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= 002920
(865 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 51/175 (29%), Positives = 79/175 (45%), Gaps = 12/175 (6%)
Query: 102 RTVIIGGLLNADMAE-EVHRLAGSIGTVCSVTYPLPKEELEQHGLAQEGCKMDASAVLYT 160
RT +I L +M + E+ L SIG V S L ++++ H L V Y
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAK--LIRDKVAGHSLGY-------GFVNYV 52
Query: 161 TVKSACASVALLHQKEIKGGTVWARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPV 220
T K A ++ L+ ++ T+ + L I +P +++DMFS
Sbjct: 53 TAKDAERAINTLNGLRLQSKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRF 112
Query: 221 GLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQK--FGKRPIAVDWA 273
G + N + + TGLS+G AF++F + +AE AI FNG K PI V +A
Sbjct: 113 GRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITVKFA 167
Score = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 46/94 (48%), Gaps = 7/94 (7%)
Query: 196 KWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAI 255
+ LI+ +P +E++ +FS +G V + + + G S G+ FV + +DAE AI
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 256 QKFNGQKFGKRPIAVDWAVPK-------NIYSSG 282
NG + + I V +A P N+Y SG
Sbjct: 62 NTLNGLRLQSKTIKVSYARPSSEVIKDANLYISG 95
Score = 33.5 bits (75), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 27/47 (57%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
++I LP + ++V+ FS FG +++ ++ Q T +G F++F
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 60.8 bits (146), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 51/175 (29%), Positives = 79/175 (45%), Gaps = 12/175 (6%)
Query: 102 RTVIIGGLLNADMAE-EVHRLAGSIGTVCSVTYPLPKEELEQHGLAQEGCKMDASAVLYT 160
RT +I L +M + E+ L SIG V S L ++++ H L V Y
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAK--LIRDKVAGHSLGY-------GFVNYV 52
Query: 161 TVKSACASVALLHQKEIKGGTVWARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPV 220
T K A ++ L+ ++ T+ + L I +P +++DMFS
Sbjct: 53 TAKDAERAINTLNGLRLQSKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRF 112
Query: 221 GLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQK--FGKRPIAVDWA 273
G + N + + TGLS+G AF++F + +AE AI FNG K PI V +A
Sbjct: 113 GRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITVXFA 167
Score = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 46/94 (48%), Gaps = 7/94 (7%)
Query: 196 KWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAI 255
+ LI+ +P +E++ +FS +G V + + + G S G+ FV + +DAE AI
Sbjct: 2 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Query: 256 QKFNGQKFGKRPIAVDWAVPK-------NIYSSG 282
NG + + I V +A P N+Y SG
Sbjct: 62 NTLNGLRLQSKTIKVSYARPSSEVIKDANLYISG 95
Score = 33.5 bits (75), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 27/47 (57%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
++I LP + ++V+ FS FG +++ ++ Q T +G F++F
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 58.2 bits (139), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 48/79 (60%), Gaps = 4/79 (5%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHN-TDTGLSKGFAFVKFTCKRDAESAIQ 256
K+++RNIPF+A EI+++FS G + V +P T TG +GF FV F K+DA+ A
Sbjct: 17 KILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFN 76
Query: 257 KF--NGQKFGKRPIAVDWA 273
+ +G+R + ++WA
Sbjct: 77 ALCHSTHLYGRR-LVLEWA 94
Score = 32.7 bits (73), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSF-VPVLHQVTKRPKGTGFLKF 454
I + N+PF + E+++ FS FGE+ + +P T +G GF+ F
Sbjct: 18 ILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDF 65
>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 = 57.4 bits (137), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 36/105 (34%), Positives = 53/105 (50%), Gaps = 11/105 (10%)
Query: 188 GGEGSKTQK------WKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFA 241
G GS QK + + + ++ + +IK F+P G + + + + TG SKG+
Sbjct: 1 GSSGSSGQKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYG 60
Query: 242 FVKFTCKRDAESAIQKFNGQKFGKRPIAVDWAV-----PKNIYSS 281
FV F K DAE+AIQ+ GQ G R I +WA PK+ Y S
Sbjct: 61 FVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATRKPPAPKSTYES 105
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 25/47 (53%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+F+ +L ++ E++K F+ FG + V T + KG GF+ F
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSF 64
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 55.8 bits (133), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 47/75 (62%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
+ + NIP++A ++KD+FS VG V + + ++ +TG KG+ F ++ + A SA++
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 259 NGQKFGKRPIAVDWA 273
NG++F R + VD A
Sbjct: 71 NGREFSGRALRVDNA 85
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 31/48 (64%)
Query: 407 TIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
++F+ N+P++ E++K FS G VVSF V + T +PKG GF ++
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEY 57
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 54.3 bits (129), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 42/75 (56%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L + N+ ++ + ++ +F G V +VYIP + T S+GFAFV+F KRDAE A+
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 259 NGQKFGKRPIAVDWA 273
+G R + V A
Sbjct: 133 DGAVLDGRELRVQMA 147
>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 = 53.9 bits (128), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 45/80 (56%)
Query: 197 WKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQ 256
W L + +I +A+ +EI++ F G + N+++ + TG SKG+A V++ + A +A +
Sbjct: 73 WILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 132
Query: 257 KFNGQKFGKRPIAVDWAVPK 276
NG + + I VDW K
Sbjct: 133 ALNGAEIMGQTIQVDWCFVK 152
>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 = 53.9 bits (128), Expect = 4e-07, Method: Composition-based stats.
Identities = 24/84 (28%), Positives = 46/84 (54%)
Query: 189 GEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCK 248
G + W L + + +A +I D F+ G + N+++ + TG KG+ V++
Sbjct: 2 GPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 61
Query: 249 RDAESAIQKFNGQKFGKRPIAVDW 272
++A++A++ NGQ +PI+VDW
Sbjct: 62 KEAQAAMEGLNGQDLMGQPISVDW 85
>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 = 53.1 bits (126), Expect = 6e-07, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 45/78 (57%)
Query: 195 QKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESA 254
+ W L + + +A +I D F+ G + N+++ + TG KG+ V++ ++A++A
Sbjct: 6 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 65
Query: 255 IQKFNGQKFGKRPIAVDW 272
++ NGQ +PI+VDW
Sbjct: 66 MEGLNGQDLMGQPISVDW 83
>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 = 53.1 bits (126), Expect = 6e-07, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 45/78 (57%)
Query: 195 QKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESA 254
+ W L + + +A +I D F+ G + N+++ + TG KG+ V++ ++A++A
Sbjct: 6 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 65
Query: 255 IQKFNGQKFGKRPIAVDW 272
++ NGQ +PI+VDW
Sbjct: 66 MEGLNGQDLMGQPISVDW 83
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 53.1 bits (126), Expect = 7e-07, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 45/78 (57%)
Query: 195 QKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESA 254
+ W L + + +A +I D F+ G + N+++ + TG KG+ V++ ++A++A
Sbjct: 6 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 65
Query: 255 IQKFNGQKFGKRPIAVDW 272
++ NGQ +PI+VDW
Sbjct: 66 MEGLNGQDLMGQPISVDW 83
>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 = 52.8 bits (125), Expect = 8e-07, Method: Composition-based stats.
Identities = 24/84 (28%), Positives = 46/84 (54%)
Query: 189 GEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCK 248
G + W L + + +A +I D F+ G + N+++ + TG KG+ V++
Sbjct: 16 GPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 75
Query: 249 RDAESAIQKFNGQKFGKRPIAVDW 272
++A++A++ NGQ +PI+VDW
Sbjct: 76 KEAQAAMEGLNGQDLMGQPISVDW 99
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 52.8 bits (125), Expect = 8e-07, Method: Composition-based stats.
Identities = 24/84 (28%), Positives = 46/84 (54%)
Query: 189 GEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCK 248
G + W L + + +A +I D F+ G + N+++ + TG KG+ V++
Sbjct: 15 GPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 74
Query: 249 RDAESAIQKFNGQKFGKRPIAVDW 272
++A++A++ NGQ +PI+VDW
Sbjct: 75 KEAQAAMEGLNGQDLMGQPISVDW 98
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 52.8 bits (125), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 34/101 (33%), Positives = 49/101 (48%), Gaps = 6/101 (5%)
Query: 188 GGEGSKTQK------WKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFA 241
G GS QK + + + ++ + +IK F+P G + + + + TG SKG+
Sbjct: 1 GSSGSSGQKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYG 60
Query: 242 FVKFTCKRDAESAIQKFNGQKFGKRPIAVDWAVPKNIYSSG 282
FV F K DAE+AI GQ G R I +WA K SG
Sbjct: 61 FVSFYNKLDAENAIVHMGGQWLGGRQIRTNWATRKPPAPSG 101
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+F+ +L ++ E++K F+ FG++ V T + KG GF+ F
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSF 64
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 45/80 (56%)
Query: 197 WKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQ 256
W L + +I +A+ +EI++ F G + N+++ + TG SKG+A V++ + A +A +
Sbjct: 27 WILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 86
Query: 257 KFNGQKFGKRPIAVDWAVPK 276
NG + + I VDW K
Sbjct: 87 ALNGAEIMGQTIQVDWCFVK 106
>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 = 50.8 bits (120), Expect = 3e-06, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 42/75 (56%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L + N+ ++ + ++ +F G V +VYIP + T S+GFAFV+F KRDAE A+
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 259 NGQKFGKRPIAVDWA 273
+G R + V A
Sbjct: 110 DGAVLDGRELRVQMA 124
>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 = 50.4 bits (119), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 41/81 (50%)
Query: 195 QKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESA 254
Q LI+ +P +E++ +FS +G V + + + G S G+ FV + +DAE A
Sbjct: 18 QGTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 77
Query: 255 IQKFNGQKFGKRPIAVDWAVP 275
I NG + + I V +A P
Sbjct: 78 INTLNGLRLQSKTIKVSYARP 98
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 50.1 bits (118), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 45/94 (47%), Gaps = 7/94 (7%)
Query: 196 KWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAI 255
K LI+ +P +E K +F +G + + + + TG S G+ FV ++ DA+ AI
Sbjct: 4 KTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
Query: 256 QKFNGQKFGKRPIAVDWAVPK-------NIYSSG 282
NG K + I V +A P N+Y SG
Sbjct: 64 NTLNGLKLQTKTIKVSYARPSSASIRDANLYVSG 97
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 43/176 (24%), Positives = 79/176 (44%), Gaps = 12/176 (6%)
Query: 101 ARTVIIGGLLNADMAE-EVHRLAGSIGTVCSVTYPLPKEELEQHGLAQEGCKMDASAVLY 159
++T +I L +M + E L GSIG + S L ++++ G + V Y
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCK--LVRDKIT-------GQSLGYGFVNY 53
Query: 160 TTVKSACASVALLHQKEIKGGTVWARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSP 219
+ A ++ L+ +++ T+ + + L + +P E++ +FS
Sbjct: 54 SDPNDADKAINTLNGLKLQTKTIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQ 113
Query: 220 VGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQK--FGKRPIAVDWA 273
G + I + TG+S+G F++F + +AE AI+ NGQK PI V +A
Sbjct: 114 YGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGAAEPITVKFA 169
Score = 37.7 bits (86), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 29/47 (61%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+++ LP + +E++Q FS +G +++ +L Q T +G GF++F
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRF 139
>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 = 50.1 bits (118), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 41/80 (51%)
Query: 196 KWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAI 255
+ LI+ +P +E++ +FS +G V + + + G S G+ FV + +DAE AI
Sbjct: 4 RTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 63
Query: 256 QKFNGQKFGKRPIAVDWAVP 275
NG + + I V +A P
Sbjct: 64 NTLNGLRLQSKTIKVSYARP 83
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 49.3 bits (116), Expect = 9e-06, Method: Composition-based stats.
Identities = 27/73 (36%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 215 DMFSPVGLVWNV-YIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWA 273
D FS G++ I + DTG SKG+AF+ F +++AI+ NGQ RPI V +A
Sbjct: 24 DTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA 83
Query: 274 VPKNIYSSGGAAA 286
K+ SG ++
Sbjct: 84 FKKDSKGSGPSSG 96
>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 = 49.3 bits (116), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 44/94 (46%), Gaps = 7/94 (7%)
Query: 196 KWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAI 255
K LI+ +P E + +F +G + + + + TG S G+ FV + +DAE AI
Sbjct: 2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61
Query: 256 QKFNGQKFGKRPIAVDWAVPK-------NIYSSG 282
NG + + I V +A P N+Y SG
Sbjct: 62 NTLNGLRLQTKTIKVSYARPSSASIRDANLYVSG 95
Score = 46.6 bits (109), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 46/179 (25%), Positives = 78/179 (43%), Gaps = 18/179 (10%)
Query: 101 ARTVIIGGLLNADMAEEVHR-LAGSIGTVCSVTYPLPKEELEQHGLAQE---GCKMDASA 156
++T +I L +M +E R L GSIG E+E L ++ G +
Sbjct: 1 SKTNLIVNYLPQNMTQEEFRSLFGSIG------------EIESCKLVRDKITGQSLGYGF 48
Query: 157 VLYTTVKSACASVALLHQKEIKGGTVWARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDM 216
V Y K A ++ L+ ++ T+ + + L + +P E++ +
Sbjct: 49 VNYIDPKDAEKAINTLNGLRLQTKTIKVSYARPSSASIRDANLYVSGLPKTMTQKELEQL 108
Query: 217 FSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQK--FGKRPIAVDWA 273
FS G + I + TG+S+G F++F + +AE AI+ NGQK PI V +A
Sbjct: 109 FSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA 167
Score = 37.7 bits (86), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 30/47 (63%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+++ LP + +E++Q FS +G +++ ++ QVT +G GF++F
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRF 137
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 48.5 bits (114), Expect = 1e-05, Method: Composition-based stats.
Identities = 25/87 (28%), Positives = 47/87 (54%), Gaps = 3/87 (3%)
Query: 201 IRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNG 260
+ N+ + +++++F P G + +Y+ + TG SKGFAF+ F + DA AI +G
Sbjct: 20 VTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG 79
Query: 261 QKFGKRPIAVDWAVPKNIYSSGGAAAG 287
+ + V+WA P ++ G ++G
Sbjct: 80 FGYDHLILNVEWAKPS---TNSGPSSG 103
>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 = 47.4 bits (111), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 33/58 (56%)
Query: 219 PVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWAVPK 276
P G + + + + TG SKG+ FV F K DAE+AIQ+ GQ G R I +WA K
Sbjct: 29 PFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATRK 86
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 47.4 bits (111), Expect = 4e-05, Method: Composition-based stats.
Identities = 31/116 (26%), Positives = 58/116 (50%), Gaps = 6/116 (5%)
Query: 163 KSACASVAL--LHQKEIKGGTV---WARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDMF 217
+S A++AL L+ K+I+ V WA Q + S + L + ++ +++ F
Sbjct: 50 QSHDANIALQTLNGKQIENNIVKINWAFQ-SQQSSSDDTFNLFVGDLNVNVDDETLRNAF 108
Query: 218 SPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWA 273
+ ++ + TG S+G+ FV FT + DA++A+ GQ RP+ ++WA
Sbjct: 109 KDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA 164
Score = 29.6 bits (65), Expect = 7.7, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 240 FAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWAVPKNIYSS 281
+AFV++ DA A+Q NG++ + ++WA SS
Sbjct: 43 YAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQSQQSSS 84
>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 = 46.6 bits (109), Expect = 5e-05, Method: Composition-based stats.
Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 7/86 (8%)
Query: 203 NIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQK 262
+IP+ +I D+ S VG V N+ + + TG SKG+AF++F + SA++ NG +
Sbjct: 10 SIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQ 69
Query: 263 FGKRPIAVDWAVPKNIYSSGGAAAGV 288
G R + K YSS +GV
Sbjct: 70 LGSRFL-------KCGYSSNSDISGV 88
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 46.6 bits (109), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 45/85 (52%), Gaps = 2/85 (2%)
Query: 192 SKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDA 251
+K+Q +L + NIPF+ + +++ MF G + +V I N SKGF FV F DA
Sbjct: 25 NKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADA 82
Query: 252 ESAIQKFNGQKFGKRPIAVDWAVPK 276
+ A +K +G R I V+ A +
Sbjct: 83 DRAREKLHGTVVEGRKIEVNNATAR 107
Score = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+ + N+PF + +++Q F FG+++ + ++ + KG GF+ F
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNE--RGSKGFGFVTF 76
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 46.6 bits (109), Expect = 6e-05, Method: Composition-based stats.
Identities = 30/99 (30%), Positives = 46/99 (46%)
Query: 188 GGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTC 247
G G T K L + + + + F P G + ++ IP + +T +GFAFV+F
Sbjct: 4 GSSGMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFEL 63
Query: 248 KRDAESAIQKFNGQKFGKRPIAVDWAVPKNIYSSGGAAA 286
DA +AI N + R I V+ A P I SG ++
Sbjct: 64 AEDAAAAIDNMNESELFGRTIRVNLAKPMRIKESGPSSG 102
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 46.6 bits (109), Expect = 6e-05, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 41/72 (56%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L + ++ F + ++ +F P G + N+ + ++DTG SKG+ F+ F+ A A+++
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 259 NGQKFGKRPIAV 270
NG + RP+ V
Sbjct: 68 NGFELAGRPMRV 79
>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 = 46.6 bits (109), Expect = 6e-05, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 37/64 (57%)
Query: 203 NIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQK 262
+IP+ +I D+ S VG V N+ + + TG SKG+AF++F + SA++ NG +
Sbjct: 11 SIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQ 70
Query: 263 FGKR 266
G R
Sbjct: 71 LGSR 74
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 46.6 bits (109), Expect = 6e-05, Method: Composition-based stats.
Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 7/86 (8%)
Query: 203 NIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQK 262
+IP+ +I D+ S VG V N+ + + TG SKG+AF++F + SA++ NG +
Sbjct: 9 SIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQ 68
Query: 263 FGKRPIAVDWAVPKNIYSSGGAAAGV 288
G R + K YSS +GV
Sbjct: 69 LGSRFL-------KCGYSSNSDISGV 87
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 45.8 bits (107), Expect = 1e-04, Method: Composition-based stats.
Identities = 25/82 (30%), Positives = 41/82 (50%)
Query: 196 KWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAI 255
K LI+ +P +E K +F +G + + + + TG S G+ FV ++ DA+ AI
Sbjct: 4 KTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
Query: 256 QKFNGQKFGKRPIAVDWAVPKN 277
NG K + I V +A P +
Sbjct: 64 NTLNGLKLQTKTIKVSYARPSS 85
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 45.8 bits (107), Expect = 1e-04, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L + N+ ++ + ++ +F G V +VYIP T +GFAFV+F +RDA+ A
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 259 NGQKFGKRPIAVDWA 273
+G + R + V A
Sbjct: 76 DGAELDGRELRVQVA 90
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 45/85 (52%), Gaps = 2/85 (2%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
+L + NIPF+ + +++ MF G + +V I N SKGF FV F DA+ A +K
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 74
Query: 258 FNGQKFGKRPIAVDWAVPKNIYSSG 282
+G R I V+ A + + +SG
Sbjct: 75 LHGTVVEGRKIEVNNATARVMTNSG 99
Score = 29.6 bits (65), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 410 ICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+ N+PF + +++Q F FG+++ + ++ + KG GF+ F
Sbjct: 20 VSNIPFRFRDPDLRQMFGQFGKILDVEIIFNE--RGSKGFGFVTF 62
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 39/80 (48%)
Query: 194 TQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAES 253
+ + KL + + F ++ +FS G + V + + +T S+GF FV F DA+
Sbjct: 10 SDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKD 69
Query: 254 AIQKFNGQKFGKRPIAVDWA 273
A+ NG+ R I VD A
Sbjct: 70 AMMAMNGKSVDGRQIRVDQA 89
Score = 39.7 bits (91), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 29/47 (61%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+F+ L FD + + ++Q FS +G++ V V + T+R +G GF+ F
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTF 61
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 27/43 (62%)
Query: 231 NTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWA 273
+ TG S+G+ FV FT + DA++A+ GQ RP+ ++WA
Sbjct: 36 DMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA 78
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 19/73 (26%), Positives = 43/73 (58%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
+L + ++ F + ++ +F P G + ++ + +++TG SKG+ F+ F+ A+ A+++
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 258 FNGQKFGKRPIAV 270
NG + RP+ V
Sbjct: 88 LNGFELAGRPMKV 100
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 44.3 bits (103), Expect = 3e-04, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 39/77 (50%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
LI+ +P E+ +F +G + I + TG S G+AFV FT + D++ AI+
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 259 NGQKFGKRPIAVDWAVP 275
NG + + V +A P
Sbjct: 66 NGITVRNKRLKVSYARP 82
Score = 32.7 bits (73), Expect = 0.90, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 37/80 (46%), Gaps = 15/80 (18%)
Query: 556 SRTRLVIYNLPKSMTEKGLKKLCIDAVVSRASKQKPVIKQIKFLQSLKKGKVDTKHYSRG 615
S T L++ LP+ MT++ L L + I + ++ K G YS G
Sbjct: 2 SNTNLIVNYLPQDMTDRELYAL---------FRAIGPINTCRIMRDYKTG------YSYG 46
Query: 616 VAFVEFTEHQHALVALRVLN 635
AFV+FT + A++VLN
Sbjct: 47 YAFVDFTSEMDSQRAIKVLN 66
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 46/90 (51%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
+L +RN+ + + +++ +FS G + ++ P ++ T KGFAFV F A A +
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 258 FNGQKFGKRPIAVDWAVPKNIYSSGGAAAG 287
+GQ F R + V + K S G ++G
Sbjct: 70 VDGQVFQGRMLHVLPSTIKKEASQSGPSSG 99
Score = 34.3 bits (77), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 28/47 (59%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+F+ NL + E++++ FSA+G + + +TK+PKG F+ F
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTF 57
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L + +P E++ +FS G + I + TG+S+G F++F + +AE AI+
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 259 NGQK--FGKRPIAVDWA 273
NGQK PI V +A
Sbjct: 64 NGQKPLGAAEPITVKFA 80
Score = 37.7 bits (86), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 29/47 (61%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+++ LP + +E++Q FS +G +++ +L Q T +G GF++F
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRF 50
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 43.5 bits (101), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 29/48 (60%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFT 246
LI+ +P+K ++K+ FS G V V + + TG SKGF FV+FT
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFT 65
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+ + LP+ +++K+ FS FGEV+ T KG GF++F
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRF 64
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 43.5 bits (101), Expect = 6e-04, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 39/77 (50%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
LI+ +P E+ +F +G + I + TG S G+AFV FT + D++ AI+
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 259 NGQKFGKRPIAVDWAVP 275
NG + + V +A P
Sbjct: 66 NGITVRNKRLKVSYARP 82
Score = 34.7 bits (78), Expect = 0.26, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 4/88 (4%)
Query: 188 GGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTC 247
GGE K L + N+P +++ +F G + I + TG +G AFV++
Sbjct: 83 GGESIKDTN--LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNK 140
Query: 248 KRDAESAIQKFNG--QKFGKRPIAVDWA 273
+ +A+ AI N + G +P++V A
Sbjct: 141 REEAQEAISALNNVIPEGGSQPLSVRLA 168
Score = 33.1 bits (74), Expect = 0.61, Method: Composition-based stats.
Identities = 13/55 (23%), Positives = 30/55 (54%)
Query: 400 GEDELQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
GE +++ NLP + ++++ F +G +V + ++T RP+G F+++
Sbjct: 84 GESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRY 138
Score = 32.0 bits (71), Expect = 1.6, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 37/80 (46%), Gaps = 15/80 (18%)
Query: 556 SRTRLVIYNLPKSMTEKGLKKLCIDAVVSRASKQKPVIKQIKFLQSLKKGKVDTKHYSRG 615
S T L++ LP+ MT++ L L + I + ++ K G YS G
Sbjct: 2 SNTNLIVNYLPQDMTDRELYALF---------RAIGPINTCRIMRDYKTG------YSYG 46
Query: 616 VAFVEFTEHQHALVALRVLN 635
AFV+FT + A++VLN
Sbjct: 47 YAFVDFTSEMDSQRAIKVLN 66
Score = 29.3 bits (64), Expect = 9.0, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 37/82 (45%), Gaps = 15/82 (18%)
Query: 555 VSRTRLVIYNLPKSMTEKGLKKLCIDAVVSRASKQKPVIKQIKFLQSLKKGKVDTKHYSR 614
+ T L + NLP+++T+ L D + + I Q L+ G+ R
Sbjct: 87 IKDTNLYVTNLPRTITDDQL-----DTIFGKYGS----IVQKNILRDKLTGR------PR 131
Query: 615 GVAFVEFTEHQHALVALRVLNN 636
GVAFV + + + A A+ LNN
Sbjct: 132 GVAFVRYNKREEAQEAISALNN 153
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 43.1 bits (100), Expect = 7e-04, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 40/65 (61%)
Query: 212 EIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVD 271
+++++FS G + +V I ++ + S+GFAFV F DA+ A ++ NG + R I VD
Sbjct: 28 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 87
Query: 272 WAVPK 276
+++ K
Sbjct: 88 FSITK 92
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 42.7 bits (99), Expect = 8e-04, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 40/65 (61%)
Query: 212 EIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVD 271
+++++FS G + +V I ++ + S+GFAFV F DA+ A ++ NG + R I VD
Sbjct: 62 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 121
Query: 272 WAVPK 276
+++ K
Sbjct: 122 FSITK 126
>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 = 42.7 bits (99), Expect = 8e-04, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 39/77 (50%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
LI+ +P E+ +F +G + I + TG S G+AFV FT + D++ AI+
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 259 NGQKFGKRPIAVDWAVP 275
NG + + V +A P
Sbjct: 77 NGITVRNKRLKVSYARP 93
Score = 33.9 bits (76), Expect = 0.42, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 4/88 (4%)
Query: 188 GGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTC 247
GGE K L + N+P +++ +F G + I + TG +G AFV++
Sbjct: 94 GGESIKDTN--LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNK 151
Query: 248 KRDAESAIQKFNG--QKFGKRPIAVDWA 273
+ +A+ AI N + G +P++V A
Sbjct: 152 REEAQEAISALNNVIPEGGSQPLSVRLA 179
Score = 32.7 bits (73), Expect = 0.87, Method: Composition-based stats.
Identities = 13/55 (23%), Positives = 30/55 (54%)
Query: 400 GEDELQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
GE +++ NLP + ++++ F +G +V + ++T RP+G F+++
Sbjct: 95 GESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRY 149
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 40/65 (61%)
Query: 212 EIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVD 271
+++++FS G + +V I ++ + S+GFAFV F DA+ A ++ NG + R I VD
Sbjct: 31 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 90
Query: 272 WAVPK 276
+++ K
Sbjct: 91 FSITK 95
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
+ + N+ + A ++K++FS G V+NV + ++ +T KGF FV+ + +E AI K
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSE-AIAKL 62
Query: 259 NGQKFGKRPIAVDWAVPK 276
+ F R I V A PK
Sbjct: 63 DNTDFMGRTIRVTEANPK 80
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 31/46 (67%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLK 453
I++ NL + +E+VK+ FS FG+V + + + TK+PKG GF++
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVE 49
>pdb|2CPZ|A Chain A, Solution Structure Of Rna Binding Domain 3 In Cug Triplet
Repeat Rna-Binding Protein 1
pdb|2RQ4|A Chain A, Refinement Of Rna Binding Domain 3 In Cug Triplet Repeat
Rna-Binding Protein 1
pdb|2RQC|A Chain A, Solution Structure Of Rna-Binding Domain 3 Of Cugbp1 In
Complex With Rna (Ug)3
Length = 115
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 34/111 (30%), Positives = 53/111 (47%), Gaps = 7/111 (6%)
Query: 172 LHQKEIKGGTVWARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHN 231
L Q+ I G +++ G EG+ L I ++P + ++ MF P G V + + +
Sbjct: 8 LTQQSI--GAAGSQKEGPEGAN-----LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFID 60
Query: 232 TDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWAVPKNIYSSG 282
T LSK F FV + A++AIQ NG + G + + V KN SG
Sbjct: 61 KQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSKNDSKSG 111
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+FI +LP + ++++ Q F FG VVS + + T K GF+ +
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSY 74
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 48/102 (47%), Gaps = 13/102 (12%)
Query: 189 GEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCK 248
GE + TQ+ +L + N+P + K +F G V+I N D +GF F++ +
Sbjct: 15 GEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFI--NRD----RGFGFIRLESR 68
Query: 249 RDAESAIQKFNGQKFGKRPIAVDWAVPKNIYSSGGAAAGVQN 290
AE A + +G RP+ + +A + GAA V+N
Sbjct: 69 TLAEIAKAELDGTILKSRPLRIRFA-------THGAALTVKN 103
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 41/142 (28%), Positives = 60/142 (42%), Gaps = 24/142 (16%)
Query: 137 KEELEQHGLAQE---------------GCKMDASAVLYTTVKSACASVALLHQKEIKGGT 181
+E EQ+G E GC V + T K+A + LH ++ G
Sbjct: 33 RELFEQYGAVYEINVLRDRSQNPPQSKGC----CFVTFYTRKAALEAQNALHNMKVLPGM 88
Query: 182 VWARQLGGEGSK----TQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLS 237
Q+ S+ + KL I I K N+I+ MFS G + I D GLS
Sbjct: 89 HHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLS 147
Query: 238 KGFAFVKFTCKRDAESAIQKFN 259
+G AFV FT + A++AI+ +
Sbjct: 148 RGCAFVTFTTRAMAQTAIKAMH 169
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 27/82 (32%), Positives = 37/82 (45%), Gaps = 2/82 (2%)
Query: 189 GEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCK 248
G + ++ +RN+PF +KD F+ G V +Y + G SKG VKF
Sbjct: 1 GSSGSSGACQIFVRNLPFDFTWKMLKDKFNECGHV--LYADIKMENGKSKGCGVVKFESP 58
Query: 249 RDAESAIQKFNGQKFGKRPIAV 270
AE A + NG K R I V
Sbjct: 59 EVAERACRMMNGMKLSGREIDV 80
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 40/89 (44%), Gaps = 2/89 (2%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L I N+P E+++M P G V + I ++ +G S+G F + E+ I F
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEAVIGHF 86
Query: 259 NGQKFGKRPIAVDWAVPKNIYSSGGAAAG 287
NG KF K P V + G ++G
Sbjct: 87 NG-KFIKTPPGVSAPTEPLLCKFSGPSSG 114
Score = 33.9 bits (76), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
++I NLP +D +E++ FG+V+S +L + +G GF +
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVIS-TRILRDSSGTSRGVGFARM 73
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 39/79 (49%)
Query: 196 KWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAI 255
K + + N+PF N++ +FS G V V I + DT SKG AF+ F K A++
Sbjct: 16 KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCT 75
Query: 256 QKFNGQKFGKRPIAVDWAV 274
+ N ++ R I A+
Sbjct: 76 RAINNKQLFGRVIKASIAI 94
Score = 40.4 bits (93), Expect = 0.004, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 32/50 (64%)
Query: 405 QNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
++T+++ NLPF L N ++ + FS +G+VV + + T++ KG F+ F
Sbjct: 16 KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILF 65
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 8/76 (10%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
+L +R P + +E+ ++F P G + V I GFAFV+F A AI++
Sbjct: 6 RLFVRPFPLDVQESELNEIFGPFGPMKEVKI--------LNGFAFVEFEEAESAAKAIEE 57
Query: 258 FNGQKFGKRPIAVDWA 273
+G+ F +P+ V ++
Sbjct: 58 VHGKSFANQPLEVVYS 73
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 26/85 (30%), Positives = 44/85 (51%), Gaps = 11/85 (12%)
Query: 189 GEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCK 248
GE S T +L +R P + +E+ ++F P G + V I + GFAFV+F
Sbjct: 27 GELSNT---RLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEA 75
Query: 249 RDAESAIQKFNGQKFGKRPIAVDWA 273
A AI++ +G+ F +P+ V ++
Sbjct: 76 ESAAKAIEEVHGKSFANQPLEVVYS 100
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 41/139 (29%), Positives = 59/139 (42%), Gaps = 24/139 (17%)
Query: 137 KEELEQHGLAQE---------------GCKMDASAVLYTTVKSACASVALLHQKEIKGGT 181
+E EQ+G E GC V + T K+A + LH ++ G
Sbjct: 21 RELFEQYGAVYEINVLRDRSQNPPQSKGC----CFVTFYTRKAALEAQNALHNMKVLPGM 76
Query: 182 VWARQLGGEGSK----TQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLS 237
Q+ S+ + KL I I K N+I+ MFS G + I D GLS
Sbjct: 77 HHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLS 135
Query: 238 KGFAFVKFTCKRDAESAIQ 256
+G AFV FT + A++AI+
Sbjct: 136 RGCAFVTFTTRAMAQTAIK 154
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 40.8 bits (94), Expect = 0.004, Method: Composition-based stats.
Identities = 21/57 (36%), Positives = 31/57 (54%)
Query: 217 FSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWA 273
F P G + ++ IP + +T +GFAFV+F DA +AI N + R I V+ A
Sbjct: 84 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 140
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 44/80 (55%), Gaps = 2/80 (2%)
Query: 209 KVNE--IKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKR 266
KV+E + ++F G V N ++P + TG +G+ FV+F + DA+ AI+ + K +
Sbjct: 26 KVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGK 85
Query: 267 PIAVDWAVPKNIYSSGGAAA 286
PI V+ A N SG ++
Sbjct: 86 PIRVNKASAHNKNLSGPSSG 105
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 40.0 bits (92), Expect = 0.005, Method: Composition-based stats.
Identities = 26/72 (36%), Positives = 34/72 (47%), Gaps = 2/72 (2%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
+ +RN+PF +KD F+ G V +Y + G SKG VKF AE A +
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHV--LYADIKMENGKSKGCGVVKFESPEVAERACRMM 65
Query: 259 NGQKFGKRPIAV 270
NG K R I V
Sbjct: 66 NGMKLSGREIDV 77
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 40.0 bits (92), Expect = 0.005, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 38/74 (51%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L + N+ F +I ++FS G + + + + + GF FV++ + DAE+A++
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 101
Query: 259 NGQKFGKRPIAVDW 272
NG + R I DW
Sbjct: 102 NGTRLDDRIIRTDW 115
>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 = 40.0 bits (92), Expect = 0.006, Method: Composition-based stats.
Identities = 21/57 (36%), Positives = 31/57 (54%)
Query: 217 FSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWA 273
F P G + ++ IP + +T +GFAFV+F DA +AI N + R I V+ A
Sbjct: 23 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 79
>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 = 39.7 bits (91), Expect = 0.007, Method: Composition-based stats.
Identities = 21/57 (36%), Positives = 31/57 (54%)
Query: 217 FSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWA 273
F P G + ++ IP + +T +GFAFV+F DA +AI N + R I V+ A
Sbjct: 28 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 84
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 40/82 (48%), Gaps = 2/82 (2%)
Query: 192 SKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDA 251
++ Q L ++N+ ++ FSP G + + + + G SKGF FV F+ +A
Sbjct: 11 TRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKV--MMEGGRSKGFGFVCFSSPEEA 68
Query: 252 ESAIQKFNGQKFGKRPIAVDWA 273
A+ + NG+ +P+ V A
Sbjct: 69 TKAVTEMNGRIVATKPLYVALA 90
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 35/79 (44%), Gaps = 1/79 (1%)
Query: 407 TIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKFXXXXXXX-XXXX 465
T+FI NL FD + E + + FG++ VLH T+ KG F +F
Sbjct: 17 TVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAA 76
Query: 466 XXXXXXGLGIFLKGRQLTV 484
G G+ L GRQL V
Sbjct: 77 ASLEAEGGGLKLDGRQLKV 95
Score = 37.4 bits (85), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 45/95 (47%), Gaps = 6/95 (6%)
Query: 194 TQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAES 253
T+ + IRN+ F ++ + ++ G + V + + DT SKG AF +F + A+
Sbjct: 13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQK 72
Query: 254 AIQKFN------GQKFGKRPIAVDWAVPKNIYSSG 282
+ + G K R + VD AV ++ +SG
Sbjct: 73 CLAAASLEAEGGGLKLDGRQLKVDLAVTRDEAASG 107
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 39.7 bits (91), Expect = 0.007, Method: Composition-based stats.
Identities = 26/110 (23%), Positives = 49/110 (44%), Gaps = 6/110 (5%)
Query: 163 KSACASVALLHQKEIKGGTVWARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGL 222
+ A A++ HQ ++ R+L + T L + N+P + +++ P G
Sbjct: 68 EQAEAAINAFHQSRLR-----ERELSVQLQPTDAL-LCVANLPPSLTQQQFEELVRPFGS 121
Query: 223 VWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDW 272
+ ++ ++ TG SKG+ F ++ K A A G+ G R + V W
Sbjct: 122 LERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHW 171
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 39.7 bits (91), Expect = 0.007, Method: Composition-based stats.
Identities = 26/110 (23%), Positives = 49/110 (44%), Gaps = 6/110 (5%)
Query: 163 KSACASVALLHQKEIKGGTVWARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGL 222
+ A A++ HQ ++ R+L + T L + N+P + +++ P G
Sbjct: 68 EQAEAAINAFHQSRLR-----ERELSVQLQPTDAL-LCVANLPPSLTQQQFEELVRPFGS 121
Query: 223 VWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDW 272
+ ++ ++ TG SKG+ F ++ K A A G+ G R + V W
Sbjct: 122 LERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHW 171
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 39.7 bits (91), Expect = 0.007, Method: Composition-based stats.
Identities = 21/57 (36%), Positives = 31/57 (54%)
Query: 217 FSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWA 273
F P G + ++ IP + +T +GFAFV+F DA +AI N + R I V+ A
Sbjct: 26 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 82
>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 = 39.7 bits (91), Expect = 0.007, Method: Composition-based stats.
Identities = 26/110 (23%), Positives = 49/110 (44%), Gaps = 6/110 (5%)
Query: 163 KSACASVALLHQKEIKGGTVWARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGL 222
+ A A++ HQ ++ R+L + T L + N+P + +++ P G
Sbjct: 66 EQAEAAINAFHQSRLR-----ERELSVQLQPTDAL-LCVANLPPSLTQQQFEELVRPFGS 119
Query: 223 VWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDW 272
+ ++ ++ TG SKG+ F ++ K A A G+ G R + V W
Sbjct: 120 LERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHW 169
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 39.3 bits (90), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 44/84 (52%), Gaps = 4/84 (4%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L++ N+ + A ++++F + +P N + G SKG+AF++F DA+ A+
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIK---VPQNQN-GKSKGYAFIEFASFEDAKEALNSC 73
Query: 259 NGQKFGKRPIAVDWAVPKNIYSSG 282
N ++ R I ++ P+ +SG
Sbjct: 74 NKREIEGRAIRLELQGPRGSPNSG 97
>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 = 39.3 bits (90), Expect = 0.010, Method: Composition-based stats.
Identities = 24/79 (30%), Positives = 39/79 (49%), Gaps = 11/79 (13%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSK-----GFAFVKFTCKRDAES 253
L + N+ F +I ++FS G + + + GL K GF FV++ + DAE+
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIM------GLDKMKTACGFCFVEYYSRADAEN 74
Query: 254 AIQKFNGQKFGKRPIAVDW 272
A++ NG + R I DW
Sbjct: 75 AMRYINGTRLDDRIIRTDW 93
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 39.3 bits (90), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 43/84 (51%), Gaps = 4/84 (4%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
+ + N+ +K ++K++FS G+V I + D G S+G V F +A AI F
Sbjct: 18 VFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVTFEQSIEAVQAISMF 76
Query: 259 NGQKFGKRPIAV---DWAVPKNIY 279
NGQ RP+ V + A+PK +
Sbjct: 77 NGQLLFDRPMHVKMDERALPKGDF 100
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 38.9 bits (89), Expect = 0.014, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 39/76 (51%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
KL I +P +++K++ + G + + ++ TGLSKG+AF ++ + AI
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 155
Query: 258 FNGQKFGKRPIAVDWA 273
NG + G + + V A
Sbjct: 156 LNGMQLGDKKLLVQRA 171
Score = 30.0 bits (66), Expect = 5.2, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+FI LP L++++VK+ ++FG + +F V T KG F ++
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 143
>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 = 38.5 bits (88), Expect = 0.015, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 39/76 (51%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
KL I +P +++K++ + G + + ++ TGLSKG+AF ++ + AI
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 157
Query: 258 FNGQKFGKRPIAVDWA 273
NG + G + + V A
Sbjct: 158 LNGMQLGDKKLLVQRA 173
Score = 30.0 bits (66), Expect = 5.3, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+FI LP L++++VK+ ++FG + +F V T KG F ++
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 145
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 38.5 bits (88), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 40/74 (54%), Gaps = 5/74 (6%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L+ +N+P+K +E+K++F + V + G SKG A+++F + DAE ++
Sbjct: 96 LLAKNLPYKVTQDELKEVFEDAAEIRLV-----SKDGKSKGIAYIEFKTEADAEKTFEEK 150
Query: 259 NGQKFGKRPIAVDW 272
G + R I++ +
Sbjct: 151 QGTEIDGRSISLYY 164
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 38.5 bits (88), Expect = 0.017, Method: Composition-based stats.
Identities = 30/113 (26%), Positives = 53/113 (46%), Gaps = 14/113 (12%)
Query: 173 HQKEIKGGTVWARQLGGEGSKTQKW-------KLIIRNIPFKAKVNEIKDMFSPVGLVWN 225
H + GG Q G GS Q+ ++ + +I ++ + I+ F+P G + +
Sbjct: 3 HMASMTGG-----QQMGRGSAAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKS 57
Query: 226 VYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWAVPKNI 278
+ + ++ T KGFAFV++ A+ A+++ N G R I V P NI
Sbjct: 58 IDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV--GRPSNI 108
Score = 33.9 bits (76), Expect = 0.44, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 29/49 (59%)
Query: 406 NTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
N I++ ++ DL ++++K F AFG++ S T + KG GF+++
Sbjct: 126 NRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEY 174
Score = 29.6 bits (65), Expect = 7.5, Method: Composition-based stats.
Identities = 15/64 (23%), Positives = 32/64 (50%)
Query: 211 NEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAV 270
++IK +F G + + + + TG KG+ F+++ + ++ A+ N G + + V
Sbjct: 140 DDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRV 199
Query: 271 DWAV 274
AV
Sbjct: 200 GKAV 203
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 38.5 bits (88), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 42/89 (47%), Gaps = 5/89 (5%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRD----AES 253
KL + IP ++K +F G ++ + + + TGL KG AF+ + C RD A+S
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTY-CARDSALKAQS 75
Query: 254 AIQKFNGQKFGKRPIAVDWAVPKNIYSSG 282
A+ + RPI V A + SG
Sbjct: 76 ALHEQKTLPGMNRPIQVKPAASEGRGESG 104
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 24/47 (51%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+F+ +P LD +++K F FG + + ++T KG FL +
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTY 64
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 38.1 bits (87), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 27/49 (55%)
Query: 228 IPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWAVPK 276
I + +TG SKGF FV F + DA++A + + + +DWA PK
Sbjct: 44 IVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAKPK 92
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 38.1 bits (87), Expect = 0.021, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 39/76 (51%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
KL I +P +++K++ + G + + ++ TGLSKG+AF ++ + AI
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 258 FNGQKFGKRPIAVDWA 273
NG + G + + V A
Sbjct: 63 LNGMQLGDKKLLVQRA 78
Score = 29.6 bits (65), Expect = 6.8, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+FI LP L++++VK+ ++FG + +F V T KG F ++
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 50
>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 = 38.1 bits (87), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 39/76 (51%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
KL I +P +++K++ + G + + ++ TGLSKG+AF ++ + AI
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 175
Query: 258 FNGQKFGKRPIAVDWA 273
NG + G + + V A
Sbjct: 176 LNGMQLGDKKLLVQRA 191
Score = 29.6 bits (65), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+FI LP L++++VK+ ++FG + +F V T KG F ++
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 163
>pdb|1OPI|A Chain A, Solution Structure Of The Third Rna Recognition Motif
(Rrm) Of U2af65 In Complex With An N-Terminal Sf1
Peptide
pdb|2M0G|B Chain B, Structure, Phosphorylation And U2af65 Binding Of The
Nterminal Domain Of Splicing Factor 1 During 3 Splice
Site Recognition
Length = 104
Score = 38.1 bits (87), Expect = 0.021, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 4/73 (5%)
Query: 210 VNEIKDMFSPVGLVWNVYIPHNTDTGLSK---GFAFVKFTCKRDAESAIQKFNGQKFGKR 266
V +++D S GLV ++ IP D G+ G FV+FT D + A+Q G+KF R
Sbjct: 28 VEDVRDECSKYGLVKSIEIPRPVD-GVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANR 86
Query: 267 PIAVDWAVPKNIY 279
+ + P + +
Sbjct: 87 VVVTKYCDPDSYH 99
>pdb|1O0P|A Chain A, Solution Structure Of The Third Rna Recognition Motif
(Rrm) Of U2af65 In Complex With An N-Terminal Sf1
Peptide
Length = 104
Score = 38.1 bits (87), Expect = 0.021, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 4/73 (5%)
Query: 210 VNEIKDMFSPVGLVWNVYIPHNTDTGLSK---GFAFVKFTCKRDAESAIQKFNGQKFGKR 266
V +++D S GLV ++ IP D G+ G FV+FT D + A+Q G+KF R
Sbjct: 28 VEDVRDECSKYGLVKSIEIPRPVD-GVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANR 86
Query: 267 PIAVDWAVPKNIY 279
+ + P + +
Sbjct: 87 VVVTKYCDPDSYH 99
>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 = 38.1 bits (87), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 27/47 (57%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+FI L +D +++K FS FGEVV L +T R +G GF+ F
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF 48
>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 = 37.7 bits (86), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 40/139 (28%), Positives = 57/139 (41%), Gaps = 24/139 (17%)
Query: 137 KEELEQHGLAQE---------------GCKMDASAVLYTTVKSACASVALLHQKEIKGGT 181
+E EQ+G E GC V + T K+A + LH ++ G
Sbjct: 21 RELFEQYGAVYEINVLRDRSQNPPQSKGCCF----VTFYTRKAALEAQNALHNXKVLPGX 76
Query: 182 VWARQLGGEGSK----TQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLS 237
Q S+ + KL I I K N+I+ FS G + I D GLS
Sbjct: 77 HHPIQXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPD-GLS 135
Query: 238 KGFAFVKFTCKRDAESAIQ 256
+G AFV FT + A++AI+
Sbjct: 136 RGCAFVTFTTRAXAQTAIK 154
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 37.7 bits (86), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
KL++ N+ F +I+++F+ G + + H +G S G A V F K DA A+++
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAV-HYDRSGRSLGTADVHFERKADALKAMKQ 88
Query: 258 FNGQKFGKRPIAV 270
+NG RP+ +
Sbjct: 89 YNGVPLDGRPMNI 101
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 37.7 bits (86), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%)
Query: 406 NTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
N IF+ +P + E+++ F FG V V + +RP+G GF+ F
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITF 59
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 43/89 (48%), Gaps = 1/89 (1%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
K+ + IP E+++ F G+V V + ++ + +GF F+ F ++ + A+
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 258 FNGQKFGKRPIAVDWAVPKNIYSSGGAAA 286
GK+ + V A P++ SSG ++
Sbjct: 72 HFHDIMGKK-VEVKRAEPRDSKSSGPSSG 99
>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 = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 43/81 (53%), Gaps = 2/81 (2%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
++ + +I ++ + I+ F+P G + ++ + ++ T KGFAFV++ A+ A+++
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 258 FNGQKFGKRPIAVDWAVPKNI 278
N G R I V P NI
Sbjct: 75 MNSVMLGGRNIKV--GRPSNI 93
Score = 33.5 bits (75), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 29/49 (59%)
Query: 406 NTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
N I++ ++ DL ++++K F AFG++ S T + KG GF+++
Sbjct: 111 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEY 159
>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 = 37.0 bits (84), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 40/73 (54%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L + + + ++++ F G + +++ ++ +G +G+AF+++ +RD SA +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 259 NGQKFGKRPIAVD 271
+G+K R + VD
Sbjct: 165 DGKKIDGRRVLVD 177
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 37.0 bits (84), Expect = 0.044, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 35/59 (59%)
Query: 212 EIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAV 270
+++++FS G + +V I ++ + S+GFAFV F DA+ A ++ NG + R I V
Sbjct: 31 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV 89
>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 = 37.0 bits (84), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%)
Query: 217 FSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWA 273
FSP G + ++ + + T S G+A+V F DAE A+ N +P+ + W+
Sbjct: 31 FSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWS 87
Score = 33.9 bits (76), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 2/72 (2%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
+ I+N+ + D FS G + + + D SKG+ FV F + AE AI+K
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVV--CDENGSKGYGFVHFETQEAAERAIEKM 158
Query: 259 NGQKFGKRPIAV 270
NG R + V
Sbjct: 159 NGMLLNDRKVFV 170
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
IFI NL +DN+ + FSAFG ++S V + KG GF+ F
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHF 145
>pdb|4FXW|A Chain A, Structure Of Phosphorylated Sf1 Complex With U2af65-uhm
Domain
pdb|4FXW|C Chain C, Structure Of Phosphorylated Sf1 Complex With U2af65-uhm
Domain
Length = 106
Score = 37.0 bits (84), Expect = 0.047, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 2/72 (2%)
Query: 210 VNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFA--FVKFTCKRDAESAIQKFNGQKFGKRP 267
V +++D S GLV ++ IP D G FV+FT D + A Q G+KF R
Sbjct: 30 VEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAXQGLTGRKFANRV 89
Query: 268 IAVDWAVPKNIY 279
+ + P + +
Sbjct: 90 VVTKYCDPDSYH 101
>pdb|3V4M|A Chain A, Crystal Structure Of A Rna Binding Domain Of A U2 Small
Nuclear Ribonucleoprotein Auxiliary Factor 2 (U2af) From
Mus Musculus At 1.80 A Resolution
pdb|3V4M|B Chain B, Crystal Structure Of A Rna Binding Domain Of A U2 Small
Nuclear Ribonucleoprotein Auxiliary Factor 2 (U2af) From
Mus Musculus At 1.80 A Resolution
Length = 105
Score = 37.0 bits (84), Expect = 0.049, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 2/72 (2%)
Query: 210 VNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFA--FVKFTCKRDAESAIQKFNGQKFGKRP 267
V +++D S GLV ++ IP D G FV+FT D + A Q G+KF R
Sbjct: 29 VEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAXQGLTGRKFANRV 88
Query: 268 IAVDWAVPKNIY 279
+ + P + +
Sbjct: 89 VVTKYCDPDSYH 100
>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 = 37.0 bits (84), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%)
Query: 217 FSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWA 273
FSP G + ++ + + T S G+A+V F DAE A+ N +P+ + W+
Sbjct: 36 FSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWS 92
Score = 33.9 bits (76), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 2/72 (2%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
+ I+N+ + D FS G + + + D SKG+ FV F + AE AI+K
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKV--VCDENGSKGYGFVHFETQEAAERAIEKM 163
Query: 259 NGQKFGKRPIAV 270
NG R + V
Sbjct: 164 NGMLLNDRKVFV 175
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
IFI NL +DN+ + FSAFG ++S V + KG GF+ F
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHF 150
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 36.6 bits (83), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 39/84 (46%), Gaps = 8/84 (9%)
Query: 188 GGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTC 247
G GS WK+ + N+ E++ +F G V + + K +AFV
Sbjct: 1 GSSGSSGNTWKIFVGNVSAACTSQELRSLFERRGRV--------IECDVVKDYAFVHMEK 52
Query: 248 KRDAESAIQKFNGQKFGKRPIAVD 271
+ DA++AI + NG++ + I V+
Sbjct: 53 EADAKAAIAQLNGKEVKGKRINVE 76
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 36.2 bits (82), Expect = 0.082, Method: Composition-based stats.
Identities = 16/73 (21%), Positives = 40/73 (54%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L + + + ++++ F G + +++ ++ +G +G+AF+++ +RD SA +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 259 NGQKFGKRPIAVD 271
+G+K R + VD
Sbjct: 165 DGKKIDGRRVLVD 177
>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 = 36.2 bits (82), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 29/51 (56%)
Query: 213 IKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKF 263
+ +FS G V N+ P + TG +KGF FV+ DA+ I+ F+G++
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRL 79
>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 = 35.8 bits (81), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 2/81 (2%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
++ + +I ++ + I+ F+P G + ++ ++ T KGFAFV++ A+ A+++
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 258 FNGQKFGKRPIAVDWAVPKNI 278
N G R I V P NI
Sbjct: 74 XNSVXLGGRNIKV--GRPSNI 92
Score = 33.9 bits (76), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 29/49 (59%)
Query: 406 NTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
N I++ ++ DL ++++K F AFG++ S T + KG GF+++
Sbjct: 110 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEY 158
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 35.8 bits (81), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 2/72 (2%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
+ I+N+ + D FS G + + + D SKG+ FV F + AE AI+K
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVV--CDENGSKGYGFVHFETQEAAERAIEKM 71
Query: 259 NGQKFGKRPIAV 270
NG R + V
Sbjct: 72 NGMLLNDRKVFV 83
Score = 32.7 bits (73), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 407 TIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
IFI NL +DN+ + FSAFG ++S V + KG GF+ F
Sbjct: 13 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHF 58
>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 = 0.11, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 44/94 (46%), Gaps = 9/94 (9%)
Query: 188 GGEGSKTQK----WKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFV 243
G GS K KL I IP ++K +F G ++ + + + TG+ KG AF+
Sbjct: 1 GSSGSSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFL 60
Query: 244 KFTCKRD----AESAIQKFNGQKFGKRPIAVDWA 273
+ C+R+ A+SA+ + RPI V A
Sbjct: 61 TY-CERESALKAQSALHEQKTLPGMNRPIQVKPA 93
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 25/47 (53%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+FI +P +LD +++K F FG++ + + T KG FL +
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTY 62
>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 = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 45/93 (48%), Gaps = 5/93 (5%)
Query: 183 WARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAF 242
+AR GGE K L + N+P +++ +F G + I + TG +G AF
Sbjct: 3 YARP-GGESIK--DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAF 59
Query: 243 VKFTCKRDAESAIQKFNG--QKFGKRPIAVDWA 273
V++ + +A+ AI N + G +P++V A
Sbjct: 60 VRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 92
Score = 34.3 bits (77), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 30/55 (54%)
Query: 400 GEDELQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
GE +++ NLP + ++++ F +G +V + ++T RP+G F+++
Sbjct: 8 GESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRY 62
Score = 29.6 bits (65), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 15/79 (18%)
Query: 558 TRLVIYNLPKSMTEKGLKKLCIDAVVSRASKQKPVIKQIKFLQSLKKGKVDTKHYSRGVA 617
T L + NLP+++T+ L D + + I Q L+ G+ RGVA
Sbjct: 14 TNLYVTNLPRTITDDQL-----DTIFGKYGS----IVQKNILRDKLTGR------PRGVA 58
Query: 618 FVEFTEHQHALVALRVLNN 636
FV + + + A A+ LNN
Sbjct: 59 FVRYNKREEAQEAISALNN 77
>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 = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 29/51 (56%)
Query: 213 IKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKF 263
+ +FS G V N+ P + TG +KGF FV+ DA+ I+ F+G++
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRL 79
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 35.8 bits (81), Expect = 0.12, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 32/62 (51%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L++ IP +++ +F G + +V I + +T S+G+ FVKF A+ AI
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 259 NG 260
NG
Sbjct: 105 NG 106
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
KL++ N+ F +I+++F+ G + + H +G S G A V F K DA A ++
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAV-HYDRSGRSLGTADVHFERKADALKAXKQ 89
Query: 258 FNGQKFGKRPIAV 270
+NG RP +
Sbjct: 90 YNGVPLDGRPXNI 102
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 35.4 bits (80), Expect = 0.15, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 5/64 (7%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
K+ + N+ A E++ FS G + V+I N GFAFV+F RDAE A++
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRG 56
Query: 258 FNGQ 261
+G+
Sbjct: 57 LDGK 60
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 35.0 bits (79), Expect = 0.17, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 3/72 (4%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L IRN+P+K E+ D+F G + + + + +T +G A+V + DA++A+
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPET---RGTAYVVYEDIFDAKNAVDHL 67
Query: 259 NGQKFGKRPIAV 270
+G R + V
Sbjct: 68 SGFNVSNRYLVV 79
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 35.0 bits (79), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 234 TGLSKGFAFVKFTCKRDAESAIQKFNGQ-KFGKRPIAVDWAVPK 276
TG+SKG+ FVKFT + + + A+ + G G +P+ + A+PK
Sbjct: 47 TGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSVAIPK 90
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
A Ph 9.0
Length = 115
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 2/72 (2%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
+ I+N+ + D FS G + + + D SKG+ FV F + AE AI+K
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVV--CDENGSKGYGFVHFETQEAAERAIEKM 65
Query: 259 NGQKFGKRPIAV 270
NG R + V
Sbjct: 66 NGMLLNDRKVFV 77
Score = 32.7 bits (73), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
IFI NL +DN+ + FSAFG ++S V + KG GF+ F
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHF 52
>pdb|2CQP|A Chain A, Solution Structure Of The Rna Binding Domain Of
Rna-Binding Protein 12
Length = 98
Score = 35.0 bits (79), Expect = 0.19, Method: Composition-based stats.
Identities = 17/70 (24%), Positives = 33/70 (47%)
Query: 201 IRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNG 260
++N+PF ++EI D F ++ + G+ G A V F + +A +A+ N
Sbjct: 20 VQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLND 79
Query: 261 QKFGKRPIAV 270
+ G R + +
Sbjct: 80 RPIGSRKVKL 89
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 212 EIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQK 262
++ +F P G++ + D G SKG AFVKF+ +A++AI +G +
Sbjct: 31 DVLRLFQPFGVIDECTVLRGPD-GSSKGCAFVKFSSHTEAQAAIHALHGSQ 80
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 613 SRGVAFVEFTEHQHALVALRVLNNNPKTFGPEHRPIVEFA 652
S+G AFV+F+ H A A+ L+ + G +V+FA
Sbjct: 55 SKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKFA 94
>pdb|2EK6|A Chain A, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|B Chain B, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|C Chain C, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|D Chain D, Crystal Structure Of Human Rna-Binding Protein 12
Length = 95
Score = 34.7 bits (78), Expect = 0.22, Method: Composition-based stats.
Identities = 17/70 (24%), Positives = 33/70 (47%)
Query: 201 IRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNG 260
++N+PF ++EI D F ++ + G+ G A V F + +A +A+ N
Sbjct: 20 VQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLND 79
Query: 261 QKFGKRPIAV 270
+ G R + +
Sbjct: 80 RPIGSRKVKL 89
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 34.7 bits (78), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 35/72 (48%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L I ++P + ++ F P G V + + + T LSK F FV F A+ AI+
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 259 NGQKFGKRPIAV 270
NG + G + + V
Sbjct: 103 NGFQVGTKRLKV 114
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 212 EIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQK 262
+++ MF P G + + D G SKG AFVKF +A++AI + +
Sbjct: 28 DVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAEAQAAINTLHSSR 77
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 34.7 bits (78), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 39/74 (52%), Gaps = 5/74 (6%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L+ +N+ F +E+K++F + I + G SKG A+++F + DAE +++
Sbjct: 19 LLAKNLSFNITEDELKEVFEDA-----LEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEK 73
Query: 259 NGQKFGKRPIAVDW 272
G + R +++ +
Sbjct: 74 QGAEIDGRSVSLYY 87
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%)
Query: 240 FAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWAVPKNIYSSG 282
+AFV F+ + DA A++ NG+ PI V A P + SSG
Sbjct: 53 YAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVDKDSSG 95
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTG---LSKGFAFVKFTCKRDAESAI 255
L I+N+ F +K +FS VG + + I + LS GF FV++ A+ A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 256 QKFNGQ 261
++ G
Sbjct: 68 KQLQGH 73
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 34.3 bits (77), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+F+ L + E ++ FS +GEVV V + + T + +G GF+KF
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF 65
>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 = 34.3 bits (77), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 195 QKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESA 254
+K KL I +PF E++++ G V ++ + N G KG A+V++ + A A
Sbjct: 16 EKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTN-RAGKPKGLAYVEYENESQASQA 74
Query: 255 IQKFNGQKFGKRPIAV 270
+ K +G + I V
Sbjct: 75 VMKMDGMTIKENIIKV 90
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 33.9 bits (76), Expect = 0.37, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 3/72 (4%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L IRN+P+K E+ D+F G + + + + +T +G A+V + DA++A
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPET---RGTAYVVYEDIFDAKNACDHL 71
Query: 259 NGQKFGKRPIAV 270
+G R + V
Sbjct: 72 SGFNVCNRYLVV 83
>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 = 33.9 bits (76), Expect = 0.43, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 3/72 (4%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L+IRN+P+K E+ D+F G + + + + +T +G A+V + DA++A
Sbjct: 21 LMIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPET---RGTAYVVYEDIFDAKNACDHL 77
Query: 259 NGQKFGKRPIAV 270
+G R + V
Sbjct: 78 SGFNVCNRYLVV 89
>pdb|2DIS|A Chain A, Solution Structure Of The Rrm Domain Of Unnamed Protein
Product
Length = 109
Score = 33.5 bits (75), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 42/84 (50%), Gaps = 6/84 (7%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPV--GLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAI 255
+L I IP K EI + + V G++ + D ++GFAFV++ R A A
Sbjct: 10 RLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMAR 69
Query: 256 QKFNG---QKFGKRPIAVDWAVPK 276
+K Q +G + IAVDWA P+
Sbjct: 70 RKLMPGRIQLWGHQ-IAVDWAEPE 92
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 33.1 bits (74), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+FI L + E +++ F FGEV + + +TKR +G GF+ F
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 74
>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 = 33.1 bits (74), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 39/74 (52%), Gaps = 5/74 (6%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L+ +N+ F +E+K++F + I + G SKG A+++F + DAE +++
Sbjct: 102 LLAKNLSFNITEDELKEVFEDA-----LEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEK 156
Query: 259 NGQKFGKRPIAVDW 272
G + R +++ +
Sbjct: 157 QGAEIDGRSVSLYY 170
>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 = 32.7 bits (73), Expect = 0.80, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 3/72 (4%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
L IRN+P+K E+ D+F G + + + + +T +G A+V + DA++A
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPET---RGTAYVVYEDIFDAKNACDHL 77
Query: 259 NGQKFGKRPIAV 270
+G R + V
Sbjct: 78 SGFNVCNRYLVV 89
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 32.7 bits (73), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 189 GEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCK 248
GE + TQ+ +L + N+P E++ +F G V+I + KGF F++ +
Sbjct: 15 GEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETR 68
Query: 249 RDAESA 254
AE A
Sbjct: 69 TLAEIA 74
>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 = 32.7 bits (73), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%)
Query: 409 FICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
F+ L +D +++K F+ FGEVV T R +G GF+ F
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILF 60
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESA 254
K + + + ++KD F+ G V + I + +TG S+GF F+ F +DA S
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILF---KDAASV 66
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 32.7 bits (73), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 42/86 (48%), Gaps = 2/86 (2%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
KL I + + +K +F G + V + + T S+GFAF+ F DA++A +
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 258 FNGQKFGKRPIAVDWAVPKNIYSSGG 283
NG+ + I V+ A K + SGG
Sbjct: 68 MNGKSLHGKAIKVEQAK-KPSFQSGG 92
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 32.7 bits (73), Expect = 0.96, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 6/81 (7%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVG--LVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQ 256
+I+RNI V+ I SP V N+ + + T ++GFAFV+ + DA +Q
Sbjct: 12 IILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQ 71
Query: 257 KFNG----QKFGKRPIAVDWA 273
K + I VD+A
Sbjct: 72 ILQSLHPPLKIDGKTIGVDFA 92
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 401 EDELQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
E E +FI L F+ +E ++ F +G + V + TKR +G GF+ +
Sbjct: 10 EPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 63
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 8/94 (8%)
Query: 189 GEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCK 248
G + KL I N+P +A EI+ +F G V + + K + FV K
Sbjct: 1 GSSGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVL--------ECDIIKNYGFVHIEDK 52
Query: 249 RDAESAIQKFNGQKFGKRPIAVDWAVPKNIYSSG 282
AE AI+ + K I V+ + K+ SSG
Sbjct: 53 TAAEDAIRNLHHYKLHGVNINVEASKNKSKASSG 86
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
+FI L + E +++ F FGEV + + +TKR +G GF+ F
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 49
>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 = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 401 EDELQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
E E +FI L F+ +E ++ F +G + V + TKR +G GF+ +
Sbjct: 9 EPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 62
>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 = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 401 EDELQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
E E +FI L F+ +E ++ F +G + V + TKR +G GF+ +
Sbjct: 8 EPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 61
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 27/54 (50%)
Query: 401 EDELQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
E E +FI L F+ E ++ + +G++ V + +KR +G GF+ F
Sbjct: 23 EKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTF 76
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 32.0 bits (71), Expect = 1.6, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 6/51 (11%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKR----PKGTGFLKF 454
+F+ LP D+D +E+ F FG +V P H+ + PKG FL F
Sbjct: 11 VFVGGLPPDIDEDEITASFRRFGPLVVDWP--HKAESKSYFPPKGYAFLLF 59
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 32.0 bits (71), Expect = 1.6, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 408 IFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
IF+ L + E+VK F FG+V + + + T R +G GF+ F
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTF 48
>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 = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 401 EDELQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
E E +FI L F+ +E ++ F +G + V + TKR +G GF+ +
Sbjct: 2 EPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 55
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 401 EDELQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
E E +FI L F+ +E ++ F +G + V + TKR +G GF+ +
Sbjct: 9 EPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 62
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 401 EDELQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKF 454
E E +FI L F+ +E ++ F +G + V + TKR +G GF+ +
Sbjct: 7 EPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 60
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 12/75 (16%)
Query: 210 VNEIKDMFSPVGLV----------WNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFN 259
+ + D F +G++ N+Y + +TG KG A V F A++AI F+
Sbjct: 21 IESVADYFKQIGIIKTNKKTGQPMINLYT--DRETGKLKGEATVSFDDPPSAKAAIDWFD 78
Query: 260 GQKFGKRPIAVDWAV 274
G++F PI V +A
Sbjct: 79 GKEFSGNPIKVSFAT 93
>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 = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 22/93 (23%), Positives = 41/93 (44%), Gaps = 6/93 (6%)
Query: 190 EGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKR 249
E + TQ+ +L + N+P E++ +F G V+I + KGF F++ +
Sbjct: 9 EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRT 62
Query: 250 DAESAIQKFNGQKFGKRPIAVDWAVPKNIYSSG 282
AE A + + + + V +A +SG
Sbjct: 63 LAEIAKVELDNMPLRGKQLRVRFACHSASLTSG 95
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 31.6 bits (70), Expect = 2.0, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 211 NEIKDMFSPVG-LVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQ 261
N I F+ +G V +V I N TG+ G+ FV+F AE + K NG+
Sbjct: 24 NFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGK 75
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
KL + + + ++++ +F G + I D G SKG AFVK++ +A++AI
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPD-GNSKGCAFVKYSSHAEAQAAINA 75
Query: 258 FNGQK 262
+G +
Sbjct: 76 LHGSQ 80
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 12/74 (16%)
Query: 210 VNEIKDMFSPVGLV----------WNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFN 259
+ + D F +G++ N+Y + +TG KG A V F A++AI F+
Sbjct: 27 IESVADYFKQIGIIKTNKKTGQPMINLY--TDRETGKLKGEATVSFDDPPSAKAAIDWFD 84
Query: 260 GQKFGKRPIAVDWA 273
G++F PI V +A
Sbjct: 85 GKEFSGNPIKVSFA 98
>pdb|2EK1|A Chain A, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|B Chain B, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|C Chain C, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|D Chain D, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|E Chain E, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|F Chain F, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|G Chain G, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|H Chain H, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
Length = 95
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 29/66 (43%)
Query: 201 IRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNG 260
++N PF ++EI D F ++ + G G A V F + +A +A+ N
Sbjct: 20 VQNXPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGXPTGEAXVAFESRDEATAAVIDLND 79
Query: 261 QKFGKR 266
+ G R
Sbjct: 80 RPIGSR 85
>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 = 30.8 bits (68), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGL-VWNVYIPHNTDTGLSKGFAFVKFTCKRDA 251
+++R +P A ++I+ G+ V + N +G S+GFAFV+F+ +DA
Sbjct: 4 VMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDA 57
>pdb|2HGN|A Chain A, Nmr Structure Of The Third Qrrm Domain Of Human Hnrnp F
pdb|2KG1|A Chain A, Structure Of The Third Qrrm Domain Of Hnrnp F In Complex
With A Agggau G-Tract Rna
Length = 139
Score = 30.8 bits (68), Expect = 3.2, Method: Composition-based stats.
Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 5/88 (5%)
Query: 173 HQKEIKGGTVWARQLGGEGSKTQKWK---LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIP 229
H + GG R G Q + +R +P+KA N+I + FSP+ V V+I
Sbjct: 20 HMASMTGGQQMGRGSGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFFSPLNPV-RVHIE 78
Query: 230 HNTDTGLSKGFAFVKFTCKRDAESAIQK 257
D G G A V+F +A +A+ K
Sbjct: 79 IGPD-GRVTGEADVEFATHEEAVAAMSK 105
>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 = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 32/66 (48%), Gaps = 4/66 (6%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
K+ + I + E ++ FS G + + + + DTG S+GF FV + D+ A+ +
Sbjct: 89 KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTY----DSADAVDR 144
Query: 258 FNGQKF 263
KF
Sbjct: 145 VCQNKF 150
>pdb|1WEZ|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein H'
Length = 102
Score = 30.8 bits (68), Expect = 3.4, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 201 IRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
+R +P++A N+I + FSP+ + V+I D G G A V+F DA +A+ K
Sbjct: 20 MRGLPYRATENDIYNFFSPLNPM-RVHIEIGPD-GRVTGEADVEFATHEDAVAAMAK 74
>pdb|1WHX|A Chain A, Solution Structure Of The Second Rna Binding Domain From
Hypothetical Protein Bab23448
Length = 111
Score = 30.8 bits (68), Expect = 3.6, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 34/75 (45%), Gaps = 6/75 (8%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 258
++ +N+P EI++ FS G + V +P T A V+F +A A +
Sbjct: 13 ILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGIT------AIVEFLEPLEARKAFRHL 66
Query: 259 NGQKFGKRPIAVDWA 273
KF P+ ++WA
Sbjct: 67 AYSKFHHVPLYLEWA 81
>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 = 3.9, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 207 KAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKR 266
+ + +++D FS VG V +V I + ++ SKG A+V+F C+ + GQ+
Sbjct: 36 RIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEF-CEIQSVPLAIGLTGQRLLGV 94
Query: 267 PIAV 270
PI V
Sbjct: 95 PIIV 98
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 203 NIPFKAKVNEIKDMFSPVGLV-WNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQ 261
N P I+D+ + +V ++ +P + S+ FA++ T K DA ++K NG
Sbjct: 124 NFPPSYTQRNIRDLLQDINVVALSIRLP-SLRFNTSRRFAYIDVTSKEDARYCVEKLNGL 182
Query: 262 KF 263
K
Sbjct: 183 KI 184
>pdb|2KH9|A Chain A, Solution Structure Of Yeast Prp24-Rrm2 Bound To A Fragment
Of U6 Rna
Length = 92
Score = 30.4 bits (67), Expect = 4.7, Method: Composition-based stats.
Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLV-WNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
L + N P I+D+ + +V ++ +P + S+ FA++ T K DA ++K
Sbjct: 6 LWMTNFPPSYTQRNIRDLLQDINVVALSIRLP-SLRFNTSRRFAYIDVTSKEDARYCVEK 64
Query: 258 FNGQK 262
NG K
Sbjct: 65 LNGLK 69
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 30.4 bits (67), Expect = 4.8, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 5/64 (7%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
K+ + N+ E++ F G + +V++ N GFAFV+F RDA A+++
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRE 129
Query: 258 FNGQ 261
+G+
Sbjct: 130 LDGR 133
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 30.4 bits (67), Expect = 5.0, Method: Composition-based stats.
Identities = 17/66 (25%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
++ + N+P + +I+D+F G + ++ + + FAFV+F RDAE A+
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRG---GPPFAFVEFEDPRDAEDAVYG 80
Query: 258 FNGQKF 263
+G +
Sbjct: 81 RDGYDY 86
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 30.0 bits (66), Expect = 5.8, Method: Composition-based stats.
Identities = 13/52 (25%), Positives = 27/52 (51%)
Query: 401 EDELQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFL 452
+D IF+ LP+ + +++ F FG++ V + + T + +G GF+
Sbjct: 13 KDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFV 64
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 29.6 bits (65), Expect = 7.3, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 198 KLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
K+ + N+ E++ F G + +V++ N GFAFV+F RDA A++
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRD 129
Query: 258 FNGQ 261
+G+
Sbjct: 130 LDGR 133
>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
Length = 161
Score = 29.6 bits (65), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 199 LIIRNIPFKAKVNEIKDMFSPVGLV-WNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQK 257
L + N P I+D+ + +V ++ +P + S+ FA++ T K DA ++K
Sbjct: 83 LWMTNFPPSYTQRNIRDLLQDINVVALSIRLP-SLRFNTSRRFAYIDVTSKEDARYCVEK 141
Query: 258 FNGQK 262
NG K
Sbjct: 142 LNGLK 146
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
0.312 0.130 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,615,724
Number of Sequences: 62578
Number of extensions: 788244
Number of successful extensions: 1420
Number of sequences better than 100.0: 163
Number of HSP's better than 100.0 without gapping: 116
Number of HSP's successfully gapped in prelim test: 47
Number of HSP's that attempted gapping in prelim test: 1110
Number of HSP's gapped (non-prelim): 344
length of query: 865
length of database: 14,973,337
effective HSP length: 107
effective length of query: 758
effective length of database: 8,277,491
effective search space: 6274338178
effective search space used: 6274338178
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (26.2 bits)