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= psy630
(347 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2COP|A Chain A, Solution Structure Of Rsgi Ruh-040, An Acbp Domain From
Human Cdna
Length = 109
Score = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 36/92 (39%), Positives = 56/92 (60%)
Query: 93 NMEDRFNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWN 152
+ + F +A +L L++ LL YA YKQ VG CN KPS+++ E K K+ AW
Sbjct: 7 GLAELFEKAAAHLQGLIQVASREQLLYLYARYKQVKVGNCNTPKPSFFDFEGKQKWEAWK 66
Query: 153 SLGQMAKSEAMSKYIALLKEVDAGWEDKEQEE 184
+LG + S+AM +YIA++K++D GW + E+
Sbjct: 67 ALGDSSPSQAMQEYIAVVKKLDPGWNPQIPEK 98
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 72.8 bits (177), Expect = 2e-13, Method: Composition-based stats.
Identities = 28/77 (36%), Positives = 49/77 (63%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
++ K+FVG L W+ + L+ +FS+YG++++ +M DK T S+GFGFV F++ V V
Sbjct: 15 EIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTV 74
Query: 67 FSTDSHVLEGSRLSIQP 83
++ H L+G + +P
Sbjct: 75 LASRPHTLDGRNIDPKP 91
>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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 29/60 (48%), Positives = 44/60 (73%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
+ KIFVG + V E ++FFS++G I++A +M DK+TG S+GFGFVT+ + +AVD+V
Sbjct: 86 KTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRV 145
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 52/86 (60%), Gaps = 4/86 (4%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+F+G L W + + L+++F +YG + + +M D TG S+GFGF++F+ +VD+V T
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 70 DSHVLEGSRLSIQ---PSDSHNRMAE 92
H+L+G + + P D ++ +
Sbjct: 65 -QHILDGKVIDPKRAIPRDEQDKTGK 89
>pdb|3FLV|A Chain A, The Crystal Structure Of Human Acyl-Coenzymea Binding
Domain Containing 5
pdb|3FLV|B Chain B, The Crystal Structure Of Human Acyl-Coenzymea Binding
Domain Containing 5
Length = 119
Score = 65.9 bits (159), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 50/83 (60%), Gaps = 4/83 (4%)
Query: 95 EDRFNQACDYLPSLVK----KLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNA 150
E RF A + SL K + + +LKFY+ YKQAT G C + +P +++ + K++A
Sbjct: 25 ETRFEAAVKVIQSLPKNGSFQPTNEMMLKFYSFYKQATEGPCKLSRPGFWDPIGRYKWDA 84
Query: 151 WNSLGQMAKSEAMSKYIALLKEV 173
W+SLG M K EAM Y+ +K++
Sbjct: 85 WSSLGDMTKEEAMIAYVEEMKKI 107
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 65.1 bits (157), Expect = 6e-11, Method: Composition-based stats.
Identities = 30/83 (36%), Positives = 48/83 (57%), Gaps = 2/83 (2%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+F+G L W + L+++F ++G++ VM D T S+GFGFVTF ++ VDKV +
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
Query: 70 DSHVLEGSRLSIQPSDSHNRMAE 92
H L+ +I P + R A+
Sbjct: 87 SRHELDSK--TIDPKVAFPRRAQ 107
>pdb|2WH5|A Chain A, Crystal Structure Of Human Acyl-Coa Binding Domain 4
Complexed With Stearoyl-Coa
pdb|2WH5|B Chain B, Crystal Structure Of Human Acyl-Coa Binding Domain 4
Complexed With Stearoyl-Coa
pdb|2WH5|C Chain C, Crystal Structure Of Human Acyl-Coa Binding Domain 4
Complexed With Stearoyl-Coa
pdb|2WH5|D Chain D, Crystal Structure Of Human Acyl-Coa Binding Domain 4
Complexed With Stearoyl-Coa
pdb|2WH5|E Chain E, Crystal Structure Of Human Acyl-Coa Binding Domain 4
Complexed With Stearoyl-Coa
pdb|2WH5|F Chain F, Crystal Structure Of Human Acyl-Coa Binding Domain 4
Complexed With Stearoyl-Coa
Length = 106
Score = 64.7 bits (156), Expect = 7e-11, Method: Composition-based stats.
Identities = 27/57 (47%), Positives = 43/57 (75%)
Query: 117 LLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNSLGQMAKSEAMSKYIALLKEV 173
+L+FY+ YKQAT+G C + +P +++ + K++AWNSLG+M++ EAMS YI +K V
Sbjct: 35 MLRFYSYYKQATMGPCLVPRPGFWDPIGRYKWDAWNSLGKMSREEAMSAYITEMKLV 91
>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 = 64.7 bits (156), Expect = 7e-11, Method: Composition-based stats.
Identities = 27/66 (40%), Positives = 43/66 (65%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
+F+G L W + +LK +FS++G++++ ++ D TG S+GFGFV F+ E+VDKV
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 71 SHVLEG 76
H L G
Sbjct: 62 EHKLNG 67
>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 = 64.7 bits (156), Expect = 8e-11, Method: Composition-based stats.
Identities = 27/67 (40%), Positives = 45/67 (67%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K FVG L W S +LK +F+++G++++ ++ D NTG S+GFGF+ F++ +V+KV
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 70 DSHVLEG 76
H L+G
Sbjct: 73 KEHRLDG 79
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 62.8 bits (151), Expect = 3e-10, Method: Composition-based stats.
Identities = 26/66 (39%), Positives = 41/66 (62%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+F+G L W + L+++F ++G++ VM D T S+GFGFVTF ++ VDKV +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 70 DSHVLE 75
H L+
Sbjct: 62 SRHELD 67
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 61.6 bits (148), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 45/74 (60%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
KIFVG LP+ + L+K+F +G I A V+ D+ TG S+G+GFVT ++ A ++
Sbjct: 17 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERAC 76
Query: 68 STDSHVLEGSRLSI 81
+ +++G + ++
Sbjct: 77 KDPNPIIDGRKANV 90
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 60.8 bits (146), Expect = 1e-09, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 49/81 (60%), Gaps = 3/81 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
NKIFVG +P EL+++F ++G + +++D +GFGF+TF+++++VD+ +
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN 70
Query: 69 TDSHVLEGSRLSI---QPSDS 86
H + G ++ + +P DS
Sbjct: 71 MHFHDIMGKKVEVKRAEPRDS 91
>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 = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 46/84 (54%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+ KIFVG + + L+ +F +YG+I +M D+ +G +GF FVTF + ++VDK+
Sbjct: 97 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 156
Query: 68 STDSHVLEGSRLSIQPSDSHNRMA 91
H + G ++ + S MA
Sbjct: 157 IQKYHTVNGHNCEVRKALSKQEMA 180
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 46/83 (55%), Gaps = 2/83 (2%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
QL K+F+G L + + L+ F ++G + + VM D NT S+GFGFVT+ E VD
Sbjct: 5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 64
Query: 67 FSTDSHVLEGSRLSIQPSDSHNR 89
+ H ++G ++P + +R
Sbjct: 65 MNARPHKVDGR--VVEPKRAVSR 85
>pdb|2CQU|A Chain A, Solution Structure Of Rsgi Ruh-045, A Human Acyl-Coa
Binding Protein
Length = 116
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/85 (37%), Positives = 47/85 (55%), Gaps = 1/85 (1%)
Query: 84 SDSHNRMAENMEDR-FNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNM 142
S NR A + F + + + L K + LK YALYKQAT G CN+ KP +++
Sbjct: 5 SSGMNRTAMRASQKDFENSMNQVKLLKKDPGNEVKLKLYALYKQATEGPCNMPKPGVFDL 64
Query: 143 EAKSKYNAWNSLGQMAKSEAMSKYI 167
K+K++AWN+LG + K A Y+
Sbjct: 65 INKAKWDAWNALGSLPKEAARQNYV 89
>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 = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 46/84 (54%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+ KIFVG + + L+ +F +YG+I +M D+ +G +GF FVTF + ++VDK+
Sbjct: 103 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 162
Query: 68 STDSHVLEGSRLSIQPSDSHNRMA 91
H + G ++ + S MA
Sbjct: 163 IQKYHTVNGHNCEVRKALSKQEMA 186
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 46/83 (55%), Gaps = 2/83 (2%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
QL K+F+G L + + L+ F ++G + + VM D NT S+GFGFVT+ E VD
Sbjct: 11 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 70
Query: 67 FSTDSHVLEGSRLSIQPSDSHNR 89
+ H ++G ++P + +R
Sbjct: 71 MNARPHKVDGR--VVEPKRAVSR 91
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 46/84 (54%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+ KIFVG + + L+ +F +YG+I +M D+ +G +GF FVTF + ++VDK+
Sbjct: 105 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 164
Query: 68 STDSHVLEGSRLSIQPSDSHNRMA 91
H + G ++ + S MA
Sbjct: 165 IQKYHTVNGHNCEVRKALSKQEMA 188
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 46/83 (55%), Gaps = 2/83 (2%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
QL K+F+G L + + L+ F ++G + + VM D NT S+GFGFVT+ E VD
Sbjct: 13 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 72
Query: 67 FSTDSHVLEGSRLSIQPSDSHNR 89
+ H ++G ++P + +R
Sbjct: 73 MNARPHKVDGR--VVEPKRAVSR 93
>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 = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 46/84 (54%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+ KIFVG + + L+ +F +YG+I +M D+ +G +GF FVTF + ++VDK+
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Query: 68 STDSHVLEGSRLSIQPSDSHNRMA 91
H + G ++ + S MA
Sbjct: 164 IQKYHTVNGHNCEVRKALSKQEMA 187
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 46/83 (55%), Gaps = 2/83 (2%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
QL K+F+G L + + L+ F ++G + + VM D NT S+GFGFVT+ E VD
Sbjct: 12 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 71
Query: 67 FSTDSHVLEGSRLSIQPSDSHNR 89
+ H ++G ++P + +R
Sbjct: 72 MNARPHKVDGR--VVEPKRAVSR 92
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 46/83 (55%), Gaps = 2/83 (2%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
QL K+F+G L + + L+ F ++G + + VM D NT S+GFGFVT+ E VD
Sbjct: 12 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 71
Query: 67 FSTDSHVLEGSRLSIQPSDSHNR 89
+ H ++G ++P + +R
Sbjct: 72 MNARPHKVDGR--VVEPKRAVSR 92
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+ KIFVG + + L+ +F +YG+I +M D+ +G +GF FVTF + ++VDK+
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 163
Query: 68 STDSHVLEGSRLSIQ 82
H + G ++
Sbjct: 164 IQKYHTVNGHNCEVR 178
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 46/83 (55%), Gaps = 2/83 (2%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
QL K+F+G L + + L+ F ++G + + VM D NT S+GFGFVT+ E VD
Sbjct: 10 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 69
Query: 67 FSTDSHVLEGSRLSIQPSDSHNR 89
+ H ++G ++P + +R
Sbjct: 70 MNARPHKVDGR--VVEPKRAVSR 90
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+ KIFVG + + L+ +F +YG+I +M D+ +G +GF FVTF + ++VDK+
Sbjct: 102 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 161
Query: 68 STDSHVLEGSRLSIQ 82
H + G ++
Sbjct: 162 IQKYHTVNGHNCEVR 176
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 58.5 bits (140), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 41/59 (69%), Gaps = 1/59 (1%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
S SIR N ++V LP T+S E+++ FS+YG+I+ + ++ D+ TG+S+G GF+ F +
Sbjct: 85 SASIRDAN-LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKR 142
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
+ V LP ++ +E K F G I + ++ DK TG S G+GFV + + DK +T
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINT 65
>pdb|4HQD|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or265.
pdb|4HQD|B Chain B, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or265
Length = 169
Score = 57.8 bits (138), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 36/98 (36%), Positives = 54/98 (55%), Gaps = 9/98 (9%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKL---KDFNINQLDENGLNCLHWACDRGHLKVVQHLI 309
D ++ AKEG K++ KL K ++N D +G LH+A GH ++V+ LI
Sbjct: 36 DGRTPLHYAAKEGH-----KEIVKLLISKGADVNAKDSDGRTPLHYAAKEGHKEIVKLLI 90
Query: 310 EKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
K GADVN DSDG L YA H ++++ L++ G+
Sbjct: 91 SK-GADVNAKDSDGRTPLHYAAKEGHKEIVKLLISKGA 127
Score = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 35/92 (38%), Positives = 52/92 (56%), Gaps = 3/92 (3%)
Query: 256 KNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGAD 315
K + E A+ G D VK L + ++N D +G LH+A GH ++V+ LI K GAD
Sbjct: 6 KRLIEAAENGNKDR-VKDLIE-NGADVNASDSDGRTPLHYAAKEGHKEIVKLLISK-GAD 62
Query: 316 VNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
VN DSDG L YA H ++++ L++ G+
Sbjct: 63 VNAKDSDGRTPLHYAAKEGHKEIVKLLISKGA 94
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/98 (35%), Positives = 53/98 (54%), Gaps = 9/98 (9%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKL---KDFNINQLDENGLNCLHWACDRGHLKVVQHLI 309
D ++ AKEG K++ KL K ++N D +G LH+A GH ++V+ LI
Sbjct: 69 DGRTPLHYAAKEGH-----KEIVKLLISKGADVNAKDSDGRTPLHYAAKEGHKEIVKLLI 123
Query: 310 EKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
K GADVN +DSDG LD A+ + ++++ L G
Sbjct: 124 SK-GADVNTSDSDGRTPLDLAREHGNEEIVKLLEKQGG 160
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 57.8 bits (138), Expect = 9e-09, Method: Composition-based stats.
Identities = 27/88 (30%), Positives = 49/88 (55%), Gaps = 1/88 (1%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE-AVD 64
R L +FVGN+P+ + +LK FSE G +++ +++D+ TG KG+GF +Q++E A+
Sbjct: 6 RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALS 65
Query: 65 KVFSTDSHVLEGSRLSIQPSDSHNRMAE 92
+ + + G L + + S E
Sbjct: 66 AMRNLNGREFSGRALRVDNAASEKNKEE 93
>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 = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 41/59 (69%), Gaps = 1/59 (1%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
S SIR N ++V LP T++ EL++ FS+YG+I+ + ++ D+ TG+S+G GF+ F +
Sbjct: 83 SASIRDAN-LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKR 140
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/126 (24%), Positives = 54/126 (42%), Gaps = 6/126 (4%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
+ V LP ++ E + F G+I + ++ DK TG S G+GFV + + + +K +T
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINT- 63
Query: 71 SHVLEGSRLSIQPSDSHNRMAENMEDRFNQACDYLPSLVKKLDSSTLLKFYALYKQATVG 130
L G RL Q A A Y+ L K + L + ++ Y +
Sbjct: 64 ---LNGLRL--QTKTIKVSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITS 118
Query: 131 QCNIDK 136
+ +D+
Sbjct: 119 RILVDQ 124
>pdb|1HBK|A Chain A, Acyl-Coa Binding Protein From Plasmodium Falciparum
Length = 89
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 48/89 (53%), Gaps = 2/89 (2%)
Query: 93 NMEDRFNQACDYLPSLVKKLDSSTLLKF--YALYKQATVGQCNIDKPSWYNMEAKSKYNA 150
+M F + ++ L + ++ LK Y YKQ+T+G CNI +PS + + KY A
Sbjct: 1 HMAQVFEECVSFINGLPRTINLPNELKLDLYKYYKQSTIGNCNIKEPSAHKYIDRKKYEA 60
Query: 151 WNSLGQMAKSEAMSKYIALLKEVDAGWED 179
W S+ + + +A +Y+ ++ E+ W+D
Sbjct: 61 WKSVENLNREDAQKRYVDIVSEIFPYWQD 89
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 56.2 bits (134), Expect = 3e-08, Method: Composition-based stats.
Identities = 25/62 (40%), Positives = 41/62 (66%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
IFVG L + ++K +F ++G++ +A +MFDK T +GFGFVTF++++ V+KV
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 71 SH 72
H
Sbjct: 62 FH 63
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 40/70 (57%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
Q K+F+G L + + L+ ++ ++G++ + VM D + S+GFGFVTF + VD
Sbjct: 26 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAA 85
Query: 67 FSTDSHVLEG 76
+ H ++G
Sbjct: 86 MAARPHSIDG 95
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 50/91 (54%), Gaps = 7/91 (7%)
Query: 5 IRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK-EAV 63
+ + + V NL + S + L++ F +YG++ + + D+ T S+GF FV F +K +A
Sbjct: 67 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAE 126
Query: 64 DKVFSTDSHVLEGSRLSIQ------PSDSHN 88
D + + D VL+G L +Q P DSH+
Sbjct: 127 DAMDAMDGAVLDGRELRVQMARYGRPPDSHH 157
>pdb|2FDQ|A Chain A, Crystal Structure Of Acbp From Armadillo Harderian Gland
pdb|2FDQ|B Chain B, Crystal Structure Of Acbp From Armadillo Harderian Gland
pdb|2FDQ|C Chain C, Crystal Structure Of Acbp From Armadillo Harderian Gland
Length = 86
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 46/76 (60%)
Query: 98 FNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNSLGQM 157
F++A + + +L K +L Y+ YKQATVG N ++P + + K+K++AWN L
Sbjct: 5 FDKAAEEVKNLKTKPADDEMLFIYSHYKQATVGDINTERPGMLDFKGKAKWDAWNQLKGT 64
Query: 158 AKSEAMSKYIALLKEV 173
+K +AM YI ++E+
Sbjct: 65 SKEDAMKSYIDKVEEL 80
>pdb|1HB6|A Chain A, Structure Of Bovine Acyl-Coa Binding Protein In
Orthorhombic Crystal Form
pdb|1HB8|A Chain A, Structure Of Bovine Acyl-Coa Binding Protein In Tetragonal
Crystal Form
pdb|1HB8|B Chain B, Structure Of Bovine Acyl-Coa Binding Protein In Tetragonal
Crystal Form
pdb|1HB8|C Chain C, Structure Of Bovine Acyl-Coa Binding Protein In Tetragonal
Crystal Form
pdb|1NTI|A Chain A, Rdc-Refined Nmr Structure Of Bovine Acyl-Coenzyme A
Binding Protein, Acbp
pdb|1NVL|A Chain A, Rdc-Refined Nmr Structure Of Bovine Acyl-Coenzyme A
Binding Protein, Acbp, In Complex With
Palmitoyl-Coenzyme A
pdb|1ACA|A Chain A, Three-Dimensional Structure Of The Complex Between
Acyl-Coenzyme A Binding Protein And Palmitoyl-Coenzyme A
pdb|2ABD|A Chain A, The Three-Dimensional Structure Of Acyl-Coenzyme A Binding
Protein From Bovine Liver. Structural Refinement Using
Heteronuclear Multidimensional Nmr Spectroscopy
Length = 86
Score = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 45/76 (59%)
Query: 98 FNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNSLGQM 157
F++A + + L K +L Y+ YKQATVG N ++P + + K+K++AWN L
Sbjct: 5 FDKAAEEVKHLKTKPADEEMLFIYSHYKQATVGDINTERPGMLDFKGKAKWDAWNELKGT 64
Query: 158 AKSEAMSKYIALLKEV 173
+K +AM YI ++E+
Sbjct: 65 SKEDAMKAYIDKVEEL 80
>pdb|2LBB|A Chain A, Solution Structure Of Acyl Coa Binding Protein From
Babesia Bovis T2bo
Length = 96
Score = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 31/85 (36%), Positives = 44/85 (51%), Gaps = 1/85 (1%)
Query: 96 DRFNQACDYLPSLVKKLDSST-LLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNSL 154
D F+ A Y+ + + S+ L FY YKQATVG CN KP ++ K K+ AWN+L
Sbjct: 12 DDFDAAVKYVSNTTTMMASNDDKLCFYKYYKQATVGDCNKPKPGMLQLQEKYKWEAWNAL 71
Query: 155 GQMAKSEAMSKYIALLKEVDAGWED 179
M+ A Y+ LL + W +
Sbjct: 72 RGMSTESAKEAYVKLLDTLAPSWRN 96
>pdb|1ST7|A Chain A, Solution Structure Of Acyl Coenzyme A Binding Protein From
Yeast
Length = 86
Score = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 50/78 (64%), Gaps = 3/78 (3%)
Query: 100 QACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNSLGQMAK 159
+A + LP+ K + LL+ YALYKQATVG + +KP +NM+ + K+ AW +L ++
Sbjct: 10 KAVNELPT---KPSTDELLELYALYKQATVGDNDKEKPGIFNMKDRYKWEAWENLKGKSQ 66
Query: 160 SEAMSKYIALLKEVDAGW 177
+A +YIAL+ ++ A +
Sbjct: 67 EDAEKEYIALVDQLIAKY 84
>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 = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 43/68 (63%), Gaps = 1/68 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK-EAVDKVFST 69
+++ LP T++ +++ FS +G+I+N+ V+ D+ TGLS+G F+ F + EA + + S
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 70 DSHVLEGS 77
+ H GS
Sbjct: 151 NGHKPPGS 158
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 4/69 (5%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
+ V LP ++ +EL+ FS G++ +A ++ DK G S G+GFV + + ++ +T
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINT- 63
Query: 71 SHVLEGSRL 79
L G RL
Sbjct: 64 ---LNGLRL 69
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 43/68 (63%), Gaps = 1/68 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK-EAVDKVFST 69
+++ LP T++ +++ FS +G+I+N+ V+ D+ TGLS+G F+ F + EA + + S
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 70 DSHVLEGS 77
+ H GS
Sbjct: 151 NGHKPPGS 158
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 4/69 (5%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
+ V LP ++ +EL+ FS G++ +A ++ DK G S G+GFV + + ++ +T
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINT- 63
Query: 71 SHVLEGSRL 79
L G RL
Sbjct: 64 ---LNGLRL 69
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 54.7 bits (130), Expect = 8e-08, Method: Composition-based stats.
Identities = 27/76 (35%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+ ++++ + + V LPW + +LK++FS +G+++ V D TG SKGFGFV F
Sbjct: 8 VKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEY 67
Query: 61 EAVDKVFSTDSHVLEG 76
E KV S H+++G
Sbjct: 68 ETQVKVMS-QRHMIDG 82
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 54.3 bits (129), Expect = 9e-08, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 44/76 (57%), Gaps = 2/76 (2%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
N +FVG + + E++ FF+ YG + ++ D+ TG+SKG+GFV+F N V K+
Sbjct: 11 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 69
Query: 69 TDSHVLEGSRLSIQPS 84
+ + G +L + P+
Sbjct: 70 SQIN-FHGKKLKLGPA 84
>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 = 54.3 bits (129), Expect = 9e-08, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 44/76 (57%), Gaps = 2/76 (2%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
N +FVG + + E++ FF+ YG + ++ D+ TG+SKG+GFV+F N V K+
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 68
Query: 69 TDSHVLEGSRLSIQPS 84
+ + G +L + P+
Sbjct: 69 SQIN-FHGKKLKLGPA 83
>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 = 54.3 bits (129), Expect = 9e-08, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 44/76 (57%), Gaps = 2/76 (2%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
N +FVG + + E++ FF+ YG + ++ D+ TG+SKG+GFV+F N V K+
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 68
Query: 69 TDSHVLEGSRLSIQPS 84
+ + G +L + P+
Sbjct: 69 SQIN-FHGKKLKLGPA 83
>pdb|2FJ9|A Chain A, High Resolution Crystal Structure Of The Unliganded Human
Acbp
Length = 86
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 42/76 (55%)
Query: 98 FNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNSLGQM 157
F +A + + L K +L Y YKQATVG N ++P + K+K++AWN L
Sbjct: 5 FEKAAEEVRHLKTKPSDEEMLFIYGHYKQATVGDINTERPGMLDFTGKAKWDAWNELKGT 64
Query: 158 AKSEAMSKYIALLKEV 173
+K +AM YI ++E+
Sbjct: 65 SKEDAMKAYINKVEEL 80
>pdb|2XZT|G Chain G, Caspase-3 In Complex With Darpin-3.4_i78s
pdb|2XZT|H Chain H, Caspase-3 In Complex With Darpin-3.4_i78s
Length = 136
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 43/67 (64%), Gaps = 1/67 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N +D+ G+ LH A RGHL++V+ L+ K GADVN +DS G L A + H +++E
Sbjct: 39 DVNAMDDAGVTPLHLAAKRGHLEIVEVLL-KHGADVNASDSWGRTPLHLAATVGHLEIVE 97
Query: 341 YLVNSGS 347
L+ G+
Sbjct: 98 VLLEYGA 104
>pdb|2CB8|A Chain A, High Resolution Crystal Structure Of Liganded Human L-Acbp
pdb|2CB8|B Chain B, High Resolution Crystal Structure Of Liganded Human L-Acbp
Length = 87
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 42/76 (55%)
Query: 98 FNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNSLGQM 157
F +A + + L K +L Y YKQATVG N ++P + K+K++AWN L
Sbjct: 6 FEKAAEEVRHLKTKPSDEEMLFIYGHYKQATVGDINTERPGMLDFTGKAKWDAWNELKGT 65
Query: 158 AKSEAMSKYIALLKEV 173
+K +AM YI ++E+
Sbjct: 66 SKEDAMKAYINKVEEL 81
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 49/88 (55%), Gaps = 7/88 (7%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK-EAVDKV 66
+ + V NL + S + L++ F +YG++ + + D+ T S+GF FV F +K +A D +
Sbjct: 47 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 106
Query: 67 FSTDSHVLEGSRLSIQ------PSDSHN 88
+ D VL+G L +Q P DSH+
Sbjct: 107 DAMDGAVLDGRELRVQMARYGRPPDSHH 134
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 53.5 bits (127), Expect = 1e-07, Method: Composition-based stats.
Identities = 20/52 (38%), Positives = 40/52 (76%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
++V NLP+++++N+L + FS+YG+++ ++M DK+T SKG F+ F +K++
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDS 70
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 53.5 bits (127), Expect = 2e-07, Method: Composition-based stats.
Identities = 19/50 (38%), Positives = 36/50 (72%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
++V LP T+S E+++ FS+YG+I+ + ++ D+ TG+S+G GF+ F +
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKR 53
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 53.1 bits (126), Expect = 2e-07, Method: Composition-based stats.
Identities = 24/66 (36%), Positives = 44/66 (66%), Gaps = 3/66 (4%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK---EAVD 64
+ I+VGNL ++ + ++K+ FS++G++ N +++D+ T KGFGFV Q + EA+
Sbjct: 1 MRNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIA 60
Query: 65 KVFSTD 70
K+ +TD
Sbjct: 61 KLDNTD 66
>pdb|2XEH|A Chain A, Structural Determinants For Improved Thermal Stability Of
Designed Ankyrin Repeat Proteins With A Redesigned C-
Capping Module.
pdb|2XEH|B Chain B, Structural Determinants For Improved Thermal Stability Of
Designed Ankyrin Repeat Proteins With A Redesigned C-
Capping Module.
pdb|2XEH|C Chain C, Structural Determinants For Improved Thermal Stability Of
Designed Ankyrin Repeat Proteins With A Redesigned C-
Capping Module
Length = 157
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 34/95 (35%), Positives = 54/95 (56%), Gaps = 3/95 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D ++ A+EG L++ V+ L K ++N D++G LH A GHL++V+ L+ K
Sbjct: 34 DGYTPLHLAAREGHLEI-VEVLLK-AGADVNAKDKDGYTPLHLAAREGHLEIVEVLL-KA 90
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN D DG L A H +++E L+ +G+
Sbjct: 91 GADVNAKDKDGYTPLHLAAREGHLEIVEVLLKAGA 125
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 51/92 (55%), Gaps = 3/92 (3%)
Query: 256 KNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGAD 315
K + E A+ G+ D + ++ ++N D++G LH A GHL++V+ L+ K GAD
Sbjct: 4 KKLLEAARAGQDDEV--RILMANGADVNAKDKDGYTPLHLAAREGHLEIVEVLL-KAGAD 60
Query: 316 VNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
VN D DG L A H +++E L+ +G+
Sbjct: 61 VNAKDKDGYTPLHLAAREGHLEIVEVLLKAGA 92
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 33/90 (36%), Positives = 48/90 (53%), Gaps = 3/90 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D ++ A+EG L++ V+ L K ++N D++G LH A GHL++V+ L+ K
Sbjct: 67 DGYTPLHLAAREGHLEI-VEVLLK-AGADVNAKDKDGYTPLHLAAREGHLEIVEVLL-KA 123
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
GADVN D G D A H D+ E L
Sbjct: 124 GADVNAQDKFGKTPFDLAIREGHEDIAEVL 153
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 52.8 bits (125), Expect = 3e-07, Method: Composition-based stats.
Identities = 30/83 (36%), Positives = 50/83 (60%), Gaps = 3/83 (3%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFS 68
K+FVG L + + L++ FS+YGQI V+ D+ T S+GFGFVTF+N +A D + +
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 69 TDSHVLEGSRLSIQPS--DSHNR 89
+ ++G ++ + + S NR
Sbjct: 74 MNGKSVDGRQIRVDQAGKSSDNR 96
>pdb|2XEE|A Chain A, Structural Determinants For Improved Thermal Stability Of
Designed Ankyrin Repeat Proteins With A Redesigned C-
Capping Module.
pdb|2XEE|B Chain B, Structural Determinants For Improved Thermal Stability Of
Designed Ankyrin Repeat Proteins With A Redesigned C-
Capping Module.
pdb|2XEE|C Chain C, Structural Determinants For Improved Thermal Stability Of
Designed Ankyrin Repeat Proteins With A Redesigned C-
Capping Module.
pdb|2XEE|D Chain D, Structural Determinants For Improved Thermal Stability Of
Designed Ankyrin Repeat Proteins With A Redesigned C-
Capping Module
Length = 157
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 33/90 (36%), Positives = 53/90 (58%), Gaps = 3/90 (3%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
++ A+EG L++ V+ L K ++N D++G LH A GHL++V+ L+ K GADVN
Sbjct: 39 LHLAAREGHLEI-VEVLLK-AGADVNAKDKDGYTPLHLAAREGHLEIVEVLL-KAGADVN 95
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
D DG L A H +++E L+ +G+
Sbjct: 96 AKDKDGYTPLHLAAREGHLEIVEVLLKAGA 125
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 51/92 (55%), Gaps = 3/92 (3%)
Query: 256 KNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGAD 315
K + E A+ G+ D + ++ ++N D++G LH A GHL++V+ L+ K GAD
Sbjct: 4 KKLLEAARAGQDDEV--RILMANGADVNAKDKDGYTPLHLAAREGHLEIVEVLL-KAGAD 60
Query: 316 VNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
VN D DG L A H +++E L+ +G+
Sbjct: 61 VNAKDKDGYTPLHLAAREGHLEIVEVLLKAGA 92
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 42/73 (57%), Gaps = 3/73 (4%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
++ A+EG L++ V+ L K ++N D++G LH A GHL++V+ L+ K GADVN
Sbjct: 72 LHLAAREGHLEI-VEVLLK-AGADVNAKDKDGYTPLHLAAREGHLEIVEVLL-KAGADVN 128
Query: 318 VTDSDGDYGLDYA 330
D G D A
Sbjct: 129 AQDKFGKTPFDLA 141
>pdb|3ZUV|B Chain B, Crystal Structure Of A Designed Selected Ankyrin Repeat
Protein In Complex With The Phosphorylated Map Kinase
Erk2
pdb|3ZUV|D Chain D, Crystal Structure Of A Designed Selected Ankyrin Repeat
Protein In Complex With The Phosphorylated Map Kinase
Erk2
Length = 136
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 33/92 (35%), Positives = 52/92 (56%), Gaps = 3/92 (3%)
Query: 256 KNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGAD 315
K + E A+ G+ D + ++ ++N LDE+GL LH A GHL++V+ L+ K GAD
Sbjct: 16 KKLLEAARAGQDDEV--RILMANGADVNALDEDGLTPLHLAAQLGHLEIVEVLL-KYGAD 72
Query: 316 VNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
VN D+ G L A H +++E L+ G+
Sbjct: 73 VNAEDNFGITPLHLAAIRGHLEIVEVLLKHGA 104
>pdb|2QYJ|A Chain A, Crystal Structure Of A Designed Full Consensus Ankyrin
Length = 166
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 34/95 (35%), Positives = 54/95 (56%), Gaps = 3/95 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D ++ A+EG L+ +V+ L K ++N D++G LH A GHL++V+ L+ K
Sbjct: 46 DGYTPLHLAAREGHLE-IVEVLLK-AGADVNAKDKDGYTPLHLAAREGHLEIVEVLL-KA 102
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN D DG L A H +++E L+ +G+
Sbjct: 103 GADVNAKDKDGYTPLHLAAREGHLEIVEVLLKAGA 137
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 51/92 (55%), Gaps = 3/92 (3%)
Query: 256 KNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGAD 315
K + E A+ G+ D + ++ ++N D++G LH A GHL++V+ L+ K GAD
Sbjct: 16 KKLLEAARAGQDDEV--RILMANGADVNAKDKDGYTPLHLAAREGHLEIVEVLL-KAGAD 72
Query: 316 VNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
VN D DG L A H +++E L+ +G+
Sbjct: 73 VNAKDKDGYTPLHLAAREGHLEIVEVLLKAGA 104
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 48/90 (53%), Gaps = 3/90 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D ++ A+EG L+ +V+ L K ++N D++G LH A GHL++V+ L+ K
Sbjct: 79 DGYTPLHLAAREGHLE-IVEVLLK-AGADVNAKDKDGYTPLHLAAREGHLEIVEVLL-KA 135
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
GADVN D G D + + DL E L
Sbjct: 136 GADVNAQDKFGKTAFDISIDNGNEDLAEIL 165
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 52.8 bits (125), Expect = 3e-07, Method: Composition-based stats.
Identities = 29/76 (38%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS- 68
++FV NL +T S +L+K FS YG + D T KGF FVTF E K ++
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 69 TDSHVLEGSRLSIQPS 84
D V +G L + PS
Sbjct: 70 VDGQVFQGRMLHVLPS 85
>pdb|4DUI|A Chain A, Darpin D1 Binding To Tubulin Beta Chain (not In Complex)
Length = 169
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 51/95 (53%), Gaps = 3/95 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D K + E A+ G+ D + ++ ++N D +GL LH A GHL++V+ L+ K
Sbjct: 13 DLGKKLLEAARAGQDDEV--RILMANGADVNATDASGLTPLHLAATYGHLEIVEVLL-KH 69
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN D G L A I H +++E L+ G+
Sbjct: 70 GADVNAIDIXGSTPLHLAALIGHLEIVEVLLKHGA 104
>pdb|3NOG|D Chain D, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
pdb|3NOG|E Chain E, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
Length = 169
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/67 (43%), Positives = 41/67 (61%), Gaps = 1/67 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N D G+ LH A DRGHL+VV+ L+ K GADVN D +G L A I H +++E
Sbjct: 72 DVNADDSLGVTPLHLAADRGHLEVVEVLL-KNGADVNANDHNGFTPLHLAANIGHLEIVE 130
Query: 341 YLVNSGS 347
L+ G+
Sbjct: 131 VLLKHGA 137
>pdb|4GPM|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or264.
pdb|4GPM|B Chain B, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or264
Length = 169
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 35/92 (38%), Positives = 52/92 (56%), Gaps = 3/92 (3%)
Query: 256 KNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGAD 315
K + E A+ G D VK L + ++N D +G LH A + GH +VV+ LI K GAD
Sbjct: 6 KRLIEAAENGNKDR-VKDLIE-NGADVNASDSDGRTPLHHAAENGHKEVVKLLISK-GAD 62
Query: 316 VNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
VN DSDG L +A H ++++ L++ G+
Sbjct: 63 VNAKDSDGRTPLHHAAENGHKEVVKLLISKGA 94
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 47/79 (59%), Gaps = 4/79 (5%)
Query: 272 KQLTKL---KDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLD 328
K++ KL K ++N D +G LH A + GH +VV+ LI K GADVN DSDG L
Sbjct: 50 KEVVKLLISKGADVNAKDSDGRTPLHHAAENGHKEVVKLLISK-GADVNAKDSDGRTPLH 108
Query: 329 YAKAIEHTDLIEYLVNSGS 347
+A H ++++ L++ G+
Sbjct: 109 HAAENGHKEVVKLLISKGA 127
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 46/79 (58%), Gaps = 4/79 (5%)
Query: 272 KQLTKL---KDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLD 328
K++ KL K ++N D +G LH A + GH +VV+ LI K GADVN +DSDG LD
Sbjct: 83 KEVVKLLISKGADVNAKDSDGRTPLHHAAENGHKEVVKLLISK-GADVNTSDSDGRTPLD 141
Query: 329 YAKAIEHTDLIEYLVNSGS 347
A+ + ++++ L G
Sbjct: 142 LAREHGNEEVVKLLEKQGG 160
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 52.4 bits (124), Expect = 4e-07, Method: Composition-based stats.
Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 4/74 (5%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
+++VG+L + ++ + L+ F +G+I + +M D TG SKG+GF+TF + E K
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 70 DSHVLEGSRLSIQP 83
L G L+ +P
Sbjct: 88 ----LNGFELAGRP 97
>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 = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 53/89 (59%), Gaps = 4/89 (4%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAV 63
SI+ N ++V NLP T++ ++L F +YG I+ +++ DK TG +G FV + +E
Sbjct: 97 SIKDTN-LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 155
Query: 64 DKVFSTDSHVLE--GSR-LSIQPSDSHNR 89
+ S ++V+ GS+ LS++ ++ H +
Sbjct: 156 QEAISALNNVIPEGGSQPLSVRLAEEHGK 184
>pdb|4DRX|E Chain E, Gtp-Tubulin In Complex With A Darpin
pdb|4DRX|F Chain F, Gtp-Tubulin In Complex With A Darpin
Length = 169
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 51/95 (53%), Gaps = 3/95 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D K + E A+ G+ D + ++ ++N D +GL LH A GHL++V+ L+ K
Sbjct: 13 DLGKKLLEAARAGQDDEV--RILMANGADVNATDASGLTPLHLAATYGHLEIVEVLL-KH 69
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN D G L A I H +++E L+ G+
Sbjct: 70 GADVNAIDIMGSTPLHLAALIGHLEIVEVLLKHGA 104
>pdb|3EPY|A Chain A, Crystal Structure Of Human Acyl-Coa Binding Domain 7
Complexed With Palmitoyl-Coa
pdb|3EPY|B Chain B, Crystal Structure Of Human Acyl-Coa Binding Domain 7
Complexed With Palmitoyl-Coa
Length = 89
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 43/76 (56%)
Query: 98 FNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNSLGQM 157
F++A + + L + D L + Y LYKQA VG NI P +++ K+K+ AWN +
Sbjct: 8 FDRAAEDVRKLKARPDDGELKELYGLYKQAIVGDINIACPGMLDLKGKAKWEAWNLKKGL 67
Query: 158 AKSEAMSKYIALLKEV 173
+ +A S YI+ KE+
Sbjct: 68 STEDATSAYISKAKEL 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 = 51.6 bits (122), Expect = 6e-07, Method: Composition-based stats.
Identities = 28/89 (31%), Positives = 52/89 (58%), Gaps = 4/89 (4%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAV 63
SI+ N ++V NLP T++ ++L F +YG I+ +++ DK TG +G FV + +E
Sbjct: 10 SIKDTN-LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 68
Query: 64 DKVFSTDSHVL-EGSR--LSIQPSDSHNR 89
+ S ++V+ EG LS++ ++ H +
Sbjct: 69 QEAISALNNVIPEGGSQPLSVRLAEEHGK 97
>pdb|3FP5|A Chain A, Crystal Structure Of Acbp From Moniliophthora Perniciosa
Length = 106
Score = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 44/81 (54%), Gaps = 4/81 (4%)
Query: 97 RFNQACDYLPSLVK----KLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWN 152
+F++A + + SL K K L FY +KQATVG NI +P + K+K++AW
Sbjct: 7 KFDKAVEIVQSLPKDGPIKPTQDEQLYFYKYFKQATVGDVNISRPGLMDFTGKAKWDAWK 66
Query: 153 SLGQMAKSEAMSKYIALLKEV 173
S+ +K A KY+ L E+
Sbjct: 67 SVEGTSKEVAYQKYVEKLLEI 87
>pdb|3B7B|A Chain A, Euhmt1 (Glp) Ankyrin Repeat Domain (Structure 1)
pdb|3B7B|B Chain B, Euhmt1 (Glp) Ankyrin Repeat Domain (Structure 1)
pdb|3B95|A Chain A, Euhmt1 (Glp) Ankyrin Repeat Domain (Structure 2)
pdb|3B95|B Chain B, Euhmt1 (Glp) Ankyrin Repeat Domain (Structure 2)
Length = 237
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 39/131 (29%), Positives = 62/131 (47%), Gaps = 7/131 (5%)
Query: 222 ESQESGSKENEGQTKGWVNVSSMI-----NDESQLDDNEKNIYEWAKEGKLDMLVKQLTK 276
E Q S + G V++ M+ N ++ +D + E A+ L+ VK L K
Sbjct: 7 EHQNKRSPLHAAAEAGHVDICHMLVQAGANIDTCSEDQRTPLMEAAENNHLEA-VKYLIK 65
Query: 277 LKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHT 336
++ D G CLH A +GH +VVQ+L+ DVN D G + +A +H
Sbjct: 66 AGAL-VDPKDAEGSTCLHLAAKKGHYEVVQYLLSNGQMDVNCQDDGGWTPMIWATEYKHV 124
Query: 337 DLIEYLVNSGS 347
DL++ L++ GS
Sbjct: 125 DLVKLLLSKGS 135
Score = 32.0 bits (71), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 38/72 (52%), Gaps = 6/72 (8%)
Query: 261 WAKEGK-LDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLI-EKCGADVNV 318
WA E K +D++ L+K D NI +EN CLHWA G + + + L+ KC D++
Sbjct: 117 WATEYKHVDLVKLLLSKGSDINIRDNEEN--ICLHWAAFSGCVDIAEILLAAKC--DLHA 172
Query: 319 TDSDGDYGLDYA 330
+ GD L A
Sbjct: 173 VNIHGDSPLHIA 184
>pdb|4HB5|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or267.
pdb|4HB5|B Chain B, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or267
Length = 169
Score = 51.2 bits (121), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 32/92 (34%), Positives = 50/92 (54%), Gaps = 3/92 (3%)
Query: 256 KNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGAD 315
K + E A+ G D + L D N + D +G LH+A + GH ++V+ L+ K GAD
Sbjct: 6 KRLIEAAENGNKDRVKDLLENGADPNAS--DSDGRTPLHYAAENGHKEIVKLLLSK-GAD 62
Query: 316 VNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
N DSDG L YA H ++++ L++ G+
Sbjct: 63 PNAKDSDGRTPLHYAAENGHKEIVKLLLSKGA 94
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 33/101 (32%), Positives = 53/101 (52%), Gaps = 2/101 (1%)
Query: 247 DESQLDDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQ 306
D + D + + +A E +VK L K + N D +G LH+A + GH ++V+
Sbjct: 29 DPNASDSDGRTPLHYAAENGHKEIVKLLLS-KGADPNAKDSDGRTPLHYAAENGHKEIVK 87
Query: 307 HLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
L+ K GAD N DSDG L YA H ++++ L++ G+
Sbjct: 88 LLLSK-GADPNAKDSDGRTPLHYAAENGHKEIVKLLLSKGA 127
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 52/101 (51%), Gaps = 2/101 (1%)
Query: 247 DESQLDDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQ 306
D + D + + +A E +VK L K + N D +G LH+A + GH ++V+
Sbjct: 62 DPNAKDSDGRTPLHYAAENGHKEIVKLLLS-KGADPNAKDSDGRTPLHYAAENGHKEIVK 120
Query: 307 HLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
L+ K GAD N +DSDG LD A+ + ++++ L G
Sbjct: 121 LLLSK-GADPNTSDSDGRTPLDLAREHGNEEIVKLLEKQGG 160
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 50.8 bits (120), Expect = 1e-06, Method: Composition-based stats.
Identities = 24/73 (32%), Positives = 42/73 (57%), Gaps = 4/73 (5%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
++VG+L + ++ + L+ F +G+I N +M D +TG SKG+GF+TF + E +
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQ- 66
Query: 71 SHVLEGSRLSIQP 83
L G L+ +P
Sbjct: 67 ---LNGFELAGRP 76
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 50.4 bits (119), Expect = 2e-06, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 45/76 (59%), Gaps = 3/76 (3%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
Q ++ V N+P+ +L++ F ++G+I++ ++F++ SKGFGFVTF+N D+
Sbjct: 28 QPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRA 85
Query: 67 FST-DSHVLEGSRLSI 81
V+EG ++ +
Sbjct: 86 REKLHGTVVEGRKIEV 101
>pdb|1N0R|A Chain A, 4ank: A Designed Ankyrin Repeat Protein With Four
Identical Consensus Repeats
Length = 126
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 52/90 (57%), Gaps = 3/90 (3%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
++ A+ G L++ VK L + ++N D+NG LH A GHL+VV+ L+E GADVN
Sbjct: 6 LHLAARNGHLEV-VKLLLE-AGADVNAKDKNGRTPLHLAARNGHLEVVKLLLE-AGADVN 62
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
D +G L A H ++++ L+ +G+
Sbjct: 63 AKDKNGRTPLHLAARNGHLEVVKLLLEAGA 92
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 288 NGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
NG LH A GHL+VV+ L+E GADVN D +G L A H ++++ L+ +G+
Sbjct: 1 NGRTPLHLAARNGHLEVVKLLLE-AGADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGA 59
Score = 32.3 bits (72), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 32/53 (60%), Gaps = 2/53 (3%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIE 310
++ A+ G L++ VK L + ++N D+NG LH A GHL+VV+ L+E
Sbjct: 72 LHLAARNGHLEV-VKLLLE-AGADVNAKDKNGRTPLHLAARNGHLEVVKLLLE 122
>pdb|3NOC|D Chain D, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
pdb|3NOC|E Chain E, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
Length = 169
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 41/67 (61%), Gaps = 1/67 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N D G+ LH A RGHL++V+ L+ K GADVN +DS G L A H +++E
Sbjct: 72 DVNAKDSLGVTPLHLAARRGHLEIVEVLL-KNGADVNASDSHGFTPLHLAAKRGHLEIVE 130
Query: 341 YLVNSGS 347
L+ +G+
Sbjct: 131 VLLKNGA 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 = 50.1 bits (118), Expect = 2e-06, Method: Composition-based stats.
Identities = 29/84 (34%), Positives = 45/84 (53%), Gaps = 4/84 (4%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+FVG +P + +LK F E+G+I +V+ D+ TGL KG F+T+ +++ K S
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSA 76
Query: 70 --DSHVLEGSRLSIQ--PSDSHNR 89
+ L G IQ P+ S R
Sbjct: 77 LHEQKTLPGMNRPIQVKPAASEGR 100
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 50.1 bits (118), Expect = 2e-06, Method: Composition-based stats.
Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 4/80 (5%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+F+G +P + +LK F E+G+I +V+ D+ TG+ KG F+T+ +E+ K S
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 70 --DSHVLEGSRLSIQ--PSD 85
+ L G IQ P+D
Sbjct: 75 LHEQKTLPGMNRPIQVKPAD 94
>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 = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 42/77 (54%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
I+VGN+ + + EL+ F G + +++ DK +G KGF ++ F +KE+V + D
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALD 68
Query: 71 SHVLEGSRLSIQPSDSH 87
+ G ++ + P ++
Sbjct: 69 ESLFRGRQIKVIPKRTN 85
>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 = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 42/77 (54%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
I+VGN+ + + EL+ F G + +++ DK +G KGF ++ F +KE+V + D
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALD 67
Query: 71 SHVLEGSRLSIQPSDSH 87
+ G ++ + P ++
Sbjct: 68 ESLFRGRQIKVIPKRTN 84
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 44/73 (60%), Gaps = 3/73 (4%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
++ V N+P+ +L++ F ++G+I++ ++F++ SKGFGFVTF+N D+
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREK 74
Query: 70 -DSHVLEGSRLSI 81
V+EG ++ +
Sbjct: 75 LHGTVVEGRKIEV 87
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAV 63
SI+ N ++V NLP T++ ++L F +YG I+ +++ DK TG +G FV + +E
Sbjct: 86 SIKDTN-LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 144
Query: 64 DKVFSTDSHVLE 75
+ S ++V+
Sbjct: 145 QEAISALNNVIP 156
>pdb|2V4H|C Chain C, Nemo Cc2-Lz Domain - 1d5 Darpin Complex
pdb|2V4H|D Chain D, Nemo Cc2-Lz Domain - 1d5 Darpin Complex
Length = 136
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 33/92 (35%), Positives = 48/92 (52%), Gaps = 3/92 (3%)
Query: 256 KNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGAD 315
K + E A+ G+ D + + D N N D G LH A D HL++V+ L+ K GAD
Sbjct: 16 KKLLEAARAGQDDEVRILMANGADVNAN--DRKGNTPLHLAADYDHLEIVEVLL-KHGAD 72
Query: 316 VNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
VN D+DG L A H +++E L+ G+
Sbjct: 73 VNAHDNDGSTPLHLAALFGHLEIVEVLLKHGA 104
>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 = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 39/73 (53%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
++VGN+ + + +L+ FS G I +++ DK +G KG+ ++ F + +VD + D
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMD 98
Query: 71 SHVLEGSRLSIQP 83
V G + + P
Sbjct: 99 ETVFRGRTIKVLP 111
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 49.3 bits (116), Expect = 4e-06, Method: Composition-based stats.
Identities = 29/83 (34%), Positives = 46/83 (55%), Gaps = 7/83 (8%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKN---TGLSKGFGFVTFQNKEAVDK 65
+KI V N+P+ + E+++ FS +G++ +V K TG +GFGFV F K+ K
Sbjct: 16 SKILVRNIPFQANQREIRELFSTFGEL--KTVRLPKKMTGTGAHRGFGFVDFITKQDAKK 73
Query: 66 VFSTDSHV--LEGSRLSIQPSDS 86
F+ H L G RL ++ +DS
Sbjct: 74 AFNALCHSTHLYGRRLVLEWADS 96
>pdb|1N0Q|A Chain A, 3ank: A Designed Ankyrin Repeat Protein With Three
Identical Consensus Repeats
pdb|1N0Q|B Chain B, 3ank: A Designed Ankyrin Repeat Protein With Three
Identical Consensus Repeats
Length = 93
Score = 48.9 bits (115), Expect = 4e-06, Method: Composition-based stats.
Identities = 31/86 (36%), Positives = 48/86 (55%), Gaps = 3/86 (3%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A+ G L+++ L D +N D+NG LH A GHL+VV+ L+E GADVN D
Sbjct: 10 ARNGHLEVVKLLLEAGAD--VNAKDKNGRTPLHLAARNGHLEVVKLLLE-AGADVNAKDK 66
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSGS 347
+G L A H ++++ L+ +G+
Sbjct: 67 NGRTPLHLAARNGHLEVVKLLLEAGA 92
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 24/60 (40%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 288 NGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
NG LH A GHL+VV+ L+E GADVN D +G L A H ++++ L+ +G+
Sbjct: 1 NGRTPLHLAARNGHLEVVKLLLE-AGADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGA 59
>pdb|3Q9U|C Chain C, In Silico And In Vitro Co-Evolution Of A High Affinity
Complementary Protein-Protein Interface
pdb|3Q9U|D Chain D, In Silico And In Vitro Co-Evolution Of A High Affinity
Complementary Protein-Protein Interface
pdb|3Q9N|C Chain C, In Silico And In Vitro Co-Evolution Of A High Affinity
Complementary Protein-Protein Interface
pdb|3Q9N|D Chain D, In Silico And In Vitro Co-Evolution Of A High Affinity
Complementary Protein-Protein Interface
Length = 158
Score = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 51/95 (53%), Gaps = 3/95 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D K + E A G+ D + ++ ++N D+NGL LH A G L++V+ L+ K
Sbjct: 5 DLGKKLLEAAAAGQDDEV--RILMANGADVNATDDNGLTPLHLAAANGQLEIVEVLL-KN 61
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN +DS G L A H +++E L+ G+
Sbjct: 62 GADVNASDSAGITPLHLAAYDGHLEIVEVLLKHGA 96
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 48.5 bits (114), Expect = 6e-06, Method: Composition-based stats.
Identities = 22/50 (44%), Positives = 35/50 (70%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+FVG+L ++ ++K F+ +G+I +A V+ D TG SKG+GFV+F NK
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNK 67
>pdb|1MJ0|A Chain A, Sank E3_5: An Artificial Ankyrin Repeat Protein
Length = 166
Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 50/96 (52%), Gaps = 3/96 (3%)
Query: 252 DDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEK 311
+D ++ A G L+++ L D N + L G+ LH A GHL++V+ L+ K
Sbjct: 45 NDGYTPLHLAASNGHLEIVEVLLKNGADVNASDL--TGITPLHLAAATGHLEIVEVLL-K 101
Query: 312 CGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN D+DG L A H +++E L+ G+
Sbjct: 102 HGADVNAYDNDGHTPLHLAAKYGHLEIVEVLLKHGA 137
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 23/35 (65%)
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN TD+DG L A + H +++E L+ +G+
Sbjct: 37 GADVNATDNDGYTPLHLAASNGHLEIVEVLLKNGA 71
>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 = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 34/94 (36%), Positives = 50/94 (53%), Gaps = 8/94 (8%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDK--NTGLSKGFGFVTFQNKEAVDKVF 67
K FVG +P T S +L++ F +YG + +V+ D+ N SKG FVTF ++A +
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 68 ST--DSHVLEGSRLSIQ--PSDSHNRMAENMEDR 97
+ + VL G IQ P+DS A +EDR
Sbjct: 65 NALHNXKVLPGXHHPIQXKPADSEKNNA--VEDR 96
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
K+F+G + + N+++ FS +GQI ++ + GLS+G FVTF +
Sbjct: 96 RKLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPD-GLSRGCAFVTFTTR 146
>pdb|4ATZ|D Chain D, Ad5 Knob In Complex With A Designed Ankyrin Repeat Protein
pdb|4ATZ|E Chain E, Ad5 Knob In Complex With A Designed Ankyrin Repeat Protein
pdb|4ATZ|F Chain F, Ad5 Knob In Complex With A Designed Ankyrin Repeat Protein
Length = 154
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 51/95 (53%), Gaps = 3/95 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D K + E A+ G+ D + ++ + N D G LH A GHL++V+ L+ +
Sbjct: 1 DLGKKLLEAARAGQDDEV--RILMANGADANAYDHYGRTPLHMAAAVGHLEIVEVLL-RN 57
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN D++G L A ++ H +++E L+ G+
Sbjct: 58 GADVNAVDTNGTTPLHLAASLGHLEIVEVLLKYGA 92
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N +D NG LH A GHL++V+ L+ K GADVN D+ G L A H +++E
Sbjct: 60 DVNAVDTNGTTPLHLAASLGHLEIVEVLL-KYGADVNAKDATGITPLYLAAYWGHLEIVE 118
Query: 341 YLVNSGS 347
L+ G+
Sbjct: 119 VLLKHGA 125
>pdb|3F6Q|A Chain A, Crystal Structure Of Integrin-Linked Kinase Ankyrin Repeat
Domain In Complex With Pinch1 Lim1 Domain
pdb|3IXE|A Chain A, Structural Basis Of Competition Between Pinch1 And Pinch2
For Binding To The Ankyrin Repeat Domain Of
Integrin-Linked Kinase
Length = 179
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++NQ D++G + LHWAC G VV+ LI + GA +NV + D L A + H D+++
Sbjct: 31 DLNQGDDHGFSPLHWACREGRSAVVEMLIMR-GARINVMNRGDDTPLHLAASHGHRDIVQ 89
Query: 341 YLV 343
L+
Sbjct: 90 KLL 92
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 51/103 (49%), Gaps = 4/103 (3%)
Query: 246 NDESQLDDNEKNIYEWA-KEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKV 304
ND +Q DD+ + WA +EG+ V ++ ++ IN ++ LH A GH +
Sbjct: 30 NDLNQGDDHGFSPLHWACREGR--SAVVEMLIMRGARINVMNRGDDTPLHLAASHGHRDI 87
Query: 305 VQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
VQ L++ AD+N + G+ L YA + E LV +G+
Sbjct: 88 VQKLLQY-KADINAVNEHGNVPLHYACFWGQDQVAEDLVANGA 129
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 48/91 (52%), Gaps = 5/91 (5%)
Query: 242 SSMINDESQLDDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGH 301
+ IN ++ DD ++ A G D++ K L D IN ++E+G LH+AC G
Sbjct: 62 GARINVMNRGDDTP--LHLAASHGHRDIVQKLLQYKAD--INAVNEHGNVPLHYACFWGQ 117
Query: 302 LKVVQHLIEKCGADVNVTDSDGDYGLDYAKA 332
+V + L+ GA V++ + G+ +D AKA
Sbjct: 118 DQVAEDLVAN-GALVSICNKYGEMPVDKAKA 147
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 34/94 (36%), Positives = 51/94 (54%), Gaps = 8/94 (8%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDK--NTGLSKGFGFVTFQNKEAVDKVF 67
K+FVG +P T S +L++ F +YG + +V+ D+ N SKG FVTF ++A +
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 76
Query: 68 ST--DSHVLEGSRLSIQ--PSDSHNRMAENMEDR 97
+ + VL G IQ P+DS A +EDR
Sbjct: 77 NALHNMKVLPGMHHPIQMKPADSEKNNA--VEDR 108
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
K+F+G + + N+++ FS +GQI ++ + GLS+G FVTF +
Sbjct: 108 RKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTR 158
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 34/94 (36%), Positives = 51/94 (54%), Gaps = 8/94 (8%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDK--NTGLSKGFGFVTFQNKEAVDKVF 67
K+FVG +P T S +L++ F +YG + +V+ D+ N SKG FVTF ++A +
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 68 ST--DSHVLEGSRLSIQ--PSDSHNRMAENMEDR 97
+ + VL G IQ P+DS A +EDR
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADSEKNNA--VEDR 96
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
K+F+G + + N+++ FS +GQI ++ + GLS+G FVTF +
Sbjct: 96 RKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTR 146
>pdb|2KBX|A Chain A, Solution Structure Of Ilk-Pinch Complex
Length = 171
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++NQ D++G + LHWAC G VV+ LI + GA +NV + D L A + H D+++
Sbjct: 26 DLNQGDDHGFSPLHWACREGRSAVVEMLIMR-GARINVMNRGDDTPLHLAASHGHRDIVQ 84
Query: 341 YLV 343
L+
Sbjct: 85 KLL 87
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 51/103 (49%), Gaps = 4/103 (3%)
Query: 246 NDESQLDDNEKNIYEWA-KEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKV 304
ND +Q DD+ + WA +EG+ V ++ ++ IN ++ LH A GH +
Sbjct: 25 NDLNQGDDHGFSPLHWACREGR--SAVVEMLIMRGARINVMNRGDDTPLHLAASHGHRDI 82
Query: 305 VQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
VQ L++ AD+N + G+ L YA + E LV +G+
Sbjct: 83 VQKLLQY-KADINAVNEHGNVPLHYACFWGQDQVAEDLVANGA 124
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 48/91 (52%), Gaps = 5/91 (5%)
Query: 242 SSMINDESQLDDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGH 301
+ IN ++ DD ++ A G D++ K L D IN ++E+G LH+AC G
Sbjct: 57 GARINVMNRGDDTP--LHLAASHGHRDIVQKLLQYKAD--INAVNEHGNVPLHYACFWGQ 112
Query: 302 LKVVQHLIEKCGADVNVTDSDGDYGLDYAKA 332
+V + L+ GA V++ + G+ +D AKA
Sbjct: 113 DQVAEDLVAN-GALVSICNKYGEMPVDKAKA 142
>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 = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 22/50 (44%), Positives = 35/50 (70%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+FVG+L ++ ++K F+ +G+I +A V+ D TG SKG+GFV+F NK
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNK 67
>pdb|4GMR|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or266.
pdb|4GMR|B Chain B, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or266
Length = 169
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 32/92 (34%), Positives = 50/92 (54%), Gaps = 3/92 (3%)
Query: 256 KNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGAD 315
K + E A+ G D VK L + ++N D +G LH A + GH +VV+ L+ + GAD
Sbjct: 6 KRLIEAAENGNKDR-VKDLLE-NGADVNASDSDGKTPLHLAAENGHKEVVKLLLSQ-GAD 62
Query: 316 VNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
N DSDG L A H ++++ L++ G+
Sbjct: 63 PNAKDSDGKTPLHLAAENGHKEVVKLLLSQGA 94
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Query: 283 NQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
N D +G LH A + GH +VV+ L+ + GAD N DSDG L A H ++++ L
Sbjct: 64 NAKDSDGKTPLHLAAENGHKEVVKLLLSQ-GADPNAKDSDGKTPLHLAAENGHKEVVKLL 122
Query: 343 VNSGS 347
++ G+
Sbjct: 123 LSQGA 127
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Query: 283 NQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
N D +G LH A + GH +VV+ L+ + GAD N +DSDG LD A+ + ++++ L
Sbjct: 97 NAKDSDGKTPLHLAAENGHKEVVKLLLSQ-GADPNTSDSDGRTPLDLAREHGNEEVVKLL 155
Query: 343 VNSGS 347
G
Sbjct: 156 EKQGG 160
>pdb|3EHQ|A Chain A, Crystal Structure Of Human Osteoclast Stimulating Factor
pdb|3EHQ|B Chain B, Crystal Structure Of Human Osteoclast Stimulating Factor
pdb|3EHR|A Chain A, Crystal Structure Of Human Osteoclast Stimulating Factor
pdb|3EHR|B Chain B, Crystal Structure Of Human Osteoclast Stimulating Factor
Length = 222
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 33/118 (27%), Positives = 60/118 (50%), Gaps = 6/118 (5%)
Query: 232 EGQTKGWVNV--SSMINDESQLDDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENG 289
+G +KG + S+ + ++++ DN ++E AK G L L + L +N LD+ G
Sbjct: 51 KGTSKGRTGLIPSNYVAEQAESIDNP--LHEAAKRGNLSWLRECLDN--RVGVNGLDKAG 106
Query: 290 LNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
L+WAC GH +V+ L + ++N + GD L A + D+++ L+ G+
Sbjct: 107 STALYWACHGGHKDIVEXLFTQPNIELNQQNKLGDTALHAAAWKGYADIVQLLLAKGA 164
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 34/61 (55%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
L + V +P TV +L++ F YG I + ++ D+ T S+G+GFV FQ+ + +
Sbjct: 42 LRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAI 101
Query: 68 S 68
+
Sbjct: 102 A 102
>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 = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 40/75 (53%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+ KIFVG L +++++F +G++ + + D T +GF F+TF+ +E V K+
Sbjct: 1 VKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 60
Query: 68 STDSHVLEGSRLSIQ 82
H + S+ I+
Sbjct: 61 EKKYHNVGLSKCEIK 75
>pdb|3ZU7|B Chain B, Crystal Structure Of A Designed Selected Ankyrin Repeat
Protein In Complex With The Map Kinase Erk2
Length = 169
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N D +G LH A D GHL++V+ L+ K GADVN D+ G L A H +++E
Sbjct: 72 DVNARDTDGWTPLHLAADNGHLEIVEVLL-KYGADVNAQDAYGLTPLHLAADRGHLEIVE 130
Query: 341 YLVNSGS 347
L+ G+
Sbjct: 131 VLLKHGA 137
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/62 (43%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N D GL LH A DRGHL++V+ L+ K GADVN D G D + + DL E
Sbjct: 105 DVNAQDAYGLTPLHLAADRGHLEIVEVLL-KHGADVNAQDKFGKTAFDISIDNGNEDLAE 163
Query: 341 YL 342
L
Sbjct: 164 IL 165
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 49/92 (53%), Gaps = 3/92 (3%)
Query: 256 KNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGAD 315
K + E A+ G+ D + ++ ++N D+ G LH A GH ++V+ L+ K GAD
Sbjct: 16 KKLLEAARAGQDDEV--RILMANGADVNAHDDQGSTPLHLAAWIGHPEIVEVLL-KHGAD 72
Query: 316 VNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
VN D+DG L A H +++E L+ G+
Sbjct: 73 VNARDTDGWTPLHLAADNGHLEIVEVLLKYGA 104
>pdb|2J8S|D Chain D, Drug Export Pathway Of Multidrug Exporter Acrb Revealed By
Darpin Inhibitors
pdb|2J8S|E Chain E, Drug Export Pathway Of Multidrug Exporter Acrb Revealed By
Darpin Inhibitors
pdb|4DX5|D Chain D, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX5|E Chain E, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX6|D Chain D, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX6|E Chain E, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX7|D Chain D, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX7|E Chain E, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
Length = 169
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N D+NG+ LH A +RGHL++V+ L+ K GADVN D G D + + DL E
Sbjct: 105 DVNAKDDNGITPLHLAANRGHLEIVEVLL-KYGADVNAQDKFGKTAFDISINNGNEDLAE 163
Query: 341 YL 342
L
Sbjct: 164 IL 165
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 32/52 (61%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
+F+ +LP + +L F +G +++A V DK T LSK FGFV+F N ++
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDS 94
>pdb|2P2C|P Chain P, Inhibition Of Caspase-2 By A Designed Ankyrin Repeat
Protein (Darpin)
pdb|2P2C|Q Chain Q, Inhibition Of Caspase-2 By A Designed Ankyrin Repeat
Protein (Darpin)
pdb|2P2C|R Chain R, Inhibition Of Caspase-2 By A Designed Ankyrin Repeat
Protein (Darpin)
pdb|2P2C|S Chain S, Inhibition Of Caspase-2 By A Designed Ankyrin Repeat
Protein (Darpin)
pdb|2P2C|T Chain T, Inhibition Of Caspase-2 By A Designed Ankyrin Repeat
Protein (Darpin)
pdb|2P2C|U Chain U, Inhibition Of Caspase-2 By A Designed Ankyrin Repeat
Protein (Darpin)
Length = 169
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 33/90 (36%), Positives = 50/90 (55%), Gaps = 3/90 (3%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
++ AK G L++ V+ L K ++N D G LH A D GHL++V+ L+ K GADVN
Sbjct: 51 LHLAAKTGHLEI-VEVLLKYG-ADVNAWDNYGATPLHLAADNGHLEIVEVLL-KHGADVN 107
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
D +G L A H +++E L+ G+
Sbjct: 108 AKDYEGFTPLHLAAYDGHLEIVEVLLKYGA 137
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 44.7 bits (104), Expect = 8e-05, Method: Composition-based stats.
Identities = 28/83 (33%), Positives = 45/83 (54%), Gaps = 10/83 (12%)
Query: 9 NKIFVGNLPW-TVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+++F+GNLP VS +L + FS YG IM ++ KN FGF+ F N ++V
Sbjct: 23 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI---KN-----AFGFIQFDNPQSVRDAI 74
Query: 68 STDSHVLE-GSRLSIQPSDSHNR 89
+S + G +L ++ S S+ R
Sbjct: 75 ECESQEMNFGKKLILEVSSSNAR 97
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 44.3 bits (103), Expect = 9e-05, Method: Composition-based stats.
Identities = 28/83 (33%), Positives = 45/83 (54%), Gaps = 10/83 (12%)
Query: 9 NKIFVGNLPW-TVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+++F+GNLP VS +L + FS YG IM ++ KN FGF+ F N ++V
Sbjct: 23 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI---KN-----AFGFIQFDNPQSVRDAI 74
Query: 68 STDSHVLE-GSRLSIQPSDSHNR 89
+S + G +L ++ S S+ R
Sbjct: 75 EXESQEMNFGKKLILEVSSSNAR 97
>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 = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 30/83 (36%), Positives = 46/83 (55%), Gaps = 6/83 (7%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDK--NTGLSKGFGFVTFQNKEAVDKVF 67
K+FVG +P T S +L++ F +YG + +V+ D+ N SKG FVTF ++A +
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 68 ST--DSHVLEGSRLSIQ--PSDS 86
+ + VL G IQ P+DS
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADS 87
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 43/78 (55%), Gaps = 9/78 (11%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA--VD 64
Q +++FVGNLP ++ E++K F +YG+ V K+ KGFGF+ + + +
Sbjct: 21 QRSRLFVGNLPPDITEEEMRKLFEKYGK--AGEVFIHKD----KGFGFIRLETRTLAEIA 74
Query: 65 KVFSTDSHVLEGSRLSIQ 82
KV D+ L G +L ++
Sbjct: 75 KV-ELDNMPLRGKQLRVR 91
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 39/81 (48%), Gaps = 12/81 (14%)
Query: 13 VGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTDSH 72
V NLP VS+ L++ FS +GQ+ A V+ D + G G G V F K A K S
Sbjct: 101 VRNLPQYVSNELLEEAFSVFGQVERAVVIVD-DRGRPSGKGIVEFSGKPAARKALDRCS- 158
Query: 73 VLEGSRL--------SIQPSD 85
EGS L +++P D
Sbjct: 159 --EGSFLLTTFPRPVTVEPMD 177
>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 = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 33/52 (63%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
+++G++P+ + ++ S G ++N +MFD TG SKG+ F+ F++ E+
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLES 58
>pdb|1MX4|A Chain A, Structure Of P18ink4c (F82q)
pdb|1MX4|B Chain B, Structure Of P18ink4c (F82q)
Length = 168
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 45/90 (50%), Gaps = 2/90 (2%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
I++ A+ G+LD L L D NI D G LH A GHL+VV+ L++ ++V
Sbjct: 74 IHDAARAGQLDTLQTLLEFQADVNIE--DNEGNLPLHLAAKEGHLRVVEFLVKHTASNVG 131
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
+ GD D A+ +++ + +G+
Sbjct: 132 HRNHKGDTACDLARLYGRNEVVSLMQANGA 161
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 33/52 (63%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
+++G++P+ + ++ S G ++N +MFD TG SKG+ F+ F++ E+
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLES 56
>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 = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 33/52 (63%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
+++G++P+ + ++ S G ++N +MFD TG SKG+ F+ F++ E+
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLES 57
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 38/72 (52%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
IFVG L +++++F +G++ + + D T +GF F+TF+ +E V K+
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61
Query: 71 SHVLEGSRLSIQ 82
H + S+ I+
Sbjct: 62 YHNVGLSKCEIK 73
>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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 46/82 (56%), Gaps = 1/82 (1%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
++ R N+I+V ++ +S +++K F +G+I +A++ D TG KG+GF+ ++
Sbjct: 118 LAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKA 177
Query: 61 EAV-DKVFSTDSHVLEGSRLSI 81
++ D V S + L G L +
Sbjct: 178 QSSQDAVSSMNLFDLGGQYLRV 199
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 39/71 (54%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+++++VG++ + + + +++ F+ +G I + + +D T KGF FV ++ EA
Sbjct: 28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLAL 87
Query: 68 STDSHVLEGSR 78
+ V+ G R
Sbjct: 88 EQMNSVMLGGR 98
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 24/62 (38%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
Q+ ++V NL + L+K FS +G I +A VM + G SKGFGFV F + E K
Sbjct: 14 QVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEG--GRSKGFGFVCFSSPEEATKA 71
Query: 67 FS 68
+
Sbjct: 72 VT 73
>pdb|4F6R|D Chain D, Tubulin:stathmin-Like Domain Complex
Length = 169
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 53/96 (55%), Gaps = 3/96 (3%)
Query: 252 DDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEK 311
D + ++ A +G L+ +V+ L K ++N D+ G LH A GHL++V+ L+ K
Sbjct: 45 DSGKTPLHLAAIKGHLE-IVEVLLK-HGADVNAADKMGDTPLHLAALYGHLEIVEVLL-K 101
Query: 312 CGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN TD+ G L A H +++E L+ G+
Sbjct: 102 NGADVNATDTYGFTPLHLAADAGHLEIVEVLLKYGA 137
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 28/83 (33%), Positives = 45/83 (54%), Gaps = 10/83 (12%)
Query: 9 NKIFVGNLPW-TVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+++F+GNLP VS +L + FS YG IM ++ KN FGF+ F N ++V
Sbjct: 3 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI---KN-----AFGFIQFDNPQSVRDAI 54
Query: 68 STDSHVLE-GSRLSIQPSDSHNR 89
+S + G +L ++ S S+ R
Sbjct: 55 ECESQEMNFGKKLILEVSSSNAR 77
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 28/83 (33%), Positives = 45/83 (54%), Gaps = 10/83 (12%)
Query: 9 NKIFVGNLPW-TVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+++F+GNLP VS +L + FS YG IM ++ KN FGF+ F N ++V
Sbjct: 11 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI---KN-----AFGFIQFDNPQSVRDAI 62
Query: 68 STDSHVLE-GSRLSIQPSDSHNR 89
+S + G +L ++ S S+ R
Sbjct: 63 ECESQEMNFGKKLILEVSSSNAR 85
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 1/79 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK-EAVDKVFST 69
+F+ +LP +L + F +G +++A V DK T LSK FGFV++ N A + S
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 70 DSHVLEGSRLSIQPSDSHN 88
+ + RL +Q S N
Sbjct: 88 NGFQIGMKRLKVQLKRSKN 106
>pdb|1MX6|A Chain A, Structure Of P18ink4c (F92n)
pdb|1MX6|B Chain B, Structure Of P18ink4c (F92n)
Length = 168
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 2/90 (2%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
I++ A+ G LD L L D NI D G LH A GHL+VV+ L++ ++V
Sbjct: 74 IHDAARAGFLDTLQTLLENQADVNIE--DNEGNLPLHLAAKEGHLRVVEFLVKHTASNVG 131
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
+ GD D A+ +++ + +G+
Sbjct: 132 HRNHKGDTACDLARLYGRNEVVSLMQANGA 161
>pdb|1YCS|B Chain B, P53-53bp2 Complex
Length = 239
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 264 EGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDG 323
EG+ D++ + + ++ D ++ ++ G+ LH A GH ++V+ L++ G +VN DSDG
Sbjct: 47 EGEFDLVQRIIYEVDDPSLP--NDEGITALHNAVCAGHTEIVKFLVQF-GVNVNAADSDG 103
Query: 324 DYGLDYAKAIEHTDLIEYLVNSGS 347
L A + + + ++LV SG+
Sbjct: 104 WTPLHCAASCNNVQVCKFLVESGA 127
>pdb|4A63|B Chain B, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
Resolution
pdb|4A63|D Chain D, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
Resolution
pdb|4A63|F Chain F, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
Resolution
pdb|4A63|H Chain H, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
Resolution
pdb|4A63|J Chain J, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
Resolution
pdb|4A63|L Chain L, Crystal Structure Of The P73-Aspp2 Complex At 2.6a
Resolution
Length = 239
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 264 EGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDG 323
EG+ D++ + + ++ D ++ ++ G+ LH A GH ++V+ L++ G +VN DSDG
Sbjct: 47 EGEFDLVQRIIYEVDDPSLP--NDEGITALHNAVCAGHTEIVKFLVQF-GVNVNAADSDG 103
Query: 324 DYGLDYAKAIEHTDLIEYLVNSGS 347
L A + + + ++LV SG+
Sbjct: 104 WTPLHCAASCNNVQVCKFLVESGA 127
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 40/65 (61%), Gaps = 7/65 (10%)
Query: 21 SHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN----KEAVDKVFSTDSHVLEG 76
+ +L++ FS+YG I + S+++D+ + S+GF FV F+N KEA ++ + L+G
Sbjct: 25 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGME---LDG 81
Query: 77 SRLSI 81
R+ +
Sbjct: 82 RRIRV 86
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 25/85 (29%), Positives = 43/85 (50%), Gaps = 4/85 (4%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTG---LSKGFGFVTFQNKEAVDKVF 67
+F+ NL ++ + LK FS+ G I + ++ KN LS GFGFV ++ E K
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 68 ST-DSHVLEGSRLSIQPSDSHNRMA 91
H ++G +L ++ S+ + A
Sbjct: 68 KQLQGHTVDGHKLEVRISERATKPA 92
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFS 68
K++VGNL + EL++ F YG + SV +N GF FV F++ ++A D V
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLR--SVWVARN---PPGFAFVEFEDPRDAADAVRD 129
Query: 69 TDSHVLEGSRLSIQPSDSHNR 89
D L G R+ ++ S+ R
Sbjct: 130 LDGRTLCGCRVRVELSNGEKR 150
>pdb|2E5G|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 21
Length = 94
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 5/78 (6%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
L +FV P V +L ++F +G + ASV+ DK+ G+ F V + A + V
Sbjct: 8 LRSVFVSGFPRGVDSAQLSEYFLAFGPV--ASVVMDKDKGV---FAIVEMGDVGAREAVL 62
Query: 68 STDSHVLEGSRLSIQPSD 85
S H L G RL ++P +
Sbjct: 63 SQSQHSLGGHRLRVRPRE 80
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 45/82 (54%), Gaps = 1/82 (1%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
++ R N+I+V ++ +S +++K F +G+I + ++ D TG KG+GF+ ++
Sbjct: 102 LAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKA 161
Query: 61 EAV-DKVFSTDSHVLEGSRLSI 81
++ D V S + L G L +
Sbjct: 162 QSSQDAVSSXNLFDLGGQYLRV 183
Score = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 35/69 (50%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
+++VG++ + + + +++ F+ +G I + +D T KGF FV ++ EA
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 70 DSHVLEGSR 78
+ V G R
Sbjct: 74 XNSVXLGGR 82
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFS 68
K++VGNL + EL++ F YG + SV +N GF FV F++ ++A D V
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLR--SVWVARN---PPGFAFVEFEDPRDAADAVRE 129
Query: 69 TDSHVLEGSRLSIQPSDSHNR 89
D L G R+ ++ S+ R
Sbjct: 130 LDGRTLCGCRVRVELSNGEKR 150
>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 = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 2/68 (2%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
IF+ NL ++ + L FS +G I++ V+ D+N SKG+GFV F+ +EA ++
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 65
Query: 71 SHVLEGSR 78
+ +L R
Sbjct: 66 NGMLLNDR 73
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 41/70 (58%), Gaps = 7/70 (10%)
Query: 21 SHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN----KEAVDKVFSTDSHVLEG 76
+ +L++ FS+YG I + S+++D+ + S+GF FV F+N KEA ++ + L+G
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGME---LDG 84
Query: 77 SRLSIQPSDS 86
R+ + S
Sbjct: 85 RRIRVSGPSS 94
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 40/65 (61%), Gaps = 7/65 (10%)
Query: 21 SHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN----KEAVDKVFSTDSHVLEG 76
+ +L++ FS+YG I + S+++D+ + S+GF FV F+N KEA ++ + L+G
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGME---LDG 84
Query: 77 SRLSI 81
R+ +
Sbjct: 85 RRIRV 89
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 45/82 (54%), Gaps = 1/82 (1%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
++ R N+I+V ++ +S +++K F +G+I + ++ D TG KG+GF+ ++
Sbjct: 103 LAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKA 162
Query: 61 EAV-DKVFSTDSHVLEGSRLSI 81
++ D V S + L G L +
Sbjct: 163 QSSQDAVSSMNLFDLGGQYLRV 184
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 38/71 (53%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+ +++VG++ + + + +++ F+ +G I + + +D T KGF FV ++ EA
Sbjct: 13 MCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLAL 72
Query: 68 STDSHVLEGSR 78
+ V+ G R
Sbjct: 73 EQMNSVMLGGR 83
>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 = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 40/64 (62%), Gaps = 4/64 (6%)
Query: 4 SIRQ--LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
S+R+ + IF+ NL ++ + L FS +G I++ V+ D+N SKG+GFV F+ +E
Sbjct: 97 SLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQE 154
Query: 62 AVDK 65
A ++
Sbjct: 155 AAER 158
>pdb|3V30|A Chain A, Crystal Structure Of The Peptide Bound Complex Of The
Ankyrin Repeat Domains Of Human Rfxank
Length = 172
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 48/87 (55%), Gaps = 2/87 (2%)
Query: 257 NIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADV 316
+I++ A +G+LD L + L K D +N+ DE G L WA G ++ V+ L+E GAD
Sbjct: 5 SIHQLAAQGELDQLKEHLRK-GDNLVNKPDERGFTPLIWASAFGEIETVRFLLE-WGADP 62
Query: 317 NVTDSDGDYGLDYAKAIEHTDLIEYLV 343
++ + + L A +TD++ L+
Sbjct: 63 HILAKERESALSLASTGGYTDIVGLLL 89
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 278 KDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAI 333
+D +IN D NG L +A H+K V+ L+ + GAD+ G +D A A+
Sbjct: 91 RDVDINIYDWNGGTPLLYAVRGNHVKCVEALLAR-GADLTTEADSGYTPMDLAVAL 145
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 42/73 (57%), Gaps = 7/73 (9%)
Query: 13 VGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN----KEAVDKVFS 68
V L + +L++ FS+YG I + S+++D+ + S+GF FV F+N KEA ++
Sbjct: 51 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 110
Query: 69 TDSHVLEGSRLSI 81
+ L+G R+ +
Sbjct: 111 ME---LDGRRIRV 120
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 40/64 (62%), Gaps = 4/64 (6%)
Query: 4 SIRQ--LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
S+R+ + IF+ NL ++ + L FS +G I++ V+ D+N SKG+GFV F+ +E
Sbjct: 92 SLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQE 149
Query: 62 AVDK 65
A ++
Sbjct: 150 AAER 153
>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 = 42.4 bits (98), Expect = 3e-04, Method: Composition-based stats.
Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 4/69 (5%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
+ V LP ++ +EL+ FS G++ +A ++ DK G S G+GFV + + ++ +T
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINT- 65
Query: 71 SHVLEGSRL 79
L G RL
Sbjct: 66 ---LNGLRL 71
>pdb|1IHB|A Chain A, Crystal Structure Of P18-Ink4c(Ink6)
pdb|1IHB|B Chain B, Crystal Structure Of P18-Ink4c(Ink6)
Length = 162
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 2/90 (2%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
I++ A+ G LD L L D NI D G LH A GHL+VV+ L++ ++V
Sbjct: 74 IHDAARAGFLDTLQTLLEFQADVNIE--DNEGNLPLHLAAKEGHLRVVEFLVKHTASNVG 131
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
+ GD D A+ +++ + +G+
Sbjct: 132 HRNHKGDTACDLARLYGRNEVVSLMQANGA 161
>pdb|1BU9|A Chain A, Solution Structure Of P18-Ink4c, 21 Structures
pdb|1G3N|B Chain B, Structure Of A P18(Ink4c)-Cdk6-K-Cyclin Ternary Complex
pdb|1G3N|F Chain F, Structure Of A P18(Ink4c)-Cdk6-K-Cyclin Ternary Complex
Length = 168
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 2/90 (2%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
I++ A+ G LD L L D NI D G LH A GHL+VV+ L++ ++V
Sbjct: 74 IHDAARAGFLDTLQTLLEFQADVNIE--DNEGNLPLHLAAKEGHLRVVEFLVKHTASNVG 131
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
+ GD D A+ +++ + +G+
Sbjct: 132 HRNHKGDTACDLARLYGRNEVVSLMQANGA 161
>pdb|1MX2|A Chain A, Structure Of F71n Mutant Of P18ink4c
pdb|1MX2|B Chain B, Structure Of F71n Mutant Of P18ink4c
Length = 168
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 2/90 (2%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
I++ A+ G LD L L D NI D G LH A GHL+VV+ L++ ++V
Sbjct: 74 IHDAARAGFLDTLQTLLEFQADVNIE--DNEGNLPLHLAAKEGHLRVVEFLVKHTASNVG 131
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
+ GD D A+ +++ + +G+
Sbjct: 132 HRNHKGDTACDLARLYGRNEVVSLMQANGA 161
>pdb|3UXG|A Chain A, Crystal Structure Of Rfxank
Length = 172
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 48/87 (55%), Gaps = 2/87 (2%)
Query: 257 NIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADV 316
+I++ A +G+LD L + L K D +N+ DE G L WA G ++ V+ L+E GAD
Sbjct: 5 SIHQLAAQGELDQLKEHLRK-GDNLVNKPDERGFTPLIWASAFGEIETVRFLLE-WGADP 62
Query: 317 NVTDSDGDYGLDYAKAIEHTDLIEYLV 343
++ + + L A +TD++ L+
Sbjct: 63 HILAKERESALSLASTGGYTDIVGLLL 89
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 278 KDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAI 333
+D +IN D NG L +A H+K V+ L+ + GAD+ G +D A A+
Sbjct: 91 RDVDINIYDWNGGTPLLYAVHGNHVKCVEALLAR-GADLTTEADSGYTPMDLAVAL 145
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK-EAVDKVFST 69
+FVG+L V L+ F ++ ++ VM+D TG S+G+GFV+F ++ +A + + S
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 70 DSHVLEGSRLSI 81
L G L I
Sbjct: 150 QGQDLNGRPLRI 161
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKN 45
++VGNL ++ + LK++F G I N +M DKN
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKN 37
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 42.4 bits (98), Expect = 4e-04, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+ IF+ NL ++ + L FS +G I++ V+ D+N SKG+GFV F+ +EA ++
Sbjct: 11 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAI 68
Query: 68 STDSHVLEGSR 78
+ +L R
Sbjct: 69 EKMNGMLLNDR 79
>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 = 42.4 bits (98), Expect = 4e-04, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 9/81 (11%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK--E 61
+ Q +++FVGNLP ++ E++K F +YG+ + D KGFGF+ + +
Sbjct: 11 TFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLA 64
Query: 62 AVDKVFSTDSHVLEGSRLSIQ 82
+ KV D+ L G +L ++
Sbjct: 65 EIAKV-ELDNMPLRGKQLRVR 84
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 41/76 (53%), Gaps = 9/76 (11%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAV-DKVFS 68
K+F+GNLP + E++ F +YG+++ ++ K +GFV ++K A D + +
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRN 61
Query: 69 TDSHVLEGSRLSIQPS 84
+ L G ++++ S
Sbjct: 62 LHHYKLHGVNINVEAS 77
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 42.0 bits (97), Expect = 5e-04, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 41/74 (55%), Gaps = 4/74 (5%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFS 68
+I+VGNLP + +++ F +YG I + + KN F FV F++ ++A D V+
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL---KNRRGGPPFAFVEFEDPRDAEDAVYG 80
Query: 69 TDSHVLEGSRLSIQ 82
D + +G RL ++
Sbjct: 81 RDGYDYDGYRLRVE 94
>pdb|4GRG|A Chain A, Crystal Structure Of Ige Complexed With E2_79, An Anti-Ige
Inhibitor
pdb|4GRG|B Chain B, Crystal Structure Of Ige Complexed With E2_79, An Anti-Ige
Inhibitor
Length = 135
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 34/95 (35%), Positives = 51/95 (53%), Gaps = 3/95 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D K + E A+ G+ D V+ LT ++N D G LH A GHL++V+ L+ K
Sbjct: 13 DLGKKLLEAARAGQDDE-VRILTA-NGADVNANDYWGHTPLHLAAMLGHLEIVEVLL-KN 69
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN T + G L A +H +++E L+ G+
Sbjct: 70 GADVNATGNTGRTPLHLAAWADHLEIVEVLLKHGA 104
>pdb|3EU9|A Chain A, The Ankyrin Repeat Domain Of Huntingtin Interacting
Protein 14
pdb|3EU9|B Chain B, The Ankyrin Repeat Domain Of Huntingtin Interacting
Protein 14
pdb|3EU9|C Chain C, The Ankyrin Repeat Domain Of Huntingtin Interacting
Protein 14
Length = 240
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 293 LHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
LHWA +GHL +V L+ K GAD ++ D +G + A HT ++ YL+ G
Sbjct: 80 LHWATRQGHLSMVVQLM-KYGADPSLIDGEGCSCIHLAAQFGHTSIVAYLIAKG 132
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 48/92 (52%), Gaps = 3/92 (3%)
Query: 245 INDESQLDDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKV 304
I D+ D N ++ ++G L M+V+ + D ++ +D G +C+H A GH +
Sbjct: 67 IVDQLGGDLNSTPLHWATRQGHLSMVVQLMKYGADPSL--IDGEGCSCIHLAAQFGHTSI 124
Query: 305 VQHLIEKCGADVNVTDSDGDYGLDYAKAIEHT 336
V +LI K G DV++ D +G L +A H+
Sbjct: 125 VAYLIAK-GQDVDMMDQNGMTPLMWAAYRTHS 155
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 46/215 (21%), Positives = 89/215 (41%), Gaps = 22/215 (10%)
Query: 141 NMEAKSKYNAWNSLGQMAKSEAMSKYIALLKEVDAGWEDKEQEE-----INWDWKPNQKA 195
+M Y+ W+ + K+ Y + V+AG++ ++ ++ ++W N+
Sbjct: 1 HMTHIDDYSTWD----IVKATQYGIYERCRELVEAGYDVRQPDKENVTLLHWAAINNRID 56
Query: 196 MSKY-IALLNEVDASWEDKEQEEINWDESQESGSKENEGQTKGWVNVSSMINDESQLD-D 253
+ KY I+ VD D ++W Q G V + D S +D +
Sbjct: 57 LVKYYISKGAIVDQLGGDLNSTPLHWATRQ--------GHLSMVVQLMKYGADPSLIDGE 108
Query: 254 NEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCG 313
I+ A+ G ++ + K +D ++ +D+NG+ L WA R H L+
Sbjct: 109 GCSCIHLAAQFGHTSIVAYLIAKGQD--VDMMDQNGMTPLMWAAYRTHSVDPTRLLLTFN 166
Query: 314 ADVNVTDS-DGDYGLDYAKAIEHTDLIEYLVNSGS 347
VN+ D + L +A +T +I L+ +G+
Sbjct: 167 VSVNLGDKYHKNTALHWAVLAGNTTVISLLLEAGA 201
>pdb|1S70|B Chain B, Complex Between Protein Ser/thr Phosphatase-1 (delta) And
The Myosin Phosphatase Targeting Subunit 1 (mypt1)
Length = 299
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 47/83 (56%), Gaps = 3/83 (3%)
Query: 265 GKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGD 324
G + +++ L + D N +D GL LH AC ++ +V+ L+E GA++N D++G
Sbjct: 51 GDTEEVLRLLERGADINYANVD--GLTALHQACIDDNVDMVKFLVEN-GANINQPDNEGW 107
Query: 325 YGLDYAKAIEHTDLIEYLVNSGS 347
L A + + D+ EYL++ G+
Sbjct: 108 IPLHAAASCGYLDIAEYLISQGA 130
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 296 ACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
AC G + V L+E+ GAD+N + DG L A ++ D++++LV +G+
Sbjct: 47 ACSSGDTEEVLRLLER-GADINYANVDGLTALHQACIDDNVDMVKFLVENGA 97
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
+ V LP ++ +E K F G I + ++ DK TG S G+GFV + + DK +T
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINT 65
>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 = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK-EAVDKVFST 69
+FVG+L V L+ F ++ ++ VM+D TG S+G+GFV+F ++ +A + + S
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 70 DSHVLEGSRLSI 81
L G L I
Sbjct: 64 QGQDLNGRPLRI 75
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 42.0 bits (97), Expect = 6e-04, Method: Composition-based stats.
Identities = 32/97 (32%), Positives = 49/97 (50%), Gaps = 13/97 (13%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTF-QNKEAVDKVFST 69
+FV NL + V +LK+ FS G ++ A ++ DK+ G S+G G VTF Q+ EAV +
Sbjct: 18 VFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVTFEQSIEAVQAI--- 73
Query: 70 DSHVLEGSRLSIQPSDSHNRMAENMEDRFNQACDYLP 106
+ G L +P M M++R D+ P
Sbjct: 74 --SMFNGQLLFDRP------MHVKMDERALPKGDFFP 102
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor
9g8
Length = 101
Score = 41.6 bits (96), Expect = 6e-04, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 43/81 (53%), Gaps = 6/81 (7%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFS 68
K++VGNL EL++ FS YG + +V +N GF FV F++ ++A D V
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLR--TVWIARN---PPGFAFVEFEDPRDAEDAVRG 56
Query: 69 TDSHVLEGSRLSIQPSDSHNR 89
D V+ GSR+ ++ S R
Sbjct: 57 LDGKVICGSRVRVELSTGMPR 77
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 41.6 bits (96), Expect = 6e-04, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 13 VGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFSTDS 71
V NL + S + L++ F +YG++ + + + +T +GF FV F + ++A D + D
Sbjct: 18 VDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDG 77
Query: 72 HVLEGSRLSIQ 82
L+G L +Q
Sbjct: 78 AELDGRELRVQ 88
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 41.2 bits (95), Expect = 8e-04, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 9/83 (10%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE-AVDKVFS 68
K+ VGN+ T ++ EL+ F EYG ++ ++ K + FV + E AV+ +
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVIECDIV--------KDYAFVHMERAEDAVEAIRG 63
Query: 69 TDSHVLEGSRLSIQPSDSHNRMA 91
D+ +G R+ +Q S S R A
Sbjct: 64 LDNTEFQGKRMHVQLSTSRLRTA 86
>pdb|3V2O|A Chain A, Crystal Structure Of The Peptide Bound Complex Of The
Ankyrin Repeat Domains Of Human Ankra2
Length = 183
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 50/94 (53%), Gaps = 5/94 (5%)
Query: 254 NEKNIYEWAKEGKLDMLVKQLTKLKDFN-INQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
N ++++ A +G++ L T+++ N IN DE G L WA G + VV+ L++
Sbjct: 19 NSLSVHQLAAQGEMLYLA---TRIEQENVINHTDEEGFTPLMWAAAHGQIAVVEFLLQN- 74
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
GAD + + L A + +TD+++ L++ G
Sbjct: 75 GADPQLLGKGRESALSLACSKGYTDIVKMLLDCG 108
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 280 FNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAI 333
++N+ D NG L +A H+K V+ L+E GAD + G +D A A+
Sbjct: 109 VDVNEYDWNGGTPLLYAVHGNHVKCVKMLLES-GADPTIETDSGYNSMDLAVAL 161
>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 = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 4/73 (5%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
Q + V LP + +EL+ FS G++ +A ++ DK G S G+GFV + + ++
Sbjct: 18 QGTNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 77
Query: 67 FSTDSHVLEGSRL 79
+T L G RL
Sbjct: 78 INT----LNGLRL 86
>pdb|3V2X|A Chain A, Crystal Structure Of The Peptide Bound Complex Of The
Ankyrin Repeat Domains Of Human Ankra2
pdb|3V31|A Chain A, Crystal Structure Of The Peptide Bound Complex Of The
Ankyrin Repeat Domains Of Human Ankra2
Length = 167
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 50/94 (53%), Gaps = 5/94 (5%)
Query: 254 NEKNIYEWAKEGKLDMLVKQLTKLKDFN-INQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
N ++++ A +G++ L T+++ N IN DE G L WA G + VV+ L++
Sbjct: 3 NSLSVHQLAAQGEMLYLA---TRIEQENVINHTDEEGFTPLMWAAAHGQIAVVEFLLQN- 58
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
GAD + + L A + +TD+++ L++ G
Sbjct: 59 GADPQLLGKGRESALSLACSKGYTDIVKMLLDCG 92
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 280 FNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAI 333
++N+ D NG L +A H+K V+ L+E GAD + G +D A A+
Sbjct: 93 VDVNEYDWNGGTPLLYAVHGNHVKCVKMLLES-GADPTIETDSGYNSMDLAVAL 145
>pdb|3SO8|A Chain A, Crystal Structure Of Ankra
Length = 162
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 50/94 (53%), Gaps = 5/94 (5%)
Query: 254 NEKNIYEWAKEGKLDMLVKQLTKLKDFN-INQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
N ++++ A +G++ L T+++ N IN DE G L WA G + VV+ L++
Sbjct: 1 NSLSVHQLAAQGEMLYLA---TRIEQENVINHTDEEGFTPLMWAAAHGQIAVVEFLLQN- 56
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
GAD + + L A + +TD+++ L++ G
Sbjct: 57 GADPQLLGKGRESALSLACSKGYTDIVKMLLDCG 90
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 280 FNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAI 333
++N+ D NG L +A H+K V+ L+E GAD + G +D A A+
Sbjct: 91 VDVNEYDWNGGTPLLYAVHGNHVKCVKMLLES-GADPTIETDSGYNSMDLAVAL 143
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 41/80 (51%), Gaps = 1/80 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST- 69
++VG L VS L + F + G ++N + D+ TG +G+GFV F ++E D
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 70 DSHVLEGSRLSIQPSDSHNR 89
D L G + + + +HN+
Sbjct: 78 DMIKLYGKPIRVNKASAHNK 97
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 36/60 (60%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+K+F+G LP ++ +++K+ + +G + +++ D TGLSKG+ F + + D+ +
Sbjct: 2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 29/49 (59%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN 59
+FV ++ +E+++ F +YG+I N + D+ TG SKG+ V ++
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYET 123
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNA-SVMFDKNTGLSKGFGFVTFQNKEAVD 64
IF+GNL + L FS +G I+ +M D +TG SKG+ F+ F + +A D
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASD 62
>pdb|2XEN|A Chain A, Structural Determinants For Improved Thermal Stability Of
Designed Ankyrin Repeat Proteins With A Redesigned C-
Capping Module
Length = 91
Score = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 30/90 (33%), Positives = 46/90 (51%), Gaps = 3/90 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D K + E A+ G+ D + ++ ++N D++G LH A GHL++V+ L+ K
Sbjct: 1 DLGKKLLEAARAGQDDEV--RILMANGADVNAKDKDGYTPLHLAAREGHLEIVEVLL-KA 57
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
GADVN D G D + + DL E L
Sbjct: 58 GADVNAQDKFGKTAFDISIDNGNEDLAEIL 87
Score = 27.7 bits (60), Expect = 9.3, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN D DG L A H +++E L+ +G+
Sbjct: 25 GADVNAKDKDGYTPLHLAAREGHLEIVEVLLKAGA 59
>pdb|2BKG|A Chain A, Crystal Structure Of E3_19 An Designed Ankyrin Repeat
Protein
pdb|2BKG|B Chain B, Crystal Structure Of E3_19 An Designed Ankyrin Repeat
Protein
Length = 166
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/85 (36%), Positives = 43/85 (50%), Gaps = 3/85 (3%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
++ AK G L+++ L D N + D G LH A D GHL++V+ L+ K GADVN
Sbjct: 84 LHLAAKRGHLEIVEVLLKYGADVNAD--DTIGSTPLHLAADTGHLEIVEVLL-KYGADVN 140
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYL 342
D G D + + DL E L
Sbjct: 141 AQDKFGKTAFDISIDNGNEDLAEIL 165
>pdb|2DVW|A Chain A, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
pdb|2DWZ|A Chain A, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
pdb|2DWZ|C Chain C, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
Length = 231
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 45/90 (50%), Gaps = 2/90 (2%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
I A GKLD L +++ K + D++ LHWAC GH ++V+ L++ G VN
Sbjct: 10 ICNLAYSGKLDELKERILADKSL-ATRTDQDSRTALHWACSAGHTEIVEFLLQ-LGVPVN 67
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
D G L A + ++++ L+ G+
Sbjct: 68 DKDDAGWSPLHIAASAGRDEIVKALLVKGA 97
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 293 LHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
+H A +G+LK+V H++ A N+ D++G+ L A E + ++LV G+
Sbjct: 143 MHRAAAKGNLKMV-HILLFYKASTNIQDTEGNTPLHLACDEERVEEAKFLVTQGA 196
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 32/54 (59%), Gaps = 6/54 (11%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
Q ++FVGNLP ++ + K+ F YG+ + V +++ +GFGF+ +++
Sbjct: 21 QRCRLFVGNLPTDITEEDFKRLFERYGE--PSEVFINRD----RGFGFIRLESR 68
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 27/51 (52%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
I V NL +L++ F +G I + DK TG SKGF F++F +E
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRRE 68
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 15/56 (26%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
+++ NLP ++ EL+ +GQ+++ ++ D ++G S+G GF ++ E + V
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAV 82
>pdb|2L6B|A Chain A, Nrc Consensus Ankyrin Repeat Protein Solution Structure
Length = 115
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 31/95 (32%), Positives = 46/95 (48%), Gaps = 3/95 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D ++ AK G + + K L+K D N D N LH A GH ++V+ L+ K
Sbjct: 8 DGNTPLHNAAKNGHAEEVKKLLSKGADVNARSKDGN--TPLHLAAKNGHAEIVKLLLAK- 64
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
GADVN DG+ AK H ++++ L G+
Sbjct: 65 GADVNARSKDGNTPEHLAKKNGHHEIVKLLDAKGA 99
Score = 33.5 bits (75), Expect = 0.19, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 287 ENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
++G LH A GH + V+ L+ K GADVN DG+ L A H ++++ L+ G
Sbjct: 7 KDGNTPLHNAAKNGHAEEVKKLLSK-GADVNARSKDGNTPLHLAAKNGHAEIVKLLLAKG 65
Query: 347 S 347
+
Sbjct: 66 A 66
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 31/56 (55%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
+ V NLP +++ + ++ +G + +++ + TG SKG+GF + K++ +
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>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 = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 31/56 (55%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
+ V NLP +++ + ++ +G + +++ + TG SKG+GF + K++ +
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
>pdb|1SVX|A Chain A, Crystal Structure Of A Designed Selected Ankyrin Repeat
Protein In Complex With The Maltose Binding Protein
Length = 169
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+++ D G LH A GHL++V+ L+ K GADVN DSDG L A + +++E
Sbjct: 72 DVDASDVFGYTPLHLAAYWGHLEIVEVLL-KNGADVNAMDSDGMTPLHLAAKWGYLEIVE 130
Query: 341 YLVNSGS 347
L+ G+
Sbjct: 131 VLLKHGA 137
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 31/56 (55%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
+ V NLP +++ + ++ +G + +++ + TG SKG+GF + K++ +
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|3AJI|A Chain A, Structure Of Gankyrin-S6atpase Photo-Cross-Linked
Site-Specifically, And Incoporated By Genetic Code
Expansion
pdb|3AJI|C Chain C, Structure Of Gankyrin-S6atpase Photo-Cross-Linked
Site-Specifically, And Incoporated By Genetic Code
Expansion
Length = 231
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 45/90 (50%), Gaps = 2/90 (2%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
I A GKLD L +++ K + D++ LHWAC GH ++V+ L++ G VN
Sbjct: 10 ICNLAYSGKLDELKERILADKSL-ATRTDQDSRTALHWACSAGHTEIVEFLLQ-LGVPVN 67
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
D G L A + ++++ L+ G+
Sbjct: 68 DKDDAGWSPLHIAASAGXDEIVKALLVKGA 97
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 293 LHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
+H A +G+LK+V H++ A N+ D++G+ L A E + ++LV G+
Sbjct: 143 MHRAAAKGNLKMV-HILLFYKASTNIQDTEGNTPLHLACDEERVEEAKFLVTQGA 196
>pdb|2V5Q|C Chain C, Crystal Structure Of Wild-type Plk-1 Kinase Domain In
Complex With A Selective Darpin
pdb|2V5Q|D Chain D, Crystal Structure Of Wild-type Plk-1 Kinase Domain In
Complex With A Selective Darpin
Length = 167
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLD 328
++N D G LH A D GHL++V+ L+ K GADVN D G D
Sbjct: 105 DVNAFDMTGSTPLHLAADEGHLEIVEVLL-KYGADVNAQDKFGKTAFD 151
>pdb|1IKN|D Chain D, IkappabalphaNF-Kappab Complex
Length = 236
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 288 NGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS-DGDYGLDYAKAIEHTDLIEYLVNSG 346
NG CLH A G+L +V+ L+ GADVN + +G L A +++ DL+ L+ G
Sbjct: 116 NGHTCLHLASIHGYLGIVELLV-SLGADVNAQEPCNGRTALHLAVDLQNPDLVSLLLKCG 174
Query: 347 S 347
+
Sbjct: 175 A 175
>pdb|2ZGG|A Chain A, Asn-Hydroxylation Stabilises The Ankyrin Repeat Domain
Fold
Length = 92
Score = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 31/90 (34%), Positives = 45/90 (50%), Gaps = 3/90 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D K + E A+ G+ D + ++ ++ D+NG LH A GHL+VV+ L+E
Sbjct: 5 DLGKKLLEAARAGQDDEV--RILMANGADVAAKDKNGSTPLHLAARNGHLEVVKLLLE-A 61
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
GADVN D G D + + DL E L
Sbjct: 62 GADVNAQDKFGKTAFDISIDNGNEDLAEIL 91
>pdb|3C5R|A Chain A, Crystal Structure Of The Bard1 Ankyrin Repeat Domain And
Its Functional Consequences
pdb|3C5R|B Chain B, Crystal Structure Of The Bard1 Ankyrin Repeat Domain And
Its Functional Consequences
Length = 137
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 286 DENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNS 345
D G LH AC+ GHLKVV+ L++ A VN T D L A H D+++ L++
Sbjct: 40 DHAGWTPLHEACNHGHLKVVELLLQH-KALVNTTGYQNDSPLHDAAKNGHVDIVKLLLSY 98
Query: 346 GS 347
G+
Sbjct: 99 GA 100
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 1/92 (1%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+S R +F L + +L+ FFS G++ + ++ D+N+ SKG +V F
Sbjct: 18 LSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEI 77
Query: 61 EAVDKVFSTDSHVLEGSRLSIQPSDSH-NRMA 91
++V L G + +Q S + NR++
Sbjct: 78 QSVPLAIGLTGQRLLGVPIIVQASQAEKNRLS 109
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 36/60 (60%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+K+F+G LP ++ +++K+ + +G + +++ D TGLSKG+ F + + D+ +
Sbjct: 95 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 154
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/82 (21%), Positives = 38/82 (46%), Gaps = 6/82 (7%)
Query: 10 KIFVGNLPWTVSHNELKKFFS---EYGQIMNAS--VMFDKNTGLSKGFGFVTFQNKEAVD 64
+++VGN+P+ ++ + FF+ G + A + K F F+ F++ +
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65
Query: 65 KVFSTDSHVLEGSRLSI-QPSD 85
+ + D + +G L I +P D
Sbjct: 66 QAMAFDGIIFQGQSLKIRRPHD 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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 14/72 (19%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS-T 69
+FV + + + ++L++ F YG I +++ K +G +G+ F+ ++++ + +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 70 DSHVLEGSRLSI 81
D ++G R+ +
Sbjct: 165 DGKKIDGRRVLV 176
>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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 36/60 (60%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+K+F+G LP ++ +++K+ + +G + +++ D TGLSKG+ F + + D+ +
Sbjct: 97 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 156
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/82 (21%), Positives = 38/82 (46%), Gaps = 6/82 (7%)
Query: 10 KIFVGNLPWTVSHNELKKFFS---EYGQIMNAS--VMFDKNTGLSKGFGFVTFQNKEAVD 64
+++VGN+P+ ++ + FF+ G + A + K F F+ F++ +
Sbjct: 8 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 67
Query: 65 KVFSTDSHVLEGSRLSI-QPSD 85
+ + D + +G L I +P D
Sbjct: 68 QAMAFDGIIFQGQSLKIRRPHD 89
>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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 36/60 (60%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+K+F+G LP ++ +++K+ + +G + +++ D TGLSKG+ F + + D+ +
Sbjct: 115 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 174
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 25/120 (20%), Positives = 51/120 (42%), Gaps = 15/120 (12%)
Query: 10 KIFVGNLPWTVSHNELKKFFS---EYGQIMNAS--VMFDKNTGLSKGFGFVTFQNKEAVD 64
+++VGN+P+ ++ + FF+ G + A + K F F+ F++ +
Sbjct: 6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65
Query: 65 KVFSTDSHVLEGSRLSI-QPSDSHNR--MAENMEDRFNQACDYLPSLVKKLDSSTLLKFY 121
+ + D + +G L I +P D M+EN Y+P +V + + K +
Sbjct: 66 QAMAFDGIIFQGQSLKIRRPHDYQPLPGMSEN-------PSVYVPGVVSTVVPDSAHKLF 118
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 14/72 (19%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS-T 69
+FV + + + ++L++ F YG I +++ K +G +G+ F+ ++++ + +
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 70 DSHVLEGSRLSI 81
D ++G R+ +
Sbjct: 165 DGKKIDGRRVLV 176
>pdb|1NFI|E Chain E, I-Kappa-B-AlphaNF-Kappa-B Complex
pdb|1NFI|F Chain F, I-Kappa-B-AlphaNF-Kappa-B Complex
Length = 213
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 288 NGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS-DGDYGLDYAKAIEHTDLIEYLVNSG 346
NG CLH A G+L +V+ L+ GADVN + +G L A +++ DL+ L+ G
Sbjct: 113 NGHTCLHLASIHGYLGIVELLVSL-GADVNAQEPCNGRTALHLAVDLQNPDLVSLLLKCG 171
Query: 347 S 347
+
Sbjct: 172 A 172
>pdb|4G8K|A Chain A, Intact Sensor Domain Of Human Rnase L In The Inactive
Signaling State
pdb|4G8K|B Chain B, Intact Sensor Domain Of Human Rnase L In The Inactive
Signaling State
pdb|4G8L|A Chain A, Active State Of Intact Sensor Domain Of Human Rnase L With
2-5a Bound
pdb|4G8L|B Chain B, Active State Of Intact Sensor Domain Of Human Rnase L With
2-5a Bound
pdb|4G8L|C Chain C, Active State Of Intact Sensor Domain Of Human Rnase L With
2-5a Bound
pdb|4G8L|D Chain D, Active State Of Intact Sensor Domain Of Human Rnase L With
2-5a Bound
Length = 337
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 54/120 (45%), Gaps = 8/120 (6%)
Query: 236 KGWVNVSSMINDESQLDDNE-----KNIYEWAKEGKLDMLVKQLTKL---KDFNINQLDE 287
KG V V ++ DE D N +N A D V+ +T L ++N E
Sbjct: 178 KGHVEVLKILLDEMGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGADVNVRGE 237
Query: 288 NGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
G L A ++ HL +VQ L+E+ ++N TDSDG L A ++ + E L G+
Sbjct: 238 RGKTPLILAVEKKHLGLVQRLLEQEHIEINDTDSDGKTALLLAVELKLKKIAELLCKRGA 297
Score = 34.7 bits (78), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 30/47 (63%)
Query: 284 QLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYA 330
+L + G L A ++GH++V++ L+++ GADVN D+ G L +A
Sbjct: 163 RLRKGGATALMDAAEKGHVEVLKILLDEMGADVNACDNMGRNALIHA 209
>pdb|2ZGD|A Chain A, Asn-Hydroxylation Stabilises The Ankyrin Repeat Domain
Fold
Length = 110
Score = 37.7 bits (86), Expect = 0.010, Method: Composition-based stats.
Identities = 30/90 (33%), Positives = 44/90 (48%), Gaps = 3/90 (3%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
D K + E A+ G+ D + ++ ++ D+NG LH A GHL+VV+ L+E
Sbjct: 23 DLGKKLLEAARAGQDDEV--RILMANGADVAAKDKNGSTPLHLAARNGHLEVVKLLLE-A 79
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
GADV D G D + + DL E L
Sbjct: 80 GADVXAQDKFGKTAFDISIDNGNEDLAEIL 109
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 37.4 bits (85), Expect = 0.011, Method: Composition-based stats.
Identities = 24/73 (32%), Positives = 37/73 (50%), Gaps = 5/73 (6%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
+FVGNL V L + F + G + ++ D+ G K FGFV F++ E+V +
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESVSYAIA-- 75
Query: 71 SHVLEGSRLSIQP 83
+L G RL +P
Sbjct: 76 --LLNGIRLYGRP 86
>pdb|1QYM|A Chain A, X-Ray Structure Of Human Gankyrin
Length = 227
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 44/90 (48%), Gaps = 2/90 (2%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
+ A GKL+ L + + K + D++ LHWAC GH ++V+ L++ G VN
Sbjct: 11 VCNLAYSGKLEELKESILADKSL-ATRTDQDSRTALHWACSAGHTEIVEFLLQ-LGVPVN 68
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
D G L A + ++++ L+ G+
Sbjct: 69 DKDDAGWSPLHIAASAGRDEIVKALLGKGA 98
>pdb|1UOH|A Chain A, Human Gankyrin
pdb|1TR4|A Chain A, Solution Structure Of Human Oncogenic Protein Gankyrin
Length = 226
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 44/90 (48%), Gaps = 2/90 (2%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
+ A GKL+ L + + K + D++ LHWAC GH ++V+ L++ G VN
Sbjct: 10 VCNLAYSGKLEELKESILADKSL-ATRTDQDSRTALHWACSAGHTEIVEFLLQ-LGVPVN 67
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
D G L A + ++++ L+ G+
Sbjct: 68 DKDDAGWSPLHIAASAGRDEIVKALLGKGA 97
>pdb|3AAA|C Chain C, Crystal Structure Of Actin Capping Protein In Complex With
V-1
Length = 123
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 47/90 (52%), Gaps = 4/90 (4%)
Query: 259 YEWA-KEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
+ WA K G LD + + K +D +N+ E G LH+A D G L++++ L+ K GAD+N
Sbjct: 11 FMWALKNGDLDEVKDYVAKGED--VNRTLEGGRKPLHYAADCGQLEILEFLLLK-GADIN 67
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
D L A H ++ L++ G+
Sbjct: 68 APDKHHITPLLSAVYEGHVSCVKLLLSKGA 97
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 37.4 bits (85), Expect = 0.012, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 38/71 (53%), Gaps = 6/71 (8%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
+IFV NLP+ + LK F+E G ++ A + + G SKG G V F++ E ++
Sbjct: 10 QIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERA--- 64
Query: 70 DSHVLEGSRLS 80
++ G +LS
Sbjct: 65 -CRMMNGMKLS 74
>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 = 37.4 bits (85), Expect = 0.012, Method: Composition-based stats.
Identities = 21/50 (42%), Positives = 33/50 (66%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+FVG+L ++ + F+ +G+I +A V+ D TG SKG+GFV+F NK
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNK 58
>pdb|1WG0|A Chain A, Structural Comparison Of Nas6p Protein Structures In Two
Different Crystal Forms
Length = 243
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N++ G+ CLH A + +V Q LIE GA V + D L A ++ LIE
Sbjct: 99 DLNKITNQGVTCLHLAVGKKWFEVSQFLIEN-GASVRIKDKFNQIPLHRAASVGSLKLIE 157
Query: 341 YLVNSG 346
L G
Sbjct: 158 LLCGLG 163
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 43/76 (56%), Gaps = 2/76 (2%)
Query: 274 LTKLKDFNINQL-DENGLNCLHWACDRGHLKVVQHLIEK-CGADVNVTDSDGDYGLDYAK 331
L+K+++ N++ D++G H AC G+L+VV+ L ++ D+N + G L A
Sbjct: 56 LSKMENVNLDDYPDDSGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQGVTCLHLAV 115
Query: 332 AIEHTDLIEYLVNSGS 347
+ ++ ++L+ +G+
Sbjct: 116 GKKWFEVSQFLIENGA 131
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 1/77 (1%)
Query: 254 NEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCG 313
N+ ++ A G L L++ L L +N D+ G L A GH L+EK G
Sbjct: 140 NQIPLHRAASVGSLK-LIELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVLLVEKYG 198
Query: 314 ADVNVTDSDGDYGLDYA 330
A+ ++ D+ G D A
Sbjct: 199 AEYDLVDNKGAKAEDVA 215
>pdb|2DZN|A Chain A, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZN|C Chain C, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZN|E Chain E, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZO|A Chain A, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZO|C Chain C, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
Length = 228
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N++ G+ CLH A + +V Q LIE GA V + D L A ++ LIE
Sbjct: 99 DLNKITNQGVTCLHLAVGKKWFEVSQFLIEN-GASVRIKDKFNQIPLHRAASVGSLKLIE 157
Query: 341 YLVNSG 346
L G
Sbjct: 158 LLCGLG 163
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 43/76 (56%), Gaps = 2/76 (2%)
Query: 274 LTKLKDFNINQL-DENGLNCLHWACDRGHLKVVQHLIEK-CGADVNVTDSDGDYGLDYAK 331
L+K+++ N++ D++G H AC G+L+VV+ L ++ D+N + G L A
Sbjct: 56 LSKMENVNLDDYPDDSGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQGVTCLHLAV 115
Query: 332 AIEHTDLIEYLVNSGS 347
+ ++ ++L+ +G+
Sbjct: 116 GKKWFEVSQFLIENGA 131
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 1/77 (1%)
Query: 254 NEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCG 313
N+ ++ A G L L++ L L +N D+ G L A GH L+EK G
Sbjct: 140 NQIPLHRAASVGSLK-LIELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVLLVEKYG 198
Query: 314 ADVNVTDSDGDYGLDYA 330
A+ ++ D+ G D A
Sbjct: 199 AEYDLVDNKGAKAEDVA 215
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 37.0 bits (84), Expect = 0.015, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 11/79 (13%)
Query: 6 RQLN-KIFVGNL-PWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEA 62
R +N ++F+GNL V ++++ FS+YG+I+ SV KGF FV + N + A
Sbjct: 12 RSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV--------HKGFAFVQYVNERNA 63
Query: 63 VDKVFSTDSHVLEGSRLSI 81
V D ++ G L I
Sbjct: 64 RAAVAGEDGRMIAGQVLDI 82
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 37.0 bits (84), Expect = 0.015, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 29/58 (50%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+++ L + +L K YG+I++ + DK T KG+GFV F + A K +
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVT 65
>pdb|1MYO|A Chain A, Solution Structure Of Myotrophin, Nmr, 44 Structures
pdb|2MYO|A Chain A, Solution Structure Of Myotrophin, Nmr, Minimized Average
Structure
pdb|2KXP|C Chain C, Solution Nmr Structure Of V-1 Bound To Capping Protein
(Cp)
Length = 118
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 47/90 (52%), Gaps = 4/90 (4%)
Query: 259 YEWA-KEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
+ WA K G LD + + K +D +N+ E G LH+A D G L++++ L+ K GAD+N
Sbjct: 6 FMWALKNGDLDEVKDYVAKGED--VNRTLEGGRKPLHYAADCGQLEILEFLLLK-GADIN 62
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
D L A H ++ L++ G+
Sbjct: 63 APDKHHITPLLSAVYEGHVSCVKLLLSKGA 92
>pdb|1IXV|A Chain A, Crystal Structure Analysis Of Homolog Of Oncoprotein
Gankyrin, An Interactor Of Rb And Cdk46
Length = 231
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N++ G+ CLH A + +V Q LIE GA V + D L A ++ LIE
Sbjct: 99 DLNKITNQGVTCLHLAVGKKWFEVSQFLIEN-GASVRIKDKFNQIPLHRAASVGSLKLIE 157
Query: 341 YLVNSG 346
L G
Sbjct: 158 LLCGLG 163
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 43/76 (56%), Gaps = 2/76 (2%)
Query: 274 LTKLKDFNINQL-DENGLNCLHWACDRGHLKVVQHLIEK-CGADVNVTDSDGDYGLDYAK 331
L+K+++ N++ D++G H AC G+L+VV+ L ++ D+N + G L A
Sbjct: 56 LSKMENVNLDDYPDDSGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQGVTCLHLAV 115
Query: 332 AIEHTDLIEYLVNSGS 347
+ ++ ++L+ +G+
Sbjct: 116 GKKWFEVSQFLIENGA 131
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 1/77 (1%)
Query: 254 NEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCG 313
N+ ++ A G L L++ L L +N D+ G L A GH L+EK G
Sbjct: 140 NQIPLHRAASVGSLK-LIELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVLLVEKYG 198
Query: 314 ADVNVTDSDGDYGLDYA 330
A+ ++ D+ G D A
Sbjct: 199 AEYDLVDNKGAKAEDVA 215
>pdb|4HBD|A Chain A, Crystal Structure Of Kank2 Ankyrin Repeats
Length = 276
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 265 GKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGD 324
G++D++ L D N+ D++G L AC+ GH ++ L+ D+++TD DG
Sbjct: 194 GRVDVVKALLACEADVNVQ--DDDGSTALMCACEHGHKEIAGLLLAVPSCDISLTDRDGS 251
Query: 325 YGLDYA 330
L A
Sbjct: 252 TALMVA 257
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 32/65 (49%), Gaps = 4/65 (6%)
Query: 271 VKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYA 330
V QL +L + N + + G L A G + VV+ L+ C ADVNV D DG L
Sbjct: 166 VLQLFRLGNIN-AKASQAGQTALMLAVSHGRVDVVKALL-ACEADVNVQDDDGSTAL--M 221
Query: 331 KAIEH 335
A EH
Sbjct: 222 CACEH 226
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 276 KLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIE 310
+L D+ +N D NG LH++ + VVQ L++
Sbjct: 98 RLLDYVVNIADSNGNTALHYSVSHANFPVVQQLLD 132
>pdb|3UTM|A Chain A, Crystal Structure Of A Mouse Tankyrase-Axin Complex
pdb|3UTM|B Chain B, Crystal Structure Of A Mouse Tankyrase-Axin Complex
Length = 351
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 271 VKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYA 330
V +L K N+N+ +++ + LH A +R H V++ ++ K GA +N DS G L A
Sbjct: 229 VAELLLRKGANVNEKNKDFMTPLHVAAERAHNDVME-VLHKHGAKMNALDSLGQTALHRA 287
Query: 331 KAIEHTDLIEYLVNSGS 347
H L++ GS
Sbjct: 288 ALAGHLQTCRLLLSYGS 304
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 49/118 (41%), Gaps = 4/118 (3%)
Query: 203 LNEVDASWEDKEQEEINWDESQESGSKENEGQTKGWVNVSSMINDESQLDDNEKNIYEWA 262
L+ D S + E DE E+ NE + + + +N D K+
Sbjct: 8 LDLADPSAKAVLTGEYKKDELLEAARSGNEEKLMALL---TPLNVNCHASDGRKSTPLHL 64
Query: 263 KEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTD 320
G + + QL +++ D+ GL LH AC GH +V + L+ K GA VN D
Sbjct: 65 AAGYNRVRIVQLLLQHGADVHAKDKGGLVPLHNACSYGHYEVTE-LLLKHGACVNAMD 121
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN 59
K+F+G L + LK F ++G I ++ D+ T S+GF F+TF+N
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFEN 57
>pdb|1WDY|A Chain A, Crystal Structure Of Ribonuclease
Length = 285
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 54/120 (45%), Gaps = 8/120 (6%)
Query: 236 KGWVNVSSMINDESQLDDNE-----KNIYEWAKEGKLDMLVKQLTKL---KDFNINQLDE 287
KG V V ++ DE D N +N A D V+ +T L ++N E
Sbjct: 158 KGHVEVLKILLDEMGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGADVNVRGE 217
Query: 288 NGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
G L A ++ HL +VQ L+E+ ++N TDSDG L A ++ + E L G+
Sbjct: 218 RGKTPLILAVEKKHLGLVQRLLEQEHIEINDTDSDGKTALLLAVELKLKKIAELLCKRGA 277
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 30/47 (63%)
Query: 284 QLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYA 330
+L + G L A ++GH++V++ L+++ GADVN D+ G L +A
Sbjct: 143 RLRKGGATALMDAAEKGHVEVLKILLDEMGADVNACDNMGRNALIHA 189
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain
In Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 37.0 bits (84), Expect = 0.018, Method: Composition-based stats.
Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 6/70 (8%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
IFV NLP+ + LK F+E G ++ A + + G SKG G V F++ E ++
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERA---- 61
Query: 71 SHVLEGSRLS 80
++ G +LS
Sbjct: 62 CRMMNGMKLS 71
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+ V NL + VS ++++ F+E+G + A+V +D+ +G S G V F+ + K
Sbjct: 90 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMKQ 148
Query: 70 DSHV-LEGSRLSIQ 82
V L+G + IQ
Sbjct: 149 YKGVPLDGRPMDIQ 162
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 36.6 bits (83), Expect = 0.023, Method: Composition-based stats.
Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 2/74 (2%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+ V NL + VS ++++ F+E+G + A+V +D+ +G S G V F+ K K
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQ 88
Query: 70 DSHV-LEGSRLSIQ 82
+ V L+G ++IQ
Sbjct: 89 YNGVPLDGRPMNIQ 102
>pdb|4B93|B Chain B, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin
Repeat Domain Of Varp
Length = 269
Score = 36.2 bits (82), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 293 LHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
LH AC +GH +VV+ L++ A N D G+ L YA + H +L+ L+ G+
Sbjct: 123 LHLACQQGHFQVVKCLLDS-NAKPNKKDLSGNTPLIYACSGGHHELVALLLQHGA 176
Score = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Query: 283 NQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
N+ D +G L +AC GH ++V L++ GA +N +++ G+ L A +H ++E L
Sbjct: 146 NKKDLSGNTPLIYACSGGHHELVALLLQH-GASINASNNKGNTALHEAVIEKHVFVVELL 204
Query: 343 VNSGS 347
+ G+
Sbjct: 205 LLHGA 209
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 36.2 bits (82), Expect = 0.029, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 30/51 (58%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
+FV ++ +E+++ F +YG+I N + D+ TG SKG+ V ++ +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHK 79
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 35.8 bits (81), Expect = 0.032, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 42/79 (53%), Gaps = 7/79 (8%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
+FVG ++ +EL++FFS+YG +M+ V K + F FVTF + + + D
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMD--VFIPKPF---RAFAFVTFADDQIAQSLCGED 62
Query: 71 SHVLEGSRLSIQPSD-SHN 88
+++G + I ++ HN
Sbjct: 63 L-IIKGISVHISNAEPKHN 80
>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 = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFST 69
+FV + + ++ F+EYG+I N + D+ TG KG+ V ++ KEA +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 70 DSHVLEGSRLSI 81
+ L G +S+
Sbjct: 85 NGQDLMGQPISV 96
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 35.8 bits (81), Expect = 0.035, Method: Composition-based stats.
Identities = 19/73 (26%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDK-NTGLSKGFGFVTFQNKEAVDKVFS 68
K+ +G L V+ + + + FS YG+I + ++ + LSKG+ +V F+N + +K
Sbjct: 6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65
Query: 69 -TDSHVLEGSRLS 80
D ++G ++
Sbjct: 66 HMDGGQIDGQEIT 78
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+ V NL + VS ++++ F+E+G + A+V +D+ +G S G V F+ + K
Sbjct: 37 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMKQ 95
Query: 70 DSHV-LEGSRLSIQ 82
V L+G + IQ
Sbjct: 96 YKGVPLDGRPMDIQ 109
>pdb|2Y0B|G Chain G, Caspase-3 In Complex With An Inhibitory Darpin-3.4_s76r
pdb|2Y0B|H Chain H, Caspase-3 In Complex With An Inhibitory Darpin-3.4_s76r
Length = 136
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 31/85 (36%), Positives = 44/85 (51%), Gaps = 3/85 (3%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
++ AK G L+ +V+ L K ++N D G LH A GHL++V+ L+E GADVN
Sbjct: 51 LHLAAKRGHLE-IVEVLLK-HGADVNARDIWGRTPLHLAATVGHLEIVEVLLE-YGADVN 107
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYL 342
D G D + + DL E L
Sbjct: 108 AQDKFGKTAFDISIDNGNEDLAEIL 132
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 35.8 bits (81), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+ V NL + VS ++++ F+E+G + A+V +D+ +G S G V F+ + K
Sbjct: 37 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMKQ 95
Query: 70 DSHV-LEGSRLSIQ 82
V L+G + IQ
Sbjct: 96 YKGVPLDGRPMDIQ 109
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 35.8 bits (81), Expect = 0.040, Method: Composition-based stats.
Identities = 29/91 (31%), Positives = 45/91 (49%), Gaps = 13/91 (14%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+K+FVG ++ EL++FF +YG++++ V K + F FVTF A DKV
Sbjct: 12 SKVFVGRCTEDMTAEELQQFFCQYGEVVD--VFIPKPF---RAFAFVTF----ADDKV-- 60
Query: 69 TDSHVLEGSRLSIQPSDSHNRMAENMEDRFN 99
+ L G L I+ H AE ++ N
Sbjct: 61 --AQSLCGEDLIIKGISVHISNAEPKHNKLN 89
>pdb|1N11|A Chain A, D34 Region Of Human Ankyrin-R And Linker
Length = 437
Score = 35.8 bits (81), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 32/54 (59%), Gaps = 1/54 (1%)
Query: 290 LNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLV 343
L LH A GHL +V++L+++ GA NV++ + L A HT++ +YL+
Sbjct: 15 LTPLHVASFMGHLPIVKNLLQR-GASPNVSNVKVETPLHMAARAGHTEVAKYLL 67
Score = 35.0 bits (79), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 43/86 (50%), Gaps = 3/86 (3%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
++ A+EG +M+ L+K + N+ +++GL LH GH+ V LI K G V+
Sbjct: 249 LHLAAQEGHAEMVALLLSKQANGNLG--NKSGLTPLHLVAQEGHVPVADVLI-KHGVMVD 305
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLV 343
T G L A + L+++L+
Sbjct: 306 ATTRMGYTPLHVASHYGNIKLVKFLL 331
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 45/93 (48%), Gaps = 9/93 (9%)
Query: 258 IYEWAKEGKL---DMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGA 314
++ A+EG + D+L+K ++ G LH A G++K+V+ L++ A
Sbjct: 282 LHLVAQEGHVPVADVLIKH-----GVMVDATTRMGYTPLHVASHYGNIKLVKFLLQHQ-A 335
Query: 315 DVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
DVN G L A HTD++ L+ +G+
Sbjct: 336 DVNAKTKLGYSPLHQAAQQGHTDIVTLLLKNGA 368
>pdb|2XZD|G Chain G, Caspase-3 In Complex With An Inhibitory Darpin-3.4
pdb|2XZD|H Chain H, Caspase-3 In Complex With An Inhibitory Darpin-3.4
Length = 136
Score = 35.4 bits (80), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 31/85 (36%), Positives = 44/85 (51%), Gaps = 3/85 (3%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
++ AK G L+ +V+ L K ++N D G LH A GHL++V+ L+E GADVN
Sbjct: 51 LHLAAKRGHLE-IVEVLLK-HGADVNASDIWGRTPLHLAATVGHLEIVEVLLE-YGADVN 107
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYL 342
D G D + + DL E L
Sbjct: 108 AQDKFGKTAFDISIDNGNEDLAEIL 132
>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 = 35.4 bits (80), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 44/88 (50%), Gaps = 3/88 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYG-QIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
N + + LP + ++++ +G Q +M +K++G S+GF FV F + + +
Sbjct: 2 NIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWM 61
Query: 68 STDSHVLE--GSRLSIQPSDSHNRMAEN 93
+ H L G ++S+ SD ++ E+
Sbjct: 62 EANQHSLNILGQKVSMHYSDPKPKINED 89
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 10/75 (13%)
Query: 9 NKIFVGNLPWT-VSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKV 66
+++F+GNL V ++++ FS+YG++ SV KG+ FV + N + A V
Sbjct: 28 SRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--------HKGYAFVQYSNERHARAAV 79
Query: 67 FSTDSHVLEGSRLSI 81
+ VL G L I
Sbjct: 80 LGENGRVLAGQTLDI 94
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
28
Length = 111
Score = 35.0 bits (79), Expect = 0.068, Method: Composition-based stats.
Identities = 19/81 (23%), Positives = 35/81 (43%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+ + + + +F+ NL + L + ++G + V+ +T SKG F F +
Sbjct: 8 LPSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQ 67
Query: 61 EAVDKVFSTDSHVLEGSRLSI 81
EA K + S EG L +
Sbjct: 68 EAAQKCLAAASLEAEGGGLKL 88
>pdb|3T9K|A Chain A, Crystal Structure Of Acap1 C-portion Mutant S554d Fused
With Integrin Beta1 Peptide
pdb|3T9K|B Chain B, Crystal Structure Of Acap1 C-portion Mutant S554d Fused
With Integrin Beta1 Peptide
Length = 390
Score = 34.7 bits (78), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
N+NQ D G LH A GH + +++ GAD+ DS+G L A + D++
Sbjct: 260 NVNQADSAGRGPLHHATILGHTGLACLFLKR-GADLGARDSEGRDPLTIAMETANADIVT 318
Query: 341 YL 342
L
Sbjct: 319 LL 320
>pdb|3JUE|A Chain A, Crystal Structure Of Arfgap And Ank Repeat Domain Of Acap1
pdb|3JUE|B Chain B, Crystal Structure Of Arfgap And Ank Repeat Domain Of Acap1
Length = 368
Score = 34.7 bits (78), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
N+NQ D G LH A GH + +++ GAD+ DS+G L A + D++
Sbjct: 260 NVNQADSAGRGPLHHATILGHTGLACLFLKR-GADLGARDSEGRDPLTIAMETANADIVT 318
Query: 341 YL 342
L
Sbjct: 319 LL 320
>pdb|4F1P|A Chain A, Crystal Structure Of Mutant S554d For Arfgap And Ank
Repeat Domain Of Acap1
pdb|4F1P|B Chain B, Crystal Structure Of Mutant S554d For Arfgap And Ank
Repeat Domain Of Acap1
Length = 368
Score = 34.7 bits (78), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
N+NQ D G LH A GH + +++ GAD+ DS+G L A + D++
Sbjct: 260 NVNQADSAGRGPLHHATILGHTGLACLFLKR-GADLGARDSEGRDPLTIAMETANADIVT 318
Query: 341 YL 342
L
Sbjct: 319 LL 320
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif In Trna Selenocysteine Associated Protein
Length = 104
Score = 34.7 bits (78), Expect = 0.085, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 11 IFVGNLPWTVSHNELKKFFSE-YGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+FVG+L V L +FF + Y V+ D+ TG+SKG+GFV F ++
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFTDE 61
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 34.7 bits (78), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 5/62 (8%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
R + NLP+ V+ +ELK+ F + +I S G SKG ++ F+ + +K
Sbjct: 91 RDARTLLAKNLPYKVTQDELKEVFEDAAEIRLVS-----KDGKSKGIAYIEFKTEADAEK 145
Query: 66 VF 67
F
Sbjct: 146 TF 147
>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 = 34.7 bits (78), Expect = 0.089, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 32/51 (62%), Gaps = 1/51 (1%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
K+ V NL + VS ++++ F+E+G + A+V +D+ +G S G V F+ K
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERK 80
>pdb|1BI8|B Chain B, Mechanism Of G1 Cyclin Dependent Kinase Inhibition From
The Structures Cdk6-P19ink4d Inhibitor Complex
pdb|1BI8|D Chain D, Mechanism Of G1 Cyclin Dependent Kinase Inhibition From
The Structures Cdk6-P19ink4d Inhibitor Complex
Length = 166
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 286 DENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
D +G + +H A G L ++ L+E GADVNV D G + A HT ++ +L
Sbjct: 71 DTSGTSPVHDAARTGFLDTLKVLVEH-GADVNVPDGTGALPIHLAVQEGHTAVVSFL 126
>pdb|1BD8|A Chain A, Structure Of Cdk Inhibitor P19ink4d
Length = 156
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 286 DENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
D +G + +H A G L ++ L+E GADVNV D G + A HT ++ +L
Sbjct: 65 DTSGTSPVHDAARTGFLDTLKVLVEH-GADVNVPDGTGALPIHLAVQEGHTAVVSFL 120
>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 = 33.9 bits (76), Expect = 0.13, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFST 69
+FV + + ++ F+EYG+I N + D+ TG KG+ V ++ KEA +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 70 DSHVLEGSRLSI 81
+ L G +S+
Sbjct: 72 NGQDLMGQPISV 83
>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 = 33.9 bits (76), Expect = 0.13, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFST 69
+FV + + ++ F+EYG+I N + D+ TG KG+ V ++ KEA +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 70 DSHVLEGSRLSI 81
+ L G +S+
Sbjct: 70 NGQDLMGQPISV 81
>pdb|2FO1|E Chain E, Crystal Structure Of The Csl-Notch-Mastermind Ternary
Complex Bound To Dna
Length = 373
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 270 LVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDY 329
+VK L K N ++ DE+G + A G ++VV +LI++ GA V D+
Sbjct: 294 IVKYLVGEKGSNKDKQDEDGKTPIXLAAQEGRIEVVXYLIQQ-GASVEAVDATDHTARQL 352
Query: 330 AKAIEHTDLIE 340
A+A H ++++
Sbjct: 353 AQANNHHNIVD 363
Score = 31.2 bits (69), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 30/59 (50%)
Query: 289 GLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
G LH+A + +V++L+ + G++ + D DG + A +++ YL+ G+
Sbjct: 279 GRTALHYAAQVSNXPIVKYLVGEKGSNKDKQDEDGKTPIXLAAQEGRIEVVXYLIQQGA 337
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 33.9 bits (76), Expect = 0.15, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 3/74 (4%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+FVG L + +++K F +G I +V+ + G SKG FV FQ +T
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAEAQAAINT 72
Query: 70 --DSHVLEGSRLSI 81
S L G+ S+
Sbjct: 73 LHSSRTLPGASSSL 86
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 33.5 bits (75), Expect = 0.17, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFST 69
+FV + + ++ F+EYG+I N + D+ TG KG+ V ++ KEA +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 70 DSHVLEGSRLSI 81
+ L G +S+
Sbjct: 70 NGQDLMGQPISV 81
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 33.5 bits (75), Expect = 0.17, Method: Composition-based stats.
Identities = 18/70 (25%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 12 FVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTDS 71
+VGNLP+ ++ F + I + ++ DK+T KGF +V F +++ + + D
Sbjct: 19 YVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDG 77
Query: 72 HVLEGSRLSI 81
+L L +
Sbjct: 78 ALLGDRSLRV 87
>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 = 33.1 bits (74), Expect = 0.21, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFST 69
+FV + + ++ F+EYG+I N + D+ TG KG+ V ++ KEA +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 70 DSHVLEGSRLSI 81
+ L G +S+
Sbjct: 86 NGQDLMGQPISV 97
>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 = 0.21, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFST 69
+FV + + ++ F+EYG+I N + D+ TG KG+ V ++ KEA +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 70 DSHVLEGSRLSI 81
+ L G +S+
Sbjct: 70 NGQDLMGQPISV 81
>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 = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 7 QLNKI-FVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN 59
++N+I ++ NLP+ ++ E+ F +YG I V NT ++G +V +++
Sbjct: 16 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYED 66
>pdb|3DEO|A Chain A, Structural Basis For Specific Substrate Recognition By The
Chloroplast Signal Recognition Particle Protein Cpsrp43
pdb|3DEP|A Chain A, Structural Basis For Specific Substrate Recognition By The
Chloroplast Signal Recognition Particle Protein Cpsrp43
Length = 183
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 277 LKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDY-GLDYAKAIEH 335
L+D +++ +DENG L + G K V+ L+ + GAD++ D G L A
Sbjct: 64 LEDRDVDAVDENGRTALLFVAGLGSDKCVR-LLAEAGADLDHRDMRGGLTALHMAAGYVR 122
Query: 336 TDLIEYLVNSGS 347
+++E LV G+
Sbjct: 123 PEVVEALVELGA 134
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 32.7 bits (73), Expect = 0.31, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 35/72 (48%), Gaps = 5/72 (6%)
Query: 9 NKI-FVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
NK+ ++ NL V+ +L F+ + + + F TG +G F+TF NKE +
Sbjct: 25 NKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQAL 84
Query: 68 STDSHVLEGSRL 79
H++ G +L
Sbjct: 85 ----HLVNGYKL 92
>pdb|2CQP|A Chain A, Solution Structure Of The Rna Binding Domain Of
Rna-Binding Protein 12
Length = 98
Score = 32.3 bits (72), Expect = 0.40, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 2/52 (3%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKN-TGLSKGFGFVTFQNKE 61
I V N+P+TVS +E+ FF Y Q++ SV N G+ G V F++++
Sbjct: 18 IKVQNMPFTVSIDEILDFFYGY-QVIPGSVCLKYNEKGMPTGEAMVAFESRD 68
>pdb|2EK6|A Chain A, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|B Chain B, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|C Chain C, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|D Chain D, Crystal Structure Of Human Rna-Binding Protein 12
Length = 95
Score = 32.3 bits (72), Expect = 0.40, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 2/52 (3%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKN-TGLSKGFGFVTFQNKE 61
I V N+P+TVS +E+ FF Y Q++ SV N G+ G V F++++
Sbjct: 18 IKVQNMPFTVSIDEILDFFYGY-QVIPGSVCLKYNEKGMPTGEAMVAFESRD 68
>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 = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%), Gaps = 4/54 (7%)
Query: 7 QLNKIF-VGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN 59
++N+I + NLP+ ++ E+ F +YG I V NT ++G +V +++
Sbjct: 16 EVNRILMIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYED 66
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 32.3 bits (72), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 23/51 (45%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
++VG L V L F +G I + + D T +GF FV F+ E
Sbjct: 66 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 116
>pdb|3UI2|A Chain A, Crystal Structure Of The Cpsrp54 Tail Bound To Cpsrp43
Length = 244
Score = 32.3 bits (72), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 277 LKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDY-GLDYAKAIEH 335
L+D +++ +DENG L + G K V+ L+ + GAD++ D G L A
Sbjct: 65 LEDRDVDAVDENGRTALLFVAGLGSDKCVR-LLAEAGADLDHRDMRGGLTALHMAAGYVR 123
Query: 336 TDLIEYLVNSGS 347
+++E LV G+
Sbjct: 124 PEVVEALVELGA 135
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 32.3 bits (72), Expect = 0.43, Method: Composition-based stats.
Identities = 19/65 (29%), Positives = 36/65 (55%), Gaps = 8/65 (12%)
Query: 7 QLNKI-FVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN----KE 61
++N+I ++ NLP+ ++ E+ F +YG I V NT ++G +V +++ K
Sbjct: 6 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYEDIFDAKN 62
Query: 62 AVDKV 66
AVD +
Sbjct: 63 AVDHL 67
>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 = 32.0 bits (71), Expect = 0.48, Method: Composition-based stats.
Identities = 17/79 (21%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK-EAVDKVF 67
+K+F+ LP++ + EL++ +G + + ++ ++ G KG +V ++N+ +A V
Sbjct: 18 HKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVM 76
Query: 68 STDSHVLEGSRLSIQPSDS 86
D ++ + + + S+S
Sbjct: 77 KMDGMTIKENIIKVAISNS 95
>pdb|3TWQ|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 (Apo
Form)
pdb|3TWQ|B Chain B, Crystal Structure Of Arc4 From Human Tankyrase 2 (Apo
Form)
Length = 175
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTD 320
+++ D+ GL LH AC GH +V + L+ K GA VNV D
Sbjct: 71 DVHAKDKGGLVPLHNACSYGHYEVAE-LLVKHGAVVNVAD 109
>pdb|3TWU|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Mcl1
Length = 167
Score = 32.0 bits (71), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTD 320
+++ D+ GL LH AC GH +V + L+ K GA VNV D
Sbjct: 69 DVHAKDKGGLVPLHNACSYGHYEVAE-LLVKHGAVVNVAD 107
>pdb|3TWR|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human 3bp2
pdb|3TWR|B Chain B, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human 3bp2
pdb|3TWR|C Chain C, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human 3bp2
pdb|3TWR|D Chain D, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human 3bp2
pdb|3TWS|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Terf1 (Chimeric Peptide)
pdb|3TWS|B Chain B, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Terf1 (Chimeric Peptide)
pdb|3TWS|C Chain C, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Terf1 (Chimeric Peptide)
pdb|3TWS|D Chain D, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Terf1 (Chimeric Peptide)
pdb|3TWT|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Mcl1 (Chimeric Peptide)
pdb|3TWT|B Chain B, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Mcl1 (Chimeric Peptide)
pdb|3TWT|C Chain C, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Mcl1 (Chimeric Peptide)
pdb|3TWT|D Chain D, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Mcl1 (Chimeric Peptide)
pdb|3TWV|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Numa1 (Chimeric Peptide)
pdb|3TWV|B Chain B, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Numa1 (Chimeric Peptide)
pdb|3TWV|C Chain C, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Numa1 (Chimeric Peptide)
pdb|3TWV|D Chain D, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Numa1 (Chimeric Peptide)
pdb|3TWW|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Lnpep (Chimeric Peptide)
pdb|3TWW|B Chain B, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Lnpep (Chimeric Peptide)
pdb|3TWX|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Fnbp1 (Chimeric Peptide)
pdb|3TWX|B Chain B, Crystal Structure Of Arc4 From Human Tankyrase 2 In
Complex With Peptide From Human Fnbp1 (Chimeric Peptide)
Length = 165
Score = 32.0 bits (71), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTD 320
+++ D+ GL LH AC GH +V + L+ K GA VNV D
Sbjct: 67 DVHAKDKGGLVPLHNACSYGHYEVAE-LLVKHGAVVNVAD 105
>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 = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQ 58
R+L + V NLP + + N++ K+F G I++ V L K F F +
Sbjct: 39 RELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVA----DSLKKNFRFARIE 87
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 31.6 bits (70), Expect = 0.69, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 10/77 (12%)
Query: 25 LKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTDSHVLEGSRLSIQPS 84
L FS+ G+++N D+ TG +KGF FV + K+ + G RL ++
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKS----FHGKRLDLK-- 82
Query: 85 DSHNRMAENMED--RFN 99
H M+D R+N
Sbjct: 83 --HRLFLYTMKDVERYN 97
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 31.6 bits (70), Expect = 0.69, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
+F+GNL S ELK SE + +V+ D TG ++ FG+V F++ E ++K
Sbjct: 20 LFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKALELT 78
Query: 71 SHVLEGSRLSIQ 82
+ G+ + ++
Sbjct: 79 GLKVFGNEIKLE 90
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In
Rna-Binding Protein 14
Length = 90
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFD 43
KIFVGN+ + EL+ F G+++ V+ D
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVKD 44
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 31.2 bits (69), Expect = 0.79, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 7 QLNKI-FVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN 59
++N+I ++ NLP+ ++ E+ F +YG I V NT ++G +V +++
Sbjct: 10 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV---GNTPETRGTAYVVYED 60
>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 = 31.2 bits (69), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+F+GNL S ELK SE + +V+ D TG ++ FG+V F++ E ++K
Sbjct: 16 LFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKAL 71
>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
Length = 161
Score = 31.2 bits (69), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 5 IRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGF 54
+R+L + V NLP + + N++ K+F G I++ D L K F F
Sbjct: 1 MRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHV----DVADSLKKNFRF 46
>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 = 31.2 bits (69), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 33/69 (47%), Gaps = 4/69 (5%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
++VGNL + + ++ + FS+ G I + DK + GF FV + ++ +
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAM--- 98
Query: 71 SHVLEGSRL 79
+ G+RL
Sbjct: 99 -RYINGTRL 106
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 31.2 bits (69), Expect = 0.97, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 25 LKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTDSHVLEGSRLSIQ 82
L FS+ G+++N D+ TG +KGF FV + K+ + G RL ++
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKS----FHGKRLDLK 82
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation
Initiation Factor 4b
Length = 100
Score = 30.8 bits (68), Expect = 1.0, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 8/78 (10%)
Query: 12 FVGNLPWTVSHNELKKFFSEYGQIMNASVMF----DKNTGLSKGFGFVTFQNKEAVDKVF 67
F+GNLP+ V+ +K+FF + +N S + N KGFG+ F++ +++
Sbjct: 23 FLGNLPYDVTEESIKEFF----RGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL 78
Query: 68 STDSHVLEGSRLSIQPSD 85
S + L R+ + +D
Sbjct: 79 SLNEESLGNRRIRVDVAD 96
>pdb|1SW6|A Chain A, S. Cerevisiae Swi6 Ankyrin-Repeat Fragment
pdb|1SW6|B Chain B, S. Cerevisiae Swi6 Ankyrin-Repeat Fragment
Length = 327
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 282 INQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIE 334
+N D NG CL+ A G++ +V L++ GAD + + G +D+ +E
Sbjct: 276 LNAQDSNGDTCLNIAARLGNISIVDALLDY-GADPFIANKSGLRPVDFGAGLE 327
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 18/82 (21%), Positives = 39/82 (47%), Gaps = 6/82 (7%)
Query: 10 KIFVGNLPWTVSHNELKKFFS---EYGQIMNA--SVMFDKNTGLSKGFGFVTFQNKEAVD 64
+++VGN+P+ ++ + FF+ G + A + + K F F+ F++ +
Sbjct: 3 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 62
Query: 65 KVFSTDSHVLEGSRLSI-QPSD 85
+ + D + +G L I +P D
Sbjct: 63 QAMAFDGIIFQGQSLKIRRPHD 84
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 3/51 (5%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
+FV L + LK+ F + A ++ D+ TG SKGFGFV F ++E
Sbjct: 18 LFVKGLSEDTTEETLKESFDGS---VRARIVTDRETGSSKGFGFVDFNSEE 65
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of
Eukaryotic Initiation Factor 4b
Length = 104
Score = 30.4 bits (67), Expect = 1.4, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 8/78 (10%)
Query: 12 FVGNLPWTVSHNELKKFFSEYGQIMNASVMF----DKNTGLSKGFGFVTFQNKEAVDKVF 67
F+GNLP+ V+ +K+FF + +N S + N KGFG+ F++ +++
Sbjct: 19 FLGNLPYDVTEESIKEFF----RGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL 74
Query: 68 STDSHVLEGSRLSIQPSD 85
S + L R+ + +D
Sbjct: 75 SLNEESLGNKRIRVDVAD 92
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af
Large Subunit
Length = 87
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 16/78 (20%), Positives = 37/78 (47%), Gaps = 5/78 (6%)
Query: 10 KIFVGNLPWTVSHNELKKFFS---EYGQIMNA--SVMFDKNTGLSKGFGFVTFQNKEAVD 64
+++VGN+P+ ++ + FF+ G + A + + K F F+ F++ +
Sbjct: 8 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 67
Query: 65 KVFSTDSHVLEGSRLSIQ 82
+ + D + +G L I+
Sbjct: 68 QAMAFDGIIFQGQSLKIR 85
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 23/51 (45%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
++VG L V L F +G I + + D T +GF FV F+ E
Sbjct: 15 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 65
>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 = 30.0 bits (66), Expect = 1.8, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 23/51 (45%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
++VG L V L F +G I + + D T +GF FV F+ E
Sbjct: 10 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 60
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 23/51 (45%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
++VG L V L F +G I + + D T +GF FV F+ E
Sbjct: 8 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 58
>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 = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 23/51 (45%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
++VG L V L F +G I + + D T +GF FV F+ E
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 55
>pdb|1AWC|B Chain B, Mouse Gabp AlphaBETA DOMAIN BOUND TO DNA
Length = 153
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNV 318
++N D + LHWA + H +VV+ LI K GADV+
Sbjct: 92 DVNAKDMLKMTALHWATEHNHQEVVELLI-KYGADVHT 128
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 29.6 bits (65), Expect = 2.7, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 8/55 (14%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+FV NL TV+ L+K FSE+G++ + K + FV F+++ A K
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKLERVKKL--------KDYAFVHFEDRGAAVK 64
>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 = 3.3, Method: Composition-based stats.
Identities = 20/82 (24%), Positives = 42/82 (51%), Gaps = 6/82 (7%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
S + + ++VG L T++ +L+ F ++G+I +V+ + + F T Q E
Sbjct: 6 SGEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQ---FATRQAAE 62
Query: 62 -AVDKVFSTDSHVLEGSRLSIQ 82
A +K F + ++ G RL+++
Sbjct: 63 VAAEKSF--NKLIVNGRRLNVK 82
>pdb|1FVU|B Chain B, Crystal Structure Of Botrocetin
pdb|1FVU|D Chain D, Crystal Structure Of Botrocetin
pdb|1IJK|C Chain C, The Von Willebrand Factor Mutant (I546v) A1 Domain-
Botrocetin Complex
pdb|1U0N|C Chain C, The Ternary Von Willebrand Factor A1-Glycoprotein
Ibalpha- Botrocetin Complex
pdb|1U0O|B Chain B, The Mouse Von Willebrand Factor A1-Botrocetin Complex
Length = 125
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 3/72 (4%)
Query: 18 WTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTDSHVLEGS 77
W+ +FF E+ +A + T G V+FQ+KE D V S S +L+G
Sbjct: 6 WSSYEGHCYRFFKEWMHWDDAE---EFCTEQQTGAHLVSFQSKEEADFVRSLTSEMLKGD 62
Query: 78 RLSIQPSDSHNR 89
+ I SD N+
Sbjct: 63 VVWIGLSDVWNK 74
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 28.9 bits (63), Expect = 4.4, Method: Composition-based stats.
Identities = 16/68 (23%), Positives = 34/68 (50%), Gaps = 6/68 (8%)
Query: 8 LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVF 67
+NK+++GNL V+ ++L++ F + + V+ L G+ FV + ++ +
Sbjct: 8 MNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVL------LKSGYAFVDYPDQNWAIRAI 61
Query: 68 STDSHVLE 75
T S +E
Sbjct: 62 ETLSGKVE 69
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 28.9 bits (63), Expect = 4.7, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 44/92 (47%), Gaps = 12/92 (13%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
S+ + ++ +FV NL TV+ L+K FS++G++ + K + F+ F ++
Sbjct: 5 SSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL--------KDYAFIHFDERD 56
Query: 62 -AVDKVFSTDSHVLEGSRLSI---QPSDSHNR 89
AV + + LEG + I +P D +
Sbjct: 57 GAVKAMEEMNGKDLEGENIEIVFAKPPDQKRK 88
>pdb|2EK1|A Chain A, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|B Chain B, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|C Chain C, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|D Chain D, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|E Chain E, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|F Chain F, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|G Chain G, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|H Chain H, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
Length = 95
Score = 28.9 bits (63), Expect = 4.9, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKN-TGLSKGFGFVTFQNKE 61
I V N P+TVS +E+ FF Y Q++ SV N G G V F++++
Sbjct: 18 IKVQNXPFTVSIDEILDFFYGY-QVIPGSVCLKYNEKGXPTGEAXVAFESRD 68
>pdb|3BEG|B Chain B, Crystal Structure Of Sr Protein Kinase 1 Complexed To
Its Substrate AsfSF2
Length = 115
Score = 28.5 bits (62), Expect = 5.2, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 35/83 (42%), Gaps = 11/83 (13%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE-- 61
S R N++ V LP + S +LK E G + A V D G G V F KE
Sbjct: 12 SRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-------GTGVVEFVRKEDM 64
Query: 62 --AVDKVFSTDSHVLEGSRLSIQ 82
AV K+ +T EG I+
Sbjct: 65 TYAVRKLDNTKFRSHEGETAYIR 87
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 28.5 bits (62), Expect = 5.2, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMN--ASVMFDKNTGLSKGFGFVTFQNKEAV 63
K+FVG LP + +E+ F +G ++ K+ KG+ F+ FQ + +V
Sbjct: 10 KVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEESSV 65
>pdb|2O3D|A Chain A, Structure Of Human Sf2ASF RNA RECOGNITION MOTIF 2 (RRM2)
Length = 113
Score = 28.5 bits (62), Expect = 5.4, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 35/83 (42%), Gaps = 11/83 (13%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE-- 61
S R N++ V LP + S +LK E G + A V D G G V F KE
Sbjct: 11 SRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-------GTGVVEFVRKEDM 63
Query: 62 --AVDKVFSTDSHVLEGSRLSIQ 82
AV K+ +T EG I+
Sbjct: 64 TYAVRKLDNTKFRSHEGETAYIR 86
>pdb|1K1B|A Chain A, Crystal Structure Of The Ankyrin Repeat Domain Of Bcl-3: A
Unique Member Of The Ikappab Protein Family
pdb|1K1A|A Chain A, Crystal Structure Of The Ankyrin Repeat Domain Of Bcl-3: A
Unique Member Of The Ikappab Protein Family
Length = 241
Score = 28.1 bits (61), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
N+N +G + LH A RG L +V+ L+ + GAD ++ + D L A++ D++
Sbjct: 175 NVNAQMYSGSSALHSASGRGLLPLVRTLV-RSGADSSLKNCHNDTPLMVARSRRVIDILR 233
>pdb|2I6I|A Chain A, Crystal Structures Of The Archaeal Sulfolobus Ptp-Fold
Phosphatase
pdb|2I6J|A Chain A, Crystal Structure Of The Complex Of The Archaeal
Sulfolobus Ptp-Fold Phosphatase With Phosphate Ion
pdb|2I6M|A Chain A, Crystal Structure Of The Complexes Of The Archaeal
Sulfolobus Ptp-Fold Phosphatase With Tungstate
pdb|3RO1|A Chain A, Crystal Structure Of The Complex Of The Archaeal
Sulfolobus Ptp-Fold Phosphatase With Terpyridine
Platinum(Ii)
Length = 161
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 32/112 (28%), Positives = 46/112 (41%), Gaps = 25/112 (22%)
Query: 249 SQLDDNEKNIYEWAKEGKLDMLVKQLTKL------------KDFNINQLDENGLNCLHWA 296
S L E I EW KEG VK++ L KD+ ++ L +NGL LH
Sbjct: 12 SGLPYTENEILEWRKEG-----VKRVLVLPEDWEIEESWGDKDYYLSILKKNGLQPLHIP 66
Query: 297 CDRG-------HLKVVQHLI-EKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
G L +++ L+ EK G V+ G G A + T+ +E
Sbjct: 67 IPDGGVPSDSQFLTIMKWLLSEKEGNLVHCVGGIGRTGTILASYLILTEGLE 118
>pdb|2DXP|A Chain A, Crystal Structure Of The Complex Of The Archaeal
Sulfolobus Ptp-Fold Phosphatase With Phosphopeptides
A-(P)y-R
pdb|2I6O|A Chain A, Crystal Structure Of The Complex Of The Archaeal
Sulfolobus Ptp-fold Phosphatase With Phosphopeptides
N-g-(p)y-k-n
pdb|2I6P|A Chain A, Crystal Structure Of The Complex Of The Archaeal
Sulfolobus Ptp-fold Phosphatase With Pnpp
Length = 161
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 32/112 (28%), Positives = 46/112 (41%), Gaps = 25/112 (22%)
Query: 249 SQLDDNEKNIYEWAKEGKLDMLVKQLTKL------------KDFNINQLDENGLNCLHWA 296
S L E I EW KEG VK++ L KD+ ++ L +NGL LH
Sbjct: 12 SGLPYTENEILEWRKEG-----VKRVLVLPEDWEIEESWGDKDYYLSILKKNGLQPLHIP 66
Query: 297 CDRG-------HLKVVQHLI-EKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
G L +++ L+ EK G V+ G G A + T+ +E
Sbjct: 67 IPDGGVPSDSQFLTIMKWLLSEKEGNLVHSVGGIGRTGTILASYLILTEGLE 118
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
0.312 0.129 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,703,045
Number of Sequences: 62578
Number of extensions: 454920
Number of successful extensions: 1285
Number of sequences better than 100.0: 280
Number of HSP's better than 100.0 without gapping: 201
Number of HSP's successfully gapped in prelim test: 79
Number of HSP's that attempted gapping in prelim test: 897
Number of HSP's gapped (non-prelim): 397
length of query: 347
length of database: 14,973,337
effective HSP length: 100
effective length of query: 247
effective length of database: 8,715,537
effective search space: 2152737639
effective search space used: 2152737639
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)