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= psy8615
(128 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 94.4 bits (233), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 45/71 (63%), Positives = 53/71 (74%), Gaps = 2/71 (2%)
Query: 22 SGLASSNAAVGSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQN 81
SGL + ++G++G Q GPEGANLFIYHLP EF D DL MF PFG V+SAKVFIDKQ
Sbjct: 6 SGL--TQQSIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQT 63
Query: 82 NRSKCFGTIIF 92
N SKCFG + +
Sbjct: 64 NLSKCFGFVSY 74
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 92.4 bits (228), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 42/58 (72%), Positives = 47/58 (81%)
Query: 35 GKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
GKQ+ GPEG NLFIYHLP EF+D DLAS F PFG V+SAKVFIDKQ + SKCFG + F
Sbjct: 32 GKQIEGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSF 89
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 35/61 (57%), Gaps = 2/61 (3%)
Query: 32 GSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTII 91
GSSG ++T + NL++ +L D L F PFGT+ SAKV + + RSK FG +
Sbjct: 4 GSSGDRITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMM--EGGRSKGFGFVC 61
Query: 92 F 92
F
Sbjct: 62 F 62
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 42/90 (46%)
Query: 32 GSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTII 91
GSSG++ ++F+ L PE + D+ S F PFG + A+V D +SK +G +
Sbjct: 4 GSSGQKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVS 63
Query: 92 FMRKFFILTIRFDTANDYLGQSFLKPSFNT 121
F K +LG ++ ++ T
Sbjct: 64 FYNKLDAENAIVHMGGQWLGGRQIRTNWAT 93
>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 = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 43/90 (47%)
Query: 32 GSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTII 91
GSSG++ ++F+ L PE + D+ + F PFG + A+V D +SK +G +
Sbjct: 4 GSSGQKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVS 63
Query: 92 FMRKFFILTIRFDTANDYLGQSFLKPSFNT 121
F K+ +LG ++ ++ T
Sbjct: 64 FFNKWDAENAIQQMGGQWLGGRQIRTNWAT 93
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 28/49 (57%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
+ L+I L P +D DL + P+G ++S K +DK N+ K +G + F
Sbjct: 6 SGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDF 54
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 32/64 (50%)
Query: 32 GSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTII 91
GSSG + A + + +L + + DL +F PFG++ + DK +SK F I
Sbjct: 4 GSSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFIS 63
Query: 92 FMRK 95
F R+
Sbjct: 64 FHRR 67
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 29/52 (55%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
ANL+I LP + D+ MF FG +++++V +D+ S+ I F ++
Sbjct: 89 ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKR 140
Score = 32.3 bits (72), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFM 93
NL + +LP + +L S+F G V SAK+ DK S +G + ++
Sbjct: 4 NLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYV 52
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 29/52 (55%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
ANL+I LP + D+ MF FG +++++V +D+ S+ I F ++
Sbjct: 89 ANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKR 140
Score = 32.3 bits (72), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFM 93
NL + +LP + +L S+F G V SAK+ DK S +G + ++
Sbjct: 4 NLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYV 52
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1
In Complex With Ugcaugu
Length = 109
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 46 LFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
L + ++P F D DL MFG FG +L ++ +++ SK FG + F
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTF 76
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 46 LFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
L + ++P F D DL MFG FG +L ++ +++ SK FG + F
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTF 62
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 29/56 (51%)
Query: 40 GPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
P + +++ +LP ++ DL +F +G V+ + DK +SK I+F+ K
Sbjct: 13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDK 68
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 33/64 (51%)
Query: 29 AAVGSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFG 88
+ GSSG + + ++L + LP + ++ DL F FG VL +V D + SK FG
Sbjct: 1 GSSGSSGVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFG 60
Query: 89 TIIF 92
+ F
Sbjct: 61 FVRF 64
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%)
Query: 40 GPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFM 93
GP NL + +LP + +L S+F G V SAK+ DK S +G + ++
Sbjct: 1 GPGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYV 54
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 22 SGLASSNAAVGSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFID 78
SGL +S + +Q P NL+I +LP + +L +M PFG V+S ++ D
Sbjct: 6 SGLKASGVQAQMAKQQEQDP--TNLYISNLPLSMDEQELENMLKPFGQVISTRILRD 60
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%)
Query: 42 EGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFM 93
+G NL + +LP + +L S+F G V SAK+ DK S +G + ++
Sbjct: 18 QGTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYV 69
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/77 (22%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 21 LSGLASSNAAVGSSGKQLTGP--EGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFID 78
L+G+ N + S + G + NL++ +LP +D L ++FG +G+++ + D
Sbjct: 65 LNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRD 124
Query: 79 KQNNRSKCFGTIIFMRK 95
K R + + + ++
Sbjct: 125 KLTGRPRGVAFVRYNKR 141
>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 = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 12/51 (23%), Positives = 28/51 (54%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
NL++ +LP +D L ++FG +G+++ + DK R + + + ++
Sbjct: 15 NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKR 65
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 34.3 bits (77), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 30/71 (42%), Gaps = 8/71 (11%)
Query: 23 GLASSNAAVGSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNN 82
GL + +GSSG +FI L + + L FG FG V V D
Sbjct: 13 GLVPRGSHMGSSG--------CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTK 64
Query: 83 RSKCFGTIIFM 93
RS+ FG + FM
Sbjct: 65 RSRGFGFVTFM 75
>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 = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 12/51 (23%), Positives = 28/51 (54%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
NL++ +LP +D L ++FG +G+++ + DK R + + + ++
Sbjct: 102 NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKR 152
>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 = 33.5 bits (75), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 40 GPEGA-NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
GP G+ N+FI +L + L F FG +LS KV D+ N SK +G + F
Sbjct: 1 GPLGSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHF 52
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFG 88
+F+ LP +DA L F FG + A V D+Q +S+ +G
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYG 62
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 32.7 bits (73), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 43 GANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
GA L + +L SDAD+ +F FGT+ A V D+ + RS + F R+
Sbjct: 35 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERR 86
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 32.7 bits (73), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 43 GANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
GA L + +L SDAD+ +F FGT+ A V D+ + RS + F R+
Sbjct: 35 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERR 86
>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 = 32.3 bits (72), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 42/84 (50%), Gaps = 2/84 (2%)
Query: 40 GPEGAN--LFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRKFF 97
GP G++ +F+ L PE + A +A+ F PFG + A+V D +SK +G + F K+
Sbjct: 1 GPLGSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWD 60
Query: 98 ILTIRFDTANDYLGQSFLKPSFNT 121
+LG ++ ++ T
Sbjct: 61 AENAIQQMGGQWLGGRQIRTNWAT 84
>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 = 32.3 bits (72), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 26/49 (53%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFM 93
NL + +LP + + S+FG G + S K+ DK +S +G + ++
Sbjct: 4 NLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYI 52
>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 = 32.0 bits (71), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 27/53 (50%)
Query: 42 EGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMR 94
E +FI L + ++ +L FG +GTV K+ D RS+ FG + F +
Sbjct: 2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEK 54
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 11/49 (22%), Positives = 26/49 (53%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
+F+ + P+ + F +GT++ A++ +DK +S+ FG + +
Sbjct: 88 GKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTY 136
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 32.0 bits (71), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
N+FI +L + L F FG +LS KV D+ N SK +G + F
Sbjct: 12 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHF 58
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 26/48 (54%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
L++ L ++ L +F PFG + S ++ +D + RSK +G I F
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITF 75
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 43 GANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRKFFILT 100
GA L + +L SDAD+ +F FGT+ A V D+ + RS + F R+ L
Sbjct: 88 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALK 144
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With
The Au-Rich Element
Length = 174
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFG 88
NL + +LP + + S+FG G + S K+ DK +S +G
Sbjct: 6 NLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYG 49
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFG 88
NL + +LP + + S+FG G + S K+ DK +S +G
Sbjct: 6 NLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYG 49
>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 = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
N+FI +L + L F FG +LS KV D+ N SK +G + F
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHF 145
Score = 30.0 bits (66), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMR 94
A+L++ L P+ ++A L F P G +LS +V D RS + + F +
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQ 61
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%)
Query: 32 GSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTII 91
GSSG + L ++ L ++ DL +F +G + + D+Q+ RS+ F +
Sbjct: 4 GSSGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVY 63
Query: 92 F 92
F
Sbjct: 64 F 64
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 28/62 (45%), Gaps = 1/62 (1%)
Query: 32 GSSGKQLTGPEG-ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTI 90
GS + PE LFI L E +D L S F +GT+ V D RS+ FG +
Sbjct: 2 GSKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 61
Query: 91 IF 92
+
Sbjct: 62 TY 63
>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 = 30.8 bits (68), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
N+FI +L + L F FG +LS KV D+ N SK +G + F
Sbjct: 105 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHF 150
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMR 94
A+L++ L P+ ++A L F P G +LS +V D RS + + F +
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQ 66
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 22/50 (44%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFM 93
+FI L + + L FG FG V V D RS+ FG + FM
Sbjct: 1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFM 50
>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 = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 27/55 (49%)
Query: 41 PEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
P A L + +LPP + + PFG++ + ++ +SK +G +M+K
Sbjct: 91 PTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKK 145
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%)
Query: 32 GSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTII 91
GSSG + L ++ L ++ DL +F +G + + D+Q+ RS+ F +
Sbjct: 4 GSSGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVY 63
Query: 92 F 92
F
Sbjct: 64 F 64
>pdb|3Q6B|A Chain A, The High-Resolution And New Form Crystal Structure Of Bama
Potra4-5 From E.Coli
Length = 189
Score = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 47/110 (42%), Gaps = 9/110 (8%)
Query: 7 LAAMTGAGTMSPTALSGLASSNAAVGSSG--KQLTGPEGANLFIYHLPPEFSDADLASMF 64
+A+MTG M LSG+ S G S +QLT E L+ + D D+ +
Sbjct: 23 MASMTGGQQMGRYKLSGVEVSGNLAGHSAEIEQLTKIEPGELYNGTKVTKMED-DIKKLL 81
Query: 65 GPFGTVLSAKVFIDKQNNRSKCFGTIIFM---RKFFILTIRF---DTAND 108
G +G + + N+ K + + +F++ IRF DT+ D
Sbjct: 82 GRYGYAYPRVQSMPEINDADKTVKLRVNVDAGNRFYVRKIRFEGNDTSKD 131
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 27/55 (49%)
Query: 41 PEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
P A L + +LPP + + PFG++ + ++ +SK +G +M+K
Sbjct: 93 PTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKK 147
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 27/55 (49%)
Query: 41 PEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
P A L + +LPP + + PFG++ + ++ +SK +G +M+K
Sbjct: 93 PTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKK 147
>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 = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 26/50 (52%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMR 94
+++ + + SD D+ S+F FG + SA + D + K +G I + +
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEK 176
>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 = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 23/52 (44%)
Query: 41 PEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
+ F+ L + S DL F FG V+ + D RS+ FG I+F
Sbjct: 9 EDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILF 60
>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 = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 56 SDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
SDAD+ +F FGT+ A V D+ + RS + F RK
Sbjct: 42 SDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERK 80
>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 = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
LFI L E +D L S F +GT+ V D RS+ FG + +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 62
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
L + +L SDAD+ +F FGT+ A V D+ + RS + F RK
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERK 79
>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 = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
LFI L E +D L S F +GT+ V D RS+ FG + +
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 55
>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 = 29.6 bits (65), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
LFI L E +D L S F +GT+ V D RS+ FG + +
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 61
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 29.6 bits (65), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
LFI L E +D L S F +GT+ V D RS+ FG + +
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 62
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
LFI L E +D L S F +GT+ V D RS+ FG + +
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 60
>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 = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 46 LFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
+FI L + + DL F FG V+ + +D RS+ FG ++F
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF 48
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 29.3 bits (64), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 18/35 (51%)
Query: 42 EGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVF 76
E LF+ L + +D D+ MF PFGT+ V
Sbjct: 11 EDRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVL 45
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 29.3 bits (64), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 24/49 (48%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
LF+ L + ++ L +F +G + V D++ RS+ FG + F
Sbjct: 13 GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTF 61
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 6/47 (12%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTI 90
+ LF+ +LPP+ ++ ++ +F +G + +VFI K K FG I
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGK--AGEVFIHK----DKGFGFI 63
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain
Of Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain
Of Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 25/49 (51%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
+F+ L P+ + + FG FG V S ++ +D + N+ + F I F
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITF 50
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 22/48 (45%)
Query: 32 GSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDK 79
GSSG + + LF+ +P + DL +F FG + V D+
Sbjct: 4 GSSGVPMKDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDR 51
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 28.9 bits (63), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 46 LFIYHLPPEFSDADLASMFGPFGTVLSAKVF 76
LFI +LP E ++ ++ S+F +G VL +
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDII 41
>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 = 28.5 bits (62), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 6/47 (12%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTI 90
+ LF+ +LPP+ ++ ++ +F +G + +VFI K K FG I
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGK--AGEVFIHK----DKGFGFI 56
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 26/50 (52%)
Query: 46 LFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRK 95
+F+ L P+ + + FG FG V S ++ +D + N+ + F I F +
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEE 51
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 32 GSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDK 79
GSSG + + LFI +P + DL +F FG + V D+
Sbjct: 4 GSSG--MKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDR 49
>pdb|2CQ1|A Chain A, Solution Structure Of Rna Binding Domain In Ptb-Like
Protein L
Length = 101
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 32 GSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTV 70
GSSG ++ G L I LP E ++ ++ ++ PFG V
Sbjct: 4 GSSGDKMDGAPSRVLHIRKLPGEVTETEVIALGLPFGKV 42
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 27/60 (45%)
Query: 42 EGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMRKFFILTI 101
E LF+ L + L S F +G V+ + DK N+S+ FG + F + T+
Sbjct: 15 EIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTV 74
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/44 (25%), Positives = 23/44 (52%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFG 88
N+++ +L + + +F FG V + K+ D++ + K FG
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFG 46
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 21/48 (43%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
+F+ +P + +L F FG V + D + R + FG I F
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITF 59
>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 = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 25/50 (50%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMR 94
+++ + + SD D+ S+F FG + S + D + K +G I + +
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEK 160
>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 = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 25/50 (50%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIFMR 94
+++ + + SD D+ S+F FG + S + D + K +G I + +
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEK 161
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 27/61 (44%)
Query: 32 GSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTII 91
GSSG L++ L E D L + F PFG + ++ +D + + + F +
Sbjct: 1 GSSGSSGMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 60
Query: 92 F 92
F
Sbjct: 61 F 61
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 10/37 (27%), Positives = 20/37 (54%)
Query: 56 SDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
++ DL +F +G + + D+Q+ RS+ F + F
Sbjct: 59 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYF 95
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 10/37 (27%), Positives = 20/37 (54%)
Query: 56 SDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
++ DL +F +G + + D+Q+ RS+ F + F
Sbjct: 25 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYF 61
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 58 ADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
D+ F FG V A + DK NR + FG + F
Sbjct: 14 EDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTF 48
>pdb|3VP6|A Chain A, Structural Characterization Of Glutamic Acid
Decarboxylase; Insights Into The Mechanism Of
Autoinactivation
pdb|3VP6|B Chain B, Structural Characterization Of Glutamic Acid
Decarboxylase; Insights Into The Mechanism Of
Autoinactivation
Length = 511
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 13/44 (29%), Positives = 21/44 (47%)
Query: 12 GAGTMSPTALSGLASSNAAVGSSGKQLTGPEGANLFIYHLPPEF 55
G T P + L++ +G +G+ LT N+F Y + P F
Sbjct: 90 GVRTGHPRFFNQLSTGLDIIGLAGEWLTSTANTNMFTYEIAPVF 133
>pdb|2OKJ|A Chain A, The X-Ray Crystal Structure Of The 67kda Isoform Of
Glutamic Acid Decarboxylase (Gad67)
pdb|2OKJ|B Chain B, The X-Ray Crystal Structure Of The 67kda Isoform Of
Glutamic Acid Decarboxylase (Gad67)
Length = 504
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 13/44 (29%), Positives = 21/44 (47%)
Query: 12 GAGTMSPTALSGLASSNAAVGSSGKQLTGPEGANLFIYHLPPEF 55
G T P + L++ +G +G+ LT N+F Y + P F
Sbjct: 87 GVRTGHPRFFNQLSTGLDIIGLAGEWLTSTANTNMFTYEIAPVF 130
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVF 76
LF+ P + +++L +FGPFG + K+
Sbjct: 33 RLFVRPFPLDVQESELNEIFGPFGPMKEVKIL 64
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 18/31 (58%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKV 75
LF+ P + +++L +FGPFG + K+
Sbjct: 6 RLFVRPFPLDVQESELNEIFGPFGPMKEVKI 36
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
+ L++ L ++ L +F PFG + + + D RSK +G I F
Sbjct: 6 SGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITF 54
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVL-SAKVFIDKQNNRSKCFGTIIF 92
+ +FI +L PE + L F FG +L + K+ D SK + I F
Sbjct: 6 SGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINF 55
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain
In Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 25.8 bits (55), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 44 ANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
+ +F+ +LP +F+ L F G VL A + + +N +SK G + F
Sbjct: 6 SGIFVRNLPFDFTWKMLKDKFNECGHVLYADIKM--ENGKSKGCGVVKF 52
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 45 NLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKCFGTIIF 92
LFI L E ++ L + + +G + V D + RS+ FG + F
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTF 76
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 25.4 bits (54), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 22/55 (40%)
Query: 32 GSSGKQLTGPEGANLFIYHLPPEFSDADLASMFGPFGTVLSAKVFIDKQNNRSKC 86
GSSG P LF+ L + S+ D+ +F FG + + N C
Sbjct: 4 GSSGCLRQPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGC 58
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
0.322 0.136 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,491,184
Number of Sequences: 62578
Number of extensions: 129036
Number of successful extensions: 363
Number of sequences better than 100.0: 84
Number of HSP's better than 100.0 without gapping: 79
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 278
Number of HSP's gapped (non-prelim): 90
length of query: 128
length of database: 14,973,337
effective HSP length: 87
effective length of query: 41
effective length of database: 9,529,051
effective search space: 390691091
effective search space used: 390691091
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)