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= psy3930
(299 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VOD|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VON|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VON|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VOO|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOO|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOP|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auuuu
Length = 193
Score = 72.8 bits (177), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 51/167 (30%), Positives = 88/167 (52%), Gaps = 11/167 (6%)
Query: 100 GGGRHRKKQLYQQIMNLMEFYLSDSNLRKDRFFSQLLQ-ESPEIEVSVFLKCNKLARLTH 158
G + L +I + +E+Y D NL +D+F + ++ + + + + +K N+L RLT
Sbjct: 3 NGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTT 62
Query: 159 DPDDVVKALRKSK--LLEVTEDGTKVRRT-------VVVQDKPDVDECTIYVEKLPPEAE 209
D + +V+AL KSK L+E++ED TK+RR+ V + K DV ++Y++ P +A
Sbjct: 63 DFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDAT 122
Query: 210 HDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
D I+ G+V + + + KG FV F + E A K +E
Sbjct: 123 LDDIKEWLEDKGQVLNIQMRRTLHKA-FKGSIFVVFDSIESAKKFVE 168
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 47/70 (67%), Gaps = 3/70 (4%)
Query: 1 MEFYLSDSNLRKDRFFSQLLQ-ESPEIEVSVFLKCNKLARLTHDPDDVVKALRKSK--LL 57
+E+Y D NL +D+F + ++ + + + + +K N+L RLT D + +V+AL KSK L+
Sbjct: 20 IEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELM 79
Query: 58 EVTEDGTKVK 67
E++ED TK++
Sbjct: 80 EISEDKTKIR 89
>pdb|1ZH5|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
pdb|1ZH5|B Chain B, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
Length = 195
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 51/168 (30%), Positives = 87/168 (51%), Gaps = 11/168 (6%)
Query: 99 DGGGRHRKKQLYQQIMNLMEFYLSDSNLRKDRFFSQLLQ-ESPEIEVSVFLKCNKLARLT 157
+ G + L +I + +E+Y D NL +D+F + ++ + + + + +K N+L RLT
Sbjct: 4 ENGDNEKXAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLT 63
Query: 158 HDPDDVVKALRKSK--LLEVTEDGTKVRRT-------VVVQDKPDVDECTIYVEKLPPEA 208
D + +V+AL KSK L E++ED TK+RR+ V + K DV ++Y++ P +A
Sbjct: 64 TDFNVIVEALSKSKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDA 123
Query: 209 EHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
D I+ G+V + + KG FV F + E A K +E
Sbjct: 124 TLDDIKEWLEDKGQVLNIQXRRTLHKA-FKGSIFVVFDSIESAKKFVE 170
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 46/70 (65%), Gaps = 3/70 (4%)
Query: 1 MEFYLSDSNLRKDRFFSQLLQ-ESPEIEVSVFLKCNKLARLTHDPDDVVKALRKSK--LL 57
+E+Y D NL +D+F + ++ + + + + +K N+L RLT D + +V+AL KSK L
Sbjct: 22 IEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEALSKSKAELX 81
Query: 58 EVTEDGTKVK 67
E++ED TK++
Sbjct: 82 EISEDKTKIR 91
>pdb|1YTY|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
pdb|1YTY|B Chain B, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
Length = 194
Score = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 51/168 (30%), Positives = 87/168 (51%), Gaps = 11/168 (6%)
Query: 99 DGGGRHRKKQLYQQIMNLMEFYLSDSNLRKDRFFSQLLQ-ESPEIEVSVFLKCNKLARLT 157
+ G + L +I + +E+Y D NL +D+F + ++ + + + + +K N+L RLT
Sbjct: 3 ENGDNEKXAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLT 62
Query: 158 HDPDDVVKALRKSK--LLEVTEDGTKVRRT-------VVVQDKPDVDECTIYVEKLPPEA 208
D + +V+AL KSK L E++ED TK+RR+ V + K DV ++Y++ P +A
Sbjct: 63 TDFNVIVEALSKSKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDA 122
Query: 209 EHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
D I+ G+V + + KG FV F + E A K +E
Sbjct: 123 TLDDIKEWLEDKGQVLNIQXRRTLHKA-FKGSIFVVFDSIESAKKFVE 169
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 46/70 (65%), Gaps = 3/70 (4%)
Query: 1 MEFYLSDSNLRKDRFFSQLLQ-ESPEIEVSVFLKCNKLARLTHDPDDVVKALRKSK--LL 57
+E+Y D NL +D+F + ++ + + + + +K N+L RLT D + +V+AL KSK L
Sbjct: 21 IEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEALSKSKAELX 80
Query: 58 EVTEDGTKVK 67
E++ED TK++
Sbjct: 81 EISEDKTKIR 90
>pdb|1S7A|A Chain A, Nmr Structure Of The La Motif Of Human La Protein
Length = 103
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 55/90 (61%), Gaps = 3/90 (3%)
Query: 99 DGGGRHRKKQLYQQIMNLMEFYLSDSNLRKDRFF-SQLLQESPEIEVSVFLKCNKLARLT 157
+ G + L +I + +E+Y D NL +D+F Q+ + + + + +K N+L RLT
Sbjct: 3 ENGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLT 62
Query: 158 HDPDDVVKALRKSK--LLEVTEDGTKVRRT 185
D + +V+AL KSK L+E++ED TK+RR+
Sbjct: 63 TDFNVIVEALSKSKAELMEISEDKTKIRRS 92
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 46/70 (65%), Gaps = 3/70 (4%)
Query: 1 MEFYLSDSNLRKDRFF-SQLLQESPEIEVSVFLKCNKLARLTHDPDDVVKALRKSK--LL 57
+E+Y D NL +D+F Q+ + + + + +K N+L RLT D + +V+AL KSK L+
Sbjct: 21 IEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELM 80
Query: 58 EVTEDGTKVK 67
E++ED TK++
Sbjct: 81 EISEDKTKIR 90
>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 = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
+ + +YV LP D ++++F KYG + ++ + K TG+ +G AFV ++ +EEA +
Sbjct: 98 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQE 157
Query: 254 ALELGLNPCPPDYQSSILT 272
A+ LN P+ S L+
Sbjct: 158 AIS-ALNNVIPEGGSQPLS 175
Score = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 14/70 (20%), Positives = 35/70 (50%)
Query: 188 VQDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFST 247
+ + P + V LP + + ++F G + + + TG G+AFV+F++
Sbjct: 6 LMNDPRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTS 65
Query: 248 KEEAAKALEL 257
+ ++ +A+++
Sbjct: 66 EXDSQRAIKV 75
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
+ + +YV LP D ++++F KYG + ++ + K TG+ +G AFV ++ +EEA +
Sbjct: 87 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQE 146
Query: 254 ALELGLNPCPPDYQSSILT 272
A+ LN P+ S L+
Sbjct: 147 AIS-ALNNVIPEGGSQPLS 164
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 13/62 (20%), Positives = 32/62 (51%)
Query: 196 ECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ V LP + + ++F G + + + TG G+AFV+F+++ ++ +A+
Sbjct: 3 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAI 62
Query: 256 EL 257
++
Sbjct: 63 KV 64
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 37/61 (60%)
Query: 195 DECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
D TI V L + ++ +F +G ++ + L K K+TG+ KGFAF+ F +E+AA+A
Sbjct: 14 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARA 73
Query: 255 L 255
+
Sbjct: 74 I 74
>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 = 48.1 bits (113), Expect = 6e-06, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
+ + +YV LP D ++++F KYG + ++ + K TG+ +G AFV ++ +EEA +
Sbjct: 11 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQE 70
Query: 254 ALELGLNPCPPDYQSSILT 272
A+ LN P+ S L+
Sbjct: 71 AIS-ALNNVIPEGGSQPLS 88
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPK-FKSTGKLKGFAFVEFSTKEEAAKALE 256
I V +P +A I +FS +G++ V LPK TG +GF FV+F TK++A KA
Sbjct: 18 ILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFN 76
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 192 PDVDECT-IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEE 250
PDV+ T + V+ L D + VF KYG+V V +P+ + T + +GFAFV F K +
Sbjct: 42 PDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRD 101
Query: 251 AAKALE 256
A A++
Sbjct: 102 AEDAMD 107
>pdb|1S29|A Chain A, La Autoantigen N-Terminal Domain
Length = 92
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 44/76 (57%), Gaps = 2/76 (2%)
Query: 111 QQIMNLMEFYLSDSNLRKDRFFSQLLQESPE--IEVSVFLKCNKLARLTHDPDDVVKALR 168
Q++ +EFY SD N+++D F E+ E + + L ++ +T D +VV+A+R
Sbjct: 12 QKLQKQVEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIR 71
Query: 169 KSKLLEVTEDGTKVRR 184
S+ L ++EDG VRR
Sbjct: 72 PSEKLVLSEDGLXVRR 87
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 40/69 (57%), Gaps = 2/69 (2%)
Query: 1 MEFYLSDSNLRKDRFFSQLLQESPE--IEVSVFLKCNKLARLTHDPDDVVKALRKSKLLE 58
+EFY SD N+++D F E+ E + + L ++ +T D +VV+A+R S+ L
Sbjct: 18 VEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLV 77
Query: 59 VTEDGTKVK 67
++EDG V+
Sbjct: 78 LSEDGLXVR 86
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 51/106 (48%), Gaps = 3/106 (2%)
Query: 159 DPDDVVKALRKSKLLEVTEDGTKVRRTVVVQDKPDVDECTIYVEKLPPEAEHDYIESVFS 218
DP+D KA+ L++ KV + + + +YV LP +E +FS
Sbjct: 55 DPNDADKAINTLNGLKLQTKTIKV--SYARPSSASIRDANLYVSGLPKTMSQKEMEQLFS 112
Query: 219 KYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALELGLNPCPP 264
+YG++ + ++TG +G F+ F + EA +A++ GLN P
Sbjct: 113 QYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIK-GLNGQKP 157
Score = 34.7 bits (78), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%)
Query: 196 ECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ + V LP D +S+F G + L + K TG+ G+ FV +S +A KA+
Sbjct: 4 KTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
Query: 256 E 256
Sbjct: 64 N 64
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 195 DECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
DE ++V L + +E VFSKYG+++ V + K + T + +GF FV F ++A A
Sbjct: 11 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDA 70
Query: 255 LELGLNPCPPD 265
+ + +N D
Sbjct: 71 M-MAMNGKSVD 80
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 24/54 (44%), Positives = 33/54 (61%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEA 251
T+YV LP ++ + +FSKYGKV V++ K K T K KG AF+ F K+ A
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSA 71
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 44.3 bits (103), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 192 PDVDE-CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEE 250
PDVD T+ V+ L D + VF KYG+V V +P+ T +GFAFV F + +
Sbjct: 8 PDVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRD 67
Query: 251 AAKA 254
A A
Sbjct: 68 AQDA 71
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 44.3 bits (103), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 33/59 (55%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+YV L E + + + F +G +T + +P T K +GFAFVEF E+AA A++
Sbjct: 65 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 123
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 36/69 (52%), Gaps = 3/69 (4%)
Query: 187 VVQDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFS 246
V++ ++C IYV LPP+ IE VF KYG + + L K + G FAFVEF
Sbjct: 13 VIRGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL-KNRRGGPP--FAFVEFE 69
Query: 247 TKEEAAKAL 255
+A A+
Sbjct: 70 DPRDAEDAV 78
>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 = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
V+ ++V + EA + I F++YG++ + L + TG LKG+ VE+ T +EA
Sbjct: 20 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQA 79
Query: 254 ALELGLN 260
A+E GLN
Sbjct: 80 AME-GLN 85
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 59/121 (48%), Gaps = 10/121 (8%)
Query: 145 SVFLKCNKLARLTHD-PDDVVKALRKSKLLEVTEDGTKVRR-TVVVQDKPDVDECT---- 198
SV +K A + ++ P+ AL + + + KV R + + Q +P +D+
Sbjct: 64 SVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEAR 123
Query: 199 ----IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
IYV + + D I+SVF +GK+ +L + +TGK KG+ F+E+ + + A
Sbjct: 124 AFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDA 183
Query: 255 L 255
+
Sbjct: 184 V 184
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 29/58 (50%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+YV + E D I F+ +G + + + T K KGFAFVE+ E A ALE
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 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 = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 24/67 (35%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
V+ ++V + EA + I F++YG++ + L + TG LKG+ VE+ T +EA
Sbjct: 7 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQA 66
Query: 254 ALELGLN 260
A+E GLN
Sbjct: 67 AME-GLN 72
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
V+ ++V + EA + I F++YG++ + L + TG LKG+ VE+ T +EA
Sbjct: 5 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQA 64
Query: 254 ALELGLN 260
A+E GLN
Sbjct: 65 AME-GLN 70
>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 = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 33/58 (56%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+YV L E + + + F +G +T + +P T K +GFAFVEF E+AA A++
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 67
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 51/114 (44%), Gaps = 3/114 (2%)
Query: 159 DPDDVVKALRKSKLLEVTEDGTKVRRTVVVQDKPDVDECTIYVEKLPPEAEHDYIESVFS 218
DP D KA+ L + KV + + + +YV LP +E +FS
Sbjct: 53 DPKDAEKAINTLNGLRLQTKTIKV--SYARPSSASIRDANLYVSGLPKTMTQKELEQLFS 110
Query: 219 KYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALELGLNPCPPDYQSSILT 272
+YG++ + + TG +G F+ F + EA +A++ GLN P + +T
Sbjct: 111 QYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK-GLNGQKPSGATEPIT 163
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 29/60 (48%)
Query: 196 ECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ + V LP + S+F G++ L + K TG+ G+ FV + ++A KA+
Sbjct: 2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 24/67 (35%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
V+ ++V + EA + I F++YG++ + L + TG LKG+ VE+ T +EA
Sbjct: 5 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQA 64
Query: 254 ALELGLN 260
A+E GLN
Sbjct: 65 AME-GLN 70
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
V+ ++V + EA + I F++YG++ + L + TG LKG+ VE+ T +EA
Sbjct: 21 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQA 80
Query: 254 ALELGLN 260
A+E GLN
Sbjct: 81 AME-GLN 86
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/59 (35%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKL-KGFAFVEFSTKEEAAKALE 256
+++ +L D+I +FS YGK+ + +P + L KG+A+VEF +EA KAL+
Sbjct: 7 VHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
>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 = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 24/67 (35%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
V+ ++V + EA + I F++YG++ + L + TG LKG+ VE+ T +EA
Sbjct: 5 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQA 64
Query: 254 ALELGLN 260
A+E GLN
Sbjct: 65 AME-GLN 70
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 33/58 (56%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+YV L E + + + F +G +T + +P T K +GFAFVEF E+AA A++
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 62
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 33/58 (56%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+YV L E + + + F +G +T + +P T K +GFAFVEF E+AA A++
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 65
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 42.7 bits (99), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 31/58 (53%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+YV L D + +F +GK+ + L K TG+ KG+ F+ FS E A +ALE
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 34/60 (56%)
Query: 197 CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
++ V+ L D + VF KYG+V V +P+ + T + +GFAFV F K +A A++
Sbjct: 71 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMD 130
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 33/58 (56%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+YV L E + + + F +G +T + +P T K +GFAFVEF E+AA A++
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 72
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 59/121 (48%), Gaps = 10/121 (8%)
Query: 145 SVFLKCNKLARLTHD-PDDVVKALRKSKLLEVTEDGTKVRR-TVVVQDKPDVDECT---- 198
SV +K A + ++ P+ AL + + + KV R + + Q +P +D+
Sbjct: 49 SVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEAR 108
Query: 199 ----IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
IYV + + D I+SVF +GK+ +L + +TGK KG+ F+E+ + + A
Sbjct: 109 AFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDA 168
Query: 255 L 255
+
Sbjct: 169 V 169
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 30/60 (50%)
Query: 197 CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
C +YV + E D I F+ +G + + + T K KGFAFVE+ E A ALE
Sbjct: 14 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 73
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 37/67 (55%)
Query: 189 QDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTK 248
Q K + ++V L PE + I+S F+ +GK++ + K +TGK KG+ FV F K
Sbjct: 8 QKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNK 67
Query: 249 EEAAKAL 255
+A A+
Sbjct: 68 LDAENAI 74
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 51/105 (48%), Gaps = 9/105 (8%)
Query: 160 PDDVVKALRKSKLLEVTEDGTKVRR-TVVVQDKPDVDECT--------IYVEKLPPEAEH 210
P+ AL + + + KV R + + Q +P +D+ IYV + +
Sbjct: 64 PEAAQLALEQXNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSD 123
Query: 211 DYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
D I+SVF +GK+ +L + +TGK KG+ F+E+ + + A+
Sbjct: 124 DDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 168
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 29/60 (48%)
Query: 197 CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
C +YV + E D I F+ +G + + T K KGFAFVE+ E A ALE
Sbjct: 13 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALE 72
>pdb|2CQK|A Chain A, Solution Structure Of The La Domain Of C-Mpl Binding
Protein
Length = 101
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 35/67 (52%)
Query: 117 MEFYLSDSNLRKDRFFSQLLQESPEIEVSVFLKCNKLARLTHDPDDVVKALRKSKLLEVT 176
+EF S NL KD + + I + ++ +LT DPD +++ LR S +++V
Sbjct: 22 LEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVD 81
Query: 177 EDGTKVR 183
E G KVR
Sbjct: 82 EKGEKVR 88
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 39/79 (49%)
Query: 1 MEFYLSDSNLRKDRFFSQLLQESPEIEVSVFLKCNKLARLTHDPDDVVKALRKSKLLEVT 60
+EF S NL KD + + I + ++ +LT DPD +++ LR S +++V
Sbjct: 22 LEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVD 81
Query: 61 EDGTKVKGNIIRHFLVPIS 79
E G KV+ + R P S
Sbjct: 82 EKGEKVRPSHKRCISGPSS 100
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 30/58 (51%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+YV L D + +F +G++ + L TG+ KG+ F+ FS E A KALE
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALE 86
>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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 38/68 (55%)
Query: 189 QDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTK 248
Q K + ++V L PE + I++ F+ +G+++ + K +TGK KG+ FV F K
Sbjct: 8 QKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNK 67
Query: 249 EEAAKALE 256
+A A++
Sbjct: 68 WDAENAIQ 75
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 192 PDVDEC--TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKE 249
P VD +++V +P EA + ++ +FS+ G V L + TGK KG+ F E+ +E
Sbjct: 2 PAVDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQE 61
Query: 250 EAAKAL 255
A A+
Sbjct: 62 TALSAM 67
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 35/63 (55%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
V+ ++V + EA+ D I+ F YG++ + L + TG KG+A VE+ T ++A
Sbjct: 70 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALA 129
Query: 254 ALE 256
A E
Sbjct: 130 AKE 132
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 36/62 (58%)
Query: 196 ECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ T+YV L + + +F + G V +PK + TG+ +G+ FVEF ++E+A A+
Sbjct: 15 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74
Query: 256 EL 257
++
Sbjct: 75 KI 76
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 35/63 (55%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
V+ ++V + EA+ D I+ F YG++ + L + TG KG+A VE+ T ++A
Sbjct: 24 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALA 83
Query: 254 ALE 256
A E
Sbjct: 84 AKE 86
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 5/69 (7%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE-- 256
I+V L P+ + I F +G+V + LP T K +GF F+ F +E K +E
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 63
Query: 257 ---LGLNPC 262
+GL+ C
Sbjct: 64 YHNVGLSKC 72
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 5/69 (7%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE-- 256
I+V L P+ + I F +G+V + LP T K +GF F+ F +E K +E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 257 ---LGLNPC 262
+GL+ C
Sbjct: 62 YHNVGLSKC 70
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 196 ECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ +YV LP +E +FS+YG++ + ++TG +G F+ F + EA +A+
Sbjct: 1 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 60
Query: 256 ELGLNPCPP 264
+ GLN P
Sbjct: 61 K-GLNGQKP 68
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
+ + +Y+ LP +E +FS++G++ + ++TG +G AF+ F + EA +
Sbjct: 86 IKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEE 145
Query: 254 ALELGLNPCPP 264
A+ PP
Sbjct: 146 AITSFNGHKPP 156
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%)
Query: 197 CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ V LP D + S+FS G+V L + K G G+ FV + T ++A +A+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 36/71 (50%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
+ + +Y+ LP +E +FS++G++ + ++TG +G AF+ F + EA +
Sbjct: 86 IKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEE 145
Query: 254 ALELGLNPCPP 264
A+ PP
Sbjct: 146 AITSFNGHKPP 156
Score = 35.8 bits (81), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%)
Query: 197 CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ V LP D + S+FS G+V L + K G G+ FV + T ++A +A+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical
Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens
At 1.95 A Resolution
Length = 89
Score = 38.1 bits (87), Expect = 0.005, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 35/65 (53%)
Query: 193 DVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAA 252
+ D +IYV + A + +E+ F G V V++ K +G KGFA++EFS KE
Sbjct: 3 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 62
Query: 253 KALEL 257
+L L
Sbjct: 63 TSLAL 67
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 36/71 (50%), Gaps = 7/71 (9%)
Query: 186 VVVQDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEF 245
+VV P + + V K + S+FSK GKV + P ++TGK KGF FVE
Sbjct: 9 IVVNGAPVIPSAKVPVLK-------KALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVEC 61
Query: 246 STKEEAAKALE 256
+ +A K ++
Sbjct: 62 GSMNDAKKIIK 72
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 38.1 bits (87), Expect = 0.006, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 35/65 (53%)
Query: 193 DVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAA 252
+ D +IYV + A + +E+ F G V V++ K +G KGFA++EFS KE
Sbjct: 2 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 61
Query: 253 KALEL 257
+L L
Sbjct: 62 TSLAL 66
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 28/44 (63%)
Query: 213 IESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+ S+FSK GKV + P ++TGK KGF FVE + +A K ++
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIK 72
>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex
With Rna
pdb|2KM8|C Chain C, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 167
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 27/49 (55%)
Query: 197 CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEF 245
C +++ L + D + F KYG VT + + K +TG+ +GF F+ F
Sbjct: 4 CKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSF 52
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 28/58 (48%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
I+V + P+ E FS++G + L K TG+ +GF FV + + + + +
Sbjct: 90 IFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ 147
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 42/94 (44%), Gaps = 11/94 (11%)
Query: 161 DDVVKALRKSKLLEVTEDGTKVRRTVVVQDKPDVDECTIYVEKLPPEAEHDYIESVFSKY 220
+ + A +S+L E R + VQ +P + + V LPP E + +
Sbjct: 71 EAAINAFHQSRLRE---------RELSVQLQPT--DALLCVANLPPSLTQQQFEELVRPF 119
Query: 221 GKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
G + L + TG+ KG+ F E+ K+ AA+A
Sbjct: 120 GSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 42/94 (44%), Gaps = 11/94 (11%)
Query: 161 DDVVKALRKSKLLEVTEDGTKVRRTVVVQDKPDVDECTIYVEKLPPEAEHDYIESVFSKY 220
+ + A +S+L E R + VQ +P + + V LPP E + +
Sbjct: 69 EAAINAFHQSRLRE---------RELSVQLQPT--DALLCVANLPPSLTQQQFEELVRPF 117
Query: 221 GKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
G + L + TG+ KG+ F E+ K+ AA+A
Sbjct: 118 GSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 42/94 (44%), Gaps = 11/94 (11%)
Query: 161 DDVVKALRKSKLLEVTEDGTKVRRTVVVQDKPDVDECTIYVEKLPPEAEHDYIESVFSKY 220
+ + A +S+L E R + VQ +P + + V LPP E + +
Sbjct: 71 EAAINAFHQSRLRE---------RELSVQLQPT--DALLCVANLPPSLTQQQFEELVRPF 119
Query: 221 GKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
G + L + TG+ KG+ F E+ K+ AA+A
Sbjct: 120 GSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 37.4 bits (85), Expect = 0.010, Method: Composition-based stats.
Identities = 21/59 (35%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYG-KVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+ + LP A D I +G + V L + KS+G+ +GFAFVEFS ++A + +E
Sbjct: 4 VMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWME 62
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEF 245
I+V + + E ++ F +YGK+ + + + +GK +GFAFV F
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEF 245
I+V + + E ++ F +YGK+ + + + +GK +GFAFV F
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 152
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEF 245
I+V + + E ++ F +YGK+ + + + +GK +GFAFV F
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 154
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEF 245
I+V + + E ++ F +YGK+ + + + +GK +GFAFV F
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 146
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEF 245
I+V + + E ++ F +YGK+ + + + +GK +GFAFV F
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 151
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEF 245
I+V + + E ++ F +YGK+ + + + +GK +GFAFV F
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTF 153
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 2/57 (3%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+YV+ L + + + FS +G +T + G+ KGF FV FS+ EEA KA+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKV--MMEGGRSKGFGFVCFSSPEEATKAV 72
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 36.2 bits (82), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 37/65 (56%), Gaps = 8/65 (12%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALEL 257
T+ + L A + ++ VF K T++ +P+ GK KG+AF+EF++ E+A +A
Sbjct: 17 TLVLSNLSYSATEETLQEVFEK---ATFIKVPQ-NQNGKSKGYAFIEFASFEDAKEA--- 69
Query: 258 GLNPC 262
LN C
Sbjct: 70 -LNSC 73
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 43/90 (47%), Gaps = 1/90 (1%)
Query: 168 RKSKLLEVTEDGTKVRRTVVVQDKPDVD-ECTIYVEKLPPEAEHDYIESVFSKYGKVTYV 226
R S + +T R + V ++ + D C + V L + VFSKYG + V
Sbjct: 17 RGSHMASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADV 76
Query: 227 SLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
S+ + + + +GFAFV F ++A +A E
Sbjct: 77 SIVYDQQSRRSRGFAFVYFENVDDAKEAKE 106
>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 = 35.8 bits (81), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 46/96 (47%), Gaps = 5/96 (5%)
Query: 163 VVKALRKSKLLEVTE-DGTKVRRTVVVQDKPDVDECTIYVEKLPPEAEHDYIESVFSKYG 221
++KALR +E+++ R Q+K CT+YV L + I +FSK G
Sbjct: 5 LLKALRSDSYVELSQYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSG 64
Query: 222 KVTYV--SLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ + L K K T GF FVE+ ++ +A A+
Sbjct: 65 DIKKIIMGLDKMKKT--ACGFCFVEYYSRADAENAM 98
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 35.8 bits (81), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 193 DVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAA 252
++ ++V P + + + +F +G + V + L GFAFVEF E AA
Sbjct: 28 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKI--------LNGFAFVEFEEAESAA 79
Query: 253 KALE 256
KA+E
Sbjct: 80 KAIE 83
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 35.8 bits (81), Expect = 0.028, Method: Composition-based stats.
Identities = 22/69 (31%), Positives = 36/69 (52%), Gaps = 2/69 (2%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGK--VTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
TI + + P D I + S Y V + L K K T + +GFAFV+ S+ +A++ L
Sbjct: 11 TIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLL 70
Query: 256 ELGLNPCPP 264
++ + PP
Sbjct: 71 QILQSLHPP 79
>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 = 0.029, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 36/62 (58%)
Query: 193 DVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAA 252
D D +++ ++P + ++ +F ++GK+ +++ K + TG KG AF+ + +E A
Sbjct: 10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESAL 69
Query: 253 KA 254
KA
Sbjct: 70 KA 71
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 10/71 (14%)
Query: 186 VVVQDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSL-PKFKSTGKLKGFAFVE 244
VV Q P CT+Y + + FS +G++ + + P+ KG++FV
Sbjct: 17 VVNQSSPK--NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE-------KGYSFVR 67
Query: 245 FSTKEEAAKAL 255
FST E AA A+
Sbjct: 68 FSTHESAAHAI 78
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 31/59 (52%), Gaps = 3/59 (5%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEF---STKEEAAK 253
IYV L A + ++ +FS++GKV V L + T K KGF FVE S E AK
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAK 61
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 35.4 bits (80), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 29/48 (60%), Gaps = 9/48 (18%)
Query: 213 IESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALELGLN 260
+E++FSKYG+V S+ KG+AFV++S E A+A LG N
Sbjct: 45 VETIFSKYGRVAGCSVH--------KGYAFVQYSN-ERHARAAVLGEN 83
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 35.4 bits (80), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 42/79 (53%), Gaps = 11/79 (13%)
Query: 187 VVQDKP---DVDECTIYVEKLPP------EAEHDYIESVFSKYGKVTYVSLPKFKSTGKL 237
V++D+P D + I V+ +P E + I +FSK+GK+T P+ GK
Sbjct: 3 VLKDRPQEADGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPE--EDGKT 60
Query: 238 KGFAFVEFSTKEEAAKALE 256
KG+ F+E+++ A A++
Sbjct: 61 KGYIFLEYASPAHAVDAVK 79
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 35.4 bits (80), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 37/67 (55%), Gaps = 2/67 (2%)
Query: 190 DKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTG--KLKGFAFVEFST 247
D+PD+D ++V ++P + +F +YG V +++ + +S + KG FV F T
Sbjct: 9 DQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYT 68
Query: 248 KEEAAKA 254
++ A +A
Sbjct: 69 RKAALEA 75
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 35.4 bits (80), Expect = 0.043, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 29/57 (50%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ V LP D + S+FS G+V L + K G G+ FV + T ++A +A+
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 63
>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 = 35.0 bits (79), Expect = 0.048, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 29/57 (50%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ V LP D + S+FS G+V L + K G G+ FV + T ++A +A+
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 78
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 35.0 bits (79), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 193 DVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAA 252
++ ++V P + + + +F +G + V + L GFAFVEF E AA
Sbjct: 1 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKI--------LNGFAFVEFEEAESAA 52
Query: 253 KALE 256
KA+E
Sbjct: 53 KAIE 56
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 35.0 bits (79), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 30/56 (53%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
++V L + + +E +FS YG ++ + P T K KGFAFV F E A KA
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKA 66
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 35.0 bits (79), Expect = 0.057, Method: Composition-based stats.
Identities = 17/44 (38%), Positives = 27/44 (61%)
Query: 213 IESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+ VFSKYG + VS+ + + + +GFAFV F ++A +A E
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 75
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 34.7 bits (78), Expect = 0.072, Method: Composition-based stats.
Identities = 17/44 (38%), Positives = 27/44 (61%)
Query: 213 IESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+ VFSKYG + VS+ + + + +GFAFV F ++A +A E
Sbjct: 32 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 75
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 34.7 bits (78), Expect = 0.073, Method: Composition-based stats.
Identities = 17/44 (38%), Positives = 27/44 (61%)
Query: 213 IESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+ VFSKYG + VS+ + + + +GFAFV F ++A +A E
Sbjct: 29 LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 72
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 34.3 bits (77), Expect = 0.077, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 33/58 (56%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
++V L PE I + F+ +G+++ + K +TGK KG+ FV F K +A A++
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 66
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 34.3 bits (77), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 44/93 (47%), Gaps = 14/93 (15%)
Query: 171 KLLEVTEDGTKVRRTVVVQDKP-------DVDECTIYVEKLPPEAEHDYIESVFSKYGKV 223
K LE+T G KV + +KP + D T+ + LP + D ++ VF ++
Sbjct: 63 KALELT--GLKVFGNEIKLEKPKGKDSKKERDARTLLAKNLPYKVTQDELKEVFEDAAEI 120
Query: 224 TYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
VS GK KG A++EF T+ +A K E
Sbjct: 121 RLVS-----KDGKSKGIAYIEFKTEADAEKTFE 148
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 34.3 bits (77), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 7/80 (8%)
Query: 197 CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+ V+ L P ++ +E FS++G V + G+ G FVEF+ K A KALE
Sbjct: 97 AALTVKNLSPVVSNELLEQAFSQFGPVEKAVV-VVDDRGRATGKGFVEFAAKPPARKALE 155
Query: 257 LGLNPCPPDYQSSILTTTSR 276
+ + +LTTT R
Sbjct: 156 RCGD------GAFLLTTTPR 169
>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 = 33.9 bits (76), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 16/70 (22%), Positives = 39/70 (55%)
Query: 188 VQDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFST 247
++K ++D+ ++YV + + +E+ FS G + +++ K +G KG+A++EF+
Sbjct: 28 AEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAE 87
Query: 248 KEEAAKALEL 257
+ A+ +
Sbjct: 88 RNSVDAAVAM 97
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 38/86 (44%), Gaps = 7/86 (8%)
Query: 170 SKLLEVTEDGTKVRRTVVVQDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLP 229
+K VTE G+ + +D +D C +YV L +E F YG + V +
Sbjct: 49 TKTFTVTE-GSHHHHHHMHRDSCPLD-CKVYVGNLGNNGNKTELERAFGYYGPLRSVWVA 106
Query: 230 KFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ GFAFVEF +AA A+
Sbjct: 107 R-----NPPGFAFVEFEDPRDAADAV 127
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 38/86 (44%), Gaps = 7/86 (8%)
Query: 170 SKLLEVTEDGTKVRRTVVVQDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLP 229
+K VTE G+ + +D +D C +YV L +E F YG + V +
Sbjct: 49 TKTFTVTE-GSHHHHHHMHRDSCPLD-CKVYVGNLGNNGNKTELERAFGYYGPLRSVWVA 106
Query: 230 KFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ GFAFVEF +AA A+
Sbjct: 107 R-----NPPGFAFVEFEDPRDAADAV 127
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 28/57 (49%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ V LP + ++ FS +G+V V + K TG KGF FV F+ E K +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVM 74
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 33.9 bits (76), Expect = 0.12, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 28/57 (49%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+ V LP D +S+F G + L + K TG+ G+ FV +S +A KA+
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 213 IESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
I +FSK+GK+T P+ GK KG+ F+E+++ A A++
Sbjct: 24 IHKIFSKFGKITNDFYPE--EDGKTKGYIFLEYASPAHAVDAVK 65
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 33.5 bits (75), Expect = 0.15, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 5/61 (8%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKF---KSTGKLKGFAFVEFSTKEEAAKAL 255
I++ L PE + + FS +G + + PK TG KG+AF+ F++ + + A+
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVI--LQTPKIMRDPDTGNSKGYAFINFASFDASDAAI 65
Query: 256 E 256
E
Sbjct: 66 E 66
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 33.5 bits (75), Expect = 0.15, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 27/57 (47%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+Y+ L P + + YGK+ K+T K KG+ FV+F + A KA+
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 33.5 bits (75), Expect = 0.15, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 30/57 (52%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+Y+ +P + + I + S G V + + TG+ KG+AF+EF E +A A+
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 62
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 36/62 (58%)
Query: 193 DVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAA 252
D D ++V ++P + ++ +F ++G++ +++ K + TG KG AF+ + ++ A
Sbjct: 12 DHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSAL 71
Query: 253 KA 254
KA
Sbjct: 72 KA 73
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 33.1 bits (74), Expect = 0.18, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 30/57 (52%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+Y+ +P + + I + S G V + + TG+ KG+AF+EF E +A A+
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 63
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 33.1 bits (74), Expect = 0.19, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 30/57 (52%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+Y+ +P + + I + S G V + + TG+ KG+AF+EF E +A A+
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 8/59 (13%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
++V L + +E FS++GK+ V KLK +AF+ F ++ A KA+E
Sbjct: 13 VLFVRNLANTVTEEILEKAFSQFGKLERVK--------KLKDYAFIHFDERDGAVKAME 63
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 181 KVRRTVVVQDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGF 240
K+RR Q P + +++ LP D ++ + + +G + +L K +TG KG+
Sbjct: 81 KIRRPHDYQPLPGAHK--LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGY 138
Query: 241 AFVEFSTKEEAAKALELGLN 260
AF E+ +A+ GLN
Sbjct: 139 AFCEYVDINVTDQAIA-GLN 157
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEF 245
++V L + + S FS+YG+V + K K+T + +GF FV+F
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF 65
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 32.7 bits (73), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 181 KVRRTVVVQDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGF 240
K+RR Q P + +++ LP D ++ + + +G + +L K +TG KG+
Sbjct: 83 KIRRPHDYQPLPGAHK--LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGY 140
Query: 241 AFVEFSTKEEAAKALELGLN 260
AF E+ +A+ GLN
Sbjct: 141 AFCEYVDINVTDQAIA-GLN 159
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 32.3 bits (72), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
+++ L E +++VF K+G ++ V L K + T K +GFAF+ F +A A
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNA 64
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 32.3 bits (72), Expect = 0.34, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 8/43 (18%)
Query: 213 IESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+E++FSKYGK+ S+ KGFAFV++ + A A+
Sbjct: 33 VEAIFSKYGKIVGCSVH--------KGFAFVQYVNERNARAAV 67
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 36/70 (51%), Gaps = 2/70 (2%)
Query: 191 KPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEE 250
+PDV + V +P + + +F +YG + V + + T + +G+ FV+F +
Sbjct: 38 EPDVLR-NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSS 96
Query: 251 AAKALELGLN 260
A +A+ GLN
Sbjct: 97 AQQAIA-GLN 105
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 32.0 bits (71), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 39/81 (48%), Gaps = 1/81 (1%)
Query: 178 DGTKVRRTVVVQD-KPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGK 236
G ++R+ + P +Y++ L P + S+F+++ + + TG+
Sbjct: 6 SGEEIRKIPMFSSYNPGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGR 65
Query: 237 LKGFAFVEFSTKEEAAKALEL 257
++G AF+ F KE A +AL L
Sbjct: 66 MRGQAFITFPNKEIAWQALHL 86
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 32.0 bits (71), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 3/61 (4%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKL---KGFAFVEFSTKEEAAKAL 255
++++ L + ++ VFSK G + ++ K K+ + GF FVE+ E+A KAL
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 256 E 256
+
Sbjct: 68 K 68
>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 = 0.48, Method: Composition-based stats.
Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 5/69 (7%)
Query: 189 QDKPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYV--SLPKFKSTGKLKGFAFVEFS 246
Q+K CT+YV L + I +FSK G + + L K K+ GF FVE+
Sbjct: 11 QEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTAC---GFCFVEYY 67
Query: 247 TKEEAAKAL 255
++ +A A+
Sbjct: 68 SRADAENAM 76
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 31.6 bits (70), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTY--VSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
TI + L P + D I + Y ++ V + K K T +GFAF++ ST EAA+ L
Sbjct: 25 TIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLL 83
Query: 256 ELGLNPCPP 264
++ PP
Sbjct: 84 QILQALHPP 92
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTK 248
++V LPP+ + + +F KYGK V + K KGF F+ T+
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGEVFI------HKDKGFGFIRLETR 68
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 197 CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
++ V LP ++ +E FS +G+V + G+ G VEFS K A KAL+
Sbjct: 97 ASLTVRNLPQYVSNELLEEAFSVFGQVERAVV-IVDDRGRPSGKGIVEFSGKPAARKALD 155
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 31.2 bits (69), Expect = 0.67, Method: Composition-based stats.
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALEL 257
T++V + + I S F++YG V V + + TG KG+ FV F + K +E
Sbjct: 12 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES 70
Query: 258 GLN 260
+N
Sbjct: 71 QIN 73
>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 = 31.2 bits (69), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
++V LPP+ + + +F KYGK V + K KGF F+ T+ A A
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIH------KDKGFGFIRLETRTLAEIA 67
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 31.2 bits (69), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
T YV LP I+++F + V L + K T K KGF +VEF + +AL
Sbjct: 17 TAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL 73
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 31.2 bits (69), Expect = 0.80, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 197 CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
C I+V LP + ++ F++ G V Y + GK KG V+F + E A +A
Sbjct: 9 CQIFVRNLPFDFTWKMLKDKFNECGHVLYADIK--MENGKSKGCGVVKFESPEVAERACR 66
Query: 257 L 257
+
Sbjct: 67 M 67
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALEL 257
T++V + + I S F++YG V V + TG KG+ FV F + K +E
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIIT-DRTGVSKGYGFVSFYNDVDVQKIVES 69
Query: 258 GLN 260
+N
Sbjct: 70 QIN 72
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 30.8 bits (68), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALEL 257
T++V + + I S F++YG V V + TG KG+ FV F + K +E
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIIT-DRTGVSKGYGFVSFYNDVDVQKIVES 69
Query: 258 GLN 260
+N
Sbjct: 70 QIN 72
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALELG 258
+++ LP D ++ + + +G + +L K +TG KG+AF E+ +A+ G
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA-G 62
Query: 259 LN 260
LN
Sbjct: 63 LN 64
>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 = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 29/58 (50%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+++ L + ++ FSK+G+V +L TG+ +GF FV F E K ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD 59
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 30/63 (47%)
Query: 195 DECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
D T++ +L +E FS GKV V + +++ + KG A+VEF + A
Sbjct: 24 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLA 83
Query: 255 LEL 257
+ L
Sbjct: 84 IGL 86
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALELG 258
+++ LP D ++ + + +G + +L K +TG KG+AF E+ +A+ G
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA-G 175
Query: 259 LN 260
LN
Sbjct: 176 LN 177
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 30.0 bits (66), Expect = 1.5, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 8/57 (14%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+++ LP EA I S+F +YGKV + +K + FV K A A+
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDI--------IKNYGFVHIEDKTAAEDAI 59
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/99 (18%), Positives = 40/99 (40%)
Query: 158 HDPDDVVKALRKSKLLEVTEDGTKVRRTVVVQDKPDVDECTIYVEKLPPEAEHDYIESVF 217
H D AL+ ++ + K+ Q D ++V L + + + + F
Sbjct: 49 HQSHDANIALQTLNGKQIENNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAF 108
Query: 218 SKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
+ + TG +G+ FV F+++++A A++
Sbjct: 109 KDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 147
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 30/59 (50%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALEL 257
I+V L + ++ F ++GKV L K+T + +GF FV F +++ K E+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEI 60
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 8/59 (13%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
++V L + +E FS++GK+ V KLK +AFV F + A KA++
Sbjct: 17 VLFVRNLATTVTEEILEKSFSEFGKLERVK--------KLKDYAFVHFEDRGAAVKAMD 67
>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 = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
I+++ L ++ + FS +G + +S KG+ FV F T+E A +A+E
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNI--LSCKVVCDENGSKGYGFVHFETQEAAERAIE 156
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 5/57 (8%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+YV L A +E FS YG + V + + GFAFVEF +A A+
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIAR-----NPPGFAFVEFEDPRDAEDAV 54
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 31/66 (46%)
Query: 191 KPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEE 250
K + D +V L + ++ F+K+G+V ++ +TG+ +GF F+ F
Sbjct: 6 KNEEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAAS 65
Query: 251 AAKALE 256
K L+
Sbjct: 66 VEKVLD 71
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 33/59 (55%), Gaps = 3/59 (5%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGK--VTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
++V LPP+ + D I + F ++G V + + KS KG+AF+ F +E + +AL
Sbjct: 11 VFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQ-EESSVQAL 68
>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 = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
I+++ L ++ + FS +G + +S KG+ FV F T+E A +A+E
Sbjct: 105 NIFIKNLDKSIDNKALYDTFSAFGNI--LSCKVVCDENGSKGYGFVHFETQEAAERAIE 161
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
A Ph 9.0
Length = 115
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
I+++ L ++ + FS +G + +S KG+ FV F T+E A +A+E
Sbjct: 7 NIFIKNLDKSIDNKALYDTFSAFGNI--LSCKVVCDENGSKGYGFVHFETQEAAERAIE 63
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 27/58 (46%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+Y++ LP EAE+ ++ F K V + GK G FVEF + + AL
Sbjct: 27 CVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAAL 84
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 197 CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
T+++ +PP + ++ +FS G V + FK K + A ++ + EEA +AL
Sbjct: 121 ATLHLSNIPPSVSEEDLKVLFSSNGGV----VKGFKFFQKDRKMALIQMGSVEEAVQAL 175
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 29.3 bits (64), Expect = 2.7, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
I+++ L ++ + FS +G + +S KG+ FV F T+E A +A+E
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNI--LSCKVVCDENGSKGYGFVHFETQEAAERAIE 69
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 29.3 bits (64), Expect = 2.9, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEA 251
++V + + D + FS+YG V V +PK + FAFV F+ + A
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFIPK-----PFRAFAFVTFADDQIA 55
>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 = 3.0, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 217 FSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
F YG + + + K +GK +G+AF+E+ + + A
Sbjct: 123 FEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSA 160
>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 = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 197 CTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
T+++ +PP + ++ +FS G V + FK K + A ++ + EEA +AL
Sbjct: 152 ATLHLSNIPPSVSEEDLKVLFSSNGGV----VKGFKFFQKDRKMALIQMGSVEEAVQAL 206
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 198 TIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
T++V+ L + + ++ F + V+ + TG KGF FV+F+++E+A A E
Sbjct: 17 TLFVKGLSEDTTEETLKESFDGSVRARIVTD---RETGSSKGFGFVDFNSEEDAKAAKE 72
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+++ LP + +E + +G V + L ++ GK KG A+VE+ + +A++A+
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRA-GKPKGLAYVEYENESQASQAV 75
>pdb|1S79|A Chain A, Solution Structure Of The Central Rrm Of Human La Protein
Length = 103
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 191 KPDVDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEE 250
K DV ++Y++ P +A D I+ G+V + + + KG FV F + E
Sbjct: 6 KNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKA-FKGSIFVVFDSIES 64
Query: 251 AAKALE 256
A K +E
Sbjct: 65 AKKFVE 70
>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 = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 217 FSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
F YG + + + K +GK +G+AF+E+ + + A
Sbjct: 123 FEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSA 160
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 28.5 bits (62), Expect = 4.9, Method: Composition-based stats.
Identities = 13/59 (22%), Positives = 32/59 (54%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALEL 257
+ V LP + + ++F G + + + TG G+AFV+F+++ ++ +A+++
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKV 64
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
++V +P + +F ++GK+ V + F G KGF FV F +A +A E
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEII-FNERGS-KGFGFVTFENSADADRARE 87
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 27/62 (43%)
Query: 195 DECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKA 254
+ C +++ LP E + S F +G V + K T K F FV F + A A
Sbjct: 39 EGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVA 98
Query: 255 LE 256
++
Sbjct: 99 IK 100
>pdb|3NMP|A Chain A, Crystal Structure Of The Abscisic Receptor Pyl2 Mutant
A93f In Complex With Pyrabactin
pdb|3NMP|B Chain B, Crystal Structure Of The Abscisic Receptor Pyl2 Mutant
A93f In Complex With Pyrabactin
pdb|3NMP|C Chain C, Crystal Structure Of The Abscisic Receptor Pyl2 Mutant
A93f In Complex With Pyrabactin
pdb|3NMT|A Chain A, Crystal Structure Of Pyrabactin Bound Abscisic Acid
Receptor Pyl2 Mutant A93f In Complex With Type 2c
Protein Phosphatase Hab1
pdb|3NMV|A Chain A, Crystal Structure Of Pyrabactin-Bound Abscisic Acid
Receptor Pyl2 Mutant A93f In Complex With Type 2c
Protein Phosphatase Abi2
Length = 178
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 76 VPISMETEASDNVDKDLSDLQRKDGGGRHRKKQLYQQIMNLMEFYLSDSN 125
+P S TE + VD D L + GG HR K Y+ + ++ EF DS
Sbjct: 80 LPFSTSTERLEFVDDDHRVLSFRVVGGEHRLKN-YKSVTSVNEFLNQDSG 128
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALE 256
++V +P + +F ++GK+ V + F G KGF FV F +A +A E
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEI-IFNERGS-KGFGFVTFENSADADRARE 73
>pdb|2OAY|A Chain A, Crystal Structure Of Latent Human C1-Inhibitor
Length = 390
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 36 KLARLTHDPDDVVKALRKSKLLEVTEDGTK 65
L LT DPD V A++ +LE+TE G +
Sbjct: 316 NLCGLTEDPDLQVSAMQHQTVLELTETGVE 345
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 152 KLARLTHDPDDVVKALRKSKLLEVTEDGTK 181
L LT DPD V A++ +LE+TE G +
Sbjct: 316 NLCGLTEDPDLQVSAMQHQTVLELTETGVE 345
>pdb|3KAZ|A Chain A, Crystal Structure Of Abscisic Acid Receptor Pyl2
pdb|3KAZ|B Chain B, Crystal Structure Of Abscisic Acid Receptor Pyl2
pdb|3KAZ|C Chain C, Crystal Structure Of Abscisic Acid Receptor Pyl2
pdb|3KB0|A Chain A, Crystal Structure Of Abscisic Acid-Bound Pyl2
pdb|3KB3|A Chain A, Crystal Structure Of Abscisic Acid-Bound Pyl2 In Complex
With Hab1
Length = 176
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 76 VPISMETEASDNVDKDLSDLQRKDGGGRHRKKQLYQQIMNLMEFYLSDSN 125
+P S TE + VD D L + GG HR K Y+ + ++ EF DS
Sbjct: 79 LPASTSTERLEFVDDDHRVLSFRVVGGEHRLKN-YKSVTSVNEFLNQDSG 127
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 31/57 (54%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKAL 255
+++ L E + + + + ++GK+T + + ++ + +GF FV FS+ E A+
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM 86
>pdb|3UJL|A Chain A, Crystal Structure Of Abscisic Acid Bound Pyl2 In Complex
With Type 2c Protein Phosphatase Abi2
Length = 177
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 76 VPISMETEASDNVDKDLSDLQRKDGGGRHRKKQLYQQIMNLMEFYLSDSN 125
+P S TE + VD D L + GG HR K Y+ + ++ EF DS
Sbjct: 80 LPASTSTERLEFVDDDHRVLSFRVVGGEHRLKN-YKSVTSVNEFLNQDSG 128
>pdb|2AD9|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd1 Complexed With Cucucu Rna
Length = 119
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 7/62 (11%)
Query: 194 VDECTIYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAK 253
V I++ KLP + + S+ +GKVT + + K K+ AF+E +T EEAA
Sbjct: 29 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQ------AFIEMNT-EEAAN 81
Query: 254 AL 255
+
Sbjct: 82 TM 83
>pdb|3NMH|A Chain A, Crystal Structure Of The Abscisic Receptor Pyl2 In Complex
With Pyrabactin
pdb|3NMH|B Chain B, Crystal Structure Of The Abscisic Receptor Pyl2 In Complex
With Pyrabactin
pdb|3NMH|C Chain C, Crystal Structure Of The Abscisic Receptor Pyl2 In Complex
With Pyrabactin
Length = 178
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 76 VPISMETEASDNVDKDLSDLQRKDGGGRHRKKQLYQQIMNLMEFYLSDSN 125
+P S TE + VD D L + GG HR K Y+ + ++ EF DS
Sbjct: 80 LPASTSTERLEFVDDDHRVLSFRVVGGEHRLKN-YKSVTSVNEFLNQDSG 128
>pdb|3KDH|A Chain A, Structure Of Ligand-Free Pyl2
pdb|3KDH|B Chain B, Structure Of Ligand-Free Pyl2
pdb|3KDH|C Chain C, Structure Of Ligand-Free Pyl2
pdb|3KDI|A Chain A, Structure Of (+)-Aba Bound Pyl2
pdb|3NR4|A Chain A, Pyrabactin-Bound Pyl2
pdb|3NR4|B Chain B, Pyrabactin-Bound Pyl2
pdb|3NR4|C Chain C, Pyrabactin-Bound Pyl2
pdb|3NS2|A Chain A, High-Resolution Structure Of Pyrabactin-Bound Pyl2
pdb|3NS2|B Chain B, High-Resolution Structure Of Pyrabactin-Bound Pyl2
pdb|3NS2|C Chain C, High-Resolution Structure Of Pyrabactin-Bound Pyl2
pdb|3KL1|A Chain A, Crystal Structure Of Abscisic Acid Receptor Pyl2 At 1.55 A
pdb|3KL1|B Chain B, Crystal Structure Of Abscisic Acid Receptor Pyl2 At 1.55 A
Length = 190
Score = 27.7 bits (60), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 76 VPISMETEASDNVDKDLSDLQRKDGGGRHRKKQLYQQIMNLMEFYLSDSN 125
+P S TE + VD D L + GG HR K Y+ + ++ EF DS
Sbjct: 91 LPASTSTERLEFVDDDHRVLSFRVVGGEHRLKN-YKSVTSVNEFLNQDSG 139
>pdb|3NJ0|A Chain A, X-Ray Crystal Structure Of The Pyl2-Pyrabactin A Complex
pdb|3NJ0|B Chain B, X-Ray Crystal Structure Of The Pyl2-Pyrabactin A Complex
pdb|3NJ0|C Chain C, X-Ray Crystal Structure Of The Pyl2-Pyrabactin A Complex
Length = 193
Score = 27.7 bits (60), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 76 VPISMETEASDNVDKDLSDLQRKDGGGRHRKKQLYQQIMNLMEFYLSDSN 125
+P S TE + VD D L + GG HR K Y+ + ++ EF DS
Sbjct: 94 LPASTSTERLEFVDDDHRVLSFRVVGGEHRLKN-YKSVTSVNEFLNQDSG 142
>pdb|3NJ1|A Chain A, X-Ray Crystal Structure Of The Pyl2(V114i)-Pyrabactin A
Complex
Length = 193
Score = 27.7 bits (60), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 76 VPISMETEASDNVDKDLSDLQRKDGGGRHRKKQLYQQIMNLMEFYLSDSN 125
+P S TE + VD D L + GG HR K Y+ + ++ EF DS
Sbjct: 94 LPASTSTERLEFVDDDHRVLSFRIVGGEHRLKN-YKSVTSVNEFLNQDSG 142
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 27.7 bits (60), Expect = 9.1, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 199 IYVEKLPPEAEHDYIESVFSKYGKVTYVSLPKFKSTGKLKGFAFVEFSTKEEAAKALEL 257
I+V LP + ++ F++ G V Y + GK KG V+F + E A +A +
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKM--ENGKSKGCGVVKFESPEVAERACRM 64
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.135 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,710,958
Number of Sequences: 62578
Number of extensions: 352355
Number of successful extensions: 1320
Number of sequences better than 100.0: 175
Number of HSP's better than 100.0 without gapping: 110
Number of HSP's successfully gapped in prelim test: 65
Number of HSP's that attempted gapping in prelim test: 1145
Number of HSP's gapped (non-prelim): 210
length of query: 299
length of database: 14,973,337
effective HSP length: 98
effective length of query: 201
effective length of database: 8,840,693
effective search space: 1776979293
effective search space used: 1776979293
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)