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= 041633
(237 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 120 bits (301), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 54/87 (62%), Positives = 70/87 (80%), Gaps = 1/87 (1%)
Query: 86 EADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFLEIDAVQ 144
EAD+RS++VGNVDY T EE++ HF CG+VNRVTIL DKF G PKGFAY+EF + ++V+
Sbjct: 3 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 62
Query: 145 EALQLNESELHGRQLKVLPKRTNVPGM 171
+L L+ES GRQ+KV+PKRTN PG+
Sbjct: 63 TSLALDESLFRGRQIKVIPKRTNRPGI 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 = 120 bits (300), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 54/87 (62%), Positives = 70/87 (80%), Gaps = 1/87 (1%)
Query: 86 EADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFLEIDAVQ 144
EAD+RS++VGNVDY T EE++ HF CG+VNRVTIL DKF G PKGFAY+EF + ++V+
Sbjct: 2 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 61
Query: 145 EALQLNESELHGRQLKVLPKRTNVPGM 171
+L L+ES GRQ+KV+PKRTN PG+
Sbjct: 62 TSLALDESLFRGRQIKVIPKRTNRPGI 88
>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 = 116 bits (291), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 50/89 (56%), Positives = 70/89 (78%), Gaps = 1/89 (1%)
Query: 84 KEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFLEIDA 142
K+E D RSV+VGNVDY T ++++ HF SCG++NR+TIL DKF G PKG+AY+EF E ++
Sbjct: 31 KKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNS 90
Query: 143 VQEALQLNESELHGRQLKVLPKRTNVPGM 171
V A+ ++E+ GR +KVLPKRTN+PG+
Sbjct: 91 VDAAVAMDETVFRGRTIKVLPKRTNMPGI 119
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/80 (38%), Positives = 48/80 (60%), Gaps = 2/80 (2%)
Query: 83 SKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDA 142
++EEAD R+VFVGN++ E + + F G + +VTI D+ G+PK F +V F ++
Sbjct: 11 AQEEAD-RTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPES 69
Query: 143 VQEALQ-LNESELHGRQLKV 161
V A+ LN L+GR + V
Sbjct: 70 VSYAIALLNGIRLYGRPINV 89
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 53/82 (64%), Gaps = 6/82 (7%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAVQEAL- 147
R+++VGN+ Y+ T E+V++ F G V V ++ D+ +PKGF +VE E ++V EA+
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIA 60
Query: 148 QLNESELHGRQLKVL---PKRT 166
+L+ ++ GR ++V PK++
Sbjct: 61 KLDNTDFMGRTIRVTEANPKKS 82
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQLN 150
+VFVG +D E++ F G+V V I+TD+ G KG+ +V F VQ+ ++ +
Sbjct: 12 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE-S 70
Query: 151 ESELHGRQLKVLP 163
+ HG++LK+ P
Sbjct: 71 QINFHGKKLKLGP 83
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 50.8 bits (120), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 43/74 (58%), Gaps = 2/74 (2%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAVQEALQ 148
RSVFVGN+ Y T E+++ F G V ++ D+ G+PKG+ + E+ + + A++
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68
Query: 149 -LNESELHGRQLKV 161
LN E GR L+V
Sbjct: 69 NLNGREFSGRALRV 82
>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 = 50.8 bits (120), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 51/93 (54%), Gaps = 4/93 (4%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQLN 150
+VFVG +D E++ F G+V V I+TD+ G KG+ +V F VQ+ ++ +
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE-S 69
Query: 151 ESELHGRQLKVLP--KRTNVPGMK-QYRPRRFN 180
+ HG++LK+ P ++ N+ Q RP FN
Sbjct: 70 QINFHGKKLKLGPAIRKQNLSTYHVQPRPLIFN 102
>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 = 50.8 bits (120), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQLN 150
+VFVG +D E++ F G+V V I+TD+ G KG+ +V F VQ+ ++ +
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE-S 69
Query: 151 ESELHGRQLKVLP 163
+ HG++LK+ P
Sbjct: 70 QINFHGKKLKLGP 82
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 50.4 bits (119), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 1/84 (1%)
Query: 74 PANVAANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFG-QPKGF 132
P + S EE D+R+VF + P +++ F + G V V I++D+ + KG
Sbjct: 10 PVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGI 69
Query: 133 AYVEFLEIDAVQEALQLNESELHG 156
AYVEF EI +V A+ L L G
Sbjct: 70 AYVEFCEIQSVPLAIGLTGQRLLG 93
>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 = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 34/46 (73%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF 137
+F+ + ++CT EE+++ ++ GTV + ++T++ G+PKG AYVE+
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEY 65
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 34/101 (33%), Positives = 48/101 (47%), Gaps = 10/101 (9%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLE-IDAVQEALQL 149
+VFV N+DY +++++ F G V R IL DK G+ +G V F + I+AVQ
Sbjct: 17 TVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMF 76
Query: 150 NESELHGRQLKV------LPKRTNVPGMKQYRPRRFNPYMG 184
N L R + V LPK P RP++ P G
Sbjct: 77 NGQLLFDRPMHVKMDERALPKGDFFP---PERPQQSGPSSG 114
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAVQEALQ- 148
+V+V N+ ++ T ++ + F G V +VTI+ DK + KG A++ FL+ D+ Q +
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRA 77
Query: 149 LNESELHGRQLK 160
+N +L GR +K
Sbjct: 78 INNKQLFGRVIK 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 = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 82 ASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFLEI 140
ASK E D+ FVG + + + ++++ +F G V TI D G+ +GF ++ F +
Sbjct: 4 ASKNEEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDA 63
Query: 141 DAVQEALQLNESELHGRQL 159
+V++ L E L GR +
Sbjct: 64 ASVEKVLDQKEHRLDGRVI 82
>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 = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 48/90 (53%), Gaps = 3/90 (3%)
Query: 77 VAANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYV 135
++ +++ KE R +F+G + + T E ++ HF+ GT+ ++ D + +GF +V
Sbjct: 1 MSKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 60
Query: 136 EFLEIDAVQEALQLNESELHGRQLKVLPKR 165
+ ++ V A+ ++ GR ++ PKR
Sbjct: 61 TYATVEEVDAAMNARPHKVDGRVVE--PKR 88
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAV 143
+ +FVG + ++ +F+ G + + I+TD+ G+ +GFA+V F + D+V
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV 159
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 48/90 (53%), Gaps = 3/90 (3%)
Query: 77 VAANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYV 135
++ +++ KE R +F+G + + T E ++ HF+ GT+ ++ D + +GF +V
Sbjct: 1 MSKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 60
Query: 136 EFLEIDAVQEALQLNESELHGRQLKVLPKR 165
+ ++ V A+ ++ GR ++ PKR
Sbjct: 61 TYATVEEVDAAMNARPHKVDGRVVE--PKR 88
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAVQEAL 147
+ +FVG + ++ +F+ G + + I+TD+ G+ +GFA+V F + D+V + +
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 50/97 (51%), Gaps = 6/97 (6%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQL 149
R ++VGN+D A T + ++Q+FQ G + + I+ DK + +A+VE+ + ALQ
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQ- 59
Query: 150 NESELHGRQLKVLPKRTNVPGMKQYRPR--RFNPYMG 184
L+G+Q++ + N Q FN ++G
Sbjct: 60 ---TLNGKQIENNIVKINWAFQSQQSSSDDTFNLFVG 93
>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 = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 47/89 (52%), Gaps = 3/89 (3%)
Query: 78 AANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVE 136
+ +++ KE R +F+G + + T E ++ HF+ GT+ ++ D + +GF +V
Sbjct: 1 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 60
Query: 137 FLEIDAVQEALQLNESELHGRQLKVLPKR 165
+ ++ V A+ ++ GR ++ PKR
Sbjct: 61 YATVEEVDAAMNARPHKVDGRVVE--PKR 87
Score = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAV 143
+ +FVG + ++ +F+ G + + I+TD+ G+ +GFA+V F + D+V
Sbjct: 104 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV 158
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 47/89 (52%), Gaps = 3/89 (3%)
Query: 78 AANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVE 136
+ +++ KE R +F+G + + T E ++ HF+ GT+ ++ D + +GF +V
Sbjct: 3 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 62
Query: 137 FLEIDAVQEALQLNESELHGRQLKVLPKR 165
+ ++ V A+ ++ GR ++ PKR
Sbjct: 63 YATVEEVDAAMNARPHKVDGRVVE--PKR 89
Score = 36.2 bits (82), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAV 143
+ +FVG + ++ +F+ G + + I+TD+ G+ +GFA+V F + D+V
Sbjct: 106 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV 160
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 46/87 (52%), Gaps = 3/87 (3%)
Query: 80 NQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFL 138
+++ KE R +F+G + + T E ++ HF+ GT+ ++ D + +GF +V +
Sbjct: 2 SESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYA 61
Query: 139 EIDAVQEALQLNESELHGRQLKVLPKR 165
++ V A+ ++ GR ++ PKR
Sbjct: 62 TVEEVDAAMNARPHKVDGRVVE--PKR 86
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAVQEAL 147
+ +FVG + ++ +F+ G + + I+TD+ G+ +GFA+V F + D+V + +
Sbjct: 103 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 161
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 3/86 (3%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFLEIDAVQEALQLN 150
+FVG +D++ T E ++ +F G V I+ DK Q +GF +V+F + + V L
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASR 78
Query: 151 ESELHGRQLKVLPKRTNVPGMKQYRP 176
L GR + PK GM+ P
Sbjct: 79 PHTLDGRNID--PKPCTPRGMQPSGP 102
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 83 SKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-LEID 141
SK+E D+R++ N+ Y T +E+++ F+ + L K G+ KG AY+EF E D
Sbjct: 87 SKKERDARTLLAKNLPYKVTQDELKEVFEDAAEIR----LVSKDGKSKGIAYIEFKTEAD 142
Query: 142 AVQEALQLNESELHGRQLKV 161
A + + +E+ GR + +
Sbjct: 143 AEKTFEEKQGTEIDGRSISL 162
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 40/71 (56%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQLN 150
++FVGN+++ + E++ N + ++ + G + F YV+F + +++AL+L
Sbjct: 9 NLFVGNLNFNKSAPELKTGISDVFAKNDLAVVDVRIGMTRKFGYVDFESAEDLEKALELT 68
Query: 151 ESELHGRQLKV 161
++ G ++K+
Sbjct: 69 GLKVFGNEIKL 79
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 43/83 (51%), Gaps = 3/83 (3%)
Query: 84 KEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFLEIDA 142
KE R +F+G + + T E ++ HF+ GT+ ++ D + +GF +V + ++
Sbjct: 1 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 60
Query: 143 VQEALQLNESELHGRQLKVLPKR 165
V A+ ++ GR ++ PKR
Sbjct: 61 VDAAMNARPHKVDGRVVE--PKR 81
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAVQEAL 147
+ +FVG + ++ +F+ G + + I+TD+ G+ +GFA+V F + D+V + +
Sbjct: 98 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 156
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 45/75 (60%), Gaps = 4/75 (5%)
Query: 88 DSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEAL 147
+S+++ + N+ Y+ T E +Q+ F+ + + ++ G+ KG+A++EF + +EAL
Sbjct: 14 ESKTLVLSNLSYSATEETLQEVFEKA---TFIKVPQNQNGKSKGYAFIEFASFEDAKEAL 70
Query: 148 -QLNESELHGRQLKV 161
N+ E+ GR +++
Sbjct: 71 NSCNKREIEGRAIRL 85
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 43/75 (57%), Gaps = 8/75 (10%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCGTVNRVTIL----TDKFGQPKGFAYVEFLEIDAVQEA 146
+ +VGN+ + ++ F+ ++ V ++ TDKF KGF YVEF E+D+++EA
Sbjct: 17 TAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKF---KGFCYVEFDEVDSLKEA 72
Query: 147 LQLNESELHGRQLKV 161
L + + L R L+V
Sbjct: 73 LTYDGALLGDRSLRV 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 = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 40/72 (55%), Gaps = 2/72 (2%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFG-QPKGFAYVEFLEIDAVQEAL-QL 149
V+VG++ Y + ++Q F G + + + D + KGFA+VE+ +A Q AL Q+
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 90
Query: 150 NESELHGRQLKV 161
N L GR +KV
Sbjct: 91 NSVMLGGRNIKV 102
Score = 33.9 bits (76), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 51/95 (53%), Gaps = 7/95 (7%)
Query: 74 PANVA-----ANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFG 127
P+N+ +Q ++E ++V +V + ++++ F++ G + T+ D G
Sbjct: 105 PSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTG 164
Query: 128 QPKGFAYVEFLEIDAVQEAL-QLNESELHGRQLKV 161
+ KG+ ++E+ + + Q+A+ +N +L G+ L+V
Sbjct: 165 KHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRV 199
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLE-IDAVQEALQLN 150
+F+G ++ + ++ F G ++ V ++ D+ + +GFA++ F DA A +N
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMN 69
Query: 151 ESELHGRQLKV 161
LHG+ +KV
Sbjct: 70 GKSLHGKAIKV 80
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 42/74 (56%), Gaps = 2/74 (2%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQ-PKGFAYVEFLEID-AVQEALQL 149
+FV N+ Y + E++++ F + G ++ + D + PKGFA+V F+ + AV+ ++
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 150 NESELHGRQLKVLP 163
+ GR L VLP
Sbjct: 71 DGQVFQGRMLHVLP 84
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 41/81 (50%), Gaps = 8/81 (9%)
Query: 82 ASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-LEI 140
+S ++ +FVGNV ACT +E++ F+ G V ++ D +A+V E
Sbjct: 2 SSGSSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD-------YAFVHMEKEA 54
Query: 141 DAVQEALQLNESELHGRQLKV 161
DA QLN E+ G+++ V
Sbjct: 55 DAKAAIAQLNGKEVKGKRINV 75
>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 = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 40/72 (55%), Gaps = 2/72 (2%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFG-QPKGFAYVEFLEIDAVQEAL-QL 149
V+VG++ Y + ++Q F G + + + D + KGFA+VE+ +A Q AL Q+
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 150 NESELHGRQLKV 161
N L GR +KV
Sbjct: 76 NSVMLGGRNIKV 87
Score = 33.5 bits (75), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 51/95 (53%), Gaps = 7/95 (7%)
Query: 74 PANVA-----ANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFG 127
P+N+ +Q ++E ++V +V + ++++ F++ G + T+ D G
Sbjct: 90 PSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTG 149
Query: 128 QPKGFAYVEFLEIDAVQEAL-QLNESELHGRQLKV 161
+ KG+ ++E+ + + Q+A+ +N +L G+ L+V
Sbjct: 150 KHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRV 184
>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 = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 85 EEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAV 143
E+ + +FVG + P+E ++ F GT+ ++ DK GQ +GF +V + DAV
Sbjct: 83 EQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAV 142
Query: 144 QEALQLNESELHGRQLKV 161
Q + R++++
Sbjct: 143 DRVCQNKFIDFKDRKIEI 160
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 45/79 (56%), Gaps = 4/79 (5%)
Query: 88 DSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFLEIDAVQEA 146
+S +F+G +++ T + ++++F GTV + I+ D G+ +GF ++ F + +V E
Sbjct: 2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEV 61
Query: 147 LQLNESELHGRQLKVLPKR 165
++ + L G+ + PKR
Sbjct: 62 VK-TQHILDGKVID--PKR 77
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 41/70 (58%), Gaps = 2/70 (2%)
Query: 94 VGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQ-PKGFAYVEFLEIDAVQEA-LQLNE 151
V N+ Y +P+ +++ F+ G V V I + + P+GFA+V F + Q+A ++
Sbjct: 18 VDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDG 77
Query: 152 SELHGRQLKV 161
+EL GR+L+V
Sbjct: 78 AELDGRELRV 87
>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 = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 43/78 (55%), Gaps = 6/78 (7%)
Query: 61 QAKVEKEMGAAQDPANVAANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRV- 119
Q +VE E+ DP N Q +++FV V+Y T ++++ F+ G + R+
Sbjct: 79 QQEVETEL-KMWDPHNDPNAQGDA----FKTLFVARVNYDTTESKLRREFEVYGPIKRIH 133
Query: 120 TILTDKFGQPKGFAYVEF 137
+ + + G+P+G+A++E+
Sbjct: 134 MVYSKRSGKPRGYAFIEY 151
>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 = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 48/97 (49%), Gaps = 12/97 (12%)
Query: 87 ADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVT------ILTDKFGQPKGFAYVEFLEI 140
A +R ++VGN+ + T E + F + + +T +L + Q K FA++EF +
Sbjct: 2 AMARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSV 61
Query: 141 DAVQEALQLNESELHGRQLKVLPKRTN----VPGMKQ 173
D +A+ + G+ LK+ +R + +PGM +
Sbjct: 62 DETTQAMAFDGIIFQGQSLKI--RRPHDYQPLPGMSE 96
>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 = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 43/78 (55%), Gaps = 6/78 (7%)
Query: 61 QAKVEKEMGAAQDPANVAANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRV- 119
Q +VE E+ DP N Q +++FV V+Y T ++++ F+ G + R+
Sbjct: 79 QQEVETEL-KMWDPHNDPNAQGDA----FKTLFVARVNYDTTESKLRREFEVYGPIKRIH 133
Query: 120 TILTDKFGQPKGFAYVEF 137
+ + + G+P+G+A++E+
Sbjct: 134 MVYSKRSGKPRGYAFIEY 151
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large
Subunit
Length = 87
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 39/81 (48%), Gaps = 6/81 (7%)
Query: 87 ADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVT------ILTDKFGQPKGFAYVEFLEI 140
+R ++VGN+ + T E + F + + +T +L + Q K FA++EF +
Sbjct: 4 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSV 63
Query: 141 DAVQEALQLNESELHGRQLKV 161
D +A+ + G+ LK+
Sbjct: 64 DETTQAMAFDGIIFQGQSLKI 84
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 39/81 (48%), Gaps = 6/81 (7%)
Query: 87 ADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVT------ILTDKFGQPKGFAYVEFLEI 140
+R ++VGN+ + T E + F + + +T +L + Q K FA++EF +
Sbjct: 4 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSV 63
Query: 141 DAVQEALQLNESELHGRQLKV 161
D +A+ + G+ LK+
Sbjct: 64 DETTQAMAFDGIIFQGQSLKI 84
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 6/79 (7%)
Query: 89 SRSVFVGNVDYACTPEEVQQHFQSCGTVNRVT------ILTDKFGQPKGFAYVEFLEIDA 142
+R ++VGN+ + T E + F + + +T +L + Q K FA++EF +D
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 143 VQEALQLNESELHGRQLKV 161
+A+ + G+ LK+
Sbjct: 64 TTQAMAFDGIIFQGQSLKI 82
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 45/74 (60%), Gaps = 2/74 (2%)
Query: 89 SRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFLEIDAVQEAL 147
SR V++G++ Y T E++ + G V + ++ D + G+ KG+A++EF ++++ A+
Sbjct: 3 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 62
Query: 148 Q-LNESELHGRQLK 160
+ LN +L R LK
Sbjct: 63 RNLNGYQLGSRFLK 76
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 6/79 (7%)
Query: 89 SRSVFVGNVDYACTPEEVQQHFQSCGTVNRVT------ILTDKFGQPKGFAYVEFLEIDA 142
+R ++VGN+ + T E + F + + +T +L + Q K FA++EF +D
Sbjct: 1 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 60
Query: 143 VQEALQLNESELHGRQLKV 161
+A+ + G+ LK+
Sbjct: 61 TTQAMAFDGIIFQGQSLKI 79
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 45/74 (60%), Gaps = 2/74 (2%)
Query: 89 SRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFLEIDAVQEAL 147
SR V++G++ Y T E++ + G V + ++ D + G+ KG+A++EF ++++ A+
Sbjct: 4 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 63
Query: 148 Q-LNESELHGRQLK 160
+ LN +L R LK
Sbjct: 64 RNLNGYQLGSRFLK 77
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 45/74 (60%), Gaps = 2/74 (2%)
Query: 89 SRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEFLEIDAVQEAL 147
SR V++G++ Y T E++ + G V + ++ D + G+ KG+A++EF ++++ A+
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61
Query: 148 Q-LNESELHGRQLK 160
+ LN +L R LK
Sbjct: 62 RNLNGYQLGSRFLK 75
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFLEIDAVQEAL-QL 149
V+VG++ Y + ++Q F G + + D + KGFA+VE+ +A Q AL Q
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 150 NESELHGRQLKV 161
N L GR +KV
Sbjct: 75 NSVXLGGRNIKV 86
Score = 31.6 bits (70), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 50/95 (52%), Gaps = 7/95 (7%)
Query: 74 PANVA-----ANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFG 127
P+N+ +Q ++E ++V +V + ++++ F++ G + T+ D G
Sbjct: 89 PSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTG 148
Query: 128 QPKGFAYVEFLEIDAVQEAL-QLNESELHGRQLKV 161
+ KG+ ++E+ + + Q+A+ N +L G+ L+V
Sbjct: 149 KHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRV 183
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 38.9 bits (89), Expect = 0.002, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 42/75 (56%), Gaps = 3/75 (4%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFLEIDAVQEALQLN 150
+F+G + + T ++++ +F G V T+ D G+ +GF +V F E ++V + +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 151 ESELHGRQLKVLPKR 165
E +L+G+ + PKR
Sbjct: 62 EHKLNGKVID--PKR 74
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 4/69 (5%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQL 149
R +FVG ++ + E+V + FQ G ++ T+L G KG A+V+F Q A+
Sbjct: 16 RKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIH- 74
Query: 150 NESELHGRQ 158
LHG Q
Sbjct: 75 ---ALHGSQ 80
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 89 SRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQ 148
S +++VGN+ + T E++ + F G + ++ + DK GF +VE+ + A++
Sbjct: 18 SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTACGFCFVEYYSRADAENAMR 77
Query: 149 -LNESELHGRQLKV 161
+N + L R ++
Sbjct: 78 YINGTRLDDRIIRT 91
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-LEIDAVQEALQLN 150
+ V N+D+ + ++Q+ F GT+ + + D+ G+ G A V F + DA++ Q N
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN 90
Query: 151 ESELHGRQLKV 161
L GR + +
Sbjct: 91 GVPLDGRPMNI 101
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 37.0 bits (84), Expect = 0.010, Method: Composition-based stats.
Identities = 18/70 (25%), Positives = 40/70 (57%), Gaps = 1/70 (1%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAVQEALQLN 150
+FVG + T E+V+ +F+ G V+ ++ DK + +GF +V F D V++ +++
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 151 ESELHGRQLK 160
E++ + ++
Sbjct: 62 FHEINNKMVE 71
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-LEIDAVQEALQLN 150
+ V N+D+ + ++Q+ F GT+ + + D+ G+ G A V F DA++ Q
Sbjct: 91 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYK 150
Query: 151 ESELHGRQLKV 161
L GR + +
Sbjct: 151 GVPLDGRPMDI 161
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 33/61 (54%)
Query: 87 ADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEA 146
+ R +FVG + T E+V++ F+ GT++ T+L G KG A+V+F Q A
Sbjct: 10 GEDRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPDGTSKGCAFVKFQTHAEAQAA 69
Query: 147 L 147
+
Sbjct: 70 I 70
>pdb|2LXU|A Chain A, Solution Nmr Structure Of The Eukaryotic Rna Recognition
Motif, Rrm1, From The Heterogeneous Nuclear
Ribonucleoprotein H From Homo Sapiens, Northeast
Structural Genomics Consortium (Nesg) Target Hr8614a
Length = 108
Score = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 41/80 (51%), Gaps = 4/80 (5%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNR---VTILTDKFGQPKGFAYVEFLEIDAVQEALQ 148
V V + ++C+ +EVQ+ F C N + + + G+P G A+VE D V+ AL+
Sbjct: 10 VKVRGLPWSCSADEVQRFFSDCKIQNGAQGIRFIYTREGRPSGEAFVELESEDEVKLALK 69
Query: 149 LNESELHGRQLKVLPKRTNV 168
+ + R ++V K NV
Sbjct: 70 KDRETMGHRYVEVF-KSNNV 88
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 35/67 (52%), Gaps = 1/67 (1%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-LEIDAVQEALQLN 150
+ V N+D+ + ++Q+ F GT+ + + D+ G+ G A V F + DA++ Q N
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAXKQYN 91
Query: 151 ESELHGR 157
L GR
Sbjct: 92 GVPLDGR 98
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEFLEIDAVQEALQLN 150
+FVG + Y T ++++F+ G + ++TD+ G+ +G+ +V + A + A +
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP 79
Query: 151 ESELHGRQLKV 161
+ GR+ V
Sbjct: 80 NPIIDGRKANV 90
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 4/75 (5%)
Query: 74 PANVAANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFA 133
PA+ N A + R +F+G + CT +++ F S G + IL G +G A
Sbjct: 96 PADSEKNNA----VEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCA 151
Query: 134 YVEFLEIDAVQEALQ 148
+V F Q A++
Sbjct: 152 FVTFTTRAMAQTAIK 166
>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 = 36.2 bits (82), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 4/75 (5%)
Query: 74 PANVAANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFA 133
PA+ N A + R +F+G + CT +++ F S G + IL G +G A
Sbjct: 84 PADSEKNNA----VEDRKLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPDGLSRGCA 139
Query: 134 YVEFLEIDAVQEALQ 148
+V F Q A++
Sbjct: 140 FVTFTTRAXAQTAIK 154
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 4/75 (5%)
Query: 74 PANVAANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFA 133
PA+ N A + R +F+G + CT +++ F S G + IL G +G A
Sbjct: 84 PADSEKNNA----VEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCA 139
Query: 134 YVEFLEIDAVQEALQ 148
+V F Q A++
Sbjct: 140 FVTFTTRAMAQTAIK 154
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 24/105 (22%), Positives = 53/105 (50%), Gaps = 15/105 (14%)
Query: 78 AANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVE 136
++ + ++ D+ +F+G + ++++ F+ G + +T+L D+F G KG A++
Sbjct: 2 SSGSSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLT 61
Query: 137 FLEIDAVQEALQLNESELHGRQLKVLPKRTNVPGMKQYRPRRFNP 181
+ E ++ +A +S LH ++ +PGM RP + P
Sbjct: 62 YCERESALKA----QSALH--------EQKTLPGMN--RPIQVKP 92
>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 = 0.023, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 4/69 (5%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQL 149
R +FVG ++ + ++V++ F++ G + TIL G KG A+V++ Q A+
Sbjct: 16 RKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPDGNSKGCAFVKYSSHAEAQAAIN- 74
Query: 150 NESELHGRQ 158
LHG Q
Sbjct: 75 ---ALHGSQ 80
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEF-LEIDAVQEAL 147
R ++VG + + + F G + + I D + + +GFA+VEF L DA
Sbjct: 13 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 72
Query: 148 QLNESELHGRQLKV 161
+NESEL GR ++V
Sbjct: 73 NMNESELFGRTIRV 86
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 35.0 bits (79), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 8/72 (11%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQE--ALQL 149
+FVGN+ T EE+++ F+ G V I D KGF ++ LE + E ++L
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-----KGFGFIR-LETRTLAEIAKVEL 78
Query: 150 NESELHGRQLKV 161
+ L G+QL+V
Sbjct: 79 DNMPLRGKQLRV 90
Score = 32.0 bits (71), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 30/59 (50%)
Query: 89 SRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEAL 147
S S+ V N+ + E +++ F G V R ++ D G+P G VEF A ++AL
Sbjct: 96 SASLTVRNLPQYVSNELLEEAFSVFGQVERAVVIVDDRGRPSGKGIVEFSGKPAARKAL 154
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPK-GFAYVEFLEIDAVQEALQ- 148
+++VGN+ + T E++ + F G + ++ + DK + GF +VE+ + A++
Sbjct: 41 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRY 100
Query: 149 LNESELHGRQLKV 161
+N + L R ++
Sbjct: 101 INGTRLDDRIIRT 113
>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 = 35.0 bits (79), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 8/72 (11%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQE--ALQL 149
+FVGN+ T EE+++ F+ G V I D KGF ++ LE + E ++L
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-----KGFGFIR-LETRTLAEIAKVEL 71
Query: 150 NESELHGRQLKV 161
+ L G+QL+V
Sbjct: 72 DNMPLRGKQLRV 83
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 35.0 bits (79), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 85 EEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFLEIDAV 143
E +++V N+ T +++ F G++ + IL DK G+P+G A+V + + +
Sbjct: 9 ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 68
Query: 144 QEAL 147
QEA+
Sbjct: 69 QEAI 72
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 34.7 bits (78), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-LEIDAVQEALQLN 150
+ V N+D+ + ++Q+ F GT+ + + D+ G+ G A V F DA++ Q
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYK 97
Query: 151 ESELHGRQLKV 161
L GR + +
Sbjct: 98 GVPLDGRPMDI 108
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 34.7 bits (78), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-LEIDAVQEALQLN 150
+ V N+D+ + ++Q+ F GT+ + + D+ G+ G A V F DA++ Q
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYK 97
Query: 151 ESELHGRQLKV 161
L GR + +
Sbjct: 98 GVPLDGRPMDI 108
>pdb|3MDF|A Chain A, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
pdb|3MDF|B Chain B, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
Length = 85
Score = 34.7 bits (78), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEF-LEIDAVQEAL 147
R ++VG + + + F G + + I D + + +GFA+VEF L DA
Sbjct: 8 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 67
Query: 148 QLNESELHGRQLKV 161
+NESEL GR ++V
Sbjct: 68 NMNESELFGRTIRV 81
>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 = 34.7 bits (78), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 85 EEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFLEIDAV 143
E +++V N+ T +++ F G++ + IL DK G+P+G A+V + + +
Sbjct: 96 ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 155
Query: 144 QEAL 147
QEA+
Sbjct: 156 QEAI 159
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 34.3 bits (77), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEF-LEIDAVQEAL 147
R ++VG + + + F G + + I D + + +GFA+VEF L DA
Sbjct: 6 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 65
Query: 148 QLNESELHGRQLKV 161
+NESEL GR ++V
Sbjct: 66 NMNESELFGRTIRV 79
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 34.3 bits (77), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEF-LEIDAVQEAL 147
R ++VG + + + F G + + I D + + +GFA+VEF L DA
Sbjct: 3 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 62
Query: 148 QLNESELHGRQLKV 161
+NESEL GR ++V
Sbjct: 63 NMNESELFGRTIRV 76
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 34.3 bits (77), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 85 EEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFLEIDAV 143
E +++V N+ T +++ F G++ + IL DK G+P+G A+V + + +
Sbjct: 85 ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 144
Query: 144 QEAL 147
QEA+
Sbjct: 145 QEAI 148
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 34.3 bits (77), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 102 TPEEVQQHFQSCGTVNRVTILTDKFGQ-PKGFAYVEFLEIDAVQEALQ-LNESELHGRQL 159
T ++++ F G + V+I+ D+ + +GFA+V F +D +EA + N EL GR++
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 87
Query: 160 KV 161
+V
Sbjct: 88 RV 89
>pdb|2HGM|A Chain A, Nmr Structure Of The Second Qrrm Domain Of Human Hnrnp F
pdb|2KG0|A Chain A, Structure Of The Second Qrrm Domain Of Hnrnp F In Complex
With A Agggau G-Tract Rna
Length = 126
Score = 34.3 bits (77), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 83 SKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTV-NRVTILTDKFGQPKGFAYVEFLEID 141
S + A+ V + + + CT EE+ Q F V N +T+ D G+ G A+V+F +
Sbjct: 36 SADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQE 95
Query: 142 AVQEALQLNESELHGRQLKVL 162
++AL ++ + R ++V
Sbjct: 96 LAEKALGKHKERIGHRYIEVF 116
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 34.3 bits (77), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 102 TPEEVQQHFQSCGTVNRVTILTDKFGQ-PKGFAYVEFLEIDAVQEALQ-LNESELHGRQL 159
T ++++ F G + V+I+ D+ + +GFA+V F +D +EA + N EL GR++
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 87
Query: 160 KV 161
+V
Sbjct: 88 RV 89
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 33.9 bits (76), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 102 TPEEVQQHFQSCGTVNRVTILTDKFGQ-PKGFAYVEFLEIDAVQEALQ-LNESELHGRQL 159
T ++++ F G + V+I+ D+ + +GFA+V F +D +EA + N EL GR++
Sbjct: 59 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 118
Query: 160 KV 161
+V
Sbjct: 119 RV 120
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 33.9 bits (76), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 6/73 (8%)
Query: 89 SRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQ 148
S + VGN+ CT +E++ F+ G V I+ D F ++E E DAV+
Sbjct: 10 STKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD-----YAFVHMERAE-DAVEAIRG 63
Query: 149 LNESELHGRQLKV 161
L+ +E G+++ V
Sbjct: 64 LDNTEFQGKRMHV 76
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 33.5 bits (75), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 102 TPEEVQQHFQSCGTVNRVTILTDKFGQ-PKGFAYVEFLEIDAVQEALQ-LNESELHGRQL 159
T ++++ F G + V+I+ D+ + +GFA+V F +D +EA + N EL GR++
Sbjct: 25 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 84
Query: 160 KV 161
+V
Sbjct: 85 RV 86
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 33.5 bits (75), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 90 RSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTD-KFGQPKGFAYVEF-LEIDAVQEAL 147
R ++VG + + + F G + + I D + + +GFA+VEF L DA
Sbjct: 64 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 123
Query: 148 QLNESELHGRQLKV 161
+NESEL GR ++V
Sbjct: 124 NMNESELFGRTIRV 137
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 46/95 (48%), Gaps = 15/95 (15%)
Query: 88 DSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKF-GQPKGFAYVEFLEIDAVQEA 146
D+ +FVG + ++++ F+ G + +T+L D+ G KG A++ + D+ +A
Sbjct: 14 DAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKA 73
Query: 147 LQLNESELHGRQLKVLPKRTNVPGMKQYRPRRFNP 181
+S LH ++ +PGM RP + P
Sbjct: 74 ----QSALH--------EQKTLPGMN--RPIQVKP 94
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 41/75 (54%), Gaps = 5/75 (6%)
Query: 89 SRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDK-FGQPKGFAYVEF-LEIDAVQEA 146
S+++FV + T E +++ F G+V R I+TD+ G KGF +V+F E DA
Sbjct: 15 SKTLFVKGLSEDTTEETLKESFD--GSV-RARIVTDRETGSSKGFGFVDFNSEEDAKAAK 71
Query: 147 LQLNESELHGRQLKV 161
+ + E+ G ++ +
Sbjct: 72 EAMEDGEIDGNKVTL 86
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation Initiation
Factor 4b
Length = 100
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCG-TVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQL 149
+ F+GN+ Y T E +++ F+ + R+ + KGF Y EF ++D++ AL L
Sbjct: 21 TAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSL 80
Query: 150 NESELHGRQLKV 161
NE L R+++V
Sbjct: 81 NEESLGNRRIRV 92
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 5/81 (6%)
Query: 82 ASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-LEI 140
SK+ +R++ N+ + T +E+++ F+ + L + G+ KG AY+EF E
Sbjct: 9 TSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIR----LVSQDGKSKGIAYIEFKSEA 64
Query: 141 DAVQEALQLNESELHGRQLKV 161
DA + + +E+ GR + +
Sbjct: 65 DAEKNLEEKQGAEIDGRSVSL 85
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 87 ADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEA 146
+ S +FV N+ + T + ++ F CG V I + G+ KG V+F + + A
Sbjct: 3 SGSSGIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMEN-GKSKGCGVVKFESPEVAERA 61
Query: 147 LQ-LNESELHGRQLKV 161
+ +N +L GR++ V
Sbjct: 62 CRMMNGMKLSGREIDV 77
>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 = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 42/80 (52%), Gaps = 5/80 (6%)
Query: 83 SKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEF-LEID 141
SK+ +R++ N+ + T +E+++ F+ + L + G+ KG AY+EF E D
Sbjct: 93 SKKVRAARTLLAKNLSFNITEDELKEVFEDALEIR----LVSQDGKSKGIAYIEFKSEAD 148
Query: 142 AVQEALQLNESELHGRQLKV 161
A + + +E+ GR + +
Sbjct: 149 AEKNLEEKQGAEIDGRSVSL 168
Score = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 39/71 (54%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQLN 150
++F+GN++ + E++ N + ++ + G + F YV+F + +++AL+L
Sbjct: 15 NLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELT 74
Query: 151 ESELHGRQLKV 161
++ G ++K+
Sbjct: 75 GLKVFGNEIKL 85
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 37/72 (51%), Gaps = 5/72 (6%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQLNE 151
++V N+D E +++ F GT+ ++ + G+ KGF +V F + +A+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG-GRSKGFGFVCFSSPEEATKAV---- 72
Query: 152 SELHGRQLKVLP 163
+E++GR + P
Sbjct: 73 TEMNGRIVATKP 84
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 43/81 (53%), Gaps = 10/81 (12%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQ-LN 150
V+VGN+ E+++ F G + V I + P GFA+VEF + ++A++ L+
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARN----PPGFAFVEFEDPRDAEDAVRGLD 58
Query: 151 ESELHGRQLKV-----LPKRT 166
+ G +++V +P+R+
Sbjct: 59 GKVICGSRVRVELSTGMPRRS 79
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 2/57 (3%)
Query: 100 ACTPEEVQQHFQSCGTVNR-VTILTDKF-GQPKGFAYVEFLEIDAVQEALQLNESEL 154
A T ++++ QS G R V ++ +K GQ +GFA+VEF + ++ N+ L
Sbjct: 12 AATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSL 68
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 31.6 bits (70), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 39/71 (54%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQLN 150
++F+GN++ + E++ N + ++ + G + F YV+F + +++AL+L
Sbjct: 19 NLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELT 78
Query: 151 ESELHGRQLKV 161
++ G ++K+
Sbjct: 79 GLKVFGNEIKL 89
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCG-TVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQL 149
+ F+GN+ Y T E +++ F+ + R+ + KGF Y EF ++D++ AL L
Sbjct: 17 TAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSL 76
Query: 150 NESELHGRQLKV 161
NE L ++++V
Sbjct: 77 NEESLGNKRIRV 88
>pdb|2CPY|A Chain A, Solution Structure Of Rna Binding Domain 3 In Rna Binding
Motif Protein 12
Length = 114
Score = 31.2 bits (69), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 94 VGNVDYACTPEEVQQHFQSCGT-VNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQLNES 152
+ N+ ++ T +V Q + N V +L D GQ G A V+F D +++ +L+
Sbjct: 20 ITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRK 79
Query: 153 ELHGRQ 158
+L+GR+
Sbjct: 80 KLNGRE 85
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 30.4 bits (67), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 1/78 (1%)
Query: 70 AAQDPANVAANQASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQP 129
AA + AN+A + +V V N+ + +V ++F+ CG + V + D +
Sbjct: 22 AAAGLTSKKANEALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDV-ADSLKKN 80
Query: 130 KGFAYVEFLEIDAVQEAL 147
FA +EF D A+
Sbjct: 81 FRFARIEFARYDGALAAI 98
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQ--PKGFAYVEFLEIDAVQEALQ 148
V +G + T + + + F + G + + + ++ KG+AYVEF D ++AL+
Sbjct: 7 VHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 43/86 (50%), Gaps = 7/86 (8%)
Query: 82 ASKEEADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEID 141
+S E+ +++VG + T +++ HF G + +T++ Q + A+++F
Sbjct: 5 SSGEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVV-----QRQQCAFIQFATRQ 59
Query: 142 AVQEALQ--LNESELHGRQLKVLPKR 165
A + A + N+ ++GR+L V R
Sbjct: 60 AAEVAAEKSFNKLIVNGRRLNVKWGR 85
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 91 SVFVGNVDYACTPEEVQQHFQSCG-TVNRVTILTDKF-GQPKGFAYVEFLEIDAVQEAL- 147
S+++G+++ + + F + G TV V I+ ++ G P G+ +VEF ++ ++ L
Sbjct: 11 SLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLH 70
Query: 148 QLNESELHG 156
++N L G
Sbjct: 71 KINGKPLPG 79
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 9/74 (12%)
Query: 92 VFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEALQLNE 151
+FVGN+ T E+ ++ F+ G + V I D +GF ++ LE + E + +
Sbjct: 25 LFVGNLPTDITEEDFKRLFERYGEPSEVFINRD-----RGFGFIR-LESRTLAE---IAK 75
Query: 152 SELHGRQLKVLPKR 165
+EL G LK P R
Sbjct: 76 AELDGTILKSRPLR 89
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 11/74 (14%)
Query: 86 EADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQE 145
E + +FV E+ + F G + V IL GFA+VEF E ++ +
Sbjct: 28 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN-------GFAFVEFEEAESAAK 80
Query: 146 ALQLNESELHGRQL 159
A++ E+HG+
Sbjct: 81 AIE----EVHGKSF 90
>pdb|2DNN|A Chain A, Solution Structure Of Rna Binding Domain In Rna-Binding
Protein 12
Length = 109
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 1/76 (1%)
Query: 88 DSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQEAL 147
D V V + ++ +V+ F V+ V +L D G+ G V+FL EAL
Sbjct: 15 DDLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL 73
Query: 148 QLNESELHGRQLKVLP 163
+ N + R ++V P
Sbjct: 74 KRNRMLMIQRYVEVSP 89
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 11/74 (14%)
Query: 86 EADSRSVFVGNVDYACTPEEVQQHFQSCGTVNRVTILTDKFGQPKGFAYVEFLEIDAVQE 145
E + +FV E+ + F G + V IL GFA+VEF E ++ +
Sbjct: 1 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN-------GFAFVEFEEAESAAK 53
Query: 146 ALQLNESELHGRQL 159
A++ E+HG+
Sbjct: 54 AIE----EVHGKSF 63
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
0.315 0.132 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,291,155
Number of Sequences: 62578
Number of extensions: 152463
Number of successful extensions: 452
Number of sequences better than 100.0: 98
Number of HSP's better than 100.0 without gapping: 53
Number of HSP's successfully gapped in prelim test: 45
Number of HSP's that attempted gapping in prelim test: 368
Number of HSP's gapped (non-prelim): 111
length of query: 237
length of database: 14,973,337
effective HSP length: 96
effective length of query: 141
effective length of database: 8,965,849
effective search space: 1264184709
effective search space used: 1264184709
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)