGDDKSKIVTVLNLWQKN 120
Query: 120 EVFTPDIIHPLFDMA 134
VF +II PL DMA
Sbjct: 121 NVFKSEIIQPLLDMA 135
>pdb|3D9O|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9O|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
Length = 145
Score = 181 bits (458), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 89/134 (66%), Positives = 101/134 (75%), Gaps = 1/134 (0%)
Query: 2 DVIKTFNQELSSLYDTKPPISXXXXXXXXXXXXXXXXFYKHVVQSVEKFIIKCKPEYKVP 61
+ +KTFN EL SL D KPPIS FYKHVVQSVEKFI KCKPEYKVP
Sbjct: 2 EAVKTFNSELYSLXDXKPPISKAKXTQITKAAIKAIKFYKHVVQSVEKFIQKCKPEYKVP 61
Query: 62 ALYVIDSLVRQSRHQF-QDKDVFGPRFARNLKATFQHLYQCPPEDKSKIIRVLNLWQKNE 120
LYVIDS+VRQSRHQF Q+KDVF PRF+ N+ +TFQ+LY+CP +DKSKI+RVLNLWQKN
Sbjct: 62 GLYVIDSIVRQSRHQFGQEKDVFAPRFSNNIISTFQNLYRCPGDDKSKIVRVLNLWQKNN 121
Query: 121 VFTPDIIHPLFDMA 134
VF +II PL D A
Sbjct: 122 VFKSEIIQPLLDXA 135
>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 = 55.1 bits (131), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 53/94 (56%), Gaps = 10/94 (10%)
Query: 149 ARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMN 202
AR G E++ T L++ +L + + +++L FG+YG +V N++ PRG AFV N
Sbjct: 91 ARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYN 150
Query: 203 RRQDAAKALYKLKNTKLQGK----TITLAWAPGK 232
+R++A +A+ L N +G ++ LA GK
Sbjct: 151 KREEAQEAISALNNVIPEGGSQPLSVRLAEEHGK 184
>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 = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 53/94 (56%), Gaps = 10/94 (10%)
Query: 149 ARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMN 202
AR G E++ T L++ +L + + +++L FG+YG +V N++ PRG AFV N
Sbjct: 4 ARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYN 63
Query: 203 RRQDAAKALYKLKNTKLQGK----TITLAWAPGK 232
+R++A +A+ L N +G ++ LA GK
Sbjct: 64 KREEAQEAISALNNVIPEGGSQPLSVRLAEEHGK 97
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 54.3 bits (129), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 50/85 (58%), Gaps = 6/85 (7%)
Query: 149 ARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMN 202
AR G E++ T L++ +L + + +++L FG+YG +V N++ PRG AFV N
Sbjct: 80 ARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYN 139
Query: 203 RRQDAAKALYKLKNTKLQGKTITLA 227
+R++A +A+ L N +G + L+
Sbjct: 140 KREEAQEAISALNNVIPEGGSQPLS 164
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 26/65 (40%), Positives = 39/65 (60%), Gaps = 2/65 (3%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNT 217
ST L +G++S +EL F EYG V+ +++ + AFV M R +DA +A+ L NT
Sbjct: 10 STKLHVGNISPTCTNQELRAKFEEYGPVIECDIV--KDYAFVHMERAEDAVEAIRGLDNT 67
Query: 218 KLQGK 222
+ QGK
Sbjct: 68 EFQGK 72
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 33/71 (46%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTK 218
TT +IG++ E +L F +G ++ P +GC F+ + + AA + L N
Sbjct: 28 TTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEKGCCFIKYDTHEQAAVCIVALANFP 87
Query: 219 LQGKTITLAWA 229
QG+ + W
Sbjct: 88 FQGRNLRTGWG 98
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 57/125 (45%), Gaps = 12/125 (9%)
Query: 100 QCPPEDKSKIIRVLNLWQKNEVFTPDIIHPLFDMADPNHPIHRELAEIQARNGVENMCST 159
Q PP+ K V +K + + +H + + +HPI + A+ + N VE+
Sbjct: 41 QNPPQSKGCCF-VTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVED---R 96
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRR---QDAAKAL 211
L+IG +SK E ++ F +G + ++ RGCAFV R Q A KA+
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAM 156
Query: 212 YKLKN 216
++ +
Sbjct: 157 HQAQT 161
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 8/67 (11%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PP--RGCAFVCMNRRQDAAKALY 212
+++G + + E++L + F +YG V IN++ PP +GC FV R+ A +A
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 213 KLKNTKL 219
L N K+
Sbjct: 66 ALHNMKV 72
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 42.7 bits (99), Expect = 2e-04, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 154 ENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYK 213
E+ TTL++G L + E +L + F ++G++ +I ++ + CAF+ RQ A A K
Sbjct: 8 EDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAAEVAAEK 67
Query: 214 LKNTKL-QGKTITLAWA 229
N + G+ + + W
Sbjct: 68 SFNKLIVNGRRLNVKWG 84
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 16/70 (22%), Positives = 37/70 (52%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKL 219
T++ G ++ + ++ + TF +G ++ I + P +G +FV + + AA A+ + T +
Sbjct: 27 TVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTI 86
Query: 220 QGKTITLAWA 229
+G + W
Sbjct: 87 EGHVVKCYWG 96
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 62/138 (44%), Gaps = 12/138 (8%)
Query: 100 QCPPEDKSKIIRVLNLWQKNEVFTPDIIHPLFDMADPNHPIHRELAEIQARNGVENMCST 159
Q PP+ K V +K + + +H + + +HPI + A+ + N VE+
Sbjct: 53 QNPPQSKGCCF-VTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVED---R 108
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRR---QDAAKAL 211
L+IG +SK E ++ F +G + ++ RGCAFV R Q A KA+
Sbjct: 109 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAM 168
Query: 212 YKLKNTKLQGKTITLAWA 229
++ + + + + +A
Sbjct: 169 HQAQTMEGCSSPMVVKFA 186
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 8/67 (11%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PP--RGCAFVCMNRRQDAAKALY 212
+++G + + E++L + F +YG V IN++ PP +GC FV R+ A +A
Sbjct: 18 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 77
Query: 213 KLKNTKL 219
L N K+
Sbjct: 78 ALHNMKV 84
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 51/117 (43%), Gaps = 9/117 (7%)
Query: 100 QCPPEDKSKIIRVLNLWQKNEVFTPDIIHPLFDMADPNHPIHRELAEIQARNGVENMCST 159
Q PP+ K V +K + + +H + +HPI + A+ + N VE+
Sbjct: 41 QNPPQSKGCCF-VTFYTRKAALEAQNALHNXKVLPGXHHPIQXKPADSEKNNAVEDR--- 96
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-----PRGCAFVCMNRRQDAAKAL 211
L+IG +SK E ++ F +G + ++ RGCAFV R A A+
Sbjct: 97 KLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAXAQTAI 153
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 8/66 (12%)
Query: 162 WIGHLSKLVQEEELSDTFGEYGDVVSINLI------PP--RGCAFVCMNRRQDAAKALYK 213
++G + + E++L + F +YG V IN++ PP +GC FV R+ A +A
Sbjct: 7 FVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNA 66
Query: 214 LKNTKL 219
L N K+
Sbjct: 67 LHNXKV 72
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 40.8 bits (94), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 39/77 (50%), Gaps = 6/77 (7%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALY 212
T L + +L + + ++E FG GD+ S L+ + G FV + DA KA+
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 213 KLKNTKLQGKTITLAWA 229
L KLQ KTI +++A
Sbjct: 65 TLNGLKLQTKTIKVSYA 81
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 25/77 (32%), Positives = 39/77 (50%), Gaps = 6/77 (7%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALY 212
T L + +L + + ++E FG GD+ S L+ + G FV + DA KA+
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 213 KLKNTKLQGKTITLAWA 229
L KLQ KTI +++A
Sbjct: 65 TLNGLKLQTKTIKVSYA 81
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSI-----NLIPPRGCAFVCMNRRQDAAKALY 212
S TL++G+LS EE++ + F + GD+ I + G FV R DA A+
Sbjct: 18 SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSRADAENAMR 77
Query: 213 KLKNTKLQGKTITLAWAPG 231
+ T+L + I W G
Sbjct: 78 YINGTRLDDRIIRTDWDAG 96
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 45/90 (50%), Gaps = 10/90 (11%)
Query: 149 ARNGVENMCST--TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-------PRGCAFV 199
+G M +T L++G L++ V ++ L F +GD+ I IP RG AFV
Sbjct: 1 GSSGSSGMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQ-IPLDYETEKHRGFAFV 59
Query: 200 CMNRRQDAAKALYKLKNTKLQGKTITLAWA 229
+DAA A+ + ++L G+TI + A
Sbjct: 60 EFELAEDAAAAIDNMNESELFGRTIRVNLA 89
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 45/82 (54%), Gaps = 8/82 (9%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMNRRQDAAKALYKL 214
+++G+L E++ + F ++G V ++ LI P+G FV M + + ++A+ KL
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEM-QEESVSEAIAKL 62
Query: 215 KNTKLQGKTITLAWA-PGKGMK 235
NT G+TI + A P K ++
Sbjct: 63 DNTDFMGRTIRVTEANPKKSLE 84
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 39/80 (48%), Gaps = 6/80 (7%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGD----VVSINLIPPRGCAFVCMN--RRQDAAKAL 211
S TL++G+LS EE++ + F + GD ++ ++ + C F + R DA A+
Sbjct: 39 SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAM 98
Query: 212 YKLKNTKLQGKTITLAWAPG 231
+ T+L + I W G
Sbjct: 99 RYINGTRLDDRIIRTDWDAG 118
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 29/46 (63%)
Query: 175 LSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQ 220
L F +G+++ +++ PPR CAFV + + A +A+ +L T+++
Sbjct: 54 LRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVE 99
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 5/74 (6%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLI-----PPRGCAFVCMNRRQDAAKALYKLK 215
L+IG L++ E+ L FG++G + + LI RG AF+ DA A +
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMN 69
Query: 216 NTKLQGKTITLAWA 229
L GK I + A
Sbjct: 70 GKSLHGKAIKVEQA 83
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 53/117 (45%), Gaps = 12/117 (10%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALY 212
T L + +L + + +EE FG G++ S L+ + G FV +DA KA+
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62
Query: 213 KLKNTKLQGKTITLAWAPGKGMKDKDWKDFWEVQDGVSYIPYDRLSKEIDYDYLEDG 269
L +LQ KTI +++A +D + VS +P KE++ + + G
Sbjct: 63 TLNGLRLQTKTIKVSYARPSSASIRDANLY------VSGLPKTMTQKELEQLFSQYG 113
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 39/77 (50%), Gaps = 6/77 (7%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALY 212
T L + +L + + ++EL F G+V S LI + G FV +DA +A+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 213 KLKNTKLQGKTITLAWA 229
L +LQ KTI +++A
Sbjct: 63 TLNGLRLQSKTIKVSYA 79
>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 = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 39/77 (50%), Gaps = 6/77 (7%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALY 212
T L + +L + + ++EL F G+V S LI + G FV +DA +A+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 213 KLKNTKLQGKTITLAWA 229
L +LQ KTI +++A
Sbjct: 63 TLNGLRLQSKTIKVSYA 79
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 29/46 (63%)
Query: 175 LSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQ 220
L F +G+++ +++ PPR CAFV + + A +A+ +L T+++
Sbjct: 30 LRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVE 75
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 37/71 (52%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTK 218
+ L++G+L + EEE+ F +YG + + +G F+ + R A A +L N
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMP 82
Query: 219 LQGKTITLAWA 229
L+GK + + +A
Sbjct: 83 LRGKQLRVRFA 93
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
Length = 88
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 8/67 (11%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PP--RGCAFVCMNRRQDAAKALY 212
+++G + + E++L + F +YG V IN++ PP +GC FV R+ A +A
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 213 KLKNTKL 219
L N K+
Sbjct: 66 ALHNMKV 72
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 37.7 bits (86), Expect = 0.007, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 39/77 (50%), Gaps = 6/77 (7%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALY 212
T L + +L + + ++EL F G+V S LI + G FV +DA +A+
Sbjct: 5 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 64
Query: 213 KLKNTKLQGKTITLAWA 229
L +LQ KTI +++A
Sbjct: 65 TLNGLRLQSKTIKVSYA 81
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 6/77 (7%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALY 212
T L + +L + ++EL F G+V S LI + G FV +DA +A+
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 79
Query: 213 KLKNTKLQGKTITLAWA 229
L +LQ KTI +++A
Sbjct: 80 TLNGLRLQSKTIKVSYA 96
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 8/76 (10%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-------PRGCAFVCMNRRQDAAKALYK 213
L++G L++ V ++ L F +GD+ I IP RG AFV +DAA A+
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQ-IPLDYETEKHRGFAFVEFELAEDAAAAIDN 124
Query: 214 LKNTKLQGKTITLAWA 229
+ ++L G+TI + A
Sbjct: 125 MNESELFGRTIRVNLA 140
>pdb|4HFG|A Chain A, Cid Of Human Rprd1b
pdb|4HFG|B Chain B, Cid Of Human Rprd1b
Length = 135
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 43/93 (46%), Gaps = 13/93 (13%)
Query: 53 KCKPEYKVPALYVIDSLVRQSRHQFQDKDVFGPRFARNLKA----TFQHLYQCPPED-KS 107
K K K+ LY+ + +++ S+ + GP F R ++ F H+ + E K
Sbjct: 50 KAKSNRKLTFLYLANDVIQNSKRK-------GPEFTREFESVLVDAFSHVAREADEGCKK 102
Query: 108 KIIRVLNLWQKNEVFTPDIIHPL-FDMADPNHP 139
+ R+LN+WQ+ V+ + I L M D P
Sbjct: 103 PLERLLNIWQERSVYGGEFIQQLKLSMEDSKSP 135
>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 = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 37/71 (52%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTK 218
+ L++G+L + EEE+ F +YG + + +G F+ + R A A +L N
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMP 75
Query: 219 LQGKTITLAWA 229
L+GK + + +A
Sbjct: 76 LRGKQLRVRFA 86
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 36.6 bits (83), Expect = 0.016, Method: Composition-based stats.
Identities = 28/82 (34%), Positives = 43/82 (52%), Gaps = 11/82 (13%)
Query: 158 STT---LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-------PRGCAFVCMNRRQDA 207
STT L++G L++ V ++ L F +GD+ I IP RG AFV +DA
Sbjct: 2 STTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQ-IPLDYETEKHRGFAFVEFELAEDA 60
Query: 208 AKALYKLKNTKLQGKTITLAWA 229
A A+ + ++L G+TI + A
Sbjct: 61 AAAIDNMNESELFGRTIRVNLA 82
>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 = 36.6 bits (83), Expect = 0.017, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 8/76 (10%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-------PRGCAFVCMNRRQDAAKALYK 213
L++G L++ V ++ L F +GD+ I IP RG AFV +DAA A+
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQ-IPLDYETEKHRGFAFVEFELAEDAAAAIDN 68
Query: 214 LKNTKLQGKTITLAWA 229
+ ++L G+TI + A
Sbjct: 69 MNESELFGRTIRVNLA 84
>pdb|1A9N|B Chain B, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
pdb|1A9N|D Chain D, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
Length = 96
Score = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 39/77 (50%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALY 212
T++I +++ +++EEL + FG D+V++ + RG AFV + AL
Sbjct: 8 TIYINNMNDKIKKEELKRSLYALFSQFGHVVDIVALKTMKMRGQAFVIFKELGSSTNALR 67
Query: 213 KLKNTKLQGKTITLAWA 229
+L+ GK + + +A
Sbjct: 68 QLQGFPFYGKPMRIQYA 84
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 36.2 bits (82), Expect = 0.020, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 8/76 (10%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-------PRGCAFVCMNRRQDAAKALYK 213
L++G L++ V ++ L F +GD+ I IP RG AFV +DAA A+
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQ-IPLDYETEKHRGFAFVEFELAEDAAAAIDN 63
Query: 214 LKNTKLQGKTITLAWA 229
+ ++L G+TI + A
Sbjct: 64 MNESELFGRTIRVNLA 79
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 36.2 bits (82), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 6/84 (7%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMNRRQDAAKALYK 213
++++G++ EE+L D F E G VVS L+ P+G F ++ A A+
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 214 LKNTKLQGKTITLAWAPGKGMKDK 237
L + G+ + + A + K++
Sbjct: 70 LNGREFSGRALRVDNAASEKNKEE 93
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 36.2 bits (82), Expect = 0.023, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQ 220
L+IG+L + E+E+ F +YG V+ ++I G FV + + A A+ L + KL
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDIIKNYG--FVHIEDKTAAEDAIRNLHHYKLH 68
Query: 221 GKTITLAWAPGK 232
G I + + K
Sbjct: 69 GVNINVEASKNK 80
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 35.8 bits (81), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 149 ARNGVENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMN 202
+G+++ + L+IG + + + E++L F E+G + + ++ R GCAF+
Sbjct: 4 GSSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYC 63
Query: 203 RRQDAAKALYKLKNTK 218
R+ A KA L K
Sbjct: 64 ERESALKAQSALHEQK 79
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 156 MCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLK 215
+ +T L++ VQE EL++ FG +G + + ++ G AFV + AAKA+ ++
Sbjct: 29 LSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--NGFAFVEFEEAESAAKAIEEVH 86
Query: 216 NTKLQGKTITLAWA 229
+ + + ++
Sbjct: 87 GKSFANQPLEVVYS 100
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALYKL 214
L++ + + QE+E+ + F +YG++ +I+L R G A V + A A L
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 215 KNTKLQGKTITLAWAPGKGMK 235
++ G+TI + W KG K
Sbjct: 89 NGAEIMGQTIQVDWCFVKGPK 109
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 25/101 (24%), Positives = 47/101 (46%), Gaps = 3/101 (2%)
Query: 151 NGVENMCST-TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAK 209
+G M L++ +L+ V EE L F ++G + + + + AF+ + R A K
Sbjct: 3 SGSSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL--KDYAFIHFDERDGAVK 60
Query: 210 ALYKLKNTKLQGKTITLAWAPGKGMKDKDWKDFWEVQDGVS 250
A+ ++ L+G+ I + +A K K+ K + G S
Sbjct: 61 AMEEMNGKDLEGENIEIVFAKPPDQKRKERKAQRQAASGPS 101
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 35.0 bits (79), Expect = 0.045, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 40/75 (53%), Gaps = 3/75 (4%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQ 220
+++G++S +EL F G V+ +++ + AFV M + DA A+ +L +++
Sbjct: 12 IFVGNVSAACTSQELRSLFERRGRVIECDVV--KDYAFVHMEKEADAKAAIAQLNGKEVK 69
Query: 221 GKTITLAWAPGKGMK 235
GK I + + KG K
Sbjct: 70 GKRINVELST-KGQK 83
>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 = 35.0 bits (79), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALYKL 214
L++ + + QE+E+ + F +YG++ +I+L R G A V + A A L
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 215 KNTKLQGKTITLAWAPGKGMK 235
++ G+TI + W KG K
Sbjct: 135 NGAEIMGQTIQVDWCFVKGPK 155
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 35.0 bits (79), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYK 213
T+ + +LS+ +E +L + F +G + I L +G AF+ +RR+DAA+A+
Sbjct: 17 TIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAG 76
Query: 214 LKNTKLQGKTITLAWA 229
+ + + WA
Sbjct: 77 VSGFGYDHLILNVEWA 92
>pdb|1SZ9|A Chain A, The Rna Polymerase Ii Ctd In Mrna Processing: Beta-Turn
Recognition And Beta-Spiral Model
pdb|1SZ9|B Chain B, The Rna Polymerase Ii Ctd In Mrna Processing: Beta-Turn
Recognition And Beta-Spiral Model
pdb|1SZ9|C Chain C, The Rna Polymerase Ii Ctd In Mrna Processing: Beta-Turn
Recognition And Beta-Spiral Model
pdb|1SZA|A Chain A, The Rna Polymerase Ii Ctd In Mrna Processing: Beta-Turn
Recognition And Beta-Spiral Model
pdb|1SZA|B Chain B, The Rna Polymerase Ii Ctd In Mrna Processing: Beta-Turn
Recognition And Beta-Spiral Model
pdb|1SZA|C Chain C, The Rna Polymerase Ii Ctd In Mrna Processing: Beta-Turn
Recognition And Beta-Spiral Model
Length = 144
Score = 35.0 bits (79), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 53/119 (44%), Gaps = 19/119 (15%)
Query: 3 VIKTFNQELSSL-YDTKPPISXXXXXXXXXXXXXXXXFYKHVVQSVEKFIIKCKPEYKVP 61
++K FN L L ++++P I+ ++ V ++E I KC P+ K+
Sbjct: 8 IVKDFNSILEELTFNSRPIITTLTKLAEENISCA-----QYFVDAIESRIEKCMPKQKLY 62
Query: 62 ALYVIDSLVRQSRHQFQDKDVFGP---RFARNLKATFQHLY-QCPPEDKSKIIRVLNLW 116
A Y +DS+ K+V P F+RNL ++ Y ++K+I + LW
Sbjct: 63 AFYALDSIC---------KNVGSPYTIYFSRNLFNLYKRTYLLVDNTTRTKLINMFKLW 112
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 35.0 bits (79), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 37/78 (47%), Gaps = 9/78 (11%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKAL 211
S TL++ LS+ EE L ++F V ++ R G FV N +DA A
Sbjct: 15 SKTLFVKGLSEDTTEETLKESFD---GSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAK 71
Query: 212 YKLKNTKLQGKTITLAWA 229
+++ ++ G +TL WA
Sbjct: 72 EAMEDGEIDGNKVTLDWA 89
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 34.7 bits (78), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 6/79 (7%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLI-----PPRGCAFVCMNRRQDAAKALYKL 214
T+++G+L V+EE L + F + G + + + P+ FVC + + A+ L
Sbjct: 18 TVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALL 77
Query: 215 KNTKLQGKTITLAWAPGKG 233
+L G+ I ++ P G
Sbjct: 78 NGIRLYGRPINVS-GPSSG 95
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 34.7 bits (78), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 39/80 (48%), Gaps = 4/80 (5%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLI----PPRGCAFVCMNRRQDAAKALYKLKN 216
L + ++ ++ +L FG++G ++ + +I +G FV DA +A KL
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHG 77
Query: 217 TKLQGKTITLAWAPGKGMKD 236
T ++G+ I + A + M +
Sbjct: 78 TVVEGRKIEVNNATARVMTN 97
>pdb|4FU3|A Chain A, Cid Of Human Rprd1b
pdb|4FU3|B Chain B, Cid Of Human Rprd1b
Length = 135
Score = 34.7 bits (78), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 40/83 (48%), Gaps = 12/83 (14%)
Query: 53 KCKPEYKVPALYVIDSLVRQSRHQFQDKDVFGPRFARNLKA----TFQHLYQCPPED-KS 107
K K K+ LY+ + +++ S+ + GP F R ++ F H+ + E K
Sbjct: 50 KAKSNRKLTFLYLANDVIQNSKRK-------GPEFTREFESVLVDAFSHVAREADEGCKK 102
Query: 108 KIIRVLNLWQKNEVFTPDIIHPL 130
+ R+LN+WQ+ V+ + I L
Sbjct: 103 PLERLLNIWQERSVYGGEFIQQL 125
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 34.3 bits (77), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 38/77 (49%), Gaps = 7/77 (9%)
Query: 165 HLSKL---VQEEELSDTFGEYGDVVSINLI----PPRGCAFVCMNRRQDAAKALYKLKNT 217
H+S + ++ +L FG++G ++ + +I +G FV DA +A KL T
Sbjct: 33 HVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGT 92
Query: 218 KLQGKTITLAWAPGKGM 234
++G+ I + A + M
Sbjct: 93 VVEGRKIEVNNATARVM 109
>pdb|2BF0|X Chain X, Crystal Structure Of The Rpr Of Pcf11
Length = 143
Score = 34.3 bits (77), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 52/119 (43%), Gaps = 19/119 (15%)
Query: 3 VIKTFNQELSSL-YDTKPPISXXXXXXXXXXXXXXXXFYKHVVQSVEKFIIKCKPEYKVP 61
++K FN L L ++++P I+ ++ V ++E I KC P+ K+
Sbjct: 13 IVKDFNSILEELTFNSRPIITTLTKLAEENISCA-----QYFVDAIESRIEKCXPKQKLY 67
Query: 62 ALYVIDSLVRQSRHQFQDKDVFGP---RFARNLKATFQHLY-QCPPEDKSKIIRVLNLW 116
A Y +DS+ K+V P F+RNL ++ Y ++K+I LW
Sbjct: 68 AFYALDSIC---------KNVGSPYTIYFSRNLFNLYKRTYLLVDNTTRTKLINXFKLW 117
>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 = 34.3 bits (77), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 52/116 (44%), Gaps = 15/116 (12%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSI----NLIPPRGCAFVCMNRRQ--DAAKALY 212
+L++G L V E L + F G ++SI ++I R + +N +Q DA +AL
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 70
Query: 213 KLKNTKLQGKTITLAWAPGKGMKDKDWKDFWEVQDGVSYIPYDRLSKEIDYDYLED 268
+ ++GK + + W+ +D + + GV I L K ID L D
Sbjct: 71 TMNFDVIKGKPVRIMWS----QRDPSLR-----KSGVGNIFIKNLDKSIDNKALYD 117
>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 = 34.3 bits (77), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 32/116 (27%), Positives = 52/116 (44%), Gaps = 15/116 (12%)
Query: 159 TTLWIGHLSKLVQEEELSDTFGEYGDVVSI----NLIPPR--GCAFVCMNRRQDAAKALY 212
+L++G L V E L + F G ++SI ++I R G A+V + DA +AL
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 75
Query: 213 KLKNTKLQGKTITLAWAPGKGMKDKDWKDFWEVQDGVSYIPYDRLSKEIDYDYLED 268
+ ++GK + + W+ +D + + GV I L K ID L D
Sbjct: 76 TMNFDVIKGKPVRIMWS----QRDPSLR-----KSGVGNIFIKNLDKSIDNKALYD 122
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALYKL 214
L++ + + EE++ D F EYG++ +I+L R G V ++A A+ L
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 215 KNTKLQGKTITLAW 228
L G+ I++ W
Sbjct: 86 NGQDLMGQPISVDW 99
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALYKL 214
L++ + + EE++ D F EYG++ +I+L R G V ++A A+ L
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 215 KNTKLQGKTITLAW 228
L G+ I++ W
Sbjct: 85 NGQDLMGQPISVDW 98
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 6/79 (7%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALYKL 214
L++ + + EE++ D F EYG++ +I+L R G V ++A A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 215 KNTKLQGKTITLAWAPGKG 233
L G+ I++ W +G
Sbjct: 70 NGQDLMGQPISVDWCFVRG 88
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 6/79 (7%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALYKL 214
L++ + + EE++ D F EYG++ +I+L R G V ++A A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 215 KNTKLQGKTITLAWAPGKG 233
L G+ I++ W +G
Sbjct: 70 NGQDLMGQPISVDWCFVRG 88
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 6/79 (7%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALYKL 214
L++ + + EE++ D F EYG++ +I+L R G V ++A A+ L
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 215 KNTKLQGKTITLAWAPGKG 233
L G+ I++ W +G
Sbjct: 72 NGQDLMGQPISVDWCFVRG 90
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 4/88 (4%)
Query: 157 CSTTLWIGHLSKLVQEEELSDTFGEYGDVVSI---NLIPPRGCAFVCMNRRQDAAKALYK 213
+ L+I +L + EE+ D FG+YG + I N RG A+V DA A+
Sbjct: 7 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDH 66
Query: 214 LKNTKLQGK-TITLAWAPGKGMKDKDWK 240
L + + + L + + + D K
Sbjct: 67 LSGFNVSNRYLVVLYYNANRAFQKMDTK 94
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 34/69 (49%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQ 220
L++G+L + EE+ F YG+ + + RG F+ + R A A +L T L+
Sbjct: 25 LFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEIAKAELDGTILK 84
Query: 221 GKTITLAWA 229
+ + + +A
Sbjct: 85 SRPLRIRFA 93
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALYKL 214
L++ + + EE++ D F EYG++ +I+L R G V ++A A+ L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 215 KNTKLQGKTITLAW 228
L G+ I++ W
Sbjct: 70 NGQDLMGQPISVDW 83
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 8/77 (10%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-------PRGCAFVCMNRRQDAAKALY 212
TL + +L+ + L F +YG V + IP PRG AFV + R+DA A
Sbjct: 15 TLKVDNLTYRTSPDSLRRVFEKYGRVGDV-YIPREPHTKAPRGFAFVRFHDRRDAQDAEA 73
Query: 213 KLKNTKLQGKTITLAWA 229
+ +L G+ + + A
Sbjct: 74 AMDGAELDGRELRVQVA 90
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 32.3 bits (72), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 36/74 (48%), Gaps = 5/74 (6%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGC-----AFVCMNRRQDAAKALYKLK 215
L++G+L K + E+ L F G + +I ++ + AFV ++ DA AL L
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLN 62
Query: 216 NTKLQGKTITLAWA 229
+++ + + WA
Sbjct: 63 GKQIENNIVKINWA 76
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 6/82 (7%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMNRRQDAAKALYK 213
TL++ ++ E +L F YG + I+++ PRG AF+ +D A
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 214 LKNTKLQGKTITLAWAPGKGMK 235
K+ G+ + + G+ +K
Sbjct: 164 ADGKKIDGRRVLVDVERGRTVK 185
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLI-PPRGCAFVCMNRRQDAAKALYKLKNTKL 219
+++G+L + EL FG YG + S+ + P G AFV +DAA A+ +L L
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRTL 135
Query: 220 QGKTITLAWAPGK 232
G + + + G+
Sbjct: 136 CGCRVRVELSNGE 148
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 31.6 bits (70), Expect = 0.47, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 156 MCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLK 215
+ +T L++ VQE EL++ FG +G + + ++ G AFV + AAKA+ ++
Sbjct: 2 LSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--NGFAFVEFEEAESAAKAIEEVH 59
Query: 216 NTKLQGKTITLAWA 229
+ + + ++
Sbjct: 60 GKSFANQPLEVVYS 73
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 31.6 bits (70), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 6/64 (9%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR------GCAFVCMNRRQDAAKALYKL 214
L++G + + + E++L F E+G + + ++ R GCAF+ R A KA L
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSAL 77
Query: 215 KNTK 218
K
Sbjct: 78 HEQK 81
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 31.6 bits (70), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLI-PPRGCAFVCMNRRQDAAKALYKLKNTKL 219
+++G+L + EL FG YG + S+ + P G AFV +DAA A+ L L
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRDLDGRTL 135
Query: 220 QGKTITLAWAPGK 232
G + + + G+
Sbjct: 136 CGCRVRVELSNGE 148
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 31.2 bits (69), Expect = 0.65, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 155 NMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPR-------GCAFVCMNRRQDA 207
+M T + IG L++ V ++ + + F YG + I++ R G A+V +A
Sbjct: 1 SMKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEA 60
Query: 208 AKALYKLKNTKLQGKTIT 225
KAL + ++ G+ IT
Sbjct: 61 EKALKHMDGGQIDGQEIT 78
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 31.2 bits (69), Expect = 0.72, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 158 STTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPP-RGCAFVCMNRRQDA 207
S+ +++G + + E+EL + F +YGDV+ + + P R AFV Q A
Sbjct: 5 SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIA 55
>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 = 31.2 bits (69), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 7/70 (10%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVV--SINLIP----PRGCAFVCMNRRQDAAKALYKL 214
++IG LS +++L D F ++G+VV ++ L P RG FV + K + +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQ- 60
Query: 215 KNTKLQGKTI 224
K KL GK I
Sbjct: 61 KEHKLNGKVI 70
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 30.8 bits (68), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 5/77 (6%)
Query: 155 NMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGC---AFVCMNRRQDAAKAL 211
N C +++G+L ++ +++ D F +YG + I+L RG AFV +DA A+
Sbjct: 21 NDCR--IYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAV 78
Query: 212 YKLKNTKLQGKTITLAW 228
Y G + + +
Sbjct: 79 YGRDGYDYDGYRLRVEF 95
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 30.8 bits (68), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 33/75 (44%), Gaps = 6/75 (8%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIP------PRGCAFVCMNRRQDAAKALYKL 214
+++G LS + E++ F +G + ++ +G FV + DA A+ ++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 215 KNTKLQGKTITLAWA 229
L G+ I WA
Sbjct: 78 GGQWLGGRQIRTNWA 92
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSI---NLIPPRGCAFVCMNRRQDAAKA 210
L+I +L + EE+ D FG+YG + I N RG A+V DA A
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNA 73
>pdb|2L8V|A Chain A, Solution Nmr Structure Of The Phycobilisome Linker
Polypeptide Domain Of Cpcc (20-153) From
Thermosynechococcus Elongatus, Northeast Structural
Genomics Consortium Target Ter219a
Length = 143
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 77 FQDKDVFGPRFARNLKATFQHLYQCPPEDKSKIIRVLNLWQKNEVFTPDI 126
+++K ++G R ++ ++HL P D+S++I L+L++ NE F DI
Sbjct: 64 YKEKFLYGNFQTRVIELNYKHLLGRAPYDESEVIFHLDLYE-NEGFDADI 112
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/83 (22%), Positives = 39/83 (46%), Gaps = 7/83 (8%)
Query: 154 ENMCSTTLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQD 206
E + T++I +L++ ++++EL + FG+ D++ + RG AFV
Sbjct: 4 ETRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSS 63
Query: 207 AAKALYKLKNTKLQGKTITLAWA 229
A AL ++ K + + +A
Sbjct: 64 ATNALRSMQGFPFYDKPMRIQYA 86
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 32/70 (45%), Gaps = 6/70 (8%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSIN------LIPPRGCAFVCMNRRQDAAKALYKL 214
L++ +LS EE+L F YG + ++ P+G AFV + A KA ++
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 215 KNTKLQGKTI 224
QG+ +
Sbjct: 71 DGQVFQGRML 80
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALY 212
T++I +L++ ++++EL + FG+ D++ + RG AFV A AL
Sbjct: 8 TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALR 67
Query: 213 KLKNTKLQGKTITLAWA 229
++ K + + +A
Sbjct: 68 SMQGFPFYDKPMRIQYA 84
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALY 212
T++I +L++ ++++EL + FG+ D++ + RG AFV A AL
Sbjct: 10 TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALR 69
Query: 213 KLKNTKLQGKTITLAWA 229
++ K + + +A
Sbjct: 70 SMQGFPFYDKPMRIQYA 86
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALY 212
T++I +L++ ++++EL + FG+ D++ + RG AFV A AL
Sbjct: 10 TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALR 69
Query: 213 KLKNTKLQGKTITLAWA 229
++ K + + +A
Sbjct: 70 SMQGFPFYDKPMRIQYA 86
>pdb|1OIA|A Chain A, U1a Rnp Domain 1-95
pdb|1OIA|B Chain B, U1a Rnp Domain 1-95
Length = 95
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALY 212
T++I +L++ ++++EL + FG+ D++ + RG AFV A AL
Sbjct: 11 TIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSATNALR 70
Query: 213 KLKNTKLQGKTITLAWA 229
++ K + + +A
Sbjct: 71 SMQGFPFYDKPMRIQYA 87
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALY 212
T++I +L++ ++++EL + FG+ D++ + RG AFV A AL
Sbjct: 11 TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALR 70
Query: 213 KLKNTKLQGKTITLAWA 229
++ K + + +A
Sbjct: 71 SMQGFPFYDKPMRIQYA 87
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALY 212
T++I +L++ ++++EL + FG+ D++ + RG AFV A AL
Sbjct: 7 TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALR 66
Query: 213 KLKNTKLQGKTITLAWA 229
++ K + + +A
Sbjct: 67 SMQGFPFYDKPMRIQYA 83
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALY 212
T++I +L++ ++++EL + FG+ D++ + RG AFV A AL
Sbjct: 10 TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALR 69
Query: 213 KLKNTKLQGKTITLAWA 229
++ K + + +A
Sbjct: 70 SMQGFPFYDKPMRIQYA 86
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 29.6 bits (65), Expect = 1.8, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSI---NLIPPRGCAFVCMNRRQDAAKA 210
L+I +L + EE+ D FG+YG + I N RG A+V DA A
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNA 67
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALY 212
T++I +L++ ++++EL + FG+ D++ + RG AFV A AL
Sbjct: 11 TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALR 70
Query: 213 KLKNTKLQGKTITLAWA 229
++ K + + +A
Sbjct: 71 SMQGFPFYDKPMRIQYA 87
>pdb|2BVC|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Transition State Mimic
pdb|2BVC|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Transition State Mimic
pdb|2BVC|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Transition State Mimic
pdb|2BVC|D Chain D, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Transition State Mimic
pdb|2BVC|E Chain E, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Transition State Mimic
pdb|2BVC|F Chain F, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Transition State Mimic
pdb|2WGS|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WGS|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WGS|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WGS|D Chain D, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WGS|E Chain E, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WGS|F Chain F, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WGS|G Chain G, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WGS|H Chain H, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WGS|I Chain I, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WGS|J Chain J, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WGS|K Chain K, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WGS|L Chain L, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor.
pdb|2WHI|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor
And L-Methionine-S-Sulfoximine Phosphate.
pdb|2WHI|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor
And L-Methionine-S-Sulfoximine Phosphate.
pdb|2WHI|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor
And L-Methionine-S-Sulfoximine Phosphate.
pdb|2WHI|D Chain D, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor
And L-Methionine-S-Sulfoximine Phosphate.
pdb|2WHI|E Chain E, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor
And L-Methionine-S-Sulfoximine Phosphate.
pdb|2WHI|F Chain F, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With A Purine Analogue Inhibitor
And L-Methionine-S-Sulfoximine Phosphate.
pdb|3ZXR|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(3-(2-Tert-Butyl-5-(Pyridin-4-Yl)-1h-Imidazol-4-
Yl)quinoline) And L-Methionine-S-Sulfoximine Phosphate.
pdb|3ZXR|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(3-(2-Tert-Butyl-5-(Pyridin-4-Yl)-1h-Imidazol-4-
Yl)quinoline) And L-Methionine-S-Sulfoximine Phosphate.
pdb|3ZXR|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(3-(2-Tert-Butyl-5-(Pyridin-4-Yl)-1h-Imidazol-4-
Yl)quinoline) And L-Methionine-S-Sulfoximine Phosphate.
pdb|3ZXR|D Chain D, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(3-(2-Tert-Butyl-5-(Pyridin-4-Yl)-1h-Imidazol-4-
Yl)quinoline) And L-Methionine-S-Sulfoximine Phosphate.
pdb|3ZXR|E Chain E, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(3-(2-Tert-Butyl-5-(Pyridin-4-Yl)-1h-Imidazol-4-
Yl)quinoline) And L-Methionine-S-Sulfoximine Phosphate.
pdb|3ZXR|F Chain F, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(3-(2-Tert-Butyl-5-(Pyridin-4-Yl)-1h-Imidazol-4-
Yl)quinoline) And L-Methionine-S-Sulfoximine Phosphate.
pdb|3ZXV|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(4-(2-Tert-Butyl-4-(6-Methoxynaphthalen-2-Yl)-1h-
Imidazol-5-Yl)pyridin-2-Amine) And L-Methionine-S-
Sulfoximine Phosphate
pdb|3ZXV|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(4-(2-Tert-Butyl-4-(6-Methoxynaphthalen-2-Yl)-1h-
Imidazol-5-Yl)pyridin-2-Amine) And L-Methionine-S-
Sulfoximine Phosphate
pdb|3ZXV|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(4-(2-Tert-Butyl-4-(6-Methoxynaphthalen-2-Yl)-1h-
Imidazol-5-Yl)pyridin-2-Amine) And L-Methionine-S-
Sulfoximine Phosphate
pdb|3ZXV|D Chain D, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(4-(2-Tert-Butyl-4-(6-Methoxynaphthalen-2-Yl)-1h-
Imidazol-5-Yl)pyridin-2-Amine) And L-Methionine-S-
Sulfoximine Phosphate
pdb|3ZXV|E Chain E, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(4-(2-Tert-Butyl-4-(6-Methoxynaphthalen-2-Yl)-1h-
Imidazol-5-Yl)pyridin-2-Amine) And L-Methionine-S-
Sulfoximine Phosphate
pdb|3ZXV|F Chain F, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Tri-Substituted Imidazole
Inhibitor
(4-(2-Tert-Butyl-4-(6-Methoxynaphthalen-2-Yl)-1h-
Imidazol-5-Yl)pyridin-2-Amine) And L-Methionine-S-
Sulfoximine Phosphate
pdb|4ACF|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Imidazopyridine Inhibitor
((4-(6-Bromo-3-
(Butylamino)imidazo(1,2-A)pyridin-2-Yl)phenoxy) Acetic
Acid) And L- Methionine-S-Sulfoximine Phosphate.
pdb|4ACF|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Imidazopyridine Inhibitor
((4-(6-Bromo-3-
(Butylamino)imidazo(1,2-A)pyridin-2-Yl)phenoxy) Acetic
Acid) And L- Methionine-S-Sulfoximine Phosphate.
pdb|4ACF|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Imidazopyridine Inhibitor
((4-(6-Bromo-3-
(Butylamino)imidazo(1,2-A)pyridin-2-Yl)phenoxy) Acetic
Acid) And L- Methionine-S-Sulfoximine Phosphate.
pdb|4ACF|D Chain D, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Imidazopyridine Inhibitor
((4-(6-Bromo-3-
(Butylamino)imidazo(1,2-A)pyridin-2-Yl)phenoxy) Acetic
Acid) And L- Methionine-S-Sulfoximine Phosphate.
pdb|4ACF|E Chain E, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Imidazopyridine Inhibitor
((4-(6-Bromo-3-
(Butylamino)imidazo(1,2-A)pyridin-2-Yl)phenoxy) Acetic
Acid) And L- Methionine-S-Sulfoximine Phosphate.
pdb|4ACF|F Chain F, Crystal Structure Of Mycobacterium Tuberculosis Glutamine
Synthetase In Complex With Imidazopyridine Inhibitor
((4-(6-Bromo-3-
(Butylamino)imidazo(1,2-A)pyridin-2-Yl)phenoxy) Acetic
Acid) And L- Methionine-S-Sulfoximine Phosphate
Length = 486
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 255 DRLSKEIDYDYLEDGGVFDEDTVPLWLK 282
DRL E D++YL +GGVF D + W+
Sbjct: 436 DRL--EADHEYLTEGGVFTNDLIETWIS 461
>pdb|1HTO|A Chain A, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|B Chain B, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|C Chain C, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|D Chain D, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|E Chain E, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|F Chain F, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|G Chain G, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|H Chain H, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|I Chain I, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|J Chain J, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|K Chain K, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|L Chain L, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|M Chain M, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|N Chain N, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|O Chain O, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|P Chain P, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|Q Chain Q, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|R Chain R, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|S Chain S, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|T Chain T, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|U Chain U, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|V Chain V, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|W Chain W, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTO|X Chain X, Crystallographic Structure Of A Relaxed Glutamine
Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|A Chain A, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|B Chain B, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|C Chain C, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|D Chain D, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|E Chain E, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|F Chain F, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|G Chain G, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|H Chain H, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|I Chain I, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|J Chain J, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|K Chain K, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|L Chain L, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|M Chain M, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|N Chain N, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|O Chain O, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|P Chain P, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|Q Chain Q, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|R Chain R, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|S Chain S, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|T Chain T, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|U Chain U, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|V Chain V, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|W Chain W, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
pdb|1HTQ|X Chain X, Multicopy Crystallographic Structure Of A Relaxed
Glutamine Synthetase From Mycobacterium Tuberculosis
Length = 477
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 255 DRLSKEIDYDYLEDGGVFDEDTVPLWLK 282
DRL E D++YL +GGVF D + W+
Sbjct: 427 DRL--EADHEYLTEGGVFTNDLIETWIS 452
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/83 (22%), Positives = 39/83 (46%), Gaps = 7/83 (8%)
Query: 154 ENMCSTTLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQD 206
E + T++I +L++ ++++EL + FG+ D++ + RG AFV
Sbjct: 5 ETRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSS 64
Query: 207 AAKALYKLKNTKLQGKTITLAWA 229
A AL ++ K + + +A
Sbjct: 65 ATNALRSMQGFPFYDKPMRIQYA 87
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 39/84 (46%), Gaps = 10/84 (11%)
Query: 153 VENMCSTTLWIGHLSKLVQEEELSDTFGEYGDVVSINLIP-------PRGCAFVCMNRRQ 205
VE M T+L + +L+ + L F +YG V + IP RG AFV + ++
Sbjct: 67 VEGM--TSLKVDNLTYRTSPDTLRRVFEKYGRVGDV-YIPRDRYTKESRGFAFVRFHDKR 123
Query: 206 DAAKALYKLKNTKLQGKTITLAWA 229
DA A+ + L G+ + + A
Sbjct: 124 DAEDAMDAMDGAVLDGRELRVQMA 147
>pdb|1DLI|A Chain A, The First Structure Of Udp-Glucose Dehydrogenase (Udpgdh)
Reveals The Catalytic Residues Necessary For The
Two-Fold Oxidation
Length = 402
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 7/48 (14%)
Query: 69 LVRQSRHQFQ-DKDVFGPRFARNLKATFQHLY------QCPPEDKSKI 109
+ + R +FQ D+ +F P F R KA + +LY C D K+
Sbjct: 123 FITEMRQKFQTDRIIFSPEFLRESKALYDNLYPSRIIVSCEENDSPKV 170
>pdb|1DLJ|A Chain A, The First Structure Of Udp-Glucose Dehydrogenase (Udpgdh)
Reveals The Catalytic Residues Necessary For The
Two-Fold Oxidation
Length = 402
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 7/48 (14%)
Query: 69 LVRQSRHQFQ-DKDVFGPRFARNLKATFQHLY------QCPPEDKSKI 109
+ + R +FQ D+ +F P F R KA + +LY C D K+
Sbjct: 123 FITEMRQKFQTDRIIFSPEFLRESKALYDNLYPSRIIVSCEENDSPKV 170
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 32/63 (50%), Gaps = 5/63 (7%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLI-----PPRGCAFVCMNRRQDAAKALYKLK 215
L++G L+K EE++ F +G + ++ +GCAFV + +A A++ L
Sbjct: 18 LFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALH 77
Query: 216 NTK 218
++
Sbjct: 78 GSQ 80
>pdb|1DRZ|A Chain A, U1a Spliceosomal ProteinHEPATITIS DELTA VIRUS GENOMIC
Ribozyme Complex
Length = 97
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 7/65 (10%)
Query: 154 ENMCSTTLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQD 206
E + T++I +L++ ++++EL + FG+ D++ + RG AFV
Sbjct: 4 ETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVIFKEVSS 63
Query: 207 AAKAL 211
A AL
Sbjct: 64 ATNAL 68
>pdb|3CUL|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUL|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3EGZ|A Chain A, Crystal Structure Of An In Vitro Evolved Tetracycline
Aptamer And Artificial Riboswitch
Length = 98
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 7/65 (10%)
Query: 154 ENMCSTTLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQD 206
E + T++I +L++ ++++EL + FG+ D++ + RG AFV
Sbjct: 5 ETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVIFKEVSS 64
Query: 207 AAKAL 211
A AL
Sbjct: 65 ATNAL 69
>pdb|1CX0|A Chain A, Hepatitis Delta Virus Ribozyme
Length = 95
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 7/65 (10%)
Query: 154 ENMCSTTLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQD 206
E + T++I +L++ ++++EL + FG+ D++ + RG AFV
Sbjct: 2 ETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVIFKEVSS 61
Query: 207 AAKAL 211
A AL
Sbjct: 62 ATNAL 66
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSI---NLIPPRGCAFVCMNRRQDAAKA 210
L I +L + EE+ D FG+YG + I N RG A+V DA A
Sbjct: 21 LMIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNA 73
>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 = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 6/82 (7%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLI------PPRGCAFVCMNRRQDAAKALYK 213
TL++ ++ E +L F YG + I+++ PRG AF+ +D A
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 214 LKNTKLQGKTITLAWAPGKGMK 235
K+ G+ + + G+ +K
Sbjct: 164 ADGKKIDGRRVLVDVERGRTVK 185
>pdb|2K3K|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd1
Length = 104
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 26/51 (50%)
Query: 179 FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLKNTKLQGKTITLAWA 229
FG+ D+V++ + RG AFV A+ AL ++ K + +A++
Sbjct: 34 FGQILDIVALKTLKMRGQAFVIFKEIGSASNALRTMQGFPFYDKPMQIAYS 84
>pdb|1GZP|A Chain A, Cd1b In Complex With Gm2 Ganglioside
pdb|1GZQ|A Chain A, Cd1b In Complex With Phophatidylinositol
pdb|1UQS|A Chain A, The Crystal Structure Of Human Cd1b With A Bound Bacterial
Glycolipid
Length = 300
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 206 DAAKALYKLKNTKLQGKTITLAWAPGKGMKDKD 238
+AA ++K++ L+G+ I L W PG G D
Sbjct: 258 EAAGLSCRVKHSSLEGQDIILYWGPGSGGGLND 290
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 28.1 bits (61), Expect = 6.3, Method: Composition-based stats.
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALY 212
T++I +L++ ++++EL + FG+ D++ + RG AFV A AL
Sbjct: 6 TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALR 65
Query: 213 KLKNTKLQGKTITLAWA 229
++ K + + +A
Sbjct: 66 SMQGFPFYDKPMRIQYA 82
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 27.7 bits (60), Expect = 6.5, Method: Composition-based stats.
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 160 TLWIGHLSKLVQEEELSDT-------FGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALY 212
T++I +L++ ++++EL + FG+ D++ + RG AFV A AL
Sbjct: 5 TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALR 64
Query: 213 KLKNTKLQGKTITLAWA 229
++ K + + +A
Sbjct: 65 SMQGFPFYDKPMRIQYA 81
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 4/74 (5%)
Query: 160 TLWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGC----AFVCMNRRQDAAKALYKLK 215
TL++G+LS+ V E + F + G S +I FV +DAA AL +
Sbjct: 17 TLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMN 76
Query: 216 NTKLQGKTITLAWA 229
K+ GK + + WA
Sbjct: 77 GRKILGKEVKVNWA 90
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 27.7 bits (60), Expect = 7.4, Method: Composition-based stats.
Identities = 20/76 (26%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 161 LWIGHLSKLVQEEELSDTFGEYGDVVSINLIPPRGCAFVCMNRRQDAAKALYKLK-NTKL 219
L+IG+LS V ++L FG+ ++ ++ G AFV + A +A+ L +L
Sbjct: 11 LYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKVEL 70
Query: 220 QGKTITLAWAPGKGMK 235
GK + + ++ K ++
Sbjct: 71 HGKIMEVDYSVSKKLR 86
>pdb|3O8J|A Chain A, Crystal Structure Of 2-Methylcitrate Synthase (Prpc) From
Salmonella Typhimurium
pdb|3O8J|B Chain B, Crystal Structure Of 2-Methylcitrate Synthase (Prpc) From
Salmonella Typhimurium
pdb|3O8J|C Chain C, Crystal Structure Of 2-Methylcitrate Synthase (Prpc) From
Salmonella Typhimurium
pdb|3O8J|D Chain D, Crystal Structure Of 2-Methylcitrate Synthase (Prpc) From
Salmonella Typhimurium
pdb|3O8J|E Chain E, Crystal Structure Of 2-Methylcitrate Synthase (Prpc) From
Salmonella Typhimurium
pdb|3O8J|F Chain F, Crystal Structure Of 2-Methylcitrate Synthase (Prpc) From
Salmonella Typhimurium
pdb|3O8J|G Chain G, Crystal Structure Of 2-Methylcitrate Synthase (Prpc) From
Salmonella Typhimurium
pdb|3O8J|H Chain H, Crystal Structure Of 2-Methylcitrate Synthase (Prpc) From
Salmonella Typhimurium
pdb|3O8J|I Chain I, Crystal Structure Of 2-Methylcitrate Synthase (Prpc) From
Salmonella Typhimurium
pdb|3O8J|J Chain J, Crystal Structure Of 2-Methylcitrate Synthase (Prpc) From
Salmonella Typhimurium
Length = 404
Score = 27.3 bits (59), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 19/88 (21%), Positives = 39/88 (44%), Gaps = 13/88 (14%)
Query: 84 GPRF--ARNLKATFQHLYQCPPEDKSKIIRVLNLWQKNEVFTPDIIHPLFDMADPNHPIH 141
GP+ A + Q Y+ P E ++ I + + +N+ HP++ +ADP H +
Sbjct: 247 GPKHGGANEVSLEIQQRYETPDEAEADIRKRV----ENKEVVIGFGHPVYTIADPRHQVI 302
Query: 142 RELAEIQARNG-------VENMCSTTLW 162
+ +A+ + G + + T +W
Sbjct: 303 KRVAKQLSEEGGSLKMYHIADRLETVMW 330
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.138 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,674,163
Number of Sequences: 62578
Number of extensions: 359411
Number of successful extensions: 978
Number of sequences better than 100.0: 122
Number of HSP's better than 100.0 without gapping: 41
Number of HSP's successfully gapped in prelim test: 81
Number of HSP's that attempted gapping in prelim test: 898
Number of HSP's gapped (non-prelim): 125
length of query: 282
length of database: 14,973,337
effective HSP length: 98
effective length of query: 184
effective length of database: 8,840,693
effective search space: 1626687512
effective search space used: 1626687512
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)