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= psy518
(81 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 124 bits (310), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 57/73 (78%), Positives = 64/73 (87%)
Query: 9 VELSSYRDQHFKGSRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLD 68
VELS YRDQHF+G EQEKLL+ + TLYVGNLS+YTTEEQ+YELFSK GDIK+IIMGLD
Sbjct: 15 VELSQYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLD 74
Query: 69 KYKKTPCGFCFLE 81
K KKT CGFCF+E
Sbjct: 75 KMKKTACGFCFVE 87
>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 = 106 bits (264), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 50/66 (75%), Positives = 57/66 (86%), Gaps = 1/66 (1%)
Query: 16 DQHFKGSRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPC 75
DQHF+G EQEKLL+ + TLYVGNLS+YTTEEQ+YELFSK GDIK+IIMGLDK KT C
Sbjct: 1 DQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM-KTAC 59
Query: 76 GFCFLE 81
GFCF+E
Sbjct: 60 GFCFVE 65
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain
Of Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain
Of Xenopus Laevis Epabp2
Length = 124
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 35/58 (60%), Gaps = 1/58 (1%)
Query: 24 AEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
AE++K + S +YVGN+ Y +T + L FS CG I RI + DK+ P G+ ++E
Sbjct: 28 AEEKKEIDKRS-VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIE 84
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 45.4 bits (106), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 29/47 (61%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
+YVGNL Y T EQ+ ELFS+ G + + + D+ K P GF F+E
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVE 49
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of
Hypothetical Polyadenylate-Binding Protein (Pabpn1)
From Homo Sapiens At 1.95 A Resolution
Length = 89
Score = 45.4 bits (106), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
++YVGN+ Y T E+L F CG + R+ + DK+ P GF ++E
Sbjct: 8 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIE 54
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
++YVGN+ Y T E+L F CG + R+ + DK+ P GF ++E
Sbjct: 7 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIE 53
>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 = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 34/65 (52%)
Query: 17 QHFKGSRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCG 76
Q +GS A+++ L S +YVG++ Y E+ + + F+ G IK I M D G
Sbjct: 12 QMGRGSAAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKG 71
Query: 77 FCFLE 81
F F+E
Sbjct: 72 FAFVE 76
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 30/51 (58%)
Query: 31 RTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
R+ +++VGN+ Y TEEQL ++FS+ G + + D+ P G+ F E
Sbjct: 6 RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCE 56
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
L+V NLSY ++EE L +LFS G + + +D K P GF F+
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFV 55
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 28/45 (62%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
L+VG LS+ T E+ L ++FSK G I +++ D+ + GF F+
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFV 59
>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 = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 26/47 (55%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
TL+V ++Y TTE +L F G IKRI M K P G+ F+E
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIE 150
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%)
Query: 21 GSRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
G+ A++++ L +YVG++ Y E+ + + F+ G IK I M D GF F+
Sbjct: 1 GAMAQRQRALAIMCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFV 60
Query: 81 E 81
E
Sbjct: 61 E 61
>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 = 38.1 bits (87), Expect = 0.001, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 26/47 (55%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
TL+V ++Y TTE +L F G IKRI M K P G+ F+E
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIE 150
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%)
Query: 29 LLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
L + ST+YV NL + T LY +FSK G + ++ + DK + G F+
Sbjct: 12 LAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFI 63
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
TL V NL+Y T+ + L +F K G + + + + + K P GF F+
Sbjct: 15 TLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFV 60
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 24/48 (50%)
Query: 33 TSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
+T+ V NLS T E L ELF G I RI + DK GF F+
Sbjct: 15 NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFI 62
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 29/52 (55%), Gaps = 3/52 (5%)
Query: 33 TSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKT---PCGFCFLE 81
+S L++ NL++ TTEE L +FSK G IK + K K GF F+E
Sbjct: 5 SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVE 56
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 27/45 (60%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
+++G LS+ TT+E L E F + G++K ++ D K GF F+
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFV 72
>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 = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 34 STLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
++L V NL+Y T+ + L +F K G + + + D+Y K GF F+
Sbjct: 48 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFV 94
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 34 STLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
++L V NL+Y T+ + L +F K G + + + D+Y K GF F+
Sbjct: 71 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFV 117
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 27/45 (60%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
+++G LS+ TT+E L E F + G++K ++ D K GF F+
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFV 47
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 30/60 (50%), Gaps = 4/60 (6%)
Query: 21 GSRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
GSRA + L V LS YTTE L E+FSK G I + + D+ + GF F+
Sbjct: 4 GSRANPD----PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 59
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 30/60 (50%)
Query: 21 GSRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
GS++E K L++G LS+ TT+E L F + G + ++ D K GF F+
Sbjct: 2 GSKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 61
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
T ++VG + T E L + F + G I+ I + D+ GF F+
Sbjct: 104 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 152
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 35.0 bits (79), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 34 STLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
+ ++VG + + E +L E F K G + ++M D K+ P GF F+
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFI 57
>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 = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
++VG LS T EE++ E F G+++ I + +D GFCF+
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFI 48
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
++VG LS T EE++ E F G+++ I + +D GFCF+
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFI 46
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 22/31 (70%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMG 66
LY+ NL Y T E++Y++F K G I++I +G
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVG 41
>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 = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMG 66
LY+ NL Y T E++Y++F K G I++I +G
Sbjct: 17 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG 51
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
L V LS YTTE L E+FSK G I + + D+ + GF F+
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 93
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
L V LS YTTE L E+FSK G I + + D+ + GF F+
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 62
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
TLYVGNLS TE + +LFS+ G K M + P +CF+E
Sbjct: 17 TLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCFVE 61
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
L V LS YTTE L E+FSK G I + + D+ + GF F+
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 62
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%)
Query: 22 SRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMG 66
RA LY+ NL Y T E++Y++F K G I++I +G
Sbjct: 1 GRANIRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG 45
>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 = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 29/58 (50%)
Query: 24 AEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
A++++ L +YVG++ Y E+ + + F+ G IK I D GF F+E
Sbjct: 3 AQRQRALAIXCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVE 60
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 33.5 bits (75), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
T++VGNL EE LYELF + G + ++ + D+ K P F F+
Sbjct: 18 TVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGK-PKSFGFV 62
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 33.5 bits (75), Expect = 0.029, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 29/62 (46%), Gaps = 6/62 (9%)
Query: 19 FKGSRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFC 78
K R EK S L+VGNL TEE++ +LF K G + + DK GF
Sbjct: 8 LKNFRKPGEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFG 61
Query: 79 FL 80
F+
Sbjct: 62 FI 63
>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 = 33.1 bits (74), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 6/54 (11%)
Query: 27 EKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
EK S L+VGNL TEE++ +LF K G + + DK GF F+
Sbjct: 9 EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK------GFGFI 56
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 33.1 bits (74), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 34 STLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
+T+YVG L +E L+ELF + G + M D+ G+ F+E
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVE 63
>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 = 32.7 bits (73), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%)
Query: 22 SRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
S++E K L++G LS+ TT+E L F + G + ++ D K GF F+
Sbjct: 1 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 59
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
T ++VG + T E L + F + G I+ I + D+ GF F+
Sbjct: 102 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 150
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 32.7 bits (73), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%)
Query: 22 SRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
S++E K L++G LS+ TT+E L F + G + ++ D K GF F+
Sbjct: 2 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 60
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
T ++VG + T E L + F + G I+ I + D+ GF F+
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 151
>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 = 32.7 bits (73), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%)
Query: 22 SRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
S++E K L++G LS+ TT+E L F + G + ++ D K GF F+
Sbjct: 2 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 60
Score = 27.3 bits (59), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
T ++VG + T E L + F + G I+ I + D+ GF F+
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 151
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
28
Length = 111
Score = 32.7 bits (73), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 2/46 (4%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIK--RIIMGLDKYKKTPCGFC 78
T+++ NLS+ + EE L E+ + GD+K R+++ D C F
Sbjct: 17 TVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFA 62
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 32.7 bits (73), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
L++G L+ T E+ L +F K G I +++ D+ K+ GF F+
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKS-RGFAFI 53
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 32.3 bits (72), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
T + ++VG L Y+TT+ L + F GDI+ ++ D+ G+ F+
Sbjct: 16 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFV 64
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 32.3 bits (72), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
L++G LS+ TTEE L + + G + ++ D K GF F+
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFV 74
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 32.3 bits (72), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
LYVGNL TE+ L + F G I I + +DK K + F+E
Sbjct: 2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKN-VNYAFVE 47
>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 = 32.3 bits (72), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
T LYVG L+ ++ L+ F GDI I + LD + GF F+E
Sbjct: 6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 55
>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 = 32.3 bits (72), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%)
Query: 33 TSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
+ +Y+G++ Y TEEQ+ +L S G + + M D G+ F+E
Sbjct: 4 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIE 52
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 32.3 bits (72), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
+Y+G++ Y TEEQ+ +L S G + + M D G+ F+E
Sbjct: 4 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIE 50
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 32.3 bits (72), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
T LYVG L+ ++ L+ F GDI I + LD + GF F+E
Sbjct: 4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 53
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 32.3 bits (72), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
T LYVG L+ ++ L+ F GDI I + LD + GF F+E
Sbjct: 11 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 60
>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 = 32.3 bits (72), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%)
Query: 34 STLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
++LYVG+L TE LYE FS G I I + D + G+ ++
Sbjct: 11 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVN 58
>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 = 32.3 bits (72), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%)
Query: 34 STLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
++LYVG+L TE LYE FS G I I + D + G+ ++
Sbjct: 16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVN 63
>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 = 32.3 bits (72), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
+Y+G++ Y TEEQ+ +L S G + + M D G+ F+E
Sbjct: 5 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIE 51
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 32.0 bits (71), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
L+VG L + TT+E L FS+ G++ ++ DK GF F++
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVK 64
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 31.6 bits (70), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 33 TSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
+S LYVG+L + TE+ L +F G I I++ D G+ F+
Sbjct: 5 SSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFI 52
>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 = 31.6 bits (70), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMG 66
L + NL Y T E++Y++F K G I++I +G
Sbjct: 17 VNRILMIRNLPYKITAEEMYDIFGKYGPIRQIRVG 51
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
+++G LS+ TT++ L + FSK G++ + LD GF F+
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFV 46
>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 = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
LYVG L+ ++ L+ F GDI I + LD + GF F+E
Sbjct: 4 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 50
>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 = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 34 STLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
+ LYV NL T++QL +F K G I + + DK P G F+
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFV 60
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%)
Query: 23 RAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
++E K L++G LS+ TT+E L F + G + ++ D K GF F+
Sbjct: 1 KSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 58
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
T ++VG + T E L + F + G I+ I + D+ GF F+
Sbjct: 101 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 149
>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 = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
L++G LS+ TT+E L F + G + ++ D K GF F+
Sbjct: 9 LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 53
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
T ++VG + T E L + F + G I+ I + D+ GF F+
Sbjct: 96 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 144
>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 = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 34 STLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
+ LYV NL T++QL +F K G I + + DK P G F+
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFV 147
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 32 TTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
T LYVG L+ ++ L+ F GDI I + LD + GF F+E
Sbjct: 62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 111
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 30.8 bits (68), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 24/48 (50%)
Query: 34 STLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
+ LYV NL T++QL +F K G I + + DK P G F+
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVR 137
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCG--DIKRIIMGLDKYKKTPCGFCFL 80
LY+GNL+++TT+E L E G DI I ++ GF +
Sbjct: 3 ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALV 50
>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 = 0.21, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
+++G L++ TTE+ L E F K G + + + D GF FL
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFL 50
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCG--DIKRIIMGLDKYKKTPCGFCFL 80
LY+GNL+++TT+E L E G DI I ++ GF +
Sbjct: 70 ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALV 117
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 33 TSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
+T Y+GN+ ++ TE L LF G I+ Y + C CF++
Sbjct: 27 VTTAYIGNIPHFATEADLIPLFQNFG----FILDFKHYPEKGC--CFIK 69
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 30.0 bits (66), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 31 RTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKT 73
R ST++V NL Y ++L E+FS G + R + DK K+
Sbjct: 13 RLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKS 55
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 33 TSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
+ TL + NLSY TEE L E+F K IK K K G+ F+E
Sbjct: 15 SKTLVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKSK----GYAFIE 59
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 29.6 bits (65), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
LYVG+L + TE+ L +F G I+ I + +D G+ F+
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFI 73
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 34 STLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDK-YKKTPCGFCFLE 81
+ +++G L+ T++ + E+FS G IK I M +++ + G+ ++E
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVE 53
>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 = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
L+V + TEE +++ F++ G+IK I + LD+ G+ +E
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 70
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 28.9 bits (63), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
L+V + TEE +++ F++ G+IK I + LD+ G+ +E
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 71
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 28.9 bits (63), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
L+V + TEE +++ F++ G+IK I + LD+ G+ +E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 55
>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 = 28.9 bits (63), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
L+V + TEE +++ F++ G+IK I + LD+ G+ +E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 55
>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 = 28.9 bits (63), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
L+V + TEE +++ F++ G+IK I + LD+ G+ +E
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 55
>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 = 28.9 bits (63), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 28 KLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRI 63
K +R TL NLS+ TE++L E+F +I+ +
Sbjct: 94 KKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV 129
>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 = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
L+V + TEE +++ F++ G+IK I + LD+ G+ +E
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 57
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 28.5 bits (62), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 9/25 (36%), Positives = 18/25 (72%)
Query: 34 STLYVGNLSYYTTEEQLYELFSKCG 58
+ +YVG+ S++TT++QL ++ G
Sbjct: 56 AAVYVGSFSWWTTDQQLIQVIRSIG 80
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 28 KLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRI 63
K +R TL NLS+ TE++L E+F +I+ +
Sbjct: 11 KKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV 46
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 21 GSRAEQEKLLRTTS--TLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFC 78
GS K L T T YVGNL + T + + +F I+ + + DK GFC
Sbjct: 1 GSSGSSGKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFC 59
Query: 79 FLE 81
++E
Sbjct: 60 YVE 62
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 28/54 (51%)
Query: 27 EKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
++ ++ TS L V L + TTE+ L E FS G++ + + D GF F+
Sbjct: 9 KRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFV 62
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 21/33 (63%)
Query: 31 RTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRI 63
+TTS + V N+ + + ++ ELFS G++K +
Sbjct: 13 QTTSKILVRNIPFQANQREIRELFSTFGELKTV 45
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 6/54 (11%)
Query: 27 EKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
EK L+VGNL TEE LF + G+ + + D+ GF F+
Sbjct: 16 EKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR------GFGFI 63
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 21 GSRAEQEKLLRTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRI 63
GS + E ++ L+V NL+ TEE L + FS+ G ++R+
Sbjct: 4 GSSGDPE-VMAKVKVLFVRNLATTVTEEILEKSFSEFGKLERV 45
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 31 RTTSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGF 77
+T +TLYVG L TE L F + G+I+ I + ++ C F
Sbjct: 10 KTITTLYVGGLGDTITETDLRNHFYQFGEIRTITV----VQRQQCAF 52
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
++VG LS TT E + F + G + ++ DK GF F+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFV 46
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 21/33 (63%)
Query: 33 TSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIM 65
+S ++VG + TE++L E FS+ GD+ + +
Sbjct: 5 SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFI 37
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 35 TLYVGNLSYYTTEEQLYELFSKCGDIKRI 63
L+V NL+ TEE L + FS+ G ++R+
Sbjct: 13 VLFVRNLANTVTEEILEKAFSQFGKLERV 41
>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 = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 24/44 (54%)
Query: 37 YVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFL 80
+VG LS+ T+++ L + F+K G++ + D GF F+
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFI 58
>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 = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 24/46 (52%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
L+V ++ E+++ E F G+IK I + LD+ G+ +E
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVE 120
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 24/46 (52%)
Query: 36 LYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
L+V ++ E+++ E F G+IK I + LD+ G+ +E
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVE 74
>pdb|1L9X|A Chain A, Structure Of Gamma-Glutamyl Hydrolase
pdb|1L9X|B Chain B, Structure Of Gamma-Glutamyl Hydrolase
pdb|1L9X|C Chain C, Structure Of Gamma-Glutamyl Hydrolase
pdb|1L9X|D Chain D, Structure Of Gamma-Glutamyl Hydrolase
Length = 315
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 15 RDQHFKGSRAEQEKLLRTTSTLYVGNLSYY 44
+ HFK E++ L+ S +Y GN+S +
Sbjct: 279 NNHHFKSESEEEKALIYQFSPIYTGNISSF 308
>pdb|1V8B|A Chain A, Crystal Structure Of A Hydrolase
pdb|1V8B|B Chain B, Crystal Structure Of A Hydrolase
pdb|1V8B|C Chain C, Crystal Structure Of A Hydrolase
pdb|1V8B|D Chain D, Crystal Structure Of A Hydrolase
Length = 479
Score = 25.8 bits (55), Expect = 5.8, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 27 EKLLRTTSTLYVGNLSYYTTEEQLYELFSKCG 58
E LL+ + VGN+ ++ E Q+ ELF+ G
Sbjct: 329 EHLLKMKNNAVVGNIGHFDDEIQVNELFNYKG 360
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 25/49 (51%)
Query: 33 TSTLYVGNLSYYTTEEQLYELFSKCGDIKRIIMGLDKYKKTPCGFCFLE 81
+S ++V NL + T + L + F++CG + + ++ K CG E
Sbjct: 5 SSGIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFE 53
>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35
pdb|3TW8|D Chain D, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35
Length = 181
Score = 25.0 bits (53), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 12/55 (21%)
Query: 24 AEQEKLLRTTSTLYVGNL------------SYYTTEEQLYELFSKCGDIKRIIMG 66
A QE+ TST Y G S+ + L+E+ C D+ RI++G
Sbjct: 66 AGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVG 120
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
0.319 0.135 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,287,150
Number of Sequences: 62578
Number of extensions: 74397
Number of successful extensions: 321
Number of sequences better than 100.0: 100
Number of HSP's better than 100.0 without gapping: 98
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 212
Number of HSP's gapped (non-prelim): 110
length of query: 81
length of database: 14,973,337
effective HSP length: 50
effective length of query: 31
effective length of database: 11,844,437
effective search space: 367177547
effective search space used: 367177547
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)