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= 016936
(380 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 176 bits (447), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 94/199 (47%), Positives = 129/199 (64%), Gaps = 10/199 (5%)
Query: 32 ARRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKKFAFVEMRTVE 91
ARR+YVG +P E+A+ FF+ M +GG + PG+ V+ V IN +K FAF+E R+V+
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMR-LGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62
Query: 92 EASNAMALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQPSPNLNLAAVGLASGAIGGAEG 151
E + AMA DGIIF+G ++++RRP DY P PG S N ++ G+ S + +
Sbjct: 63 ETTQAMAFDGIIFQGQSLKIRRPHDYQPL------PGM-SENPSVYVPGVVSTVV--PDS 113
Query: 152 PDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIAC 211
++F+GGLP Y + Q+KELL SFG L F+LVKD TG SKGY FC Y D VTD A
Sbjct: 114 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173
Query: 212 AALNGLKMGDKTLTVRRAT 230
A LNG+++GDK L V+RA+
Sbjct: 174 AGLNGMQLGDKKLLVQRAS 192
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 170 bits (430), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 91/199 (45%), Positives = 121/199 (60%), Gaps = 30/199 (15%)
Query: 32 ARRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKKFAFVEMRTVE 91
ARR+YVG +P E+A+ FF+ M +GG + PG+ V+ V IN +K FAF+E R+V+
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMR-LGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62
Query: 92 EASNAMALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQPSPNLNLAAVGLASGAIGGAEG 151
E + AMA DGIIF+G ++++RRP DY QP P G
Sbjct: 63 ETTQAMAFDGIIFQGQSLKIRRPHDY-----------QPLP------------------G 93
Query: 152 PDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIAC 211
++F+GGLP Y + Q+KELL SFG L F+LVKD TG SKGY FC Y D VTD A
Sbjct: 94 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 153
Query: 212 AALNGLKMGDKTLTVRRAT 230
A LNG+++GDK L V+RA+
Sbjct: 154 AGLNGMQLGDKKLLVQRAS 172
>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 = 169 bits (429), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 91/199 (45%), Positives = 121/199 (60%), Gaps = 30/199 (15%)
Query: 32 ARRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKKFAFVEMRTVE 91
ARR+YVG +P E+A+ FF+ M +GG + PG+ V+ V IN +K FAF+E R+V+
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMR-LGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 64
Query: 92 EASNAMALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQPSPNLNLAAVGLASGAIGGAEG 151
E + AMA DGIIF+G ++++RRP DY QP P G
Sbjct: 65 ETTQAMAFDGIIFQGQSLKIRRPHDY-----------QPLP------------------G 95
Query: 152 PDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIAC 211
++F+GGLP Y + Q+KELL SFG L F+LVKD TG SKGY FC Y D VTD A
Sbjct: 96 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 155
Query: 212 AALNGLKMGDKTLTVRRAT 230
A LNG+++GDK L V+RA+
Sbjct: 156 AGLNGMQLGDKKLLVQRAS 174
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 45/77 (58%), Positives = 56/77 (72%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+GGLP Y + Q+KELL SFG L F+LVKD TG SKGY FC Y D VTD A A
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 214 LNGLKMGDKTLTVRRAT 230
LNG+++GDK L V+RA+
Sbjct: 63 LNGMQLGDKKLLVQRAS 79
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 92.4 bits (228), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 43/88 (48%), Positives = 62/88 (70%), Gaps = 1/88 (1%)
Query: 32 ARRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKKFAFVEMRTVE 91
ARR+YVG +P E+A+ FF+ M +GG + PG+ V+ V IN +K FAF+E R+V+
Sbjct: 1 ARRLYVGNIPFGITEEAMMDFFNAQMR-LGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 59
Query: 92 EASNAMALDGIIFEGVAVRVRRPTDYNP 119
E + AMA DGIIF+G ++++RRP DY P
Sbjct: 60 ETTQAMAFDGIIFQGQSLKIRRPHDYQP 87
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large
Subunit
Length = 87
Score = 84.7 bits (208), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 40/83 (48%), Positives = 59/83 (71%), Gaps = 1/83 (1%)
Query: 32 ARRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKKFAFVEMRTVE 91
ARR+YVG +P E+A+ FF+ M +GG + PG+ V+ V IN +K FAF+E R+V+
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMR-LGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 64
Query: 92 EASNAMALDGIIFEGVAVRVRRP 114
E + AMA DGIIF+G ++++RRP
Sbjct: 65 ETTQAMAFDGIIFQGQSLKIRRP 87
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 38/88 (43%), Positives = 50/88 (56%), Gaps = 2/88 (2%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
VFVG +PY TE Q+K++ G + F LV DR+TG KGYGFC YQD A L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 215 NGLKMGDKTLTVRRATASSGQSKTEQES 242
NG + + L V A+S ++K E +S
Sbjct: 71 NGREFSGRALRV--DNAASEKNKEELKS 96
Score = 35.8 bits (81), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 48/106 (45%), Gaps = 14/106 (13%)
Query: 30 RHARRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHE---KKFAFVE 86
R R V+VG +P A E+ + FS+V GP + VY K + F E
Sbjct: 6 RSLRSVFVGNIPYEATEEQLKDIFSEV---------GPVVSFRLVYDRETGKPKGYGFCE 56
Query: 87 MRTVEEASNAMA-LDGIIFEGVAVRVRR-PTDYNPTLAAALGPGQP 130
+ E A +AM L+G F G A+RV ++ N +LG G P
Sbjct: 57 YQDQETALSAMRNLNGREFSGRALRVDNAASEKNKEELKSLGTGAP 102
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 62.4 bits (150), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 34/79 (43%), Positives = 42/79 (53%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+ V LP T+ + K L S G + LV+D+ TG S GYGF Y DP D A L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 215 NGLKMGDKTLTVRRATASS 233
NGLK+ KT+ V A SS
Sbjct: 67 NGLKLQTKTIKVSYARPSS 85
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 34/64 (53%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
++V GLP ++ ++++L +G + ++ D+ TG S+G GF + + A L
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 215 NGLK 218
NG K
Sbjct: 153 NGQK 156
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 61.2 bits (147), Expect = 8e-10, Method: Composition-based stats.
Identities = 29/83 (34%), Positives = 44/83 (53%)
Query: 148 GAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVT 207
G+ GP R++VG L + TE ++ + E FG + L+ D +TG SKGYGF + D
Sbjct: 22 GSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECA 81
Query: 208 DIACAALNGLKMGDKTLTVRRAT 230
A LNG ++ + + V T
Sbjct: 82 KKALEQLNGFELAGRPMKVGHVT 104
>pdb|4FXW|A Chain A, Structure Of Phosphorylated Sf1 Complex With U2af65-uhm
Domain
pdb|4FXW|C Chain C, Structure Of Phosphorylated Sf1 Complex With U2af65-uhm
Domain
Length = 106
Score = 61.2 bits (147), Expect = 9e-10, Method: Composition-based stats.
Identities = 28/70 (40%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 309 CGKYGTLVNVVIPRPDQNGGETPGVGKVFLEYYDAVGCATAKNALSGRKFGGNTVNAFYY 368
C KYG + ++ IPRP +G E PG GK+F+E+ C A L+GRKF V Y
Sbjct: 37 CSKYGLVKSIEIPRP-VDGVEVPGCGKIFVEFTSVFDCQKAXQGLTGRKFANRVVVTKYC 95
Query: 369 PEDKYFNKDY 378
D Y +D+
Sbjct: 96 DPDSYHRRDF 105
>pdb|3V4M|A Chain A, Crystal Structure Of A Rna Binding Domain Of A U2 Small
Nuclear Ribonucleoprotein Auxiliary Factor 2 (U2af) From
Mus Musculus At 1.80 A Resolution
pdb|3V4M|B Chain B, Crystal Structure Of A Rna Binding Domain Of A U2 Small
Nuclear Ribonucleoprotein Auxiliary Factor 2 (U2af) From
Mus Musculus At 1.80 A Resolution
Length = 105
Score = 61.2 bits (147), Expect = 9e-10, Method: Composition-based stats.
Identities = 28/70 (40%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 309 CGKYGTLVNVVIPRPDQNGGETPGVGKVFLEYYDAVGCATAKNALSGRKFGGNTVNAFYY 368
C KYG + ++ IPRP +G E PG GK+F+E+ C A L+GRKF V Y
Sbjct: 36 CSKYGLVKSIEIPRP-VDGVEVPGCGKIFVEFTSVFDCQKAXQGLTGRKFANRVVVTKYC 94
Query: 369 PEDKYFNKDY 378
D Y +D+
Sbjct: 95 DPDSYHRRDF 104
>pdb|1OPI|A Chain A, Solution Structure Of The Third Rna Recognition Motif
(Rrm) Of U2af65 In Complex With An N-Terminal Sf1
Peptide
pdb|2M0G|B Chain B, Structure, Phosphorylation And U2af65 Binding Of The
Nterminal Domain Of Splicing Factor 1 During 3 Splice
Site Recognition
Length = 104
Score = 61.2 bits (147), Expect = 1e-09, Method: Composition-based stats.
Identities = 28/70 (40%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 309 CGKYGTLVNVVIPRPDQNGGETPGVGKVFLEYYDAVGCATAKNALSGRKFGGNTVNAFYY 368
C KYG + ++ IPRP +G E PG GK+F+E+ C A L+GRKF V Y
Sbjct: 35 CSKYGLVKSIEIPRP-VDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYC 93
Query: 369 PEDKYFNKDY 378
D Y +D+
Sbjct: 94 DPDSYHRRDF 103
>pdb|1O0P|A Chain A, Solution Structure Of The Third Rna Recognition Motif
(Rrm) Of U2af65 In Complex With An N-Terminal Sf1
Peptide
Length = 104
Score = 61.2 bits (147), Expect = 1e-09, Method: Composition-based stats.
Identities = 28/70 (40%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 309 CGKYGTLVNVVIPRPDQNGGETPGVGKVFLEYYDAVGCATAKNALSGRKFGGNTVNAFYY 368
C KYG + ++ IPRP +G E PG GK+F+E+ C A L+GRKF V Y
Sbjct: 35 CSKYGLVKSIEIPRP-VDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYC 93
Query: 369 PEDKYFNKDY 378
D Y +D+
Sbjct: 94 DPDSYHRRDF 103
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 60.8 bits (146), Expect = 1e-09, Method: Composition-based stats.
Identities = 34/80 (42%), Positives = 42/80 (52%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+ V LP T+ + K L S G + LV+D+ TG S GYGF Y DP D A L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 215 NGLKMGDKTLTVRRATASSG 234
NGLK+ KT+ V A SS
Sbjct: 67 NGLKLQTKTIKVSYARPSSA 86
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 40/69 (57%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++FVGGLPY+ T+ +++ E FG + ++ DR TG S+GYGF D A + AC
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 214 LNGLKMGDK 222
N + G K
Sbjct: 79 PNPIIDGRK 87
>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 = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 43/159 (27%), Positives = 74/159 (46%), Gaps = 20/159 (12%)
Query: 73 NVYINHEKKFAFVEMRTVEEASNAMA-LDGIIFEGVAVRVRRPTDYNPTLAAALGPGQPS 131
+V + H K FAFVE E A A+ ++ ++ G ++V RP++ GQ
Sbjct: 64 SVTMKH-KGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNI----------GQAQ 112
Query: 132 PNLNLAAVGLASGAIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTG 191
P ++ A A +R++V + ++ IK + E+FG + L +D TG
Sbjct: 113 PIIDQLA--------EEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTG 164
Query: 192 NSKGYGFCVYQDPAVTDIACAALNGLKMGDKTLTVRRAT 230
KGYGF Y+ + A +++N +G + L V +A
Sbjct: 165 KHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAV 203
Score = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
RV+VG + Y E I++ FG + D+ D T KG+ F Y+ P +A
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 89
Query: 214 LNGLKMGDKTLTVRRAT 230
+N + +G + + V R +
Sbjct: 90 MNSVMLGGRNIKVGRPS 106
>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 = 58.9 bits (141), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 53/202 (26%), Positives = 88/202 (43%), Gaps = 33/202 (16%)
Query: 34 RVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVV----NVYINHEKKFAFVEMRT 89
RVYVG + E I F+ GP ++ +V + H K FAFVE
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPF---------GPIKSIDMSWDSVTMKH-KGFAFVEYEV 64
Query: 90 VEEASNAMA-LDGIIFEGVAVRVRRPTDYNPTLAAALGPGQPSPNLNLAAVGLASGAIGG 148
E A A+ ++ ++ G ++V RP++ GQ P ++ A
Sbjct: 65 PEAAQLALEQMNSVMLGGRNIKVGRPSNI----------GQAQPIIDQLA--------EE 106
Query: 149 AEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTD 208
A +R++V + ++ IK + E+FG + L +D TG KGYGF Y+ +
Sbjct: 107 ARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQ 166
Query: 209 IACAALNGLKMGDKTLTVRRAT 230
A +++N +G + L V +A
Sbjct: 167 DAVSSMNLFDLGGQYLRVGKAV 188
>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 = 58.2 bits (139), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 42/79 (53%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+ V LP T+ + + L S G + LV+D+ TG S GYGF Y DP + A L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 215 NGLKMGDKTLTVRRATASS 233
NGL++ KT+ V A SS
Sbjct: 65 NGLRLQTKTIKVSYARPSS 83
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 34/64 (53%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
++V GLP T+ ++++L +G + ++ D+ TG S+G GF + + A L
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 215 NGLK 218
NG K
Sbjct: 151 NGQK 154
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 57.0 bits (136), Expect = 2e-08, Method: Composition-based stats.
Identities = 29/83 (34%), Positives = 43/83 (51%)
Query: 148 GAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVT 207
G+ G ++VG L + TE ++ + E FG + L+KD DTG SKGYGF + D
Sbjct: 1 GSSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECA 60
Query: 208 DIACAALNGLKMGDKTLTVRRAT 230
A LNG ++ + + V T
Sbjct: 61 RRALEQLNGFELAGRPMRVGHVT 83
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+ V +P E Q+++L E +G + +V DR+T S+GYGF +Q + A A L
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 215 NGLKMGDKTLTVRRATASSGQSK 237
NG + +K L V A A+SG +
Sbjct: 105 NGFNILNKRLKV--ALAASGHQR 125
>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 = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 51/200 (25%), Positives = 82/200 (41%), Gaps = 29/200 (14%)
Query: 34 RVYVGGLPPLANEQAIATFFSQV--MTAIGGNSAGPGDAVVNVYINHEKKFAFVEMRTVE 91
RVYVG + E I F+ + +I D + K FAFVE E
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSI--------DXSWDSVTXKHKGFAFVEYEVPE 65
Query: 92 EASNAMA-LDGIIFEGVAVRVRRPTDYNPTLAAALGPGQPSPNLNLAAVGLASGAIGGAE 150
A A+ + + G ++V RP++ GQ P ++ A A
Sbjct: 66 AAQLALEQXNSVXLGGRNIKVGRPSNI----------GQAQPIIDQLA--------EEAR 107
Query: 151 GPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIA 210
+R++V + ++ IK + E+FG + L +D TG KGYGF Y+ + A
Sbjct: 108 AFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDA 167
Query: 211 CAALNGLKMGDKTLTVRRAT 230
++ N +G + L V +A
Sbjct: 168 VSSXNLFDLGGQYLRVGKAV 187
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
++VG L Y T Q+KEL FG + L+ DR+T KG+GF Q+ +V++ A A L
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSE-AIAKL 62
Query: 215 NGLKMGDKTLTVRRA 229
+ +T+ V A
Sbjct: 63 DNTDFMGRTIRVTEA 77
Score = 32.3 bits (72), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 40/91 (43%), Gaps = 17/91 (18%)
Query: 33 RRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKK---FAFVEMRT 89
R +YVG L A + + FSQ G V +Y KK F FVEM+
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQF---------GKVFNVKLIYDRETKKPKGFGFVEMQE 52
Query: 90 VEEASNAMA-LDGIIFEGVAVRVRRPTDYNP 119
E S A+A LD F G +RV T+ NP
Sbjct: 53 -ESVSEAIAKLDNTDFMGRTIRV---TEANP 79
>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 = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 42/83 (50%)
Query: 151 GPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIA 210
G + V LP T+ +++ L S G + L++D+ G+S GYGF Y + A
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 211 CAALNGLKMGDKTLTVRRATASS 233
LNGL++ KT+ V A SS
Sbjct: 61 INTLNGLRLQSKTIKVSYARPSS 83
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 33/64 (51%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+++ GLP T+ ++++ FG + ++ D+ TG S+G F + + + A +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 215 NGLK 218
NG K
Sbjct: 151 NGHK 154
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 42/83 (50%)
Query: 151 GPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIA 210
G + V LP T+ +++ L S G + L++D+ G+S GYGF Y + A
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 211 CAALNGLKMGDKTLTVRRATASS 233
LNGL++ KT+ V A SS
Sbjct: 61 INTLNGLRLQSKTIKVSYARPSS 83
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 33/64 (51%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+++ GLP T+ ++++ FG + ++ D+ TG S+G F + + + A +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 215 NGLK 218
NG K
Sbjct: 151 NGHK 154
>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 = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 2/84 (2%)
Query: 151 GPDR--VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTD 208
GP R + V LP T+ +++ L S G + L++D+ G+S GYGF Y +
Sbjct: 1 GPGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAE 60
Query: 209 IACAALNGLKMGDKTLTVRRATAS 232
A LNGL++ KT+ V A S
Sbjct: 61 RAINTLNGLRLQSKTIKVSYARPS 84
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 45/80 (56%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++FVGGL + E ++++ +G + +VKDR+T S+G+GF +++ A A
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 214 LNGLKMGDKTLTVRRATASS 233
+NG + + + V +A SS
Sbjct: 74 MNGKSVDGRQIRVDQAGKSS 93
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 13/82 (15%)
Query: 34 RVYVGGLPPLANEQAIATFFS---QVMTAIGGNSAGPGDAVVNVYINHEKKFAFVEMRTV 90
+++VGGL NEQ++ FS Q+ + V + + F FV +
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVV---------VVKDRETQRSRGFGFVTFENI 64
Query: 91 EEASNA-MALDGIIFEGVAVRV 111
++A +A MA++G +G +RV
Sbjct: 65 DDAKDAMMAMNGKSVDGRQIRV 86
>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 = 50.1 bits (118), Expect = 2e-06, Method: Composition-based stats.
Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 151 GPDRV-FVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDI 209
GP RV ++G +PY TE QI +L + G + ++ D TG SKGY F ++D +
Sbjct: 1 GPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSAS 60
Query: 210 ACAALNGLKMGDKTL 224
A LNG ++G + L
Sbjct: 61 AVRNLNGYQLGSRFL 75
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 42/80 (52%), Gaps = 2/80 (2%)
Query: 150 EGPD--RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVT 207
EGP+ +F+ LP FT+T + FG + + D+ T SK +GF + +P
Sbjct: 36 EGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSA 95
Query: 208 DIACAALNGLKMGDKTLTVR 227
+A A+NG ++G K L V+
Sbjct: 96 QVAIKAMNGFQVGTKRLKVQ 115
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 49.3 bits (116), Expect = 4e-06, Method: Composition-based stats.
Identities = 28/89 (31%), Positives = 46/89 (51%), Gaps = 2/89 (2%)
Query: 148 GAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVT 207
G+ G ++FV LP+ FT +K+ G + D+ + G SKG G ++ P V
Sbjct: 4 GSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVA 61
Query: 208 DIACAALNGLKMGDKTLTVRRATASSGQS 236
+ AC +NG+K+ + + VR +SG S
Sbjct: 62 ERACRMMNGMKLSGREIDVRIDRNASGPS 90
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 48.9 bits (115), Expect = 4e-06, Method: Composition-based stats.
Identities = 28/89 (31%), Positives = 45/89 (50%), Gaps = 2/89 (2%)
Query: 148 GAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVT 207
G+ G +FV LP+ FT +K+ G + D+ + G SKG G ++ P V
Sbjct: 1 GSSGSSGIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVA 58
Query: 208 DIACAALNGLKMGDKTLTVRRATASSGQS 236
+ AC +NG+K+ + + VR +SG S
Sbjct: 59 ERACRMMNGMKLSGREIDVRIDRNASGPS 87
>pdb|2CPZ|A Chain A, Solution Structure Of Rna Binding Domain 3 In Cug Triplet
Repeat Rna-Binding Protein 1
pdb|2RQ4|A Chain A, Refinement Of Rna Binding Domain 3 In Cug Triplet Repeat
Rna-Binding Protein 1
pdb|2RQC|A Chain A, Solution Structure Of Rna-Binding Domain 3 Of Cugbp1 In
Complex With Rna (Ug)3
Length = 115
Score = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 47/94 (50%), Gaps = 6/94 (6%)
Query: 140 GLASGAIGGA----EGPD--RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNS 193
GL +IG A EGP+ +F+ LP F + + ++ FG + + D+ T S
Sbjct: 7 GLTQQSIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLS 66
Query: 194 KGYGFCVYQDPAVTDIACAALNGLKMGDKTLTVR 227
K +GF Y +P A ++NG ++G K L V+
Sbjct: 67 KCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQ 100
>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 = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 44/85 (51%), Gaps = 2/85 (2%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+GGL + TE ++E +GT+ ++KD TG S+G+GF ++ P+ D
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 214 LNGLKMGDKTLTVRRATASSGQSKT 238
+ L K + +RA Q KT
Sbjct: 65 QHIL--DGKVIDPKRAIPRDEQDKT 87
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 1/76 (1%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++FVGG+ + +E +GT+ L+ D+DTG S+G+GF Y D C
Sbjct: 89 KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQN 148
Query: 214 LNGLKMGDKTLTVRRA 229
+ D+ + ++RA
Sbjct: 149 -KFIDFKDRKIEIKRA 163
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 48.5 bits (114), Expect = 7e-06, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 152 PDRV-FVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIA 210
P RV ++G +PY TE QI +L + G + ++ D TG SKGY F ++D + A
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 211 CAALNGLKMGDKTL 224
LNG ++G + L
Sbjct: 61 VRNLNGYQLGSRFL 74
>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 = 48.1 bits (113), Expect = 8e-06, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 152 PDRV-FVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIA 210
P RV ++G +PY TE QI +L + G + ++ D TG SKGY F ++D + A
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 62
Query: 211 CAALNGLKMGDKTL 224
LNG ++G + L
Sbjct: 63 VRNLNGYQLGSRFL 76
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 47.8 bits (112), Expect = 9e-06, Method: Composition-based stats.
Identities = 28/88 (31%), Positives = 45/88 (51%), Gaps = 1/88 (1%)
Query: 149 AEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTD 208
A+ P ++F+GGL E +K + G + L+KDR T S+G+ F +++PA
Sbjct: 4 ADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAK 62
Query: 209 IACAALNGLKMGDKTLTVRRATASSGQS 236
A +NG + K + V +A S QS
Sbjct: 63 NAAKDMNGKSLHGKAIKVEQAKKPSFQS 90
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 42/184 (22%), Positives = 73/184 (39%), Gaps = 45/184 (24%)
Query: 33 RRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKK--FAFVEMRTV 90
R++++GGL ++++ + F Q T D VV N ++ F FV TV
Sbjct: 15 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 66
Query: 91 EEASNAM-----ALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQ-PSPNLNLAAVGLASG 144
EE AM +DG + E P A + Q P +L +
Sbjct: 67 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 106
Query: 145 AIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDP 204
++FVGG+ E +++ E +G + +++ DR +G +G+ F + D
Sbjct: 107 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 157
Query: 205 AVTD 208
D
Sbjct: 158 DSVD 161
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 36/62 (58%), Gaps = 3/62 (4%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+GGL + T+ ++ E +GTL +++D +T S+G+GF Y A + AA
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 72
Query: 214 LN 215
+N
Sbjct: 73 MN 74
>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 = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 40/78 (51%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+ V LP T+ +++ L S G + L++D+ G+S GYGF Y + A L
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 215 NGLKMGDKTLTVRRATAS 232
NGL++ KT+ V A S
Sbjct: 82 NGLRLQSKTIKVSYARPS 99
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 42/184 (22%), Positives = 73/184 (39%), Gaps = 45/184 (24%)
Query: 33 RRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKK--FAFVEMRTV 90
R++++GGL ++++ + F Q T D VV N ++ F FV TV
Sbjct: 13 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 64
Query: 91 EEASNAM-----ALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQ-PSPNLNLAAVGLASG 144
EE AM +DG + E P A + Q P +L +
Sbjct: 65 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 104
Query: 145 AIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDP 204
++FVGG+ E +++ E +G + +++ DR +G +G+ F + D
Sbjct: 105 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 155
Query: 205 AVTD 208
D
Sbjct: 156 DSVD 159
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 36/62 (58%), Gaps = 3/62 (4%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+GGL + T+ ++ E +GTL +++D +T S+G+GF Y A + AA
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 70
Query: 214 LN 215
+N
Sbjct: 71 MN 72
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 42/184 (22%), Positives = 73/184 (39%), Gaps = 45/184 (24%)
Query: 33 RRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKK--FAFVEMRTV 90
R++++GGL ++++ + F Q T D VV N ++ F FV TV
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 65
Query: 91 EEASNAM-----ALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQ-PSPNLNLAAVGLASG 144
EE AM +DG + E P A + Q P +L +
Sbjct: 66 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 105
Query: 145 AIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDP 204
++FVGG+ E +++ E +G + +++ DR +G +G+ F + D
Sbjct: 106 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 156
Query: 205 AVTD 208
D
Sbjct: 157 DSVD 160
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 36/62 (58%), Gaps = 3/62 (4%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+GGL + T+ ++ E +GTL +++D +T S+G+GF Y A + AA
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 71
Query: 214 LN 215
+N
Sbjct: 72 MN 73
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 42/184 (22%), Positives = 73/184 (39%), Gaps = 45/184 (24%)
Query: 33 RRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKK--FAFVEMRTV 90
R++++GGL ++++ + F Q T D VV N ++ F FV TV
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 58
Query: 91 EEASNAM-----ALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQ-PSPNLNLAAVGLASG 144
EE AM +DG + E P A + Q P +L +
Sbjct: 59 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 98
Query: 145 AIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDP 204
++FVGG+ E +++ E +G + +++ DR +G +G+ F + D
Sbjct: 99 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 149
Query: 205 AVTD 208
D
Sbjct: 150 DSVD 153
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 45/86 (52%), Gaps = 5/86 (5%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+GGL + T+ ++ E +GTL +++D +T S+G+GF Y A + AA
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 64
Query: 214 LNGL--KMGDKTLTVRRATASSGQSK 237
+N K+ + + +RA + +
Sbjct: 65 MNARPHKVDGRVVEPKRAVSREDSQR 90
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 42/184 (22%), Positives = 73/184 (39%), Gaps = 45/184 (24%)
Query: 33 RRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKK--FAFVEMRTV 90
R++++GGL ++++ + F Q T D VV N ++ F FV TV
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 65
Query: 91 EEASNAM-----ALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQ-PSPNLNLAAVGLASG 144
EE AM +DG + E P A + Q P +L +
Sbjct: 66 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 105
Query: 145 AIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDP 204
++FVGG+ E +++ E +G + +++ DR +G +G+ F + D
Sbjct: 106 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 156
Query: 205 AVTD 208
D
Sbjct: 157 DSVD 160
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 45/86 (52%), Gaps = 5/86 (5%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+GGL + T+ ++ E +GTL +++D +T S+G+GF Y A + AA
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 71
Query: 214 LNGL--KMGDKTLTVRRATASSGQSK 237
+N K+ + + +RA + +
Sbjct: 72 MNARPHKVDGRVVEPKRAVSREDSQR 97
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 42/184 (22%), Positives = 73/184 (39%), Gaps = 45/184 (24%)
Query: 33 RRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKK--FAFVEMRTV 90
R++++GGL ++++ + F Q T D VV N ++ F FV TV
Sbjct: 12 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 63
Query: 91 EEASNAM-----ALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQ-PSPNLNLAAVGLASG 144
EE AM +DG + E P A + Q P +L +
Sbjct: 64 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 103
Query: 145 AIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDP 204
++FVGG+ E +++ E +G + +++ DR +G +G+ F + D
Sbjct: 104 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 154
Query: 205 AVTD 208
D
Sbjct: 155 DSVD 158
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 45/86 (52%), Gaps = 5/86 (5%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+GGL + T+ ++ E +GTL +++D +T S+G+GF Y A + AA
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY---ATVEEVDAA 69
Query: 214 LNGL--KMGDKTLTVRRATASSGQSK 237
+N K+ + + +RA + +
Sbjct: 70 MNARPHKVDGRVVEPKRAVSREDSQR 95
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 36/75 (48%)
Query: 157 VGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAALNG 216
V LP T+ Q +EL+ FG+L LV TG SKGYGF Y A + L G
Sbjct: 100 VANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 159
Query: 217 LKMGDKTLTVRRATA 231
+G +TL V A
Sbjct: 160 KPLGPRTLYVHWTDA 174
>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 = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 36/75 (48%)
Query: 157 VGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAALNG 216
V LP T+ Q +EL+ FG+L LV TG SKGYGF Y A + L G
Sbjct: 98 VANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 157
Query: 217 LKMGDKTLTVRRATA 231
+G +TL V A
Sbjct: 158 KPLGPRTLYVHWTDA 172
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 36/75 (48%)
Query: 157 VGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAALNG 216
V LP T+ Q +EL+ FG+L LV TG SKGYGF Y A + L G
Sbjct: 100 VANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG 159
Query: 217 LKMGDKTLTVRRATA 231
+G +TL V A
Sbjct: 160 KPLGPRTLYVHWTDA 174
>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 = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 28/74 (37%), Positives = 40/74 (54%), Gaps = 6/74 (8%)
Query: 152 PDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFC-VYQDPAVTDIA 210
P+ VFVGG+ ET+I+ +G++ ++ DR TG SKGYGF Y D V I
Sbjct: 9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 67
Query: 211 CAALN----GLKMG 220
+ +N LK+G
Sbjct: 68 ESQINFHGKKLKLG 81
>pdb|3DXB|A Chain A, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|B Chain B, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|C Chain C, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|D Chain D, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|E Chain E, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|F Chain F, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|G Chain G, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|H Chain H, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
Length = 222
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 309 CGKYGTLVNVVIPRPDQNGGETPG--VGKVFLEYYDAVGCATAKNALSGRKFGGNTVNAF 366
CGK+G VN VI ++ G E + K+F+E+ A A AL+GR F G V A
Sbjct: 150 CGKFGA-VNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAE 208
Query: 367 YYPEDKYFNKDYSA 380
Y ++++ N D SA
Sbjct: 209 VYDQERFDNSDLSA 222
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 45.4 bits (106), Expect = 5e-05, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 153 DRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACA 212
+++FVGG+P+ ET+++E + FG + ++ D + +G+GF ++D D A
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN 70
Query: 213 ALNGLKMGDKTLTVR---RATASSGQS 236
MG K R R + SSG S
Sbjct: 71 MHFHDIMGKKVEVKRAEPRDSKSSGPS 97
>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 = 45.4 bits (106), Expect = 6e-05, Method: Composition-based stats.
Identities = 28/74 (37%), Positives = 40/74 (54%), Gaps = 6/74 (8%)
Query: 152 PDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFC-VYQDPAVTDIA 210
P+ VFVGG+ ET+I+ +G++ ++ DR TG SKGYGF Y D V I
Sbjct: 9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 67
Query: 211 CAALN----GLKMG 220
+ +N LK+G
Sbjct: 68 ESQINFHGKKLKLG 81
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 45.4 bits (106), Expect = 6e-05, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 43/83 (51%), Gaps = 1/83 (1%)
Query: 148 GAEGPDRVFVGGLPYYFTETQIKELLESFGT-LHGFDLVKDRDTGNSKGYGFCVYQDPAV 206
G+ G +F+G L E + + +FG L +++D DTGNSKGY F +
Sbjct: 1 GSSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDA 60
Query: 207 TDIACAALNGLKMGDKTLTVRRA 229
+D A A+NG + ++ +TV A
Sbjct: 61 SDAAIEAMNGQYLCNRPITVSYA 83
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 38/77 (49%), Gaps = 6/77 (7%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
R+FVG LP TE K L E +G + +DR G+GF + + +IA A
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR------GFGFIRLESRTLAEIAKAE 77
Query: 214 LNGLKMGDKTLTVRRAT 230
L+G + + L +R AT
Sbjct: 78 LDGTILKSRPLRIRFAT 94
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 28/74 (37%), Positives = 40/74 (54%), Gaps = 6/74 (8%)
Query: 152 PDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFC-VYQDPAVTDIA 210
P+ VFVGG+ ET+I+ +G++ ++ DR TG SKGYGF Y D V I
Sbjct: 10 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 68
Query: 211 CAALN----GLKMG 220
+ +N LK+G
Sbjct: 69 ESQINFHGKKLKLG 82
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
R+FVG LP TE ++++L E +G + KD KG+GF + + +IA
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 77
Query: 214 LNGLKMGDKTLTVRRATASSG 234
L+ + + K L VR A S+
Sbjct: 78 LDNMPLRGKQLRVRFACHSAS 98
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 15/81 (18%)
Query: 34 RVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKKFAFV--EMRTVE 91
R++VG LPP E+ + F + AG V+I+ +K F F+ E RT+
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKY------GKAG------EVFIHKDKGFGFIRLETRTLA 71
Query: 92 EASNAMALDGIIFEGVAVRVR 112
E + + LD + G +RVR
Sbjct: 72 EIAK-VELDNMPLRGKQLRVR 91
>pdb|3UE2|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 1.23 A Resolution
pdb|3US5|A Chain A, Crystal Structure Of A Rna-Binding Domain Of A Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 1.38 A Resolution
Length = 118
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 28/74 (37%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 309 CGKYGTLVNVVIPRPDQNGGETPG--VGKVFLEYYDAVGCATAKNALSGRKFGGNTVNAF 366
CGK+G VN VI ++ G E + K+F+E+ A A AL+GR F G V A
Sbjct: 46 CGKFGA-VNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAE 104
Query: 367 YYPEDKYFNKDYSA 380
Y ++++ N D SA
Sbjct: 105 VYDQERFDNSDLSA 118
>pdb|2DNY|A Chain A, Solution Structure Of The Third Rna Binding Domain Of Fbp-
Interacting Repressor, Siahbp1
Length = 119
Score = 42.4 bits (98), Expect = 4e-04, Method: Composition-based stats.
Identities = 28/74 (37%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 309 CGKYGTLVNVVIPRPDQNGGETPG--VGKVFLEYYDAVGCATAKNALSGRKFGGNTVNAF 366
CGK+G VN VI ++ G E + K+F+E+ A A AL+GR F G V A
Sbjct: 41 CGKFGA-VNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAE 99
Query: 367 YYPEDKYFNKDYSA 380
Y ++++ N D SA
Sbjct: 100 VYDQERFDNSDLSA 113
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 42.0 bits (97), Expect = 5e-04, Method: Composition-based stats.
Identities = 29/88 (32%), Positives = 39/88 (44%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
VFVG L T IK FG + +VKD TG SKGYGF + + + A +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 215 NGLKMGDKTLTVRRATASSGQSKTEQES 242
G +G + + AT K+ ES
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPKSTYES 105
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 41.6 bits (96), Expect = 7e-04, Method: Composition-based stats.
Identities = 29/86 (33%), Positives = 39/86 (45%), Gaps = 4/86 (4%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
VFVG L T IK FG + +VKD TG SKGYGF + + + A +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 215 NGLKMGDKTL----TVRRATASSGQS 236
G +G + + R+ A SG S
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPSGPS 103
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 41.6 bits (96), Expect = 8e-04, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 27/48 (56%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVY 201
++F+G +P E +K L E FG ++ ++KDR TG KG F Y
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTY 62
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 41.2 bits (95), Expect = 8e-04, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 142 ASGAIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVY 201
+SG + + V GLP+ TE +KE +FG + + KD TG+SKG+GF +
Sbjct: 5 SSGVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRF 64
Query: 202 QD 203
+
Sbjct: 65 TE 66
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 25/77 (32%), Positives = 39/77 (50%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
V+VGGL +E + EL G + + KDR TG +GYGF + D A +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 215 NGLKMGDKTLTVRRATA 231
+ +K+ K + V +A+A
Sbjct: 78 DMIKLYGKPIRVNKASA 94
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 42/80 (52%), Gaps = 2/80 (2%)
Query: 152 PDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIAC 211
P R+ V +P+ F + ++++ FG + +++ + SKG+GF +++ A D A
Sbjct: 29 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER--GSKGFGFVTFENSADADRAR 86
Query: 212 AALNGLKMGDKTLTVRRATA 231
L+G + + + V ATA
Sbjct: 87 EKLHGTVVEGRKIEVNNATA 106
>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 = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 6/80 (7%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
R+FVG LP TE ++++L E +G + KD KG+GF + + +IA
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 70
Query: 214 LNGLKMGDKTLTVRRATASS 233
L+ + + K L VR A S+
Sbjct: 71 LDNMPLRGKQLRVRFACHSA 90
Score = 33.5 bits (75), Expect = 0.19, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 15/81 (18%)
Query: 34 RVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKKFAFV--EMRTVE 91
R++VG LPP E+ + F + AG V+I+ +K F F+ E RT+
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKY------GKAG------EVFIHKDKGFGFIRLETRTLA 64
Query: 92 EASNAMALDGIIFEGVAVRVR 112
E + + LD + G +RVR
Sbjct: 65 EIAK-VELDNMPLRGKQLRVR 84
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 34/61 (55%), Gaps = 4/61 (6%)
Query: 143 SGAIGGAEGPD----RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGF 198
+G + + PD ++FVG +P ++E ++EL E +G ++ ++++DR + G
Sbjct: 2 NGTLDHPDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGC 61
Query: 199 C 199
C
Sbjct: 62 C 62
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+G + TE I+ + SFG + +++ D G S+G F + A+ A A
Sbjct: 109 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAMAQTAIKA 167
Query: 214 LN 215
++
Sbjct: 168 MH 169
>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 = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 22/83 (26%), Positives = 47/83 (56%), Gaps = 3/83 (3%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+ GLP+ T+ +++E+ ++ GT+ LV +R G KG + Y++ + A
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMK 77
Query: 214 LNGLKMGDKTLTVRRATASSGQS 236
++G+ + + + V A ++SG S
Sbjct: 78 MDGMTIKENIIKV--AISNSGPS 98
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 4/87 (4%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++FVGGL + T+ ++ +G + ++KD+ T S+G+GF ++DP A+
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 214 ----LNGLKMGDKTLTVRRATASSGQS 236
L+G + K T R S S
Sbjct: 78 RPHTLDGRNIDPKPCTPRGMQPSGPSS 104
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 42/80 (52%), Gaps = 2/80 (2%)
Query: 152 PDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIAC 211
P R+ V +P+ F + ++++ FG + +++ + SKG+GF +++ A D A
Sbjct: 15 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER--GSKGFGFVTFENSADADRAR 72
Query: 212 AALNGLKMGDKTLTVRRATA 231
L+G + + + V ATA
Sbjct: 73 EKLHGTVVEGRKIEVNNATA 92
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 38/78 (48%), Gaps = 2/78 (2%)
Query: 150 EGPDR-VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTD 208
E DR VFVG L E + EL G L + KDR+ G K +GF ++ P
Sbjct: 13 EEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESVS 71
Query: 209 IACAALNGLKMGDKTLTV 226
A A LNG+++ + + V
Sbjct: 72 YAIALLNGIRLYGRPINV 89
>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 = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 32/56 (57%)
Query: 150 EGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPA 205
E + FVGGL + ++ +K+ FG + + D +TG S+G+GF +++D A
Sbjct: 9 EDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAA 64
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 27/93 (29%), Positives = 45/93 (48%), Gaps = 12/93 (12%)
Query: 148 GAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVT 207
G+ G ++F+G LP TE +I+ L E +G + D++K+ YGF +D
Sbjct: 4 GSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--------YGFVHIEDKTAA 55
Query: 208 DIACAALNGLKMGDKTLTVR----RATASSGQS 236
+ A L+ K+ + V ++ ASSG S
Sbjct: 56 EDAIRNLHHYKLHGVNINVEASKNKSKASSGPS 88
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 28/93 (30%), Positives = 41/93 (44%), Gaps = 7/93 (7%)
Query: 148 GAEGPDR-------VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCV 200
G+ GP+R + V L ET ++EL FG++ L KD+ TG SKG+ F
Sbjct: 4 GSSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFIS 63
Query: 201 YQDPAVTDIACAALNGLKMGDKTLTVRRATASS 233
+ A A ++G L V A S+
Sbjct: 64 FHRREDAARAIAGVSGFGYDHLILNVEWAKPST 96
>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 = 0.003, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 27/48 (56%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVY 201
++FVG +P E +K L E FG ++ ++KDR TG KG F Y
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTY 64
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 33/60 (55%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+GGL + TE ++ E +G L +++D + S+G+GF + A D A AA
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 28/46 (60%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFC 199
++FVG +P ++E ++EL E +G ++ ++++DR + G C
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCC 50
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
++F+G + TE I+ + SFG + +++ D G S+G F + A+ A A
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAMAQTAIKA 155
Query: 214 LN 215
++
Sbjct: 156 MH 157
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 38.5 bits (88), Expect = 0.006, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 28/57 (49%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIAC 211
+FVGGL T +K E FG + L+ D+ T +G+GF ++ + + C
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVC 58
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 34/64 (53%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
++V GLP ++ ++++L +G + ++ D+ TG S+G GF + + A L
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 215 NGLK 218
NG K
Sbjct: 64 NGQK 67
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 38.5 bits (88), Expect = 0.007, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 31/55 (56%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTD 208
++F+GGL + T+ ++E FG + +++D T S+G+GF + D A D
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVD 56
>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 = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
++V LP T+ Q+ + +G++ ++++D+ TG +G F Y A +AL
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 215 NGL--KMGDKTLTVRRA 229
N + + G + L+VR A
Sbjct: 76 NNVIPEGGSQPLSVRLA 92
>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 = 0.010, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 27/46 (58%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFC 199
+ FVG +P ++E ++EL E +G ++ ++++DR + G C
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCC 50
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 43/91 (47%), Gaps = 3/91 (3%)
Query: 139 VGLASGAIGGAEGPDR---VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKG 195
+G S +G PD + V GL Y TE ++E+ +G + +V D+ + S+G
Sbjct: 30 MGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRG 89
Query: 196 YGFCVYQDPAVTDIACAALNGLKMGDKTLTV 226
+ F +++ A NG+++ + + V
Sbjct: 90 FAFVYFENVDDAKEAKERANGMELDGRRIRV 120
>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 = 37.7 bits (86), Expect = 0.011, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 30/54 (55%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTD 208
+F+GGL + T+ +K+ FG + L D TG S+G+GF ++++ D
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVD 55
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 3/88 (3%)
Query: 142 ASGAIGGAEGPDR---VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGF 198
+SG+ G PD + V GL Y TE ++E+ +G + +V D+ + S+G+ F
Sbjct: 2 SSGSSGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAF 61
Query: 199 CVYQDPAVTDIACAALNGLKMGDKTLTV 226
+++ A NG+++ + + V
Sbjct: 62 VYFENVDDAKEAKERANGMELDGRRIRV 89
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 37.7 bits (86), Expect = 0.012, Method: Composition-based stats.
Identities = 18/71 (25%), Positives = 32/71 (45%)
Query: 149 AEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTD 208
A V+V LP+ T + + +G + ++KD+DT SKG F ++ D
Sbjct: 13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQ 72
Query: 209 IACAALNGLKM 219
A+N ++
Sbjct: 73 NCTRAINNKQL 83
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 35/72 (48%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+ V LP T+ ++ L + G ++ +++D TG S GY F + + A L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 215 NGLKMGDKTLTV 226
NG+ + +K L V
Sbjct: 66 NGITVRNKRLKV 77
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
++V LP T+ Q+ + +G++ ++++D+ TG +G F Y A +AL
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 151
Query: 215 NGL--KMGDKTLTVRRA 229
N + + G + L+VR A
Sbjct: 152 NNVIPEGGSQPLSVRLA 168
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 37.4 bits (85), Expect = 0.014, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 31/55 (56%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTD 208
++F+GGL + T+ ++E FG + +++D T S+G+GF + D A D
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVD 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 = 37.0 bits (84), Expect = 0.016, Method: Composition-based stats.
Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 3/88 (3%)
Query: 142 ASGAIGGAEGPDR---VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGF 198
+SG+ G PD + V GL Y TE ++E+ +G + +V D+ + S+G+ F
Sbjct: 2 SSGSSGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAF 61
Query: 199 CVYQDPAVTDIACAALNGLKMGDKTLTV 226
+++ A NG+++ + + V
Sbjct: 62 VYFENVDDAKEAKERANGMELDGRRIRV 89
>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 = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 37/82 (45%), Gaps = 6/82 (7%)
Query: 151 GPDR------VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDP 204
GP R +FV + E +I+E +G + L DR TG SKGY Y+
Sbjct: 65 GPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETH 124
Query: 205 AVTDIACAALNGLKMGDKTLTV 226
A ALNG ++ +T+ V
Sbjct: 125 KQALAAKEALNGAEIMGQTIQV 146
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 39/173 (22%), Positives = 70/173 (40%), Gaps = 34/173 (19%)
Query: 55 QVMTAIGGNSAGPGDAVVNVYINHEKKFAFVEMRTVEEASNAMALDGIIFEGVAVRVRRP 114
++ T I A AVV+V I +KF +V+ + E+ A+ L G+ G +++ +P
Sbjct: 23 ELKTGISDVFAKNDLAVVDVRIGMTRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKP 82
Query: 115 TDYNPTLAAALGPGQPSPNLNLAAVGLASGAIGGAEGPDRVFVGGLPYYFTETQIKELLE 174
G+ S A LA LPY T+ ++KE+ E
Sbjct: 83 ------------KGKDSKKERDARTLLAK---------------NLPYKVTQDELKEVFE 115
Query: 175 SFGTLHGFDLV-KDRDTGNSKGYGFCVYQDPAVTDIACAALNGLKMGDKTLTV 226
+ LV KD G SKG + ++ A + G ++ +++++
Sbjct: 116 DAAEIR---LVSKD---GKSKGIAYIEFKTEADAEKTFEEKQGTEIDGRSISL 162
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 35/72 (48%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+ V LP T+ ++ L + G ++ +++D TG S GY F + + A L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 215 NGLKMGDKTLTV 226
NG+ + +K L V
Sbjct: 66 NGITVRNKRLKV 77
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 37.0 bits (84), Expect = 0.020, Method: Composition-based stats.
Identities = 26/82 (31%), Positives = 37/82 (45%), Gaps = 6/82 (7%)
Query: 151 GPDR------VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDP 204
GP R +FV + E +I+E +G + L DR TG SKGY Y+
Sbjct: 19 GPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETH 78
Query: 205 AVTDIACAALNGLKMGDKTLTV 226
A ALNG ++ +T+ V
Sbjct: 79 KQALAAKEALNGAEIMGQTIQV 100
>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 = 36.6 bits (83), Expect = 0.021, Method: Composition-based stats.
Identities = 13/46 (28%), Positives = 28/46 (60%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFC 199
++FVG +P ++E ++EL E +G ++ ++++DR + G C
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCC 50
>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 = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
++V LP T+ Q+ + +G++ ++++D+ TG +G F Y A +AL
Sbjct: 103 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 162
Query: 215 NGL--KMGDKTLTVRRA 229
N + + G + L+VR A
Sbjct: 163 NNVIPEGGSQPLSVRLA 179
Score = 35.0 bits (79), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 34/72 (47%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+ V LP T+ ++ L + G ++ + +D TG S GY F + + A L
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 215 NGLKMGDKTLTV 226
NG+ + +K L V
Sbjct: 77 NGITVRNKRLKV 88
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 45/92 (48%), Gaps = 10/92 (10%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVY--QDPAVTDIACA 212
VF+ L + E + E+L+ FG L +V DT +SKG F + Q+ A +A A
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77
Query: 213 ALN----GLKMGDKTLTVR----RATASSGQS 236
+L GLK+ + L V R A+SG S
Sbjct: 78 SLEAEGGGLKLDGRQLKVDLAVTRDEAASGPS 109
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 36.2 bits (82), Expect = 0.029, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 3/86 (3%)
Query: 144 GAIGGAEGPDR---VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCV 200
G +G PD + V GL Y TE ++E+ +G + +V D+ + S+G+ F
Sbjct: 1 GPLGSRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVY 60
Query: 201 YQDPAVTDIACAALNGLKMGDKTLTV 226
+++ A NG+++ + + V
Sbjct: 61 FENVDDAKEAKERANGMELDGRRIRV 86
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 35.8 bits (81), Expect = 0.037, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 142 ASGAIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVY 201
+SG + ++FVG L +E ++ L E+FG + +++ D GNSKG F Y
Sbjct: 5 SSGCLRQPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPD-GNSKGCAFVKY 63
Query: 202 QDPAVTDIACAALNG 216
A A AL+G
Sbjct: 64 SSHAEAQAAINALHG 78
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 35.4 bits (80), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 32/68 (47%)
Query: 148 GAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVT 207
G+ G +++ GL T+ + +L + +G + + D+ T KGYGF + P+
Sbjct: 1 GSSGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAA 60
Query: 208 DIACAALN 215
A AL
Sbjct: 61 QKAVTALK 68
>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 = 35.4 bits (80), Expect = 0.060, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 35/86 (40%), Gaps = 6/86 (6%)
Query: 147 GGAEGPDR------VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCV 200
G GP R +FV G+ TE I + +G + L DR TG KGY
Sbjct: 11 GDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 70
Query: 201 YQDPAVTDIACAALNGLKMGDKTLTV 226
Y+ A LNG + + ++V
Sbjct: 71 YETYKEAQAAMEGLNGQDLMGQPISV 96
>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 = 34.7 bits (78), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 38/80 (47%)
Query: 150 EGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDI 209
EG + V L Y + ++ + E +G + + +DR T S+G+ F + D +
Sbjct: 45 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAED 104
Query: 210 ACAALNGLKMGDKTLTVRRA 229
A A++G + + L V+ A
Sbjct: 105 AMDAMDGAVLDGRELRVQMA 124
>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 = 34.7 bits (78), Expect = 0.089, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 35/86 (40%), Gaps = 6/86 (6%)
Query: 147 GGAEGPDR------VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCV 200
G GP R +FV G+ TE I + +G + L DR TG KGY
Sbjct: 12 GDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 71
Query: 201 YQDPAVTDIACAALNGLKMGDKTLTV 226
Y+ A LNG + + ++V
Sbjct: 72 YETYKEAQAAMEGLNGQDLMGQPISV 97
>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 = 0.099, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 26/50 (52%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQD 203
++FVGGL E +I+E FG + +L D T +G+ F +++
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKE 52
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
A Ph 9.0
Length = 115
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 42/92 (45%), Gaps = 7/92 (7%)
Query: 151 GPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIA 210
G +F+ L + + +FG + +V D + SKGYGF ++ + A
Sbjct: 4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN--GSKGYGFVHFETQEAAERA 61
Query: 211 CAALNGLKMGDKTLTVRRATASSGQSKTEQES 242
+NG+ + D+ + V R +S+ E+E+
Sbjct: 62 IEKMNGMLLNDRKVFVGRF-----KSRKEREA 88
>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 = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 34/72 (47%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+FV + Y TE++++ E +G + +V + +G +GY F Y+ A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 215 NGLKMGDKTLTV 226
+G K+ + + V
Sbjct: 165 DGKKIDGRRVLV 176
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 34.3 bits (77), Expect = 0.13, Method: Composition-based stats.
Identities = 23/86 (26%), Positives = 41/86 (47%), Gaps = 1/86 (1%)
Query: 142 ASGAIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVY 201
+SGA+ VFV L Y ++KE+ G + D+++D+D G S+G G +
Sbjct: 5 SSGALQAGRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVTF 63
Query: 202 QDPAVTDIACAALNGLKMGDKTLTVR 227
+ A + NG + D+ + V+
Sbjct: 64 EQSIEAVQAISMFNGQLLFDRPMHVK 89
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 38/80 (47%)
Query: 150 EGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDI 209
EG + V L Y + ++ + E +G + + +DR T S+G+ F + D +
Sbjct: 68 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAED 127
Query: 210 ACAALNGLKMGDKTLTVRRA 229
A A++G + + L V+ A
Sbjct: 128 AMDAMDGAVLDGRELRVQMA 147
>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 = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 34/72 (47%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+FV + Y TE++++ E +G + +V + +G +GY F Y+ A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 215 NGLKMGDKTLTV 226
+G K+ + + V
Sbjct: 165 DGKKIDGRRVLV 176
>pdb|2PE8|A Chain A, Crystal Structure Of The Uhm Domain Of Human Spf45 (free
Form)
pdb|2PEH|A Chain A, Crystal Structure Of The Uhm Domain Of Human Spf45 In
Complex With Sf3b155-Ulm5
pdb|2PEH|B Chain B, Crystal Structure Of The Uhm Domain Of Human Spf45 In
Complex With Sf3b155-Ulm5
Length = 105
Score = 33.9 bits (76), Expect = 0.15, Method: Composition-based stats.
Identities = 24/70 (34%), Positives = 31/70 (44%), Gaps = 12/70 (17%)
Query: 309 CGKYGTLVNVVIPRPDQNGGETPGVG-----KVFLEYYDAVGCATAKNALSGRKFGGNTV 363
C KYG + VI E PG ++FLE+ A L+GR FGG V
Sbjct: 34 CEKYGKVGKCVI-------FEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVV 86
Query: 364 NAFYYPEDKY 373
A +Y DK+
Sbjct: 87 KACFYNLDKF 96
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/67 (22%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 150 EGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDI 209
+ P +++ LP E +++ +L+ FG + +++D +G S+G GF + +
Sbjct: 23 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEA 81
Query: 210 ACAALNG 216
NG
Sbjct: 82 VIGHFNG 88
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 33.5 bits (75), Expect = 0.18, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 34/82 (41%), Gaps = 6/82 (7%)
Query: 151 GPDR------VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDP 204
GP R +FV G+ TE I + +G + L DR TG KGY Y+
Sbjct: 2 GPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 61
Query: 205 AVTDIACAALNGLKMGDKTLTV 226
A LNG + + ++V
Sbjct: 62 KEAQAAMEGLNGQDLMGQPISV 83
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 33.5 bits (75), Expect = 0.19, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQD 203
+FVGGL E +I+E FG + +L D T +G+ F +++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKE 50
>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 = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 44/212 (20%), Positives = 82/212 (38%), Gaps = 47/212 (22%)
Query: 35 VYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVV---NVYINHEKKFAFVEMRTVE 91
+YVG L P E + FS AGP ++ ++ +A+V +
Sbjct: 18 LYVGDLHPDVTEAMLYEKFS---------PAGPILSIRVCRDMITRRSLGYAYVNFQQPA 68
Query: 92 EASNAM-ALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQPSPNLNLAAVGLASGAIGGAE 150
+A A+ ++ + +G VR+ Q P+L + VG
Sbjct: 69 DAERALDTMNFDVIKGKPVRIMW--------------SQRDPSLRKSGVG---------- 104
Query: 151 GPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIA 210
+F+ L + + +FG + +V D + SKGYGF ++ + A
Sbjct: 105 ---NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN--GSKGYGFVHFETQEAAERA 159
Query: 211 CAALNGLKMGDKTLTVRRATASSGQSKTEQES 242
+NG+ + D+ + V R +S+ E+E+
Sbjct: 160 IEKMNGMLLNDRKVFVGRF-----KSRKEREA 186
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 33.5 bits (75), Expect = 0.23, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 142 ASGAIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKD-RDTGNSKGYGF 198
+SG + + ++ V +P+ + +I+EL +FG L L K TG +G+GF
Sbjct: 5 SSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGF 62
>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 = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 41/88 (46%), Gaps = 7/88 (7%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+F+ L + + +FG + +V D + SKGYGF ++ + A +
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN--GSKGYGFVHFETQEAAERAIEKM 158
Query: 215 NGLKMGDKTLTVRRATASSGQSKTEQES 242
NG+ + D+ + V R +S+ E+E+
Sbjct: 159 NGMLLNDRKVFVGRF-----KSRKEREA 181
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 27/61 (44%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
++VG L TE + E G + + +D T S GY + +Q PA + A +
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 215 N 215
N
Sbjct: 73 N 73
>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 = 33.1 bits (74), Expect = 0.23, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 31/72 (43%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+FV G+ TE I + +G + L DR TG KGY Y+ A L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 215 NGLKMGDKTLTV 226
NG + + ++V
Sbjct: 70 NGQDLMGQPISV 81
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 33.1 bits (74), Expect = 0.25, Method: Composition-based stats.
Identities = 28/99 (28%), Positives = 44/99 (44%), Gaps = 10/99 (10%)
Query: 144 GAIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQD 203
G+ G + ++FVG + T +++ L E G + D+VKD Y F +
Sbjct: 1 GSSGSSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEK 52
Query: 204 PAVTDIACAALNGLKMGDKTLTVRRATASSGQSKTEQES 242
A A A LNG ++ K + V +T GQ K+ S
Sbjct: 53 EADAKAAIAQLNGKEVKGKRINVELST--KGQKKSGPSS 89
>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 = 33.1 bits (74), Expect = 0.25, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 6/80 (7%)
Query: 32 ARRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKKFAFVEMRTVE 91
AR +YVG + A + + F G S + + + H K FA++E E
Sbjct: 5 ARSIYVGNVDYGATAEELEAHFH------GCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 58
Query: 92 EASNAMALDGIIFEGVAVRV 111
++ALD +F G ++V
Sbjct: 59 SVRTSLALDESLFRGRQIKV 78
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 33.1 bits (74), Expect = 0.27, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 31/72 (43%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+FV G+ TE I + +G + L DR TG KGY Y+ A L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 215 NGLKMGDKTLTV 226
NG + + ++V
Sbjct: 70 NGQDLMGQPISV 81
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 37/68 (54%), Gaps = 5/68 (7%)
Query: 151 GPDR-VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDI 209
G DR +FVG L T+ ++++ E FGT+ +++ D G SKG F +Q A
Sbjct: 10 GEDRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAE--- 65
Query: 210 ACAALNGL 217
A AA+N L
Sbjct: 66 AQAAINTL 73
>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 = 33.1 bits (74), Expect = 0.28, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 31/72 (43%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+FV G+ TE I + +G + L DR TG KGY Y+ A L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 215 NGLKMGDKTLTV 226
NG + + ++V
Sbjct: 70 NGQDLMGQPISV 81
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 45/203 (22%), Positives = 76/203 (37%), Gaps = 45/203 (22%)
Query: 33 RRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKK---FAFVEMRT 89
R +YVG L E + +F +GG A + + I+ K +AFVE
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQ-----VGGPIAN-----IKIMIDKNNKNVNYAFVEYHQ 50
Query: 90 VEEASNAM-ALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQPSPNLNLAAVGLASGAIGG 148
+A+ A+ L+G E V++ N + + NL
Sbjct: 51 SHDANIALQTLNGKQIENNIVKI------NWAFQSQQSSSDDTFNL-------------- 90
Query: 149 AEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVY--QDPAV 206
FVG L + ++ + F + ++ D TG+S+GYGF + QD A
Sbjct: 91 -------FVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQ 143
Query: 207 TDIACAALNGLKMGDKTLTVRRA 229
A ++ G + + L + A
Sbjct: 144 N--AMDSMQGQDLNGRPLRINWA 164
>pdb|2LQ5|A Chain A, Nmr Structure Of The Rna Binding Motif 39 (Rbm39) From Mus
Musculus
Length = 113
Score = 32.7 bits (73), Expect = 0.30, Method: Composition-based stats.
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 7/67 (10%)
Query: 309 CGKYGTLVNVVIPRPDQNGGETPGVGKVFLEYYDAVGCATAKNALSGRKFGGNTVNAFYY 368
C K+G ++++ + D+N + G V+++ A NAL GR F G + A Y
Sbjct: 37 CNKHGGVIHIYV---DKNSAQ----GNVYVKCPSIAAAIAAVNALHGRWFAGKMITAAYV 89
Query: 369 PEDKYFN 375
P Y N
Sbjct: 90 PLPTYHN 96
>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 = 32.7 bits (73), Expect = 0.31, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 6/80 (7%)
Query: 32 ARRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKKFAFVEMRTVE 91
AR +YVG + A + + F G S + + + H K FA++E E
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFH------GCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 59
Query: 92 EASNAMALDGIIFEGVAVRV 111
++ALD +F G ++V
Sbjct: 60 SVRTSLALDESLFRGRQIKV 79
>pdb|3S6E|A Chain A, Crystal Structure Of A Rna Binding Motif Protein 39
(Rbm39) From Mus Musculus At 0.95 A Resolution
pdb|3S6E|B Chain B, Crystal Structure Of A Rna Binding Motif Protein 39
(Rbm39) From Mus Musculus At 0.95 A Resolution
Length = 114
Score = 32.7 bits (73), Expect = 0.32, Method: Composition-based stats.
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 7/67 (10%)
Query: 309 CGKYGTLVNVVIPRPDQNGGETPGVGKVFLEYYDAVGCATAKNALSGRKFGGNTVNAFYY 368
C K+G ++++ + D+N + G V+++ A NAL GR F G + A Y
Sbjct: 38 CNKHGGVIHIYV---DKNSAQ----GNVYVKCPSIAAAIAAVNALHGRWFAGKXITAAYV 90
Query: 369 PEDKYFN 375
P Y N
Sbjct: 91 PLPTYHN 97
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 32.7 bits (73), Expect = 0.34, Method: Composition-based stats.
Identities = 22/92 (23%), Positives = 42/92 (45%), Gaps = 7/92 (7%)
Query: 151 GPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIA 210
G +F+ L + + +FG + +V D + SKGYGF ++ + A
Sbjct: 10 GVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN--GSKGYGFVHFETQEAAERA 67
Query: 211 CAALNGLKMGDKTLTVRRATASSGQSKTEQES 242
+NG+ + D+ + V R +S+ E+E+
Sbjct: 68 IEKMNGMLLNDRKVFVGRF-----KSRKEREA 94
>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 = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 36/171 (21%), Positives = 67/171 (39%), Gaps = 39/171 (22%)
Query: 35 VYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKKFAFVEMRTVEEAS 94
+++G L P +++A ++ AI A AVV+V +KF +V+ + E+
Sbjct: 16 LFIGNLNP---NKSVA----ELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLE 68
Query: 95 NAMALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQPSPNLNLAAVGLASGAIGGAEGPDR 154
A+ L G+ G +++ +P G+ S + A LA
Sbjct: 69 KALELTGLKVFGNEIKLEKP------------KGRDSKKVRAARTLLAK----------- 105
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPA 205
L + TE ++KE+ E ++ G SKG + ++ A
Sbjct: 106 ----NLSFNITEDELKEVFED-----ALEIRLVSQDGKSKGIAYIEFKSEA 147
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 32.7 bits (73), Expect = 0.37, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 34/76 (44%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
VFVG L T I FG + +VKD TG SKGYGF + + + A +
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 215 NGLKMGDKTLTVRRAT 230
G +G + + AT
Sbjct: 69 GGQWLGGRQIRTNWAT 84
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 32.3 bits (72), Expect = 0.42, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 4/86 (4%)
Query: 142 ASGAIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVY 201
+SG E P +VG LP+ + I + + ++ LV+D+DT K GFC
Sbjct: 5 SSGKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFK--GFCYV 61
Query: 202 QDPAVTDIACA-ALNGLKMGDKTLTV 226
+ V + A +G +GD++L V
Sbjct: 62 EFDEVDSLKEALTYDGALLGDRSLRV 87
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 32.0 bits (71), Expect = 0.55, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 142 ASGAIGGAEGPDRVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGF 198
+SG ++ +FV GL TE +KE SF +V DR+TG+SKG+GF
Sbjct: 5 SSGPNARSQPSKTLFVKGLSEDTTEETLKE---SFDGSVRARIVTDRETGSSKGFGF 58
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 32.0 bits (71), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 6/83 (7%)
Query: 154 RVFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
R++VGGL + + + FG++ D VK G+S + + Y+ ACA
Sbjct: 19 RLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK----GDS--FAYIQYESLDAAQAACAK 72
Query: 214 LNGLKMGDKTLTVRRATASSGQS 236
+ G +G +R A SG S
Sbjct: 73 MRGFPLGGPDRRLRVDFAKSGPS 95
>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 = 31.2 bits (69), Expect = 0.97, Method: Composition-based stats.
Identities = 18/87 (20%), Positives = 41/87 (47%), Gaps = 3/87 (3%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+++ LPY T ++ ++ +G + ++ +T ++G + VY+D AC L
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKNACDHL 77
Query: 215 NGLKMGDKTLTVRRATASSGQSKTEQE 241
+G + ++ L V A+ K + +
Sbjct: 78 SGFNVCNRYLVVLYYNANRAFQKMDTK 104
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 31.2 bits (69), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 40/88 (45%), Gaps = 7/88 (7%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
++V L + ++++ FGT+ ++ + G SKG+GF + P A +
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 215 NGLKMGDKTLTVRRATASSGQSKTEQES 242
NG + K L V A Q K E++S
Sbjct: 76 NGRIVATKPLYVALA-----QRKEERQS 98
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 16/72 (22%), Positives = 36/72 (50%), Gaps = 3/72 (4%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+++ LPY T ++ ++ +G + ++ +T ++G + VY+D AC L
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKNACDHL 71
Query: 215 NGLKMGDKTLTV 226
+G + ++ L V
Sbjct: 72 SGFNVCNRYLVV 83
>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 = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 40/86 (46%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
V+VG + Y T ++ S G+++ ++ D+ +G+ KGY + + + D A A
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMD 98
Query: 215 NGLKMGDKTLTVRRATASSGQSKTEQ 240
+ G + + T G S T++
Sbjct: 99 ETVFRGRTIKVLPKRTNMPGISSTDR 124
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/100 (23%), Positives = 42/100 (42%), Gaps = 8/100 (8%)
Query: 14 GAFPLMPVQVMTQQATRH--ARRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAV 71
GA+ P Q ++ + + R VYVG + + Q + FS S +
Sbjct: 16 GAYTEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSC------GSINRITIL 69
Query: 72 VNVYINHEKKFAFVEMRTVEEASNAMALDGIIFEGVAVRV 111
+ + H K +A++E A+A+D +F G ++V
Sbjct: 70 CDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKV 109
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 30.0 bits (66), Expect = 2.2, Method: Composition-based stats.
Identities = 13/45 (28%), Positives = 25/45 (55%)
Query: 70 AVVNVYINHEKKFAFVEMRTVEEASNAMALDGIIFEGVAVRVRRP 114
AVV+V +KF +V+ + E+ A+ L G+ G +++ +P
Sbjct: 48 AVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKP 92
>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 = 30.0 bits (66), Expect = 2.2, Method: Composition-based stats.
Identities = 18/87 (20%), Positives = 40/87 (45%), Gaps = 3/87 (3%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+ + LPY T ++ ++ +G + ++ +T ++G + VY+D AC L
Sbjct: 21 LMIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKNACDHL 77
Query: 215 NGLKMGDKTLTVRRATASSGQSKTEQE 241
+G + ++ L V A+ K + +
Sbjct: 78 SGFNVCNRYLVVLYYNANRAFQKMDTK 104
>pdb|2TAA|A Chain A, Structure And Possible Catalytic Residues Of Taka-Amylase
A
pdb|2TAA|B Chain B, Structure And Possible Catalytic Residues Of Taka-Amylase
A
pdb|2TAA|C Chain C, Structure And Possible Catalytic Residues Of Taka-Amylase
A
Length = 478
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/94 (23%), Positives = 43/94 (45%), Gaps = 13/94 (13%)
Query: 147 GGAEGPDR--VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDP 204
GG + +R ++ G P T++++ +L+ S + + + KD GF Y++P
Sbjct: 337 GGNDPANREATWLSGYP---TDSELYKLIASANAIRNYAISKDT--------GFVTYKNP 385
Query: 205 AVTDIACAALNGLKMGDKTLTVRRATASSGQSKT 238
+ D A+ G + +T+ +SG S T
Sbjct: 386 YIKDDTTIAMRKGTDGSQIVTILSNKGASGDSYT 419
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 155 VFVGGLPYYFTETQIKELLESFG-TLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAA 213
+++G L Y E I + G T+ ++++R TG GY F + D A +
Sbjct: 12 LWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71
Query: 214 LNG 216
+NG
Sbjct: 72 ING 74
>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 = 28.5 bits (62), Expect = 6.1, Method: Composition-based stats.
Identities = 17/75 (22%), Positives = 33/75 (44%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+FVG L + ++ + F + ++ D TG+S+GYGF + A ++
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 215 NGLKMGDKTLTVRRA 229
G + + L + A
Sbjct: 64 QGQDLNGRPLRINWA 78
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 28.1 bits (61), Expect = 7.6, Method: Composition-based stats.
Identities = 17/87 (19%), Positives = 40/87 (45%), Gaps = 3/87 (3%)
Query: 155 VFVGGLPYYFTETQIKELLESFGTLHGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAAL 214
+++ LPY T ++ ++ +G + ++ +T ++G + VY+D A L
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKNAVDHL 67
Query: 215 NGLKMGDKTLTVRRATASSGQSKTEQE 241
+G + ++ L V A+ K + +
Sbjct: 68 SGFNVSNRYLVVLYYNANRAFQKMDTK 94
>pdb|3KKE|A Chain A, Crystal Structure Of A Laci Family Transcriptional
Regulator From Mycobacterium Smegmatis
pdb|3KKE|B Chain B, Crystal Structure Of A Laci Family Transcriptional
Regulator From Mycobacterium Smegmatis
pdb|3KKE|C Chain C, Crystal Structure Of A Laci Family Transcriptional
Regulator From Mycobacterium Smegmatis
pdb|3KKE|D Chain D, Crystal Structure Of A Laci Family Transcriptional
Regulator From Mycobacterium Smegmatis
Length = 303
Score = 27.7 bits (60), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 46/109 (42%), Gaps = 15/109 (13%)
Query: 27 QATRHARRVYVGGLPPLANEQAIATFFSQVMTAIGGNSAGPGDAVVNVYINHEKKFAFVE 86
+A RH+R +G + P N A FS V A G+S V+ I+ +
Sbjct: 8 RALRHSRSGTIGLIVPDVNNAVFADMFSGVQMAASGHSTD----VLLGQIDAPPRGTQQL 63
Query: 87 MRTVEEASNAMALDGIIFEGVAVRVRRPTDYNPTLAAALGPGQPSPNLN 135
R V E +DG++ + R D++ + AA+ G P+ +N
Sbjct: 64 SRLVSEGR----VDGVLLQ-------RREDFDDDMLAAVLEGVPAVTIN 101
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,765,782
Number of Sequences: 62578
Number of extensions: 431707
Number of successful extensions: 1096
Number of sequences better than 100.0: 149
Number of HSP's better than 100.0 without gapping: 123
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 885
Number of HSP's gapped (non-prelim): 205
length of query: 380
length of database: 14,973,337
effective HSP length: 101
effective length of query: 279
effective length of database: 8,652,959
effective search space: 2414175561
effective search space used: 2414175561
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)