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= psy10362
(388 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 44/73 (60%), Positives = 55/73 (75%)
Query: 210 YGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGR 269
+ T + + YFS+YGEV+DCV+MK+ T +SRGFGFV F DPN VG V+ + PHTLDGR
Sbjct: 26 WSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRPHTLDGR 85
Query: 270 TIDPKPCNPRTLQ 282
IDPKPC PR +Q
Sbjct: 86 NIDPKPCTPRGMQ 98
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 28/36 (77%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRT 327
K+F+GGL + T+ LR++F++YG+V++ VIM +T
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKT 53
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 95.5 bits (236), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 44/119 (36%), Positives = 71/119 (59%), Gaps = 1/119 (0%)
Query: 209 AYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
++ T + + +F ++G + DCVVM++ T RSRGFGFVT+A V + PH +DG
Sbjct: 23 SFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 82
Query: 269 RTIDPKPCNPR-TLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPR 326
R ++PK R Q+P + + K+F+GG+ + E LR +F +YGK+ + IM+ R
Sbjct: 83 RVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDR 141
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 36/65 (55%)
Query: 212 TYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTI 271
T + + YF +YG++ +M + +G+ RGF FVTF D ++V ++ HT++G
Sbjct: 117 TEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNC 176
Query: 272 DPKPC 276
+ +
Sbjct: 177 EVRKA 181
Score = 35.8 bits (81), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 282 QKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM-SPRTIRA 330
+ PK+ K+F+GGL T+ LR+ F ++G + + V+M P T R+
Sbjct: 6 ESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRS 55
>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 = 95.5 bits (236), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 44/119 (36%), Positives = 71/119 (59%), Gaps = 1/119 (0%)
Query: 209 AYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
++ T + + +F ++G + DCVVM++ T RSRGFGFVT+A V + PH +DG
Sbjct: 21 SFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 80
Query: 269 RTIDPKPCNPR-TLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPR 326
R ++PK R Q+P + + K+F+GG+ + E LR +F +YGK+ + IM+ R
Sbjct: 81 RVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDR 139
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 36/65 (55%)
Query: 212 TYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTI 271
T + + YF +YG++ +M + +G+ RGF FVTF D ++V ++ HT++G
Sbjct: 115 TEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNC 174
Query: 272 DPKPC 276
+ +
Sbjct: 175 EVRKA 179
Score = 35.4 bits (80), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 282 QKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM-SPRTIRA 330
+ PK+ K+F+GGL T+ LR+ F ++G + + V+M P T R+
Sbjct: 4 ESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRS 53
>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 = 95.5 bits (236), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 44/119 (36%), Positives = 71/119 (59%), Gaps = 1/119 (0%)
Query: 209 AYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
++ T + + +F ++G + DCVVM++ T RSRGFGFVT+A V + PH +DG
Sbjct: 22 SFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 81
Query: 269 RTIDPKPCNPR-TLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPR 326
R ++PK R Q+P + + K+F+GG+ + E LR +F +YGK+ + IM+ R
Sbjct: 82 RVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDR 140
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 36/65 (55%)
Query: 212 TYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTI 271
T + + YF +YG++ +M + +G+ RGF FVTF D ++V ++ HT++G
Sbjct: 116 TEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNC 175
Query: 272 DPKPC 276
+ +
Sbjct: 176 EVRKA 180
Score = 35.4 bits (80), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 282 QKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM-SPRTIRA 330
+ PK+ K+F+GGL T+ LR+ F ++G + + V+M P T R+
Sbjct: 5 ESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRS 54
>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 = 94.7 bits (234), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 44/119 (36%), Positives = 71/119 (59%), Gaps = 1/119 (0%)
Query: 209 AYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
++ T + + +F ++G + DCVVM++ T RSRGFGFVT+A V + PH +DG
Sbjct: 15 SFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 74
Query: 269 RTIDPKPCNPR-TLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPR 326
R ++PK R Q+P + + K+F+GG+ + E LR +F +YGK+ + IM+ R
Sbjct: 75 RVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDR 133
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 36/65 (55%)
Query: 212 TYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTI 271
T + + YF +YG++ +M + +G+ RGF FVTF D ++V ++ HT++G
Sbjct: 109 TEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNC 168
Query: 272 DPKPC 276
+ +
Sbjct: 169 EVRKA 173
Score = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM-SPRTIRA 330
K+F+GGL T+ LR+ F ++G + + V+M P T R+
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRS 47
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 94.7 bits (234), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 44/119 (36%), Positives = 71/119 (59%), Gaps = 1/119 (0%)
Query: 209 AYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
++ T + + +F ++G + DCVVM++ T RSRGFGFVT+A V + PH +DG
Sbjct: 22 SFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 81
Query: 269 RTIDPKPCNPR-TLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPR 326
R ++PK R Q+P + + K+F+GG+ + E LR +F +YGK+ + IM+ R
Sbjct: 82 RVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDR 140
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 34/57 (59%)
Query: 212 TYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
T + + YF +YG++ +M + +G+ RGF FVTF D ++V ++ HT++G
Sbjct: 116 TEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNG 172
Score = 35.4 bits (80), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 282 QKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM-SPRTIRA 330
+ PK+ K+F+GGL T+ LR+ F ++G + + V+M P T R+
Sbjct: 5 ESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRS 54
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 94.7 bits (234), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 44/119 (36%), Positives = 71/119 (59%), Gaps = 1/119 (0%)
Query: 209 AYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
++ T + + +F ++G + DCVVM++ T RSRGFGFVT+A V + PH +DG
Sbjct: 20 SFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG 79
Query: 269 RTIDPKPCNPR-TLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPR 326
R ++PK R Q+P + + K+F+GG+ + E LR +F +YGK+ + IM+ R
Sbjct: 80 RVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDR 138
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 34/57 (59%)
Query: 212 TYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
T + + YF +YG++ +M + +G+ RGF FVTF D ++V ++ HT++G
Sbjct: 114 TEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNG 170
Score = 35.4 bits (80), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 282 QKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM-SPRTIRA 330
+ PK+ K+F+GGL T+ LR+ F ++G + + V+M P T R+
Sbjct: 3 ESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRS 52
>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 = 82.0 bits (201), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 41/106 (38%), Positives = 64/106 (60%), Gaps = 6/106 (5%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPCN 277
+ YF +YG V D +MK+ TGRSRGFGF++F P++V V++ H LDG+ IDPK
Sbjct: 21 REYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT-QHILDGKVIDPKRAI 79
Query: 278 PRTLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
PR Q K+F+GG+ +V + FF+++G +++ +M
Sbjct: 80 PRDEQDKT-----GKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLM 120
Score = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPCN 277
+ +FS++G +ID +M + +TG+SRGFGFVT+ + V V QN R I+ K
Sbjct: 105 EEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIKRAE 164
Query: 278 PR 279
PR
Sbjct: 165 PR 166
Score = 36.2 bits (82), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 23/32 (71%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
K+F+GGL + TE +LR +F +YG V ++ IM
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIM 36
>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 = 70.5 bits (171), Expect = 1e-12, Method: Composition-based stats.
Identities = 29/55 (52%), Positives = 38/55 (69%)
Query: 220 YFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPK 274
YF+++GEV+DC + + TGRSRGFGF+ F D +V V+ H LDGR IDPK
Sbjct: 31 YFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDPK 85
Score = 32.3 bits (72), Expect = 0.48, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 38/64 (59%), Gaps = 8/64 (12%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVI-MSPRTIRA-GITRVPTQELPVQKEATAV 349
K F+GGL + ++ DL+ +F ++G+V++ I P T R+ G + + K+A +V
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFI------LFKDAASV 66
Query: 350 QQVL 353
++VL
Sbjct: 67 EKVL 70
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 67.4 bits (163), Expect = 1e-11, Method: Composition-based stats.
Identities = 36/77 (46%), Positives = 48/77 (62%), Gaps = 1/77 (1%)
Query: 209 AYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
++ T + + YF ++GEV +C+VM++ T RSRGFGFVTF D V V+ H LD
Sbjct: 34 SWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDS 93
Query: 269 RTIDPKPCNPRTLQKPK 285
+TIDPK PR Q PK
Sbjct: 94 KTIDPKVAFPRRAQ-PK 109
Score = 33.9 bits (76), Expect = 0.16, Method: Composition-based stats.
Identities = 18/44 (40%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 288 SSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM-SPRTIRA 330
SS K+F+GGL T+ LR +F ++G+V E ++M P T R+
Sbjct: 23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRS 66
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 66.6 bits (161), Expect = 2e-11, Method: Composition-based stats.
Identities = 31/66 (46%), Positives = 43/66 (65%)
Query: 209 AYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
++ T + + YF ++GEV +C+VM++ T RSRGFGFVTF D V V+ H LD
Sbjct: 9 SWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDS 68
Query: 269 RTIDPK 274
+TIDPK
Sbjct: 69 KTIDPK 74
Score = 34.7 bits (78), Expect = 0.083, Method: Composition-based stats.
Identities = 16/40 (40%), Positives = 26/40 (65%), Gaps = 1/40 (2%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM-SPRTIRA 330
K+F+GGL T+ LR +F ++G+V E ++M P T R+
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRS 41
>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 = 65.5 bits (158), Expect = 5e-11, Method: Composition-based stats.
Identities = 28/55 (50%), Positives = 38/55 (69%)
Query: 220 YFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPK 274
YFS++GEV+DC + + TGRSRGFGFV F + +V V+ H L+G+ IDPK
Sbjct: 19 YFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPK 73
Score = 32.3 bits (72), Expect = 0.41, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 28/39 (71%), Gaps = 1/39 (2%)
Query: 293 VFLGGLPSNVTETDLRTFFNRYGKVMEVVI-MSPRTIRA 330
+F+GGL + T+ DL+ +F+++G+V++ + + P T R+
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRS 40
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 61.2 bits (147), Expect = 9e-10, Method: Composition-based stats.
Identities = 26/66 (39%), Positives = 44/66 (66%)
Query: 209 AYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
++ T + + Y+ ++G++ DCVVM++ + RSRGFGFVTF+ V + PH++DG
Sbjct: 36 SFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDG 95
Query: 269 RTIDPK 274
R ++PK
Sbjct: 96 RVVEPK 101
Score = 37.4 bits (85), Expect = 0.015, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 27/42 (64%)
Query: 282 QKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
+K ++ F K+F+GGL TE LR ++ ++GK+ + V+M
Sbjct: 19 RKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVM 60
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/114 (24%), Positives = 58/114 (50%), Gaps = 6/114 (5%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPCNPRT 280
F GE+ C ++++ TG+S G+GFV + DP + + +TL+G + K
Sbjct: 23 FGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDA----EKAINTLNGLRLQTKTIKVSY 78
Query: 281 LQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRTIRAGITR 334
+ + +++ GLP +T+ +L F++YG+++ I+ + G++R
Sbjct: 79 ARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQV--TGVSR 130
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
++ FS+YG +I ++ + TG SRG GF+ F
Sbjct: 106 EQLFSQYGRIITSRILVDQVTGVSRGVGFIRF 137
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/117 (23%), Positives = 61/117 (52%), Gaps = 6/117 (5%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPCN 277
+ F G++ C ++++ TG+S G+GFV ++DPN+ I +TL+G + K
Sbjct: 22 KSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI----NTLNGLKLQTKTIK 77
Query: 278 PRTLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRTIRAGITR 334
+ + +++ GLP +++ ++ F++YG+++ I+ + G++R
Sbjct: 78 VSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQA--TGVSR 132
Score = 34.7 bits (78), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
++ FS+YG +I ++ + TG SRG GF+ F
Sbjct: 108 EQLFSQYGRIITSRILLDQATGVSRGVGFIRF 139
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 51.6 bits (122), Expect = 8e-07, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 48/83 (57%), Gaps = 4/83 (4%)
Query: 209 AYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDG 268
++ T Q ++ FS+YG++ + VV+K+ ET RSRGFGFVTF + ++ ++ ++G
Sbjct: 21 SFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDA----KDAMMAMNG 76
Query: 269 RTIDPKPCNPRTLQKPKKNSSFP 291
+++D + K N S P
Sbjct: 77 KSVDGRQIRVDQAGKSSDNRSGP 99
Score = 34.3 bits (77), Expect = 0.13, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPR 326
K+F+GGL + E L F++YG++ EVV++ R
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDR 48
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 41/74 (55%), Gaps = 3/74 (4%)
Query: 210 YGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFAD-PNNVGVVIQNCPHTLDG 268
+ T Q + YFS +GEV+ V K+ +TG S+GFGFV F + V V+ Q H +DG
Sbjct: 25 WKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR--HMIDG 82
Query: 269 RTIDPKPCNPRTLQ 282
R D K N + Q
Sbjct: 83 RWCDCKLPNSKQSQ 96
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 293 VFLGGLPSNVTETDLRTFFNRYGKVMEVVI 322
+ + GLP TE DL+ +F+ +G+V+ V +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQV 47
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPCN 277
+ YF ++G V + V++ + E R RGFGF+TF D +V + H + G+ ++ K
Sbjct: 28 REYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHDIMGKKVEVKRAE 87
Query: 278 PR 279
PR
Sbjct: 88 PR 89
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 16/32 (50%), Positives = 25/32 (78%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
K+F+GG+P N ET+LR +F ++G V EVV++
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMI 43
Score = 28.1 bits (61), Expect = 8.7, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 3 EDEQGLTYYITC----FLLQQVEIKKAEPRDASNKGNDMG 38
EDEQ + + + ++VE+K+AEPRD+ + G G
Sbjct: 60 EDEQSVDQAVNMHFHDIMGKKVEVKRAEPRDSKSSGPSSG 99
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 55/115 (47%), Gaps = 6/115 (5%)
Query: 220 YFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPCNPR 279
FS GEV ++++ G S G+GFV + + + +TL+G + K
Sbjct: 22 LFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDA----ERAINTLNGLRLQSKTIKVS 77
Query: 280 TLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRTIRAGITR 334
+ + +++ GLP +T+ D+ F+R+G+++ ++ +T G++R
Sbjct: 78 YARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQT--TGLSR 130
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
FSR+G +I+ V+ + TG SRG F+ F
Sbjct: 109 FSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 55/115 (47%), Gaps = 6/115 (5%)
Query: 220 YFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPCNPR 279
FS GEV ++++ G S G+GFV + + + +TL+G + K
Sbjct: 22 LFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDA----ERAINTLNGLRLQSKTIKVS 77
Query: 280 TLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRTIRAGITR 334
+ + +++ GLP +T+ D+ F+R+G+++ ++ +T G++R
Sbjct: 78 YARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQT--TGLSR 130
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
FSR+G +I+ V+ + TG SRG F+ F
Sbjct: 109 FSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%), Gaps = 4/77 (5%)
Query: 210 YGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGR 269
Y T ++YF +G++ + VV+ + +TG+SRG+GFVT AD ++ +DGR
Sbjct: 27 YHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNPIIDGR 86
Query: 270 TIDPKP----CNPRTLQ 282
+ PR+LQ
Sbjct: 87 KANVNLAYLGAKPRSLQ 103
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 30/42 (71%)
Query: 285 KKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPR 326
+K+++F K+F+GGLP + T+ LR +F +G + E V+++ R
Sbjct: 12 QKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDR 53
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 32/53 (60%), Gaps = 4/53 (7%)
Query: 219 RYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTI 271
R FS+YG+V+ +MK+ +T +S+G F+ F D ++ QNC ++ + +
Sbjct: 35 RIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSA----QNCTRAINNKQL 83
Score = 36.6 bits (83), Expect = 0.026, Method: Composition-based stats.
Identities = 15/37 (40%), Positives = 24/37 (64%)
Query: 293 VFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRTIR 329
V++ LP ++T DL F++YGKV++V IM + R
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTR 55
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 34/57 (59%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPK 274
+ YF ++G+V D ++M + T R RGFGFVTF + V V + H ++ + ++ K
Sbjct: 17 KHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECK 73
Score = 34.3 bits (77), Expect = 0.11, Method: Composition-based stats.
Identities = 13/35 (37%), Positives = 24/35 (68%)
Query: 293 VFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRT 327
+F+GGL N T D++ +F ++GKV + ++M +T
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKT 36
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 52/106 (49%), Gaps = 18/106 (16%)
Query: 266 LDGRTIDPKPCNPRTLQKP--KKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVI- 322
++G TID K +KP K + ++F+G LP ++TE ++R F +YGK EV I
Sbjct: 1 MEGLTIDLK-----NFRKPGEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIH 55
Query: 323 ---------MSPRTIRAGITRVPTQELPVQKEATAVQQVLRRSSTT 359
+ RT+ A I +V +P++ + V+ +S T
Sbjct: 56 KDKGFGFIRLETRTL-AEIAKVELDNMPLRGKQLRVRFACHSASLT 100
>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 = 42.0 bits (97), Expect = 7e-04, Method: Composition-based stats.
Identities = 18/35 (51%), Positives = 26/35 (74%)
Query: 293 VFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRT 327
VF+GG+ + ET++R+FF RYG V EV I++ RT
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRT 46
Score = 33.1 bits (74), Expect = 0.27, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 30/44 (68%), Gaps = 1/44 (2%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQN 261
+ +F+RYG V + ++ + TG S+G+GFV+F + +V ++++
Sbjct: 27 RSFFARYGSVKEVKII-TDRTGVSKGYGFVSFYNDVDVQKIVES 69
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 41.6 bits (96), Expect = 7e-04, Method: Composition-based stats.
Identities = 15/31 (48%), Positives = 27/31 (87%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFAD 251
F +G++ + V+MK+++TGRS+G+GF+TF+D
Sbjct: 26 FEPFGKIDNIVLMKDSDTGRSKGYGFITFSD 56
Score = 28.5 bits (62), Expect = 6.6, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 293 VFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
+++G L N+TE LR F +GK+ +V+M
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLM 38
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 18/35 (51%), Positives = 26/35 (74%)
Query: 293 VFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRT 327
VF+GG+ + ET++R+FF RYG V EV I++ RT
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRT 47
Score = 32.7 bits (73), Expect = 0.35, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 30/44 (68%), Gaps = 1/44 (2%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQN 261
+ +F+RYG V + ++ + TG S+G+GFV+F + +V ++++
Sbjct: 28 RSFFARYGSVKEVKII-TDRTGVSKGYGFVSFYNDVDVQKIVES 70
>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 = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 18/35 (51%), Positives = 26/35 (74%)
Query: 293 VFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRT 327
VF+GG+ + ET++R+FF RYG V EV I++ RT
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRT 46
Score = 32.3 bits (72), Expect = 0.42, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 30/44 (68%), Gaps = 1/44 (2%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQN 261
+ +F+RYG V + ++ + TG S+G+GFV+F + +V ++++
Sbjct: 27 RSFFARYGSVKEVKII-TDRTGVSKGYGFVSFYNDVDVQKIVES 69
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 55/112 (49%), Gaps = 10/112 (8%)
Query: 218 QRYFSRYGEVIDCVVMKNNETG--RSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKP 275
+ F +YG V + V+++ +S+G FVTF + QN H + + P
Sbjct: 33 RELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFY-TRKAALEAQNALHNM---KVLPGM 88
Query: 276 CNPRTLQ--KPKKNSSFP--KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
+P ++ +KN++ K+F+G + TE D+R F+ +G++ E I+
Sbjct: 89 HHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRIL 140
Score = 35.4 bits (80), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRT 327
K+F+G +P +E DLR F +YG V E+ ++ R+
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRS 52
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 55/112 (49%), Gaps = 10/112 (8%)
Query: 218 QRYFSRYGEVIDCVVMKNNETG--RSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKP 275
+ F +YG V + V+++ +S+G FVTF + QN H + + P
Sbjct: 21 RELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFY-TRKAALEAQNALHNMK---VLPGM 76
Query: 276 CNPRTLQ--KPKKNSSFP--KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
+P ++ +KN++ K+F+G + TE D+R F+ +G++ E I+
Sbjct: 77 HHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRIL 128
Score = 35.4 bits (80), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRT 327
K+F+G +P +E DLR F +YG V E+ ++ R+
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRS 40
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/123 (23%), Positives = 53/123 (43%), Gaps = 9/123 (7%)
Query: 204 PADYSAYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCP 263
P D + YA F G + C +M++ +TG S G+ FV F + Q
Sbjct: 12 PQDMTDRELYA-----LFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDS----QRAI 62
Query: 264 HTLDGRTIDPKPCNPRTLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
L+G T+ K + ++ +++ LP +T+ L T F +YG +++ I+
Sbjct: 63 KVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNIL 122
Query: 324 SPR 326
+
Sbjct: 123 RDK 125
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
F +YG ++ ++++ TGR RG FV +
Sbjct: 110 FGKYGSIVQKNILRDKLTGRPRGVAFVRY 138
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 16/37 (43%), Positives = 25/37 (67%)
Query: 287 NSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
+S K+F+G LP TE ++R+ F +YGKV+E I+
Sbjct: 5 SSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII 41
>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 = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 11/78 (14%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVI----------MSPRTIRAGITRVPTQELP 341
++F+G LP ++TE ++R F +YGK EV I + RT+ A I +V +P
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTL-AEIAKVELDNMP 75
Query: 342 VQKEATAVQQVLRRSSTT 359
++ + V+ +S T
Sbjct: 76 LRGKQLRVRFACHSASLT 93
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 48/109 (44%), Gaps = 4/109 (3%)
Query: 218 QRYFSRYGEVIDCVVMKNNETG--RSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKP 275
+ F +YG V + V+++ +S+G FVTF + QN H P
Sbjct: 21 RELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFY-TRKAALEAQNALHNXKVLPGXHHP 79
Query: 276 CNPRTLQKPKKNS-SFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
+ K N+ K+F+G + TE D+R F+ +G++ E I+
Sbjct: 80 IQXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQIEECRIL 128
Score = 35.4 bits (80), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRT 327
K F+G +P +E DLR F +YG V E+ ++ R+
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRS 40
>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 = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 4/73 (5%)
Query: 205 ADYSAYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPH 264
D Y T +R F +YG V D + ++ T SRGF FV F D + ++
Sbjct: 52 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA----EDAMD 107
Query: 265 TLDGRTIDPKPCN 277
+DG +D +
Sbjct: 108 AMDGAVLDGRELR 120
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRTIRAGITRVPTQEL 340
++F+G LP+++TE D + F RYG+ EV I R G R+ ++ L
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGF--GFIRLESRTL 70
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPC 276
+R F +YG V D + ++ T SRGF FV F D + ++ +DG +D +
Sbjct: 88 RRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA----EDAMDAMDGAVLDGREL 142
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPK 274
+ F G++ C ++++ TG+S G+GFV ++DPN+ I +TL+G + K
Sbjct: 22 KSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI----NTLNGLKLQTK 74
>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 = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 33/66 (50%)
Query: 210 YGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGR 269
YG+ AQ + +FS G + ++ + +G +G+ ++ FA+ N+V + GR
Sbjct: 46 YGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGR 105
Query: 270 TIDPKP 275
TI P
Sbjct: 106 TIKVLP 111
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPCN 277
++ FS +G + VM E GRS+GFGFV F+ P + ++GR + KP
Sbjct: 33 RKAFSPFGTITSAKVMM--EGGRSKGFGFVCFSSPEEATKAVTE----MNGRIVATKPLY 86
Query: 278 PRTLQKPKKNSSFP 291
Q+ ++ S P
Sbjct: 87 VALAQRKEERQSGP 100
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 37.7 bits (86), Expect = 0.012, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 23/31 (74%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFAD 251
F +G + +M ++ETGRS+G+GF+TF+D
Sbjct: 47 FEPFGRIESIQLMMDSETGRSKGYGFITFSD 77
Score = 28.1 bits (61), Expect = 9.0, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 285 KKNSSFP-KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
+K S+ P ++++G L N+TE LR F +G++ + +M
Sbjct: 20 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLM 59
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 37.4 bits (85), Expect = 0.016, Method: Composition-based stats.
Identities = 13/35 (37%), Positives = 23/35 (65%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPR 326
K+F+G +P N+ E DL+ F +GK+ E+ ++ R
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDR 49
>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 = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 28/123 (22%), Positives = 52/123 (42%), Gaps = 9/123 (7%)
Query: 204 PADYSAYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCP 263
P D + YA F G + C + ++ +TG S G+ FV F + Q
Sbjct: 23 PQDXTDRELYA-----LFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDS----QRAI 73
Query: 264 HTLDGRTIDPKPCNPRTLQKPKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
L+G T+ K + ++ +++ LP +T+ L T F +YG +++ I+
Sbjct: 74 KVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNIL 133
Query: 324 SPR 326
+
Sbjct: 134 RDK 136
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
F +YG ++ ++++ TGR RG FV +
Sbjct: 121 FGKYGSIVQKNILRDKLTGRPRGVAFVRY 149
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 36.2 bits (82), Expect = 0.028, Method: Composition-based stats.
Identities = 18/38 (47%), Positives = 26/38 (68%), Gaps = 2/38 (5%)
Query: 293 VFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRTIRA 330
VF+G ++TE +LR FF++YG VM+V I P+ RA
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFI--PKPFRA 43
Score = 30.4 bits (67), Expect = 1.9, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 5/34 (14%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFAD 251
+ +FS+YG+V+D + K R F FVTFAD
Sbjct: 23 REFFSQYGDVMDVFIPKP-----FRAFAFVTFAD 51
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
Length = 88
Score = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRT 327
K+F+G +P +E DLR F +YG V E+ ++ R+
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRS 40
>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 = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNC-PHTLDGRTI 271
F+ +G + D V+K+ TG+S+G+GFV+F + + IQ L GR I
Sbjct: 36 FAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI 87
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 36.2 bits (82), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 5/54 (9%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTF---ADPNNVGVVIQNCPHTLDGRTI 271
F+ +G++ D V+K+ TG+S+G+GFV+F D N ++ L GR I
Sbjct: 36 FAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAEN--AIVHMGGQWLGGRQI 87
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 35.4 bits (80), Expect = 0.057, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 210 YGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHT-LDG 268
Y ++ + FS++G+V + ++ + ET + +GFGFV + +V I +T G
Sbjct: 11 YSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAKLDNTDFMG 69
Query: 269 RTIDPKPCNPR 279
RTI NP+
Sbjct: 70 RTIRVTEANPK 80
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCP-HTLDGRTI 271
FS+YG + D ++ + ++ RSRGF FV F + ++ + LDGR I
Sbjct: 36 FSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 87
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 35.0 bits (79), Expect = 0.080, Method: Composition-based stats.
Identities = 17/38 (44%), Positives = 23/38 (60%), Gaps = 5/38 (13%)
Query: 214 AQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFAD 251
A+ Q++F +YGEV+D + K R F FVTFAD
Sbjct: 25 AEELQQFFCQYGEVVDVFIPKP-----FRAFAFVTFAD 57
Score = 33.1 bits (74), Expect = 0.24, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 26/39 (66%), Gaps = 2/39 (5%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRTIRA 330
KVF+G ++T +L+ FF +YG+V++V I P+ RA
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFI--PKPFRA 49
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 34.7 bits (78), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
++ FS+YG +I ++ + TG SRG GF+ F
Sbjct: 19 EQLFSQYGRIITSRILLDQATGVSRGVGFIRF 50
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 34.7 bits (78), Expect = 0.092, Method: Composition-based stats.
Identities = 23/86 (26%), Positives = 37/86 (43%), Gaps = 4/86 (4%)
Query: 206 DYSAYGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHT 265
D Y T +R F +YG V D + + T RGF FV F D + Q+
Sbjct: 19 DNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDA----QDAEAA 74
Query: 266 LDGRTIDPKPCNPRTLQKPKKNSSFP 291
+DG +D + + + +++ S P
Sbjct: 75 MDGAELDGRELRVQVARYGRRDLSGP 100
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 34.7 bits (78), Expect = 0.10, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 25/43 (58%)
Query: 284 PKKNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPR 326
P K+ K+F+G +P + E DL+ F +G++ E+ ++ R
Sbjct: 9 PMKDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDR 51
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 34.3 bits (77), Expect = 0.11, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCP-HTLDGRTI 271
FS+YG + D ++ + ++ RSRGF FV F + ++ + LDGR I
Sbjct: 33 FSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 84
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 34.3 bits (77), Expect = 0.13, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCP-HTLDGRTI 271
FS+YG + D ++ + ++ RSRGF FV F + ++ + LDGR I
Sbjct: 67 FSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 118
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 34.3 bits (77), Expect = 0.14, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCP-HTLDGRTI 271
FS+YG + D ++ + ++ RSRGF FV F + ++ + LDGR I
Sbjct: 36 FSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 87
>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 = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 224 YGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNC-PHTLDGRTI 271
+G + D V+K+ TG+S+G+GFV+F + + IQ L GR I
Sbjct: 30 FGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI 78
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 33.9 bits (76), Expect = 0.16, Method: Composition-based stats.
Identities = 18/68 (26%), Positives = 37/68 (54%), Gaps = 5/68 (7%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPCNPRT 280
F ++G + + +++K+ T +SRGF F+TF +P + +N ++G+++ K
Sbjct: 28 FGKHGPISEVLLIKD-RTSKSRGFAFITFENPADA----KNAAKDMNGKSLHGKAIKVEQ 82
Query: 281 LQKPKKNS 288
+KP S
Sbjct: 83 AKKPSFQS 90
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 24/39 (61%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVMEVVIMSPRTIRA 330
K+F+GGL E L+ F ++G + EV+++ RT ++
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKS 47
>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 = 33.1 bits (74), Expect = 0.24, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTL 266
+ YF +GEV + +N+T + RGF F+TF + V +++ H +
Sbjct: 19 REYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNV 67
Score = 28.5 bits (62), Expect = 6.7, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKV--MEVVIMSPRTIRAGITRVP-TQELPVQK 344
K+F+GGL + E +R +F +G+V +E+ + + R G + +E PV+K
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKK 58
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 33.1 bits (74), Expect = 0.28, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTL 266
+ YF +GEV + +N+T + RGF F+TF + V +++ H +
Sbjct: 17 REYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNV 65
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 226 EVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCP-HTLDGRTIDPKPCNPRTL 281
+V++ +N G+S+G+ V A N+V +++ P L+G +D +P + L
Sbjct: 83 DVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPATRQNL 139
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 32.7 bits (73), Expect = 0.39, Method: Composition-based stats.
Identities = 11/38 (28%), Positives = 25/38 (65%)
Query: 286 KNSSFPKVFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
++ + +++GGL +TETDLR F ++G++ + ++
Sbjct: 8 EDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVV 45
>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 = 32.3 bits (72), Expect = 0.44, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 4/44 (9%)
Query: 232 VMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKP 275
VM + +TG SRG+GFV+F ++ QN ++ G+ ++ +P
Sbjct: 33 VMWDMQTGSSRGYGFVSFTSQDDA----QNAMDSMQGQDLNGRP 72
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 32.3 bits (72), Expect = 0.45, Method: Composition-based stats.
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 1/69 (1%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHT-LDGRTIDPKPCNPR 279
F +G++ D + + ET + RGF FV F + I N + L GRTI P
Sbjct: 33 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKPM 92
Query: 280 TLQKPKKNS 288
+++ +S
Sbjct: 93 RIKESGPSS 101
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
++ F RYG + ++ + ET +SRG+GFV F
Sbjct: 60 RQLFERYGPIESVKIVCDRETRQSRGYGFVKF 91
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 298 LPSNVTETDLRTFFNRYGKVMEVVIMSPRTIR 329
+P+ V E LR F RYG + V I+ R R
Sbjct: 50 IPTTVDEVQLRQLFERYGPIESVKIVCDRETR 81
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 32.0 bits (71), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 27/45 (60%), Gaps = 4/45 (8%)
Query: 232 VMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPC 276
VM + +TG SRG+GFV+F ++ QN ++ G+ ++ +P
Sbjct: 119 VMWDMQTGSSRGYGFVSFTSQDDA----QNAMDSMQGQDLNGRPL 159
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 32.0 bits (71), Expect = 0.64, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHT-LDGRTI 271
F +G++ D + + ET + RGF FV F + I N + L GRTI
Sbjct: 26 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTI 77
>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 = 32.0 bits (71), Expect = 0.64, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHT-LDGRTI 271
F +G++ D + + ET + RGF FV F + I N + L GRTI
Sbjct: 23 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTI 74
>pdb|3MDF|A Chain A, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
pdb|3MDF|B Chain B, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
Length = 85
Score = 32.0 bits (71), Expect = 0.64, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHT-LDGRTI 271
F +G++ D + + ET + RGF FV F + I N + L GRTI
Sbjct: 28 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTI 79
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 31.6 bits (70), Expect = 0.80, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 7/51 (13%)
Query: 232 VMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLD--GRTI-----DPKP 275
+M+N +G+SRGF FV F+ + ++ H+L+ G+ + DPKP
Sbjct: 34 LMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSDPKP 84
>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 = 31.6 bits (70), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 24/40 (60%)
Query: 222 SRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQN 261
S G VI+ +M + +TGRS+G+ F+ F D + ++N
Sbjct: 26 SNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 65
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 31.6 bits (70), Expect = 0.88, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQ 260
F +G VI V + +T S+ FGFV+F +P++ V I+
Sbjct: 61 FLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIK 100
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 31.2 bits (69), Expect = 1.00, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 11/72 (15%)
Query: 284 PKKNSSFPKVFLGGLP-SNVTETDLRTFFNRYGKVMEVVIM---------SPRTIRAGIT 333
P+ + ++F+G LP NV++ DL F+ YG +M++ I +P+++R I
Sbjct: 16 PRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAI- 74
Query: 334 RVPTQELPVQKE 345
+QE+ K+
Sbjct: 75 ECESQEMNFGKK 86
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 11/72 (15%)
Query: 284 PKKNSSFPKVFLGGLP-SNVTETDLRTFFNRYGKVMEVVIM---------SPRTIRAGIT 333
P+ + ++F+G LP NV++ DL F+ YG +M++ I +P+++R I
Sbjct: 16 PRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAI- 74
Query: 334 RVPTQELPVQKE 345
+QE+ K+
Sbjct: 75 EXESQEMNFGKK 86
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 24/40 (60%)
Query: 222 SRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQN 261
S G VI+ +M + +TGRS+G+ F+ F D + ++N
Sbjct: 24 SNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 63
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 12/71 (16%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGRTIDPKPCNPRT 280
FS+YG+++ C V K GF FV + + N + DGR I + +
Sbjct: 37 FSKYGKIVGCSVHK--------GFAFVQYVNERNARAAVAG----EDGRMIAGQVLDINL 84
Query: 281 LQKPKKNSSFP 291
+PK N S P
Sbjct: 85 AAEPKVNRSGP 95
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHT-LDGRTI 271
F +G++ D + + ET + RGF FV F + I N + L GRTI
Sbjct: 84 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTI 135
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 236 NETGRSRGFGFVTFADPNNVGVVIQNC-PHTLDGRTIDPKPCNPR 279
N+ G+S+G+ F+ FA + + +C ++GR I + PR
Sbjct: 47 NQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQGPR 91
>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 = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 24/40 (60%)
Query: 222 SRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQN 261
S G VI+ +M + +TGRS+G+ F+ F D + ++N
Sbjct: 25 SNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 64
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 30.4 bits (67), Expect = 1.9, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 278 PRTLQKPKKNSSFPK-VFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
PR +N S PK + + +P + DLR F ++GK+++V I+
Sbjct: 16 PRGSHMNTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEII 62
Score = 29.6 bits (65), Expect = 3.4, Method: Composition-based stats.
Identities = 19/65 (29%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHT-LDGRTIDPKPC 276
++ F ++G+++D ++ NE G S+GFGFVTF + + + T ++GR I+
Sbjct: 47 RQMFGQFGKILDVEII-FNERG-SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNA 104
Query: 277 NPRTL 281
R +
Sbjct: 105 TARVM 109
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 30.0 bits (66), Expect = 2.5, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 35/64 (54%), Gaps = 11/64 (17%)
Query: 292 KVFLGGLP-SNVTETDLRTFFNRYGKVMEVVIM---------SPRTIRAGITRVPTQELP 341
++F+G LP NV++ DL F+ YG +M++ I +P+++R I +QE+
Sbjct: 4 RLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAI-ECESQEMN 62
Query: 342 VQKE 345
K+
Sbjct: 63 FGKK 66
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 25/40 (62%), Gaps = 3/40 (7%)
Query: 287 NSSFPK---VFLGGLPSNVTETDLRTFFNRYGKVMEVVIM 323
N S PK V+ GG+ S +T+ +R F+ +G++ME+ +
Sbjct: 19 NQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVF 58
>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 = 29.6 bits (65), Expect = 2.7, Method: Composition-based stats.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 2/70 (2%)
Query: 210 YGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGR 269
YG A+ + +F G V ++ + +G +GF ++ F+D +V + GR
Sbjct: 15 YGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALDESLFRGR 74
Query: 270 TID--PKPCN 277
I PK N
Sbjct: 75 QIKVIPKRTN 84
>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 = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
F +YG ++ ++++ TGR RG FV +
Sbjct: 34 FGKYGSIVQKNILRDKLTGRPRGVAFVRY 62
>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 = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 8/29 (27%), Positives = 19/29 (65%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
F +G++ C + ++ TG+ +G+GF+ +
Sbjct: 130 FEAFGKIKSCTLARDPTTGKHKGYGFIEY 158
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 29.3 bits (64), Expect = 3.4, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVME 319
K+F+G + + T +LR+ F R G+V+E
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIE 38
>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 = 29.3 bits (64), Expect = 3.8, Method: Composition-based stats.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 2/70 (2%)
Query: 210 YGTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGR 269
YG A+ + +F G V ++ + +G +GF ++ F+D +V + GR
Sbjct: 16 YGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALDESLFRGR 75
Query: 270 TID--PKPCN 277
I PK N
Sbjct: 76 QIKVIPKRTN 85
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 29.3 bits (64), Expect = 4.0, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 35/64 (54%), Gaps = 11/64 (17%)
Query: 292 KVFLGGLP-SNVTETDLRTFFNRYGKVMEVVIM---------SPRTIRAGITRVPTQELP 341
++F+G LP NV++ DL F+ YG +M++ I +P+++R I +QE+
Sbjct: 12 RLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAI-ECESQEMN 70
Query: 342 VQKE 345
K+
Sbjct: 71 FGKK 74
>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 = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 8/29 (27%), Positives = 19/29 (65%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
F +G++ C + ++ TG+ +G+GF+ +
Sbjct: 131 FEAFGKIKSCTLARDPTTGKHKGYGFIEY 159
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 29.3 bits (64), Expect = 4.3, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 292 KVFLGGLPSNVTETDLRTFFNRYGKVM 318
KVF+GGLP ++ E ++ F R+G ++
Sbjct: 10 KVFVGGLPPDIDEDEITASFRRFGPLV 36
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 29.3 bits (64), Expect = 4.4, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 3/72 (4%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHT-LDGRTIDPKPC 276
++ F ++G+++D ++ NE G S+GFGFVTF + + + T ++GR I+
Sbjct: 33 RQMFGQFGKILDVEII-FNERG-SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNA 90
Query: 277 NPRTLQKPKKNS 288
R + +S
Sbjct: 91 TARVMTNSGPSS 102
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 22/43 (51%)
Query: 211 GTYAQYQQRYFSRYGEVIDCVVMKNNETGRSRGFGFVTFADPN 253
GT Q + YG+++ + + T + +G+GFV F P+
Sbjct: 16 GTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPS 58
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 28.1 bits (61), Expect = 7.6, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 218 QRYFSRYGEVIDCVVMKNNETGRSRGFGFVTF 249
Q F +G + + K+ TG+S+GF F++F
Sbjct: 33 QELFRPFGSISRIYLAKDKTTGQSKGFAFISF 64
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 221 FSRYGEVIDCVVMKNNETGRSRGFGFVTFADPNNVGVVIQNCPHTLDGR 269
FS G V+ ++ + ETG+ +G+GF + D ++N L+GR
Sbjct: 29 FSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN----LNGR 73
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
0.314 0.132 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,111,409
Number of Sequences: 62578
Number of extensions: 350224
Number of successful extensions: 723
Number of sequences better than 100.0: 101
Number of HSP's better than 100.0 without gapping: 84
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 556
Number of HSP's gapped (non-prelim): 171
length of query: 388
length of database: 14,973,337
effective HSP length: 101
effective length of query: 287
effective length of database: 8,652,959
effective search space: 2483399233
effective search space used: 2483399233
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)