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= 030010
(184 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 112 bits (281), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 50/90 (55%), Positives = 68/90 (75%)
Query: 14 AGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSR 73
G +ETG KL +SNLD+GVS+ DI+ELF+E G LK+ ++ YDRSGRS GTA+V + R
Sbjct: 26 CGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFER 85
Query: 74 RADAVAAVKRYNNVQLDGKPMKIEIVGTNI 103
RADA+ A+K+Y V LDG+PM I++V + I
Sbjct: 86 RADALKAMKQYKGVPLDGRPMDIQLVASQI 115
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 112 bits (280), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 50/90 (55%), Positives = 68/90 (75%)
Query: 14 AGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSR 73
G +ETG KL +SNLD+GVS+ DI+ELF+E G LK+ ++ YDRSGRS GTA+V + R
Sbjct: 26 CGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFER 85
Query: 74 RADAVAAVKRYNNVQLDGKPMKIEIVGTNI 103
RADA+ A+K+Y V LDG+PM I++V + I
Sbjct: 86 RADALKAMKQYKGVPLDGRPMDIQLVASQI 115
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 111 bits (278), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 50/90 (55%), Positives = 68/90 (75%)
Query: 14 AGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSR 73
G +ETG KL +SNLD+GVS+ DI+ELF+E G LK+ ++ YDRSGRS GTA+V + R
Sbjct: 79 CGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFER 138
Query: 74 RADAVAAVKRYNNVQLDGKPMKIEIVGTNI 103
RADA+ A+K+Y V LDG+PM I++V + I
Sbjct: 139 RADALKAMKQYKGVPLDGRPMDIQLVASQI 168
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 105 bits (262), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 46/75 (61%), Positives = 63/75 (84%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
KL +SNLD+GVS+ DI+ELF+E G LK+ ++HYDRSGRS GTA+V + R+ADA+ A+K+Y
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY 89
Query: 85 NNVQLDGKPMKIEIV 99
N V LDG+PM I++V
Sbjct: 90 NGVPLDGRPMNIQLV 104
>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 = 101 bits (252), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 45/75 (60%), Positives = 61/75 (81%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
KL +SNLD+GVS+ DI+ELF+E G LK+ ++HYDRSGRS GTA+V + R+ADA+ A K+Y
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAXKQY 90
Query: 85 NNVQLDGKPMKIEIV 99
N V LDG+P I++V
Sbjct: 91 NGVPLDGRPXNIQLV 105
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 50/86 (58%), Gaps = 5/86 (5%)
Query: 13 QAGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYS 72
QAGR G+ ++++NLDY V + +KE+FS G + R I D+ G+S+G V +
Sbjct: 10 QAGR-----LGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFE 64
Query: 73 RRADAVAAVKRYNNVQLDGKPMKIEI 98
+ +AV A+ +N L +PM +++
Sbjct: 65 QSIEAVQAISMFNGQLLFDRPMHVKM 90
>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 = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 20 IETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVA 79
++ LY+ NL + + E I ELFS+ GD+K+ + D+ + G V Y RADA
Sbjct: 15 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSRADAEN 74
Query: 80 AVKRYNNVQLDGKPMK 95
A++ N +LD + ++
Sbjct: 75 AMRYINGTRLDDRIIR 90
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 44/73 (60%), Gaps = 1/73 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
+++ N+ Y + E +K++FSEVG + + + YDR +G+ KG Y + A++A++
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 85 NNVQLDGKPMKIE 97
N + G+ ++++
Sbjct: 71 NGREFSGRALRVD 83
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 43/74 (58%), Gaps = 1/74 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGR-SKGTAEVVYSRRADAVAAVKRY 84
+Y+SNL + ++N D+ +FS+ G + + +I D+ R SKG A +++ + A +
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 85 NNVQLDGKPMKIEI 98
NN QL G+ +K I
Sbjct: 79 NNKQLFGRVIKASI 92
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAVKR 83
+LY+ +L + ++ + ++ +F G ++ + D +GRSKG + +S A A+++
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 84 YNNVQLDGKPMKI 96
N +L G+PMK+
Sbjct: 88 LNGFELAGRPMKV 100
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 7/88 (7%)
Query: 9 FPVQQAGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAE 68
FP Q+ E +++ NL+ V E + ELF + G L + +I DR G+ K
Sbjct: 9 FPAQE-------EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGF 61
Query: 69 VVYSRRADAVAAVKRYNNVQLDGKPMKI 96
V + A+ N ++L G+P+ +
Sbjct: 62 VCFKHPESVSYAIALLNGIRLYGRPINV 89
>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 = 43.5 bits (101), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 47/78 (60%), Gaps = 3/78 (3%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVK 82
T LY++NL ++++ + +F + G + + +I D+ +GR +G A V Y++R +A A+
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 73
Query: 83 RYNNVQLDG--KPMKIEI 98
NNV +G +P+ + +
Sbjct: 74 ALNNVIPEGGSQPLSVRL 91
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 52/96 (54%), Gaps = 12/96 (12%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
L +SNL Y + E ++E+F + +K + +++G+SKG A + ++ DA A+ N
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIK---VPQNQNGKSKGYAFIEFASFEDAKEALNSCN 74
Query: 86 NVQLDGKPMKIEIVGTNIATRTAAPAANVNFGNSNG 121
+++G+ +++E+ G P + N G S+G
Sbjct: 75 KREIEGRAIRLELQG---------PRGSPNSGPSSG 101
>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 = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 47/78 (60%), Gaps = 3/78 (3%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVK 82
T LY++NL ++++ + +F + G + + +I D+ +GR +G A V Y++R +A A+
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 160
Query: 83 RYNNVQLDG--KPMKIEI 98
NNV +G +P+ + +
Sbjct: 161 ALNNVIPEGGSQPLSVRL 178
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 43.1 bits (100), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 47/78 (60%), Gaps = 3/78 (3%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVK 82
T LY++NL ++++ + +F + G + + +I D+ +GR +G A V Y++R +A A+
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 149
Query: 83 RYNNVQLDG--KPMKIEI 98
NNV +G +P+ + +
Sbjct: 150 ALNNVIPEGGSQPLSVRL 167
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 20 IETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSK-GTAEVVYSRRADAV 78
++ LY+ NL + + E I ELFS+ GD+K+ + D+ ++ G V Y RADA
Sbjct: 36 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAE 95
Query: 79 AAVKRYNNVQLDGKPMKIE 97
A++ N +LD + ++ +
Sbjct: 96 NAMRYINGTRLDDRIIRTD 114
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 49/95 (51%), Gaps = 8/95 (8%)
Query: 12 QQAGRASA-------IETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRS 63
QQ GR S + L + L + D++E+FS+ G + SI YD+ S RS
Sbjct: 28 QQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRS 87
Query: 64 KGTAEVVYSRRADAVAAVKRYNNVQLDGKPMKIEI 98
+G A V + DA A +R N ++LDG+ ++++
Sbjct: 88 RGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF 122
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
+Y+ N+DYG + +D++ FS G + R +I D+ SG KG A + ++ R AAV
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMD 98
Query: 85 NNVQLDGKPMKIEIVGTNI 103
V G+ +K+ TN+
Sbjct: 99 ETV-FRGRTIKVLPKRTNM 116
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
LY+ NLD G+ +E +++ FS G + + + GRSKG V +S +A AV N
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME-GGRSKGFGFVCFSSPEEATKAVTEMN 76
Query: 86 NVQLDGKPMKIEI 98
+ KP+ + +
Sbjct: 77 GRIVATKPLYVAL 89
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 39/73 (53%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
KL+I L+ + + +K +F + G + + DR+ +S+G A + + ADA A K
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDM 68
Query: 85 NNVQLDGKPMKIE 97
N L GK +K+E
Sbjct: 69 NGKSLHGKAIKVE 81
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 43/74 (58%), Gaps = 1/74 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
L + L + D++E+FS+ G + SI YD+ S RS+G A V + DA A +R
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 85 NNVQLDGKPMKIEI 98
N ++LDG+ ++++
Sbjct: 78 NGMELDGRRIRVDF 91
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 43/74 (58%), Gaps = 1/74 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
L + L + D++E+FS+ G + SI YD+ S RS+G A V + DA A +R
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 74
Query: 85 NNVQLDGKPMKIEI 98
N ++LDG+ ++++
Sbjct: 75 NGMELDGRRIRVDF 88
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 35/64 (54%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
KL++ L+ S +D++ LF G+++ +I G SKG A V YS A+A AA+
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFVKYSSHAEAQAAINAL 76
Query: 85 NNVQ 88
+ Q
Sbjct: 77 HGSQ 80
>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 = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 47/88 (53%), Gaps = 7/88 (7%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
KL+IS L + + E+++E+ G +K + +R+G+ KG A V Y + A AV
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAV--- 75
Query: 85 NNVQLDGKPMKIEIVGTNIATRTAAPAA 112
+++DG +K I+ +A + P++
Sbjct: 76 --MKMDGMTIKENII--KVAISNSGPSS 99
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
L + L + D++E+FS+ G + SI YD+ S RS+G A V + DA A +R
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 85 NNVQLDGKPMKI 96
N ++LDG+ +++
Sbjct: 78 NGMELDGRRIRV 89
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVK 82
+ LY+ +L + ++ + ++ +F G + + D +GRSKG + +S A A++
Sbjct: 6 SGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65
Query: 83 RYNNVQLDGKPMKI 96
+ N +L G+PM++
Sbjct: 66 QLNGFELAGRPMRV 79
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 44/88 (50%), Gaps = 2/88 (2%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAVKRY 84
LY+ NL V+ D+ LF+ + K I + +GR +G A + + + A A+
Sbjct: 28 LYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLV 87
Query: 85 NNVQLDGKPMKIEIVGTNIATRTAAPAA 112
N +L GK + IE G N R++ P++
Sbjct: 88 NGYKLYGKILVIEF-GKNKKQRSSGPSS 114
>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 = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 47/88 (53%), Gaps = 2/88 (2%)
Query: 13 QAGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVY 71
+ G ++E G L+++ + + EDI + F+E G++K ++ D R+G KG V Y
Sbjct: 14 EPGPQRSVE-GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 72
Query: 72 SRRADAVAAVKRYNNVQLDGKPMKIEIV 99
+A AA++ N L G+P+ ++
Sbjct: 73 ETYKEAQAAMEGLNGQDLMGQPISVDWC 100
>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 = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 23 GTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAV 81
G L+++ + + EDI + F+E G++K ++ D R+G KG V Y +A AA+
Sbjct: 9 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 68
Query: 82 KRYNNVQLDGKPMKIEIV 99
+ N L G+P+ ++
Sbjct: 69 EGLNGQDLMGQPISVDWC 86
>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 = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Query: 23 GTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAV 81
G L+++ + + EDI + F+E G++K ++ D R+G KG V Y +A AA+
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 82 KRYNNVQLDGKPMKIEIV 99
+ N L G+P+ ++
Sbjct: 67 EGLNGQDLMGQPISVDWC 84
>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 = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 42/76 (55%), Gaps = 1/76 (1%)
Query: 23 GTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAV 81
G L+++ + + EDI + F+E G++K ++ D R+G KG V Y +A AA+
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 82 KRYNNVQLDGKPMKIE 97
+ N L G+P+ ++
Sbjct: 67 EGLNGQDLMGQPISVD 82
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 42/76 (55%), Gaps = 1/76 (1%)
Query: 23 GTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAV 81
G L+++ + + EDI + F+E G++K ++ D R+G KG V Y +A AA+
Sbjct: 7 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 66
Query: 82 KRYNNVQLDGKPMKIE 97
+ N L G+P+ ++
Sbjct: 67 EGLNGQDLMGQPISVD 82
>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 = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 47/88 (53%), Gaps = 2/88 (2%)
Query: 13 QAGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVY 71
+ G ++E G L+++ + + EDI + F+E G++K ++ D R+G KG V Y
Sbjct: 13 EPGPQRSVE-GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEY 71
Query: 72 SRRADAVAAVKRYNNVQLDGKPMKIEIV 99
+A AA++ N L G+P+ ++
Sbjct: 72 ETYKEAQAAMEGLNGQDLMGQPISVDWC 99
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 49/96 (51%), Gaps = 9/96 (9%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSI--HYDRSG--RSKGTAEVVYSRRADAVAAV 81
L+I NL++ + E +K +FS+VG +K +I +++G S G V Y + A A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 82 KRYNNVQLDGKPMKIEIVGTNIATRTAAPAANVNFG 117
K+ +DG +++ I+ R PA+ + G
Sbjct: 68 KQLQGHTVDGHKLEVR-----ISERATKPASGPSSG 98
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 39/77 (50%), Gaps = 3/77 (3%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
KL+I + + DI+ +FS G ++ I G S+G A V ++ RA A A+K
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAM 156
Query: 85 NNVQ-LDG--KPMKIEI 98
+ Q ++G PM ++
Sbjct: 157 HQAQTMEGCSSPMVVKF 173
Score = 33.1 bits (74), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 36/68 (52%), Gaps = 3/68 (4%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRS---GRSKGTAEVVYSRRADAVAAV 81
K+++ + S +D++ELF + G + ++ DRS +SKG V + R A+ A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 82 KRYNNVQL 89
+N+++
Sbjct: 65 NALHNMKV 72
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 32/64 (50%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
KL+I + + DI+ +FS G ++ I G S+G A V ++ RA A A+K
Sbjct: 109 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAM 168
Query: 85 NNVQ 88
+ Q
Sbjct: 169 HQAQ 172
Score = 33.1 bits (74), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 36/68 (52%), Gaps = 3/68 (4%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRS---GRSKGTAEVVYSRRADAVAAV 81
K+++ + S +D++ELF + G + ++ DRS +SKG V + R A+ A
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 76
Query: 82 KRYNNVQL 89
+N+++
Sbjct: 77 NALHNMKV 84
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 23 GTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAV 81
G L+++++ ++I+E F + G++K ++ DR +G SKG A V Y A+AA
Sbjct: 26 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAK 85
Query: 82 KRYNNVQLDGKPMKIEIV 99
+ N ++ G+ ++++
Sbjct: 86 EALNGAEIMGQTIQVDWC 103
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAA 80
KL++ + G+ +D+K LF E G + ++ DR +G KG A + Y R A+ A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKA 73
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 39/75 (52%), Gaps = 4/75 (5%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
L NL Y V+ +++KE+F + +++ S + G+SKG A + + ADA +
Sbjct: 96 LLAKNLPYKVTQDELKEVFEDAAEIRLVS----KDGKSKGIAYIEFKTEADAEKTFEEKQ 151
Query: 86 NVQLDGKPMKIEIVG 100
++DG+ + + G
Sbjct: 152 GTEIDGRSISLYYTG 166
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAA 80
KL+I + + +D+K LF E G + ++ DR +G KG A + Y R A+ A
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKA 71
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 35/71 (49%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
+Y+ NL Y ++E +KELFS+ G + + YDR + V + A+ + +
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLD 63
Query: 86 NVQLDGKPMKI 96
N G+ +++
Sbjct: 64 NTDFMGRTIRV 74
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 43/77 (55%), Gaps = 3/77 (3%)
Query: 22 TGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
T +L++SN+ + + D++++F + G + I ++ G SKG V + ADA A
Sbjct: 14 TPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAR 72
Query: 82 KRYNNVQLDGKPMKIEI 98
++ + ++G+ KIE+
Sbjct: 73 EKLHGTVVEGR--KIEV 87
>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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 23 GTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAV 81
G L+++++ ++I+E F + G++K ++ DR +G SKG A V Y A+AA
Sbjct: 72 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAK 131
Query: 82 KRYNNVQLDGKPMKIEIV 99
+ N ++ G+ ++++
Sbjct: 132 EALNGAEIMGQTIQVDWC 149
>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 = 0.004, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 31/64 (48%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
KL+I + + DI+ FS G ++ I G S+G A V ++ RA A A+K
Sbjct: 97 KLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAXAQTAIKAX 156
Query: 85 NNVQ 88
+ Q
Sbjct: 157 HQAQ 160
Score = 30.0 bits (66), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRS---GRSKGTAEVVYSRRADAVAAV 81
K ++ + S +D++ELF + G + ++ DRS +SKG V + R A+ A
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 82 KRYNNVQL 89
+N ++
Sbjct: 65 NALHNXKV 72
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
+Y+ LD VS + ELF + G + + DR +G+ +G V + DA A+K
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 85 NNVQLDGKPMKI 96
+ ++L GKP+++
Sbjct: 78 DMIKLYGKPIRV 89
>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 = 0.004, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 47/95 (49%), Gaps = 1/95 (1%)
Query: 5 QVSAFPVQQAGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRS 63
Q V A +S + LYIS L ++ +D++++FS G + + D+ +G S
Sbjct: 70 QSKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLS 129
Query: 64 KGTAEVVYSRRADAVAAVKRYNNVQLDGKPMKIEI 98
+G A + + +R++A A+ +N + G I +
Sbjct: 130 RGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITV 164
Score = 34.3 bits (77), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVK 82
T L ++ L ++ ++++ LFS +G+++ + D+ +G S G V Y DA A+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 83 RYNNVQLDGKPMKI 96
N ++L K +K+
Sbjct: 63 TLNGLRLQSKTIKV 76
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
+L++SN+ + + D++++F + G + I ++ G SKG V + ADA A ++
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAREKL 89
Query: 85 NNVQLDGKPMKIEI 98
+ ++G+ KIE+
Sbjct: 90 HGTVVEGR--KIEV 101
>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 = 0.005, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 47/95 (49%), Gaps = 1/95 (1%)
Query: 5 QVSAFPVQQAGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRS 63
Q V A +S + LYIS L ++ +D++++FS G + + D+ +G S
Sbjct: 70 QSKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLS 129
Query: 64 KGTAEVVYSRRADAVAAVKRYNNVQLDGKPMKIEI 98
+G A + + +R++A A+ +N + G I +
Sbjct: 130 RGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITV 164
Score = 34.3 bits (77), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVK 82
T L ++ L ++ ++++ LFS +G+++ + D+ +G S G V Y DA A+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 83 RYNNVQLDGKPMKI 96
N ++L K +K+
Sbjct: 63 TLNGLRLQSKTIKV 76
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/89 (22%), Positives = 45/89 (50%), Gaps = 1/89 (1%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKR 83
KL++ L + + + ++++FS+ G + + DR + RS+G V + DA A+
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 84 YNNVQLDGKPMKIEIVGTNIATRTAAPAA 112
N +DG+ ++++ G + R+ +
Sbjct: 74 MNGKSVDGRQIRVDQAGKSSDNRSGPSSG 102
>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 = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 47/96 (48%), Gaps = 9/96 (9%)
Query: 12 QQAGRASA--------IETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGR 62
QQ GR S +E T L + NL Y S + ++ +F + G + I DR +
Sbjct: 28 QQMGRGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKE 87
Query: 63 SKGTAEVVYSRRADAVAAVKRYNNVQLDGKPMKIEI 98
S+G A V + + DA A+ + LDG+ +++++
Sbjct: 88 SRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQM 123
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 42/81 (51%), Gaps = 4/81 (4%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
L NL + ++ +++KE+F + +++ S + G+SKG A + + ADA ++
Sbjct: 19 LLAKNLSFNITEDELKEVFEDALEIRLVS----QDGKSKGIAYIEFKSEADAEKNLEEKQ 74
Query: 86 NVQLDGKPMKIEIVGTNIATR 106
++DG+ + + G TR
Sbjct: 75 GAEIDGRSVSLYYTGEKGGTR 95
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
+ ++NL D++ELF G + R + D+ +G+SKG A + + RR DA A+
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV 77
Query: 85 NNVQLDGKPMKIE 97
+ D + +E
Sbjct: 78 SGFGYDHLILNVE 90
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 40/82 (48%), Gaps = 7/82 (8%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKR 83
TKL++ N+ +N++++ F E G + I K A V R DAV A++
Sbjct: 11 TKLHVGNISPTCTNQELRAKFEEYGPVIECDI-------VKDYAFVHMERAEDAVEAIRG 63
Query: 84 YNNVQLDGKPMKIEIVGTNIAT 105
+N + GK M +++ + + T
Sbjct: 64 LDNTEFQGKRMHVQLSTSRLRT 85
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 22 TGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAA 80
T TK+++ L Y ++ +++ F GD++ + DR +G+S+G V + RA A A
Sbjct: 16 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA 75
Query: 81 VKRYNNVQLDGKPMKIEI 98
K N + +DG+ + +
Sbjct: 76 CKDPNPI-IDGRKANVNL 92
>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 = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAVKRY 84
+Y+ ++ Y + E I +L S VG + + +D ++GRSKG A + + + +AV+
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 85 NNVQLDGKPMKI 96
N QL + +K
Sbjct: 67 NGYQLGSRFLKC 78
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAVKRY 84
+Y+ ++ Y + E I +L S VG + + +D ++GRSKG A + + + +AV+
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 85 NNVQLDGKPMKI 96
N QL + +K
Sbjct: 65 NGYQLGSRFLKC 76
>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 = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAVKRY 84
+Y+ ++ Y + E I +L S VG + + +D ++GRSKG A + + + +AV+
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 85 NNVQLDGKPMKI 96
N QL + +K
Sbjct: 66 NGYQLGSRFLKC 77
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 31/64 (48%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
KL++ L+ S ED+ LF G + ++ G SKG A V +S +A AA+
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHAL 76
Query: 85 NNVQ 88
+ Q
Sbjct: 77 HGSQ 80
>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 = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 46/98 (46%), Gaps = 14/98 (14%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKR 83
++L++ NL ++ E++++LF + G IH D KG + R A A
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-----KGFGFIRLETRTLAEIA--- 67
Query: 84 YNNVQLDGKPMKIEIVGTNIATRTAAPAANVNFGNSNG 121
V+LD P++ G + R A +A++ G S+G
Sbjct: 68 --KVELDNMPLR----GKQLRVRFACHSASLTSGPSSG 99
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS+ G + I RS + +G A V++ + A A+
Sbjct: 12 IYINNLNEKIKKDELKKSLYAIFSQFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 69
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 70 RSMQGFPFYDKPMRIQYAKTD 90
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
LY+S L +S +++++LFS+ G + I D+ +G S+G + + +R +A A+K
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 85 N 85
N
Sbjct: 64 N 64
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR--SGRSKGTAEVVYSRRADAVAAV 81
TK++I L V+ + I E+FS G +K + +R SKG A V + +A A+
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKAL 64
Query: 82 KRYNNVQLDGK 92
K + Q+DG+
Sbjct: 65 KHMDGGQIDGQ 75
>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 = 0.010, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHY-DRSGRSKGTAEVVYSRRADAVAAVKRY 84
L+++ ++Y + ++ F G +KR + Y RSG+ +G A + Y D +A K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 85 NNVQLDGKPMKIEI 98
+ ++DG+ + +++
Sbjct: 165 DGKKIDGRRVLVDV 178
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 36.2 bits (82), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 46/91 (50%), Gaps = 5/91 (5%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
LY+ NLD ++ + +K+ F G + I D++ ++ A V Y + DA A++
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQT-- 60
Query: 86 NVQLDGKPMKIEIVGTNIATRTAAPAANVNF 116
L+GK ++ IV N A ++ +++ F
Sbjct: 61 ---LNGKQIENNIVKINWAFQSQQSSSDDTF 88
Score = 33.5 bits (75), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 8 AFPVQQAGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGT 66
AF QQ S+ + L++ +L+ V +E ++ F + + +D ++G S+G
Sbjct: 76 AFQSQQ----SSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGY 131
Query: 67 AEVVYSRRADAVAAVKRYNNVQLDGKPMKI 96
V ++ + DA A+ L+G+P++I
Sbjct: 132 GFVSFTSQDDAQNAMDSMQGQDLNGRPLRI 161
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 31/57 (54%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
KL++ L ++ED++++F G + ++ G SKG A V + A+A AA+
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAAI 70
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 42/82 (51%), Gaps = 1/82 (1%)
Query: 5 QVSAFPVQQAGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRS 63
Q V A +SA LY+S L +S +++++LFS+ G + I D+ +G S
Sbjct: 72 QTKTIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVS 131
Query: 64 KGTAEVVYSRRADAVAAVKRYN 85
+G + + +R +A A+K N
Sbjct: 132 RGVGFIRFDKRIEAEEAIKGLN 153
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 35.8 bits (81), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 21 ETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAA 80
E LYI NL Y ++ E++ ++F + G +++ I + ++GTA VVY DA A
Sbjct: 6 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQ--IRVGNTPETRGTAYVVYEDIFDAKNA 63
Query: 81 V 81
V
Sbjct: 64 V 64
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 35.8 bits (81), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHY---DRSGRSKGTAEVVYSRRADAVAAV 81
+L++ NL Y S ED+++LFS G L +HY + + KG A V + AV A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSE--LHYPIDSLTKKPKGFAFVTFMFPEHAVKAY 67
Query: 82 KRYNNVQLDGKPMKI 96
+ G+ + +
Sbjct: 68 AEVDGQVFQGRMLHV 82
>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 = 35.8 bits (81), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKR-YSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
L+++ ++Y + ++ F G +KR + ++ RSG+ +G A + Y D +A K
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 85 NNVQLDGKPMKIEI 98
+ ++DG+ + +++
Sbjct: 165 DGKKIDGRRVLVDV 178
>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 = 35.8 bits (81), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYS 72
+Y+ N+DYG + E+++ F G + R +I D+ SG KG A + +S
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFS 56
>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 = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYS 72
+Y+ N+DYG + E+++ F G + R +I D+ SG KG A + +S
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFS 55
>pdb|1OIA|A Chain A, U1a Rnp Domain 1-95
pdb|1OIA|B Chain B, U1a Rnp Domain 1-95
Length = 95
Score = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS+ G + I RS + +G A V++ + A A+
Sbjct: 12 IYINNLNEKIKKDELKKSLYAIFSQFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 69
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 70 RSMQGFPFYDKPMRIQYAKTD 90
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS+ G + I RS + +G A V++ + A A+
Sbjct: 11 IYINNLNEKIKKDELKKSLYAIFSQFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 68
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 69 RSMQGFPFYDKPMRIQYAKTD 89
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 16/104 (15%)
Query: 23 GTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVK 82
G L + NL VSNE +++ FS+ G +++ + D GR+ G V ++ + A A++
Sbjct: 96 GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALE 155
Query: 83 RYNNVQLDGKPMKIEIVGTNIATRTAAPA---ANVNFGNSNGVP 123
R + G + T T P F + +G+P
Sbjct: 156 RCGD-------------GAFLLTTTPRPVIVEPMEQFDDEDGLP 186
Score = 32.0 bits (71), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 37/92 (40%), Gaps = 7/92 (7%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKR 83
+L++ NL ++ ED K LF G+ I+ DR G + R A A
Sbjct: 23 CRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR-----GFGFIRLESRTLAEIAKAE 77
Query: 84 YNNVQLDGKPMKIEIV--GTNIATRTAAPAAN 113
+ L +P++I G + + +P +
Sbjct: 78 LDGTILKSRPLRIRFATHGAALTVKNLSPVVS 109
>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 = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 23 GTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAV 81
GT L ++ L + ++++ LFS +G+++ + D+ +G S G V Y DA A+
Sbjct: 19 GTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 78
Query: 82 KRYNNVQLDGKPMKI 96
N ++L K +K+
Sbjct: 79 NTLNGLRLQSKTIKV 93
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 35.0 bits (79), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 42/80 (52%), Gaps = 1/80 (1%)
Query: 20 IETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAV 78
+E T L + NL Y S + ++ +F + G + I DR + S+G A V + + DA
Sbjct: 67 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAE 126
Query: 79 AAVKRYNNVQLDGKPMKIEI 98
A+ + LDG+ +++++
Sbjct: 127 DAMDAMDGAVLDGRELRVQM 146
>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 = 35.0 bits (79), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 40/75 (53%), Gaps = 4/75 (5%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
L NL + ++ +++KE+F + +++ S + G+SKG A + + ADA ++
Sbjct: 102 LLAKNLSFNITEDELKEVFEDALEIRLVS----QDGKSKGIAYIEFKSEADAEKNLEEKQ 157
Query: 86 NVQLDGKPMKIEIVG 100
++DG+ + + G
Sbjct: 158 GAEIDGRSVSLYYTG 172
>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 = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
LY+S L ++ +++++LFS+ G + I D+ +G S+G + + +R +A A+K
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 85 NNVQLDG 91
N + G
Sbjct: 151 NGQKPSG 157
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS G + I RS + +G A V++ + A A+
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 69
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 70 RSMQGFPFYDKPMRIQYAKTD 90
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS G + I RS + +G A V++ + A A+
Sbjct: 9 IYINNLNEKIKKDELKKSLHAIFSRFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 66
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 67 RSMQGFPFYDKPMRIQYAKTD 87
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS G + I RS + +G A V++ + A A+
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 68
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 69 RSMQGFPFYDKPMRIQYAKTD 89
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 34.7 bits (78), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS G + I RS + +G A V++ + A A+
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 68
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 69 RSMQGFPFYDKPMRIQYAKTD 89
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 34.7 bits (78), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS G + I RS + +G A V++ + A A+
Sbjct: 12 IYINNLNEKIKKDELKKSLHAIFSRFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 69
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 70 RSMQGFPFYDKPMRIQYAKTD 90
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 34.7 bits (78), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS G + I RS + +G A V++ + A A+
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 68
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 69 RSMQGFPFYDKPMRIQYAKTD 89
>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 = 34.7 bits (78), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAVKR 83
++Y++++ +S++DIK +F G +K ++ D +G+ KG + Y + + AV
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 171
Query: 84 YNNVQLDGKPMKI 96
N L G+ +++
Sbjct: 172 MNLFDLGGQYLRV 184
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 34.7 bits (78), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS G + I RS + +G A V++ + A A+
Sbjct: 7 IYINNLNEKIKKDELKKSLHAIFSRFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 64
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 65 RSMQGFPFYDKPMRIQYAKTD 85
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 34.7 bits (78), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS G + I RS + +G A V++ + A A+
Sbjct: 8 IYINNLNEKIKKDELKKSLHAIFSRFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 65
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 66 RSMQGFPFYDKPMRIQYAKTD 86
>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 = 34.3 bits (77), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAVKR 83
++Y++++ +S++DIK +F G +K ++ D +G+ KG + Y + + AV
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 170
Query: 84 YNNVQLDGKPMKI 96
N L G+ +++
Sbjct: 171 XNLFDLGGQYLRV 183
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 34.3 bits (77), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 26 LYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
+YI+NL+ + +++K+ +FS G + I RS + +G A V++ + A A+
Sbjct: 6 IYINNLNEKIKKDELKKSLHAIFSRFGQI--LDILVSRSLKMRGQAFVIFKEVSSATNAL 63
Query: 82 KRYNNVQLDGKPMKIEIVGTN 102
+ KPM+I+ T+
Sbjct: 64 RSMQGFPFYDKPMRIQYAKTD 84
>pdb|1WEZ|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein H'
Length = 102
Score = 34.3 bits (77), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 22 TGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAV 81
TG +++ L Y + DI FS + + R I GR G A+V ++ DAVAA+
Sbjct: 14 TGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAM 72
Query: 82 KR 83
+
Sbjct: 73 AK 74
>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 = 0.039, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 41/73 (56%), Gaps = 5/73 (6%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
LY+ NL S E I++ F+ ++K ++ +R + + A V +S R DAV A+K N
Sbjct: 18 LYVRNLMLSTSEEMIEKEFN---NIKPGAV--ERVKKIRDYAFVHFSNREDAVEAMKALN 72
Query: 86 NVQLDGKPMKIEI 98
LDG P+++ +
Sbjct: 73 GKVLDGSPIEVTL 85
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 34.3 bits (77), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAVKR 83
++Y++++ +S++DIK +F G +K ++ D +G+ KG + Y + + AV
Sbjct: 127 RIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSS 186
Query: 84 YNNVQLDGKPMKI 96
N L G+ +++
Sbjct: 187 MNLFDLGGQYLRV 199
>pdb|1A9N|B Chain B, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
pdb|1A9N|D Chain D, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
Length = 96
Score = 33.9 bits (76), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 43/87 (49%), Gaps = 6/87 (6%)
Query: 20 IETGTKLYISNLDYGVSNEDIKE----LFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRA 75
I +YI+N++ + E++K LFS+ G + I ++ + +G A V++
Sbjct: 3 IRPNHTIYINNMNDKIKKEELKRSLYALFSQFGHV--VDIVALKTMKMRGQAFVIFKELG 60
Query: 76 DAVAAVKRYNNVQLDGKPMKIEIVGTN 102
+ A+++ GKPM+I+ T+
Sbjct: 61 SSTNALRQLQGFPFYGKPMRIQYAKTD 87
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 33.9 bits (76), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 14/92 (15%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLK--------RYSIHYDR-SGRSKGTAEVVYSRRAD 76
+++ L V+ E + + F ++G +K +++ DR +G+ KG A V +
Sbjct: 10 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 69
Query: 77 AVAAVKRYNNVQLDGKPMKIEIVGTNIATRTA 108
A AA+ ++ + G P+K+ + ATR A
Sbjct: 70 AKAAIDWFDGKEFSGNPIKV-----SFATRRA 96
>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 = 33.9 bits (76), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 40/80 (50%), Gaps = 9/80 (11%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLK--------RYSIHYDR-SGRSKGTAEVVYSRRAD 76
+++ L V+ E + + F ++G +K +++ DR +G+ KG A V +
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 77 AVAAVKRYNNVQLDGKPMKI 96
A AA+ ++ + G P+K+
Sbjct: 76 AKAAIDWFDGKEFSGNPIKV 95
>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 = 33.9 bits (76), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVK 82
T L ++ L ++ ++++ LFS +G+++ + D+ +G S G V Y DA A+
Sbjct: 5 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 64
Query: 83 RYNNVQLDGKPMKI 96
N ++L K +K+
Sbjct: 65 TLNGLRLQSKTIKV 78
>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 = 33.9 bits (76), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 21 ETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVA 79
++ KL+I L ++++ +KEL + G LK +++ D +G SKG A Y
Sbjct: 112 DSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 171
Query: 80 AVKRYNNVQLDGKPMKIE 97
A+ N +QL K + ++
Sbjct: 172 AIAGLNGMQLGDKKLLVQ 189
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 33.9 bits (76), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 8/78 (10%)
Query: 24 TKLYISNLDYG-VSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVK 82
++++I NL+ V D++ +FS+ G + S+H KG A V YS A AAV
Sbjct: 28 SRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVH-------KGYAFVQYSNERHARAAVL 80
Query: 83 RYNNVQLDGKPMKIEIVG 100
N L G+ + I + G
Sbjct: 81 GENGRVLAGQTLDINMAG 98
>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 = 33.5 bits (75), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 8/79 (10%)
Query: 12 QQAGRASA-------IETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSK 64
QQ GR S TG +++ L Y + DI FS + + R I GR
Sbjct: 28 QQMGRGSGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFFSPLNPV-RVHIEIGPDGRVT 86
Query: 65 GTAEVVYSRRADAVAAVKR 83
G A+V ++ +AVAA+ +
Sbjct: 87 GEADVEFATHEEAVAAMSK 105
>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 = 33.5 bits (75), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKR 83
KL+I L ++++ +KEL + G LK +++ D +G SKG A Y A+
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 157
Query: 84 YNNVQLDGKPMKIE 97
N +QL K + ++
Sbjct: 158 LNGMQLGDKKLLVQ 171
>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 = 33.5 bits (75), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYD-RSGRSKGTAEVVYSRRADAVAAVKRY 84
L++ +L+ V +E ++ F + + +D ++G S+G V ++ + DA A+
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 85 NNVQLDGKPMKI 96
L+G+P++I
Sbjct: 64 QGQDLNGRPLRI 75
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 33.5 bits (75), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKR 83
KL+I L ++++ +KEL + G LK +++ D +G SKG A Y A+
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 155
Query: 84 YNNVQLDGKPMKIE 97
N +QL K + ++
Sbjct: 156 LNGMQLGDKKLLVQ 169
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 33.1 bits (74), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKR 83
KL+I L ++++ +KEL + G LK +++ D +G SKG A Y A+
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 84 YNNVQLDGKPMKIE 97
N +QL K + ++
Sbjct: 63 LNGMQLGDKKLLVQ 76
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 33.1 bits (74), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 14/95 (14%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKR 83
++L++ NL ++ E++++LF + G IH D KG + R A A
Sbjct: 23 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-----KGFGFIRLETRTLAEIA--- 74
Query: 84 YNNVQLDGKPMKIEIVGTNIATRTAAPAANVNFGN 118
V+LD P++ G + R A +A++ N
Sbjct: 75 --KVELDNMPLR----GKQLRVRFACHSASLTVRN 103
>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 = 33.1 bits (74), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 40/68 (58%), Gaps = 2/68 (2%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
++I L + + +D+K+ FS+ G++ ++ D +GRS+G V++ + +++V V
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLF-KESESVDKVMDQ 60
Query: 85 NNVQLDGK 92
+L+GK
Sbjct: 61 KEHKLNGK 68
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 33.1 bits (74), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 4/87 (4%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
+++ +D + +I+ F+ G +K I DR+G SKG V + D V+ +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--S 69
Query: 86 NVQLDGKPMKI--EIVGTNIATRTAAP 110
+ GK +K+ I N++T P
Sbjct: 70 QINFHGKKLKLGPAIRKQNLSTYHVQP 96
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
Length = 88
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 36/68 (52%), Gaps = 3/68 (4%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRS---GRSKGTAEVVYSRRADAVAAV 81
K+++ + S +D++ELF + G + ++ DRS +SKG V + R A+ A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 82 KRYNNVQL 89
+N+++
Sbjct: 65 NALHNMKV 72
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/98 (22%), Positives = 47/98 (47%), Gaps = 3/98 (3%)
Query: 14 AGRASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLK--RYSIHYDRSGRSKGTAEVVY 71
+G+ +T +K+ + N+ + + +I+ELFS G+LK R +G +G V +
Sbjct: 6 SGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDF 65
Query: 72 SRRADAVAAVKRY-NNVQLDGKPMKIEIVGTNIATRTA 108
+ DA A ++ L G+ + +E + + ++
Sbjct: 66 ITKQDAKKAFNALCHSTHLYGRRLVLEWADSEVTVQSG 103
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 6/74 (8%)
Query: 22 TGTKLYISNLDYGVSNEDIKELFSEVGDLKR-YSIHYDRSGRSKGTAEVVYSRRADAVAA 80
T L ++NL ++ + +EL G L+R + ++ +R+G+SKG Y ++ A A
Sbjct: 94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
Query: 81 VKRYNNVQLDGKPM 94
L GKP+
Sbjct: 154 -----KSDLLGKPL 162
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 6/78 (7%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
K+ I L V+N+++ +L S+ Y + Y + KGTA V A AA+ +
Sbjct: 24 KILIRGLPGDVTNQEVHDLLSD------YELKYCFVDKYKGTAFVTLLNGEQAEAAINAF 77
Query: 85 NNVQLDGKPMKIEIVGTN 102
+ +L + + +++ T+
Sbjct: 78 HQSRLRERELSVQLQPTD 95
>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 = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 6/74 (8%)
Query: 22 TGTKLYISNLDYGVSNEDIKELFSEVGDLKR-YSIHYDRSGRSKGTAEVVYSRRADAVAA 80
T L ++NL ++ + +EL G L+R + ++ +R+G+SKG Y ++ A A
Sbjct: 92 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
Query: 81 VKRYNNVQLDGKPM 94
L GKP+
Sbjct: 152 -----KSDLLGKPL 160
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 6/78 (7%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
K+ I L V+N+++ +L S+ Y + Y + KGTA V A AA+ +
Sbjct: 22 KILIRGLPGDVTNQEVHDLLSD------YELKYCFVDKYKGTAFVTLLNGEQAEAAINAF 75
Query: 85 NNVQLDGKPMKIEIVGTN 102
+ +L + + +++ T+
Sbjct: 76 HQSRLRERELSVQLQPTD 93
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 6/74 (8%)
Query: 22 TGTKLYISNLDYGVSNEDIKELFSEVGDLKR-YSIHYDRSGRSKGTAEVVYSRRADAVAA 80
T L ++NL ++ + +EL G L+R + ++ +R+G+SKG Y ++ A A
Sbjct: 94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
Query: 81 VKRYNNVQLDGKPM 94
L GKP+
Sbjct: 154 -----KSDLLGKPL 162
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 6/78 (7%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
K+ I L V+N+++ +L S+ Y + Y + KGTA V A AA+ +
Sbjct: 24 KILIRGLPGDVTNQEVHDLLSD------YELKYCFVDKYKGTAFVTLLNGEQAEAAINAF 77
Query: 85 NNVQLDGKPMKIEIVGTN 102
+ +L + + +++ T+
Sbjct: 78 HQSRLRERELSVQLQPTD 95
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 2/71 (2%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
+++ +D + +I+ F+ G +K I DR+G SKG V + D V+ +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--S 70
Query: 86 NVQLDGKPMKI 96
+ GK +K+
Sbjct: 71 QINFHGKKLKL 81
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 2/71 (2%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
+++ +D + +I+ F+ G +K I DR+G SKG V + D V+ +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--S 69
Query: 86 NVQLDGKPMKI 96
+ GK +K+
Sbjct: 70 QINFHGKKLKL 80
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 43/98 (43%), Gaps = 11/98 (11%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKR 83
KL++ LD+ + E ++ FS+ G++ I D+ + +S+G V + + + V V
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF-KDPNCVGTVLA 76
Query: 84 YNNVQLDGKPMKIEIVGTNIATRTAAPAANVNFGNSNG 121
LDG+ NI + P G S+G
Sbjct: 77 SRPHTLDGR---------NIDPKPCTPRGMQPSGPSSG 105
>pdb|3EGN|A Chain A, C-Terminal Rna Recognition Motif Of The U11U12 65K PROTEIN
Length = 143
Score = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 42/104 (40%), Gaps = 12/104 (11%)
Query: 21 ETGTKLYISNLDYGVSNEDIKELFSEVGDLK------RYSIHYDRSGRSKGTAEVVYSRR 74
E ++Y+ NL V +D+K +F D + I + GR KG A +
Sbjct: 43 EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNE 102
Query: 75 ADAVAAVKRYNNVQLDGKPMKIEIVGTNIATRTAAPAANVNFGN 118
A A+K N L GKPM ++ R+A P + G
Sbjct: 103 KAAAKALKEANGYVLFGKPMVVQF------ARSARPKQDPKEGK 140
>pdb|2CPI|A Chain A, Solution Structure Of The Rna Recognition Motif Of Cnot4
Length = 111
Score = 31.6 bits (70), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 5/75 (6%)
Query: 42 ELFSEVGDLKRYSIH----YDRSGRSKGTAEVVYSRRADAVAAVKRYNNVQLDGKPMKIE 97
E F + G + + I+ Y S +A V Y R DA+ A++ NNV +DG+ +K
Sbjct: 37 EYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKAS 96
Query: 98 IVGTNIATRTAAPAA 112
+ GT + P++
Sbjct: 97 L-GTTKYCSYSGPSS 110
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 31.2 bits (69), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 26/62 (41%)
Query: 24 TKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKR 83
T LYISNL + ++++ + G + I D SG S+G A +
Sbjct: 26 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGH 85
Query: 84 YN 85
+N
Sbjct: 86 FN 87
>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 = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
LY+ +L V+ + E FS G + + D + RS G A V + + ADA A+
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 77
Query: 85 NNVQLDGKPMKI 96
N + GKP++I
Sbjct: 78 NFDVIKGKPVRI 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 = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
LY+ +L V+ + E FS G + + D + RS G A V + + ADA A+
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 85 NNVQLDGKPMKI 96
N + GKP++I
Sbjct: 73 NFDVIKGKPVRI 84
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In
Rna-Binding Protein 14
Length = 90
Score = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 37/74 (50%), Gaps = 7/74 (9%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
K+++ N+ ++++++ LF G + + D A V + ADA AA+ +
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVKD-------YAFVHMEKEADAKAAIAQL 63
Query: 85 NNVQLDGKPMKIEI 98
N ++ GK + +E+
Sbjct: 64 NGKEVKGKRINVEL 77
>pdb|3BEG|B Chain B, Crystal Structure Of Sr Protein Kinase 1 Complexed To
Its Substrate AsfSF2
Length = 115
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
++ +S L S +D+K+ E GD+ ++ D GT V + R+ D AV++
Sbjct: 18 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD------GTGVVEFVRKEDMTYAVRKL 71
Query: 85 NNVQL 89
+N +
Sbjct: 72 DNTKF 76
>pdb|2O3D|A Chain A, Structure Of Human Sf2ASF RNA RECOGNITION MOTIF 2 (RRM2)
Length = 113
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
++ +S L S +D+K+ E GD+ ++ D GT V + R+ D AV++
Sbjct: 17 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD------GTGVVEFVRKEDMTYAVRKL 70
Query: 85 NNVQL 89
+N +
Sbjct: 71 DNTKF 75
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 37/83 (44%), Gaps = 2/83 (2%)
Query: 16 RASAIETGTKLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRA 75
R A ++Y+ NL + +DI+++F + G ++ + R G A V +
Sbjct: 15 RGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPP--FAFVEFEDPR 72
Query: 76 DAVAAVKRYNNVQLDGKPMKIEI 98
DA AV + DG +++E
Sbjct: 73 DAEDAVYGRDGYDYDGYRLRVEF 95
>pdb|1X4C|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 2
Length = 108
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
++ +S L S +D+K+ E GD+ ++ D GT V + R+ D AV++
Sbjct: 17 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD------GTGVVEFVRKEDMTYAVRKL 70
Query: 85 NNVQL 89
+N +
Sbjct: 71 DNTKF 75
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%), Gaps = 12/77 (15%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGR---SKGTAEVVYSRRADAVAAV 81
KLYI NL V+ +D+++LF GD K +G+ G A V Y + A+ A+
Sbjct: 10 KLYIGNLSPAVTADDLRQLF---GDRK-----LPLAGQVLLKSGYAFVDYPDQNWAIRAI 61
Query: 82 KRYNN-VQLDGKPMKIE 97
+ + V+L GK M+++
Sbjct: 62 ETLSGKVELHGKIMEVD 78
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 4/73 (5%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDR-SGRSKGTAEVVYSRRADAVAAVKRY 84
L++ L + E +KE F G + R I DR +G SKG V ++ DA AA +
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSV-RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 85 NNVQLDGKPMKIE 97
+ ++DG + ++
Sbjct: 75 EDGEIDGNKVTLD 87
>pdb|3H2V|E Chain E, Human Raver1 Rrm1 Domain In Complex With Human Vinculin
Tail Domain Vt
pdb|3H2V|F Chain F, Human Raver1 Rrm1 Domain In Complex With Human Vinculin
Tail Domain Vt
pdb|3H2V|G Chain G, Human Raver1 Rrm1 Domain In Complex With Human Vinculin
Tail Domain Vt
pdb|3H2V|H Chain H, Human Raver1 Rrm1 Domain In Complex With Human Vinculin
Tail Domain Vt
Length = 74
Score = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
K+ I L V+N+++ +L S+ Y + Y + KGTA V A AA+ +
Sbjct: 4 KILIRGLPGDVTNQEVHDLLSD------YELKYCFVDKYKGTAFVTLLNGEQAEAAINAF 57
Query: 85 NNVQLDGKPMKIEIVGT 101
+ +L + + +++ T
Sbjct: 58 HQSRLRERELSVQLQPT 74
>pdb|1WI6|A Chain A, Solution Structure Of The Rna Binding Domain From Mouse
Hypothetical Protein Bab23670
Length = 88
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 42/87 (48%), Gaps = 7/87 (8%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
+ I L V+N+++ +L S+ Y + Y + KGTA V A AA+ ++
Sbjct: 8 ILIRGLPGDVTNQEVHDLLSD------YELKYCFVDKYKGTAFVTLLNGEQAEAAINTFH 61
Query: 86 NVQLDGKPMKIEIVGTNIATRTAAPAA 112
+L + + +++ T+ A + P++
Sbjct: 62 QSRLRERELSVQLQPTD-ALLCSGPSS 87
>pdb|1JMT|A Chain A, X-Ray Structure Of A Core U2af65U2AF35 HETERODIMER
Length = 104
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 33/66 (50%), Gaps = 4/66 (6%)
Query: 37 NEDIKELFSEV----GDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYNNVQLDGK 92
+E +E+F+E+ G+++ ++ + G V + R DA AV NN +G+
Sbjct: 37 DEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQ 96
Query: 93 PMKIEI 98
P+ E+
Sbjct: 97 PIHAEL 102
>pdb|2JVR|A Chain A, Segmental Isotope Labeling Of Npl3p
Length = 111
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
++ + NL G S +D+K+L E +S R GT + + V A++R
Sbjct: 30 RITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRD--FDGTGALEFPSEEILVEALERL 87
Query: 85 NNVQLDGKPMKIE 97
NN++ G + +E
Sbjct: 88 NNIEFRGSVITVE 100
>pdb|2OSR|A Chain A, Nmr Structure Of Rrm-2 Of Yeast Npl3 Protein
Length = 87
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 25 KLYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRY 84
++ + NL G S +D+K+L E +S R GT + + V A++R
Sbjct: 8 RITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRD--FDGTGALEFPSEEILVEALERL 65
Query: 85 NNVQLDGKPMKIE 97
NN++ G + +E
Sbjct: 66 NNIEFRGSVITVE 78
>pdb|2ADC|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd34 Complexed With Cucucu Rna
pdb|2EVZ|A Chain A, Structure Of Rna Binding Domains 3 And 4 Of Polypyrimidine
Tract Binding Protein
Length = 229
Score = 26.6 bits (57), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 26 LYISNLDYGVSNEDIKELFSEVG 48
L++SN+ VS ED+K LFS G
Sbjct: 154 LHLSNIPPSVSEEDLKVLFSSNG 176
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 42/87 (48%), Gaps = 2/87 (2%)
Query: 26 LYISNLDYGVSNEDIKELFSEVGDLKRYSIHYDRSGRSKGTAEVVYSRRADAVAAVKRYN 85
LY+ NL V+ I +LFS++G K + + + Y R DA AA+ N
Sbjct: 18 LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHR-DAAAALAAMN 76
Query: 86 NVQLDGKPMKIEIVGTNIATRTAAPAA 112
++ GK +K+ T +++ + P++
Sbjct: 77 GRKILGKEVKVNWA-TTPSSQKSGPSS 102
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 26 LYISNLDYGVSNEDIKELFSEVG 48
L++SN+ VS ED+K LFS G
Sbjct: 123 LHLSNIPPSVSEEDLKVLFSSNG 145
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
0.310 0.127 0.342
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,010,225
Number of Sequences: 62578
Number of extensions: 135391
Number of successful extensions: 464
Number of sequences better than 100.0: 139
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 65
Number of HSP's that attempted gapping in prelim test: 355
Number of HSP's gapped (non-prelim): 152
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 48 (23.1 bits)