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= 002823
(876 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 50.4 bits (119), Expect = 4e-06, Method: Composition-based stats.
Identities = 40/162 (24%), Positives = 72/162 (44%), Gaps = 15/162 (9%)
Query: 141 LNDEHPSRT-LLLRKINSNIEDSELKALFEQYGDVRTF-----YRASKHCGFVTISYYDI 194
+ND S T L++ + + D EL ALF G + T Y+ G+ + +
Sbjct: 7 MNDPRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSE 66
Query: 195 RAARNAMKSLQNKLTRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFG 254
++ A+K L R+ +L + Y+ P + I L V NL ++++D+L IFG
Sbjct: 67 XDSQRAIKVLNGITVRNKRLKVSYA----RPGGESIKDTNLYVTNLPRTITDDQLDTIFG 122
Query: 255 VYGEIKEIRETPQKIHQK-----YIEFYDTRAAEAALRELNS 291
YG I + K+ + ++ + A+ A+ LN+
Sbjct: 123 KYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNN 164
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 48.9 bits (115), Expect = 1e-05, Method: Composition-based stats.
Identities = 36/152 (23%), Positives = 68/152 (44%), Gaps = 14/152 (9%)
Query: 150 LLLRKINSNIEDSELKALFEQYGDVRTF-----YRASKHCGFVTISYYDIRAARNAMKSL 204
L++ + ++ D EL ALF G + T Y+ G+ + + ++ A+K L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 205 QNKLTRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIRE 264
R+ +L + Y+ P + I L V NL ++++D+L IFG YG I +
Sbjct: 66 NGITVRNKRLKVSYA----RPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNI 121
Query: 265 TPQKIHQK-----YIEFYDTRAAEAALRELNS 291
K+ + ++ + A+ A+ LN+
Sbjct: 122 LRDKLTGRPRGVAFVRYNKREEAQEAISALNN 153
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 46.2 bits (108), Expect = 7e-05, Method: Composition-based stats.
Identities = 33/111 (29%), Positives = 49/111 (44%)
Query: 191 YYDIRAARNAMKSLQNKLTRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLDSSVSNDELH 250
Y D +A + K+L+ + +I PK S+KE + TL+ NL V+ DEL
Sbjct: 52 YVDFESAEDLEKALELTGLKVFGNEIKLEKPKGKDSKKERDARTLLAKNLPYKVTQDELK 111
Query: 251 HIFGVYGEIKEIRETPQKIHQKYIEFYDTRAAEAALRELNSRYIAGKQIKL 301
+F EI+ + + + YIEF AE E I G+ I L
Sbjct: 112 EVFEDAAEIRLVSKDGKSKGIAYIEFKTEADAEKTFEEKQGTEIDGRSISL 162
Score = 34.7 bits (78), Expect = 0.26, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 3/70 (4%)
Query: 138 GEHLNDEHPSRTLLLRKINSNIEDSELKALFEQYGDVRTFYRASKHCGFVTISYYDIRAA 197
G+ E +RTLL + + + ELK +FE ++R + K G I+Y + +
Sbjct: 84 GKDSKKERDARTLLAKNLPYKVTQDELKEVFEDAAEIRLVSKDGKSKG---IAYIEFKTE 140
Query: 198 RNAMKSLQNK 207
+A K+ + K
Sbjct: 141 ADAEKTFEEK 150
>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 = 43.5 bits (101), Expect = 6e-04, Method: Composition-based stats.
Identities = 48/175 (27%), Positives = 76/175 (43%), Gaps = 18/175 (10%)
Query: 138 GEHLNDEHPSRT---LLLRKINSNIEDSELK-ALFEQYG-------DVRTFYRASKHCGF 186
G H+ + S T L + +N N +ELK A+ E + DVRT ++ G+
Sbjct: 1 GSHMVEGSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRT--GTNRKFGY 58
Query: 187 VTISYYDIRAARNAMKSLQNKLTRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLDSSVSN 246
V D +A + K+L+ + +I PK S+K TL+ NL +++
Sbjct: 59 V-----DFESAEDLEKALELTGLKVFGNEIKLEKPKGRDSKKVRAARTLLAKNLSFNITE 113
Query: 247 DELHHIFGVYGEIKEIRETPQKIHQKYIEFYDTRAAEAALRELNSRYIAGKQIKL 301
DEL +F EI+ + + + YIEF AE L E I G+ + L
Sbjct: 114 DELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSL 168
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 22/69 (31%), Positives = 38/69 (55%)
Query: 237 VFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQKYIEFYDTRAAEAALRELNSRYIAG 296
V NL ++ + EL FG YG ++ + ++EF D R A A+REL+ R + G
Sbjct: 78 VGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRTLCG 137
Query: 297 KQIKLEPSH 305
++++E S+
Sbjct: 138 CRVRVELSN 146
Score = 31.2 bits (69), Expect = 2.6, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 28/53 (52%)
Query: 155 INSNIEDSELKALFEQYGDVRTFYRASKHCGFVTISYYDIRAARNAMKSLQNK 207
+ +N +EL+ F YG +R+ + A GF + + D R A +A++ L +
Sbjct: 81 LGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGR 133
>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 = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 35/157 (22%), Positives = 67/157 (42%), Gaps = 14/157 (8%)
Query: 150 LLLRKINSNIEDSELKALFEQYGDVRT--FYR---ASKHCGFVTISYYDIRAARNAMKSL 204
L++ + N+ E ++LF G++ + R + G+ ++Y D + A A+ +L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 205 QNKLTRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIRE 264
++ + + Y+ PS I L V L +++ EL +F YG I R
Sbjct: 65 NGLRLQTKTIKVSYA----RPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRI 120
Query: 265 TPQKIHQ-----KYIEFYDTRAAEAALRELNSRYIAG 296
++ +I F AE A++ LN + +G
Sbjct: 121 LVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSG 157
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/126 (24%), Positives = 55/126 (43%), Gaps = 17/126 (13%)
Query: 150 LLLRKINSNIEDSELKALFEQYGDVRTFYR---------ASKHCGFVTISYYDIRAARNA 200
+ + ++ + +L+ LFEQYG V SK C FVT +Y +AA A
Sbjct: 18 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVT--FYTRKAALEA 75
Query: 201 MKSLQNKLTRSGKLDIHYSI---PKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYG 257
+L N G +H+ I P D+ + L + + + +++ +F +G
Sbjct: 76 QNALHNMKVLPG---MHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFG 132
Query: 258 EIKEIR 263
+I+E R
Sbjct: 133 QIEECR 138
>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 = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 50/103 (48%), Gaps = 7/103 (6%)
Query: 234 TLVVFNLD-SSVSNDELHHIFGVYGEIKEIRETPQKIHQKYIEFYDTRAAEAALRELNSR 292
L+V NL+ V+ L +FGVYG+++ ++ K ++ D A+ A+ LN
Sbjct: 36 VLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGH 95
Query: 293 YIAGKQIKLEPSHLRGLRKCLANQLPPELEQEECGSYQQQNSP 335
+ GK I++ L K QLP E ++++ + NSP
Sbjct: 96 KLHGKPIRIT------LSKHQNVQLPREGQEDQGLTKDYGNSP 132
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/126 (24%), Positives = 55/126 (43%), Gaps = 17/126 (13%)
Query: 150 LLLRKINSNIEDSELKALFEQYGDVRTFYR---------ASKHCGFVTISYYDIRAARNA 200
+ + ++ + +L+ LFEQYG V SK C FVT +Y +AA A
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVT--FYTRKAALEA 63
Query: 201 MKSLQNKLTRSGKLDIHYSI---PKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYG 257
+L N G +H+ I P D+ + L + + + +++ +F +G
Sbjct: 64 QNALHNMKVLPG---MHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFG 120
Query: 258 EIKEIR 263
+I+E R
Sbjct: 121 QIEECR 126
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 40.4 bits (93), Expect = 0.005, Method: Composition-based stats.
Identities = 37/153 (24%), Positives = 63/153 (41%), Gaps = 14/153 (9%)
Query: 150 LLLRKINSNIEDSELKALFEQYGDVRT--FYR---ASKHCGFVTISYYDIRAARNAMKSL 204
L++ + N+ E K+LF GD+ + R + G+ ++Y D A A+ +L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 205 QNKLTRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIR- 263
++ + + Y+ PS I L V L ++S E+ +F YG I R
Sbjct: 67 NGLKLQTKTIKVSYA----RPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRI 122
Query: 264 ----ETPQKIHQKYIEFYDTRAAEAALRELNSR 292
T +I F AE A++ LN +
Sbjct: 123 LLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQ 155
Score = 29.6 bits (65), Expect = 7.2, Method: Composition-based stats.
Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 12/90 (13%)
Query: 703 DNRTTLMIKNIPNKYTS---KMLLAAIDERHKGTYDFIYLPIDFKNKCNVGYAFINMTDP 759
D++T L++ +P T K L +I G + L D ++GY F+N +DP
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSI-----GDIESCKLVRDKITGQSLGYGFVNYSDP 56
Query: 760 SQIVPFYQSFNGKKWEKFNSEKVASLAYAR 789
+ + NG K + K ++YAR
Sbjct: 57 NDADKAINTLNGLKLQT----KTIKVSYAR 82
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 40.4 bits (93), Expect = 0.005, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 38/69 (55%)
Query: 237 VFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQKYIEFYDTRAAEAALRELNSRYIAG 296
V NL ++ + EL FG YG ++ + ++EF D R A A+R+L+ R + G
Sbjct: 78 VGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRDLDGRTLCG 137
Query: 297 KQIKLEPSH 305
++++E S+
Sbjct: 138 CRVRVELSN 146
Score = 31.2 bits (69), Expect = 2.7, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 28/53 (52%)
Query: 155 INSNIEDSELKALFEQYGDVRTFYRASKHCGFVTISYYDIRAARNAMKSLQNK 207
+ +N +EL+ F YG +R+ + A GF + + D R A +A++ L +
Sbjct: 81 LGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRDLDGR 133
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 50/103 (48%), Gaps = 7/103 (6%)
Query: 234 TLVVFNLD-SSVSNDELHHIFGVYGEIKEIRETPQKIHQKYIEFYDTRAAEAALRELNSR 292
L+V NL+ V+ L +FGVYG+++ ++ K ++ D A+ A+ LN
Sbjct: 5 VLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGH 64
Query: 293 YIAGKQIKLEPSHLRGLRKCLANQLPPELEQEECGSYQQQNSP 335
+ GK I++ L K QLP E ++++ + NSP
Sbjct: 65 KLHGKPIRIT------LSKHQNVQLPREGQEDQGLTKDYGNSP 101
>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 = 39.3 bits (90), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 24/121 (19%), Positives = 56/121 (46%), Gaps = 5/121 (4%)
Query: 182 KHCGFVTISYYDIRAARNAMKSLQNKLTRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLD 241
+ G+ +++ A A+ ++ + + + I +S + +PS ++ G + + NLD
Sbjct: 55 RSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWS--QRDPSLRKSGVGNIFIKNLD 112
Query: 242 SSVSNDELHHIFGVYGEIKEIRETPQKIHQK---YIEFYDTRAAEAALRELNSRYIAGKQ 298
S+ N L+ F +G I + + K ++ F AAE A+ ++N + ++
Sbjct: 113 KSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRK 172
Query: 299 I 299
+
Sbjct: 173 V 173
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 39.3 bits (90), Expect = 0.010, Method: Composition-based stats.
Identities = 35/142 (24%), Positives = 61/142 (42%), Gaps = 17/142 (11%)
Query: 150 LLLRKINSNIEDSELKALFEQYGDV-RTFYRASKHCGFVTISYYDIRAARNAMKSLQNKL 208
L + + +I + E++ LFE+YG F K GF+ + + A A L N
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTL--AEIAKVELDNMP 82
Query: 209 TRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKE----IRE 264
R +L + ++ + +L V NL VSN+ L F V+G+++ + +
Sbjct: 83 LRGKQLRVRFAC----------HSASLTVRNLPQYVSNELLEEAFSVFGQVERAVVIVDD 132
Query: 265 TPQKIHQKYIEFYDTRAAEAAL 286
+ + +EF AA AL
Sbjct: 133 RGRPSGKGIVEFSGKPAARKAL 154
>pdb|3TO8|A Chain A, Crystal Structure Of The Two C-Terminal Rrm Domains Of
Heterogeneous Nuclear Ribonucleoprotein L (Hnrnp L)
Length = 218
Score = 39.3 bits (90), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 39/69 (56%), Gaps = 1/69 (1%)
Query: 234 TLVVFNLDSSVSN-DELHHIFGVYGEIKEIRETPQKIHQKYIEFYDTRAAEAALRELNSR 292
L+V+ LD S N D + ++F +YG +++++ K +E D A + A+ LN+
Sbjct: 12 VLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLNNN 71
Query: 293 YIAGKQIKL 301
++ G+++ +
Sbjct: 72 FMFGQKLNV 80
>pdb|3TYT|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein L (Hnrpl) From Mus Musculus At 1.60 A
Resolution
Length = 205
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 39/69 (56%), Gaps = 1/69 (1%)
Query: 234 TLVVFNLDSSVSN-DELHHIFGVYGEIKEIRETPQKIHQKYIEFYDTRAAEAALRELNSR 292
L+V+ LD S N D + ++F +YG +++++ K +E D A + A+ LN+
Sbjct: 6 VLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLNNN 65
Query: 293 YIAGKQIKL 301
++ G+++ +
Sbjct: 66 FMFGQKMNV 74
>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|B Chain B, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|C Chain C, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|D Chain D, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|E Chain E, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|F Chain F, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|G Chain G, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|H Chain H, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
Length = 190
Score = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 24/121 (19%), Positives = 56/121 (46%), Gaps = 5/121 (4%)
Query: 182 KHCGFVTISYYDIRAARNAMKSLQNKLTRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLD 241
+ G+ +++ A A+ ++ + + + I +S + +PS ++ G + + NLD
Sbjct: 50 RSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWS--QRDPSLRKSGVGNIFIKNLD 107
Query: 242 SSVSNDELHHIFGVYGEIKEIRETPQKIHQK---YIEFYDTRAAEAALRELNSRYIAGKQ 298
S+ N L+ F +G I + + K ++ F AAE A+ ++N + ++
Sbjct: 108 KSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRK 167
Query: 299 I 299
+
Sbjct: 168 V 168
>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 = 38.5 bits (88), Expect = 0.018, Method: Composition-based stats.
Identities = 31/115 (26%), Positives = 49/115 (42%), Gaps = 17/115 (14%)
Query: 161 DSELKALFEQYGDVRTFY---------RASKHCGFVTISYYDIRAARNAMKSLQNKLTRS 211
+ +L+ LFEQYG V SK C FVT +Y +AA A +L N
Sbjct: 17 EKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVT--FYTRKAALEAQNALHNXKVLP 74
Query: 212 GKLDIHYSI---PKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIR 263
G H+ I P D+ + L + + + +++ F +G+I+E R
Sbjct: 75 GX---HHPIQXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQIEECR 126
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 37.4 bits (85), Expect = 0.036, Method: Composition-based stats.
Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 6/66 (9%)
Query: 240 LDSSVSNDELHHIFGVYGEIKEIRETPQKIHQK------YIEFYDTRAAEAALRELNSRY 293
L +V+ D + IF YG+IK I +++H Y+EF + AE AL+ ++
Sbjct: 12 LTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQ 71
Query: 294 IAGKQI 299
I G++I
Sbjct: 72 IDGQEI 77
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 37.4 bits (85), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 37/80 (46%), Gaps = 9/80 (11%)
Query: 234 TLVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQK-----YIEFYDTRAAEAALRE 288
TLV+ NL S + + L +F IK PQ + K +IEF A+ AL
Sbjct: 17 TLVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEALNS 72
Query: 289 LNSRYIAGKQIKLEPSHLRG 308
N R I G+ I+LE RG
Sbjct: 73 CNKREIEGRAIRLELQGPRG 92
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 37.0 bits (84), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%), Gaps = 5/72 (6%)
Query: 235 LVVFNLDSSVSNDELHHIFGVYGEIKEIR-----ETPQKIHQKYIEFYDTRAAEAALREL 289
L V +L +++ D L IF +G I+ I+ ET + +I F D+ A+ AL +L
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 290 NSRYIAGKQIKL 301
N +AG+ +K+
Sbjct: 89 NGFELAGRPMKV 100
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 36.6 bits (83), Expect = 0.056, Method: Composition-based stats.
Identities = 20/77 (25%), Positives = 39/77 (50%), Gaps = 5/77 (6%)
Query: 231 NQGTLVVFNLDSSVSNDELHHIFGVYGEIKEI-----RETPQKIHQKYIEFYDTRAAEAA 285
++G L V L + L +F YG+I E+ RET + ++ F + A+ A
Sbjct: 11 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDA 70
Query: 286 LRELNSRYIAGKQIKLE 302
+ +N + + G+QI+++
Sbjct: 71 MMAMNGKSVDGRQIRVD 87
>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 = 36.6 bits (83), Expect = 0.067, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 37/64 (57%), Gaps = 3/64 (4%)
Query: 229 EINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIR--ETPQKIHQKYIEFYDTRAAEAAL 286
E+N+ L++ NL ++ +E++ IFG YG I++IR TP+ Y+ + D A+ A
Sbjct: 16 EVNR-ILMIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAC 74
Query: 287 RELN 290
L+
Sbjct: 75 DHLS 78
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 36.2 bits (82), Expect = 0.076, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 36/61 (59%), Gaps = 3/61 (4%)
Query: 147 SRTLLLRKINSNIEDSELKALFEQYGDVRTFYRASKHCGFVTISYYDIRAARNAMKSLQN 206
+RTLL + ++ NI + ELK +FE ++R + K G I+Y + ++ +A K+L+
Sbjct: 16 ARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKG---IAYIEFKSEADAEKNLEE 72
Query: 207 K 207
K
Sbjct: 73 K 73
Score = 33.9 bits (76), Expect = 0.38, Method: Composition-based stats.
Identities = 21/68 (30%), Positives = 32/68 (47%)
Query: 234 TLVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQKYIEFYDTRAAEAALRELNSRY 293
TL+ NL +++ DEL +F EI+ + + + YIEF AE L E
Sbjct: 18 TLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAE 77
Query: 294 IAGKQIKL 301
I G+ + L
Sbjct: 78 IDGRSVSL 85
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 36.2 bits (82), Expect = 0.077, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 41/73 (56%), Gaps = 3/73 (4%)
Query: 229 EINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIR--ETPQKIHQKYIEFYDTRAAEAAL 286
E+N+ L + NL ++ +E++ IFG YG I++IR TP+ Y+ + D A+ A+
Sbjct: 6 EVNR-ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAV 64
Query: 287 RELNSRYIAGKQI 299
L+ ++ + +
Sbjct: 65 DHLSGFNVSNRYL 77
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 35.8 bits (81), Expect = 0.11, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 36/64 (56%), Gaps = 3/64 (4%)
Query: 229 EINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIR--ETPQKIHQKYIEFYDTRAAEAAL 286
E+N+ L + NL ++ +E++ IFG YG I++IR TP+ Y+ + D A+ A
Sbjct: 10 EVNR-ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAC 68
Query: 287 RELN 290
L+
Sbjct: 69 DHLS 72
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 35.8 bits (81), Expect = 0.11, Method: Composition-based stats.
Identities = 25/92 (27%), Positives = 43/92 (46%), Gaps = 6/92 (6%)
Query: 223 DNPSEKEINQG-TLVVFNLDSSVSNDELHHIFGVYGEIKEI-----RETPQKIHQKYIEF 276
D P + +G L V + + +++H F YGEIK I R T +E+
Sbjct: 13 DEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 72
Query: 277 YDTRAAEAALRELNSRYIAGKQIKLEPSHLRG 308
+ A+AA+ LN + + G+ I ++ +RG
Sbjct: 73 ETYKEAQAAMEGLNGQDLMGQPISVDWCFVRG 104
>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 = 35.4 bits (80), Expect = 0.12, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 36/64 (56%), Gaps = 3/64 (4%)
Query: 229 EINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIR--ETPQKIHQKYIEFYDTRAAEAAL 286
E+N+ L + NL ++ +E++ IFG YG I++IR TP+ Y+ + D A+ A
Sbjct: 16 EVNR-ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAC 74
Query: 287 RELN 290
L+
Sbjct: 75 DHLS 78
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 35.4 bits (80), Expect = 0.13, Method: Composition-based stats.
Identities = 22/87 (25%), Positives = 41/87 (47%), Gaps = 5/87 (5%)
Query: 227 EKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEI-----RETPQKIHQKYIEFYDTRA 281
++ + L V + + +++H F YGEIK I R T +E+ +
Sbjct: 2 QRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKE 61
Query: 282 AEAALRELNSRYIAGKQIKLEPSHLRG 308
A+AA+ LN + + G+ I ++ +RG
Sbjct: 62 AQAAMEGLNGQDLMGQPISVDWCFVRG 88
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 35.4 bits (80), Expect = 0.14, Method: Composition-based stats.
Identities = 19/79 (24%), Positives = 38/79 (48%), Gaps = 3/79 (3%)
Query: 224 NPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQK---YIEFYDTR 280
+PS ++ G + + NLD S+ N L+ F +G I + + K ++ F
Sbjct: 3 DPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQE 62
Query: 281 AAEAALRELNSRYIAGKQI 299
AAE A+ ++N + +++
Sbjct: 63 AAERAIEKMNGMLLNDRKV 81
>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 = 35.4 bits (80), Expect = 0.14, Method: Composition-based stats.
Identities = 22/87 (25%), Positives = 41/87 (47%), Gaps = 5/87 (5%)
Query: 227 EKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEI-----RETPQKIHQKYIEFYDTRA 281
++ + L V + + +++H F YGEIK I R T +E+ +
Sbjct: 2 QRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKE 61
Query: 282 AEAALRELNSRYIAGKQIKLEPSHLRG 308
A+AA+ LN + + G+ I ++ +RG
Sbjct: 62 AQAAMEGLNGQDLMGQPISVDWCFVRG 88
>pdb|3S01|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein L (Hnrpl) From Mus Musculus At 2.15 A
Resolution
Length = 212
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 234 TLVVFNLDSSVSN-DELHHIFGVYGEIKEIRETPQKIHQKYIEFYDTRAAEAALRELNSR 292
L V+ LD S N D + ++F +YG +++++ K +E D A + A+ LN+
Sbjct: 6 VLXVYGLDQSKXNCDRVFNVFCLYGNVEKVKFXKSKPGAAXVEXADGYAVDRAITHLNNN 65
Query: 293 YIAGKQ 298
+ G++
Sbjct: 66 FXFGQK 71
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 35.4 bits (80), Expect = 0.15, Method: Composition-based stats.
Identities = 22/87 (25%), Positives = 41/87 (47%), Gaps = 5/87 (5%)
Query: 227 EKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEI-----RETPQKIHQKYIEFYDTRA 281
++ + L V + + +++H F YGEIK I R T +E+ +
Sbjct: 4 QRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKE 63
Query: 282 AEAALRELNSRYIAGKQIKLEPSHLRG 308
A+AA+ LN + + G+ I ++ +RG
Sbjct: 64 AQAAMEGLNGQDLMGQPISVDWCFVRG 90
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 34.7 bits (78), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 4/69 (5%)
Query: 159 IEDSELKALFEQYGDVRTFYRASKHCGFVTISYYDIRAARNAMKSLQNKLTRSGKLDIHY 218
++ S+++A+F +YG + S H GF + Y + R AR A+ ++ LDI+
Sbjct: 28 VKKSDVEAIFSKYGKI---VGCSVHKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINL 84
Query: 219 SI-PKDNPS 226
+ PK N S
Sbjct: 85 AAEPKVNRS 93
>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 = 34.3 bits (77), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 7/83 (8%)
Query: 244 VSNDELHHIFGVYGEIKEIRETPQKIHQK-----YIEFYDTRAAEAALRELNSRYIAGKQ 298
+ D + F +G IK I + + K ++E+ AA+ AL ++NS + G+
Sbjct: 40 LGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRN 99
Query: 299 IKL-EPSHLRGLRKCLANQLPPE 320
IK+ PS++ G + + +QL E
Sbjct: 100 IKVGRPSNI-GQAQPIIDQLAEE 121
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 28/134 (20%), Positives = 62/134 (46%), Gaps = 16/134 (11%)
Query: 182 KHCGFVTISYYDIRAARNAMKSLQNKLTRSGKLDIHYSIPK---------DNPSEKEINQ 232
KH GF + Y AA+ A++ + + + G +I P D +E+
Sbjct: 68 KHKGFAFVEYEVPEAAQLALEQMNSVML--GGRNIKVGRPSNIGQAQPIIDQLAEEARAF 125
Query: 233 GTLVVFNLDSSVSNDELHHIFGVYGEIKE---IRETPQKIHQKY--IEFYDTRAAEAALR 287
+ V ++ +S+D++ +F +G+IK R+ H+ Y IE+ ++++ A+
Sbjct: 126 NRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVS 185
Query: 288 ELNSRYIAGKQIKL 301
+N + G+ +++
Sbjct: 186 SMNLFDLGGQYLRV 199
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 33.9 bits (76), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 5/72 (6%)
Query: 235 LVVFNLDSSVSNDELHHIFGVYGEIKEI-----RETPQKIHQKYIEFYDTRAAEAALREL 289
L V +L +++ D L IF +G+I I +T + +I F D+ A AL +L
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 290 NSRYIAGKQIKL 301
N +AG+ +++
Sbjct: 68 NGFELAGRPMRV 79
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 33.9 bits (76), Expect = 0.38, Method: Composition-based stats.
Identities = 32/142 (22%), Positives = 60/142 (42%), Gaps = 17/142 (11%)
Query: 150 LLLRKINSNIEDSELKALFEQYGD-VRTFYRASKHCGFVTISYYDIRAARNAMKSLQNKL 208
L + + ++I + + K LFE+YG+ F + GF+ + + A A L +
Sbjct: 25 LFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTL--AEIAKAELDGTI 82
Query: 209 TRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKE----IRE 264
+S L I ++ + L V NL VSN+ L F +G +++ + +
Sbjct: 83 LKSRPLRIRFA----------THGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDD 132
Query: 265 TPQKIHQKYIEFYDTRAAEAAL 286
+ + ++EF A AL
Sbjct: 133 RGRATGKGFVEFAAKPPARKAL 154
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 235 LVVFNLDSSVSNDELHHIFGVYGEIKEIR-----ETPQKIHQKYIEFYDTRAAEAALREL 289
+ V +L ++ +++ F +G+I + R T + ++ FY+ AE A+ +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 290 NSRYIAGKQIK 300
+++ G+QI+
Sbjct: 78 GGQWLGGRQIR 88
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 25/115 (21%), Positives = 52/115 (45%), Gaps = 9/115 (7%)
Query: 150 LLLRKINSNIEDSELKALFEQYGDVRT--FYR---ASKHCGFVTISYYDIRAARNAMKSL 204
L++ + N+ EL++LF G+V + R A G+ ++Y + A A+ +L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 205 QNKLTRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYGEI 259
+S + + Y+ PS + I L + L +++ ++ +F +G I
Sbjct: 65 NGLRLQSKTIKVSYA----RPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRI 115
Score = 29.6 bits (65), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 5/72 (6%)
Query: 235 LVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIH-----QKYIEFYDTRAAEAALREL 289
L+V L +++ DEL +F GE++ + K+ ++ + + AE A+ L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 290 NSRYIAGKQIKL 301
N + K IK+
Sbjct: 65 NGLRLQSKTIKV 76
>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 = 33.9 bits (76), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 25/115 (21%), Positives = 52/115 (45%), Gaps = 9/115 (7%)
Query: 150 LLLRKINSNIEDSELKALFEQYGDVRT--FYR---ASKHCGFVTISYYDIRAARNAMKSL 204
L++ + N+ EL++LF G+V + R A G+ ++Y + A A+ +L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 205 QNKLTRSGKLDIHYSIPKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYGEI 259
+S + + Y+ PS + I L + L +++ ++ +F +G I
Sbjct: 65 NGLRLQSKTIKVSYA----RPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRI 115
Score = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 5/72 (6%)
Query: 235 LVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIH-----QKYIEFYDTRAAEAALREL 289
L+V L +++ DEL +F GE++ + K+ ++ + + AE A+ L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 290 NSRYIAGKQIKL 301
N + K IK+
Sbjct: 65 NGLRLQSKTIKV 76
>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 = 0.45, Method: Composition-based stats.
Identities = 23/86 (26%), Positives = 40/86 (46%), Gaps = 6/86 (6%)
Query: 223 DNPSEKEINQG-TLVVFNLDSSVSNDELHHIFGVYGEIKEI-----RETPQKIHQKYIEF 276
D P + +G L V + + +++H F YGEIK I R T +E+
Sbjct: 12 DEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 71
Query: 277 YDTRAAEAALRELNSRYIAGKQIKLE 302
+ A+AA+ LN + + G+ I ++
Sbjct: 72 ETYKEAQAAMEGLNGQDLMGQPISVD 97
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 33.5 bits (75), Expect = 0.50, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 29/57 (50%)
Query: 163 ELKALFEQYGDVRTFYRASKHCGFVTISYYDIRAARNAMKSLQNKLTRSGKLDIHYS 219
EL+ F YG +RT + A GF + + D R A +A++ L K+ ++ + S
Sbjct: 16 ELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELS 72
>pdb|3S8S|A Chain A, Crystal Structure Of The Rrm Domain Of Human Setd1a
Length = 110
Score = 33.5 bits (75), Expect = 0.51, Method: Composition-based stats.
Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 5/65 (7%)
Query: 146 PSRTLLLRKINSNIEDSELKALFEQYGDVRTFY-----RASKHCGFVTISYYDIRAARNA 200
P + + ++N N+ ++ LK + +YG+V R KH G + + R A+
Sbjct: 5 PLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKET 64
Query: 201 MKSLQ 205
+K+L
Sbjct: 65 VKNLH 69
>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 = 33.5 bits (75), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 7/83 (8%)
Query: 244 VSNDELHHIFGVYGEIKEIRETPQKIHQK-----YIEFYDTRAAEAALRELNSRYIAGKQ 298
+ D + F +G IK I + + K ++E+ AA+ AL ++NS + G+
Sbjct: 25 LGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRN 84
Query: 299 IKL-EPSHLRGLRKCLANQLPPE 320
IK+ PS++ G + + +QL E
Sbjct: 85 IKVGRPSNI-GQAQPIIDQLAEE 106
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 28/134 (20%), Positives = 62/134 (46%), Gaps = 16/134 (11%)
Query: 182 KHCGFVTISYYDIRAARNAMKSLQNKLTRSGKLDIHYSIPK---------DNPSEKEINQ 232
KH GF + Y AA+ A++ + + + G +I P D +E+
Sbjct: 53 KHKGFAFVEYEVPEAAQLALEQMNSVML--GGRNIKVGRPSNIGQAQPIIDQLAEEARAF 110
Query: 233 GTLVVFNLDSSVSNDELHHIFGVYGEIKEI---RETPQKIHQKY--IEFYDTRAAEAALR 287
+ V ++ +S+D++ +F +G+IK R+ H+ Y IE+ ++++ A+
Sbjct: 111 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 170
Query: 288 ELNSRYIAGKQIKL 301
+N + G+ +++
Sbjct: 171 SMNLFDLGGQYLRV 184
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 33.1 bits (74), Expect = 0.63, Method: Composition-based stats.
Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 5/81 (6%)
Query: 227 EKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEI-----RETPQKIHQKYIEFYDTRA 281
++ + L V + + +++H F YGEIK I R T +E+ +
Sbjct: 2 QRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKE 61
Query: 282 AEAALRELNSRYIAGKQIKLE 302
A+AA+ LN + + G+ I ++
Sbjct: 62 AQAAMEGLNGQDLMGQPISVD 82
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 33.1 bits (74), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 35/71 (49%), Gaps = 3/71 (4%)
Query: 234 TLVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQK---YIEFYDTRAAEAALRELN 290
TL V NL V+ + +F G K + + ++EFY+ R A AAL +N
Sbjct: 17 TLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMN 76
Query: 291 SRYIAGKQIKL 301
R I GK++K+
Sbjct: 77 GRKILGKEVKV 87
>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 = 33.1 bits (74), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 5/65 (7%)
Query: 148 RTLLLRKINSNIEDSELKALFEQYGDVRTFY-----RASKHCGFVTISYYDIRAARNAMK 202
+TL + ++N + +S+L+ FE YG ++ + R+ K G+ I Y R +A K
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 203 SLQNK 207
K
Sbjct: 163 HADGK 167
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 32.7 bits (73), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 9/76 (11%)
Query: 144 EHPSRTLLLRKINSNIEDSELKALFEQYGDV-------RTFYRASKHCGFVTISYYDIRA 196
+H + L + +I N+++ +LK LFE++G + F K C F+T Y + +
Sbjct: 10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLT--YCERES 67
Query: 197 ARNAMKSLQNKLTRSG 212
A A +L + T G
Sbjct: 68 ALKAQSALHEQKTLPG 83
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 32.7 bits (73), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 5/68 (7%)
Query: 144 EHPSRTLLLRKINSNIEDSELKALFEQYGDVRTFY----RASKHCGFVTISYYDIRAARN 199
+HP + L + +N + LKA+F ++G + R SK GF I++ + A+N
Sbjct: 5 DHPGK-LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKN 63
Query: 200 AMKSLQNK 207
A K + K
Sbjct: 64 AAKDMNGK 71
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 32.7 bits (73), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 5/72 (6%)
Query: 235 LVVFNLDSSVSNDELHHIFGVYGEI---KEIRE--TPQKIHQKYIEFYDTRAAEAALREL 289
L+V L +++ DE +FG G+I K +R+ T Q + ++ + D A+ A+ L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 290 NSRYIAGKQIKL 301
N + K IK+
Sbjct: 67 NGLKLQTKTIKV 78
>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 = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 21/87 (24%), Positives = 44/87 (50%), Gaps = 7/87 (8%)
Query: 223 DNPSEKEI--NQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQK-----YIE 275
DN ++++ TL V NL + ++++ +F G+IK+I K+ + ++E
Sbjct: 28 DNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVE 87
Query: 276 FYDTRAAEAALRELNSRYIAGKQIKLE 302
+Y AE A+R +N + + I+ +
Sbjct: 88 YYSRADAENAMRYINGTRLDDRIIRTD 114
>pdb|1HL6|A Chain A, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|C Chain C, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1RK8|A Chain A, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|A Chain A, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|C Chain C, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 165
Score = 32.0 bits (71), Expect = 1.4, Method: Composition-based stats.
Identities = 23/90 (25%), Positives = 40/90 (44%), Gaps = 5/90 (5%)
Query: 227 EKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEI-----RETPQKIHQKYIEFYDTRA 281
++ + L V ++ DE+ F YGEIK I R T +E+ +
Sbjct: 67 QRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQ 126
Query: 282 AEAALRELNSRYIAGKQIKLEPSHLRGLRK 311
A AA LN I G+ I+++ ++G ++
Sbjct: 127 ALAAKEALNGAEIMGQTIQVDWCFVKGPKR 156
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 32.0 bits (71), Expect = 1.4, Method: Composition-based stats.
Identities = 23/90 (25%), Positives = 40/90 (44%), Gaps = 5/90 (5%)
Query: 227 EKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEI-----RETPQKIHQKYIEFYDTRA 281
++ + L V ++ DE+ F YGEIK I R T +E+ +
Sbjct: 21 QRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQ 80
Query: 282 AEAALRELNSRYIAGKQIKLEPSHLRGLRK 311
A AA LN I G+ I+++ ++G ++
Sbjct: 81 ALAAKEALNGAEIMGQTIQVDWCFVKGPKR 110
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 42/86 (48%), Gaps = 7/86 (8%)
Query: 227 EKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQ--KYIEFYDTRAAEA 284
E E++ L V V EL+ IFG +G +KE+ KI ++EF + +A
Sbjct: 26 EGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEV-----KILNGFAFVEFEEAESAAK 80
Query: 285 ALRELNSRYIAGKQIKLEPSHLRGLR 310
A+ E++ + A + +++ S L R
Sbjct: 81 AIEEVHGKSFANQPLEVVYSKLPAKR 106
>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 = 32.0 bits (71), Expect = 1.6, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 43/86 (50%), Gaps = 6/86 (6%)
Query: 223 DNPSEKEI--NQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQK----YIEF 276
DN ++++ TL V NL + ++++ +F G+IK+I K+ ++E+
Sbjct: 7 DNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEY 66
Query: 277 YDTRAAEAALRELNSRYIAGKQIKLE 302
Y AE A+R +N + + I+ +
Sbjct: 67 YSRADAENAMRYINGTRLDDRIIRTD 92
Score = 29.6 bits (65), Expect = 7.1, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 4/60 (6%)
Query: 147 SRTLLLRKINSNIEDSELKALFEQYGDVRTFY----RASKHCGFVTISYYDIRAARNAMK 202
S TL + ++ + ++ LF + GD++ + CGF + YY A NAM+
Sbjct: 18 SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSRADAENAMR 77
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 234 TLVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQKYIEFYDTRAAEAALRELNSRY 293
T+ + S +++ + F +G+I EIR P+K + ++ F +A A+ +N
Sbjct: 27 TVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGY-SFVRFSTHESAAHAIVSVNGTT 85
Query: 294 IAGKQIK 300
I G +K
Sbjct: 86 IEGHVVK 92
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 31.2 bits (69), Expect = 2.3, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 5/74 (6%)
Query: 234 TLVVFNLDSSVSNDELHHIFGVYGEIKEIR-----ETPQKIHQKYIEFYDTRAAEAALRE 288
++ V N+ + ++L IF G + R ET + + E+ D A +A+R
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 289 LNSRYIAGKQIKLE 302
LN R +G+ ++++
Sbjct: 70 LNGREFSGRALRVD 83
>pdb|2JKB|A Chain A, Crystal Structure Of Streptococcus Pneumoniae Nanb In
Complex With 2,7-Anhydro-Neu5ac
Length = 686
Score = 31.2 bits (69), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 39/144 (27%), Positives = 63/144 (43%), Gaps = 24/144 (16%)
Query: 713 IPNKYT--SKMLLAAIDERHKGTYDFIYLPIDFKNKCNVGYAFINMTDPSQIVP-FYQSF 769
IP YT S +L++ID R+ GT+ D K+K N+ ++ + + P F F
Sbjct: 235 IPTLYTLSSGRVLSSIDARYGGTH-------DSKSKINIATSYSDDNGKTWSEPIFAMKF 287
Query: 770 NGKKWEKFNSEKVASLAYARIQGKAALIAHFQNSSLMNEDKRCRPILFNTDGPNAGDQVP 829
N + + + L ++I G A+ I +SS++ + K + IL D +P
Sbjct: 288 NDYEEQLVYWPRDNKLKNSQISGSASFI----DSSIVEDKKSGKTILL-------ADVMP 336
Query: 830 FPMGVNFRTRPGKARSVIHEENHH 853
+G N KA S E N H
Sbjct: 337 AGIGNN---NANKADSGFKEINGH 357
>pdb|2VW0|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae
pdb|2VW1|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae
pdb|2VW2|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae
pdb|4FOQ|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With 2-Aminoethanesulfonic Acid
pdb|4FOV|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With 3-Cyclohexyl-1-Propylsulfonic
Acid
pdb|4FOW|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With 3-Ammoniopropane-1-Sulfonate
pdb|4FOY|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-(Benzylammonio)ethanesulfonate
pdb|4FP2|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2[(Cyclohexylmethyl)ammonio]sulfonate
pdb|4FP3|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(Furan-2-Ylmethyl)ammonio]sulfonate
pdb|4FPC|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(4-Chlorobenzyl)ammonio]ethanesulfonate
pdb|4FPE|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(4-Methoxybenzyl)ammonio]ethanesulfonate
pdb|4FPF|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(3-Chlorobenzyl)ammonio]ethanesulfonate
pdb|4FPG|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(3-Hydroxybenzyl)ammonio]ethanesulfonate
pdb|4FPH|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(3-Fluorobenzyl)ammonio]ethanesulfonate
pdb|4FPJ|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(3-Methoxybenzyl)ammonio]ethanesulfonate
pdb|4FPK|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(3-Methylbenzyl)ammonio]ethanesulfonate
pdb|4FPL|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(3,4-Dichlorobenzyl)ammonio]ethanesulfonate
pdb|4FPO|B Chain B, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(3-Chloro-4-Methoxybenzyl)ammonio]ethanesulfonate
pdb|4FPY|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(3-Bromobenzyl)ammonio]ethanesulfonate
pdb|4FQ4|A Chain A, Crystal Structure Of The Nanb Sialidase From Streptococcus
Pneumoniae In Complex With
2-[(4-Fluoro-3-Methylbenzyl)ammonio]ethanesulfonate
Length = 697
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 39/144 (27%), Positives = 63/144 (43%), Gaps = 24/144 (16%)
Query: 713 IPNKYT--SKMLLAAIDERHKGTYDFIYLPIDFKNKCNVGYAFINMTDPSQIVP-FYQSF 769
IP YT S +L++ID R+ GT+ D K+K N+ ++ + + P F F
Sbjct: 246 IPTLYTLSSGRVLSSIDARYGGTH-------DSKSKINIATSYSDDNGKTWSEPIFAMKF 298
Query: 770 NGKKWEKFNSEKVASLAYARIQGKAALIAHFQNSSLMNEDKRCRPILFNTDGPNAGDQVP 829
N + + + L ++I G A+ I +SS++ + K + IL D +P
Sbjct: 299 NDYEEQLVYWPRDNKLKNSQISGSASFI----DSSIVEDKKSGKTILL-------ADVMP 347
Query: 830 FPMGVNFRTRPGKARSVIHEENHH 853
+G N KA S E N H
Sbjct: 348 AGIGNN---NANKADSGFKEINGH 368
>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 = 30.8 bits (68), Expect = 3.5, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 5/72 (6%)
Query: 225 PSEKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQK-----YIEFYDT 279
P + I L V NL ++++D+L IFG YG I + K+ + ++ +
Sbjct: 6 PGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKR 65
Query: 280 RAAEAALRELNS 291
A+ A+ LN+
Sbjct: 66 EEAQEAISALNN 77
>pdb|2Q7B|A Chain A, Crystal Structure Of Acetyltransferase (Np_689019.1) From
Streptococcus Agalactiae 2603 At 2.00 A Resolution
Length = 181
Score = 30.4 bits (67), Expect = 4.6, Method: Composition-based stats.
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 758 DPSQIVPFYQSFNGKKWEKFNSEK-VASLAYARIQGKAALIAHF 800
D QI +YQ+ G+ W +EK V S+A RI K A++ F
Sbjct: 58 DIFQIENYYQNRKGQFWIALENEKVVGSIALLRIDDKTAVLKKF 101
>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 = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 6/88 (6%)
Query: 221 PKDNPSEKEINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKI--HQK---YIE 275
P +KEI++ ++ V N+D + +L F G I I K H K YIE
Sbjct: 25 PLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIE 84
Query: 276 FYDTRAAEAALRELNSRYIAGKQIKLEP 303
F + + +AA+ ++ G+ IK+ P
Sbjct: 85 FAERNSVDAAV-AMDETVFRGRTIKVLP 111
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 8/88 (9%)
Query: 147 SRTLLLRKINSNIEDSELKALFEQYGDVRTFYRASKH--------CGFVTISYYDIRAAR 198
S L ++ +N + + LK +F + G +++ + K GF + Y A+
Sbjct: 5 SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQ 64
Query: 199 NAMKSLQNKLTRSGKLDIHYSIPKDNPS 226
A+K LQ KL++ S P+
Sbjct: 65 KALKQLQGHTVDGHKLEVRISERATKPA 92
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 30.0 bits (66), Expect = 5.1, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 7/75 (9%)
Query: 229 EINQGTLVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQ--KYIEFYDTRAAEAAL 286
E++ L V V EL+ IFG +G +KE+ KI ++EF + +A A+
Sbjct: 1 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEV-----KILNGFAFVEFEEAESAAKAI 55
Query: 287 RELNSRYIAGKQIKL 301
E++ + A + +++
Sbjct: 56 EEVHGKSFANQPLEV 70
>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 = 30.0 bits (66), Expect = 5.2, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 6/76 (7%)
Query: 232 QGT-LVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIHQK-----YIEFYDTRAAEAA 285
QGT L+V L + + DEL +F GE++ + K+ ++ + + AE A
Sbjct: 18 QGTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 77
Query: 286 LRELNSRYIAGKQIKL 301
+ LN + K IK+
Sbjct: 78 INTLNGLRLQSKTIKV 93
>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 = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 5/72 (6%)
Query: 235 LVVFNLDSSVSNDELHHIFGVYGEIKEIRETPQKIH-----QKYIEFYDTRAAEAALREL 289
L+V L +++ DEL +F GE++ + K+ ++ + + AE A+ L
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 290 NSRYIAGKQIKL 301
N + K IK+
Sbjct: 67 NGLRLQSKTIKV 78
>pdb|3U1L|A Chain A, Structure Of The Mrna Splicing Complex Component Cwc2
pdb|3U1M|A Chain A, Structure Of The Mrna Splicing Complex Component Cwc2
Length = 240
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 161 DSELKALFEQYGDV-RTFYRASKHCGFVTISYY-DIRAARNAM 201
+S ++ +F + GD+ R Y SK+CGFV Y + A+ AM
Sbjct: 157 ESRIRFVFSRLGDIDRIRYVESKNCGFVKFKYQANAEFAKEAM 199
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 29.6 bits (65), Expect = 7.5, Method: Composition-based stats.
Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 8/69 (11%)
Query: 164 LKALFEQYGDVRTFY----RASKHC-GFVTISYYDIRAARNAMKSLQNKLTRSGKLDIH- 217
L+ +FE+YG V Y R +K GF + ++D R A +AM ++ + +L +
Sbjct: 87 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQM 146
Query: 218 --YSIPKDN 224
Y P D+
Sbjct: 147 ARYGRPPDS 155
>pdb|3TP2|A Chain A, Crystal Structure Of The Splicing Factor Cwc2 From Yeast
pdb|3TP2|B Chain B, Crystal Structure Of The Splicing Factor Cwc2 From Yeast
Length = 229
Score = 29.6 bits (65), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 161 DSELKALFEQYGDV-RTFYRASKHCGFVTISYY-DIRAARNAM 201
+S ++ +F + GD+ R Y SK+CGFV Y + A+ AM
Sbjct: 159 ESRIRFVFSRLGDIDRIRYVESKNCGFVKFKYQANAEFAKEAM 201
>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 = 29.3 bits (64), Expect = 8.8, Method: Composition-based stats.
Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 5/65 (7%)
Query: 148 RTLLLRKINSNIEDSELKALFEQYGDVRTFY-----RASKHCGFVTISYYDIRAARNAMK 202
+TL + ++N + +S+L+ FE YG ++ + R+ K G+ I Y R +A K
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 203 SLQNK 207
K
Sbjct: 163 HADGK 167
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 0.133 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,505,486
Number of Sequences: 62578
Number of extensions: 1055383
Number of successful extensions: 2107
Number of sequences better than 100.0: 73
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 51
Number of HSP's that attempted gapping in prelim test: 2046
Number of HSP's gapped (non-prelim): 98
length of query: 876
length of database: 14,973,337
effective HSP length: 107
effective length of query: 769
effective length of database: 8,277,491
effective search space: 6365390579
effective search space used: 6365390579
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: 56 (26.2 bits)