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= 023632
(279 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 60.8 bits (146), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 31/88 (35%), Positives = 53/88 (60%), Gaps = 3/88 (3%)
Query: 14 NRQTTTQKMTGLSLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTE 73
+ Q T K+ + P P EF++FF Q+G + + Q+M D T +SRGFGF+T+D+
Sbjct: 82 DEQDKTGKIFVGGIGPDVRPK--EFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSA 139
Query: 74 QAVDDLLAKGNKLELAGAQVEVKKAEPK 101
AV D + + ++ ++E+K+AEP+
Sbjct: 140 DAV-DRVCQNKFIDFKDRKIEIKRAEPR 166
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 45/66 (68%), Gaps = 2/66 (3%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D +++F ++G V + +IM+D +T RSRGFGF++F+ +VD+++ + L+ G ++
Sbjct: 18 DNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQHILD--GKVIDP 75
Query: 96 KKAEPK 101
K+A P+
Sbjct: 76 KRAIPR 81
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/65 (43%), Positives = 44/65 (67%), Gaps = 1/65 (1%)
Query: 38 FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKK 97
+++F QFG+V+E +MRD T RSRGFGF+TF + VD +LA+ ++ EL ++ K
Sbjct: 42 LREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ-SRHELDSKTIDPKV 100
Query: 98 AEPKK 102
A P++
Sbjct: 101 AFPRR 105
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 30/73 (41%), Positives = 45/73 (61%), Gaps = 1/73 (1%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVK 96
E +++F +FG V E ++ D R RGFGFITF+ EQ+VD + + ++ G +VEVK
Sbjct: 26 ELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM-HFHDIMGKKVEVK 84
Query: 97 KAEPKKPNLPQPS 109
+AEP+ PS
Sbjct: 85 RAEPRDSKSSGPS 97
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 27/61 (44%), Positives = 41/61 (67%), Gaps = 1/61 (1%)
Query: 38 FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKK 97
+++F QFG+V+E +MRD T RSRGFGF+TF + VD +LA+ ++ EL ++ K
Sbjct: 17 LREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ-SRHELDSKTIDPKV 75
Query: 98 A 98
A
Sbjct: 76 A 76
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 51.2 bits (121), Expect = 6e-07, Method: Composition-based stats.
Identities = 29/75 (38%), Positives = 44/75 (58%), Gaps = 5/75 (6%)
Query: 24 GLSLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKG 83
GLS+ E + K +F QFG V + +M D +T+R RGFGF+TF++E V+ + +
Sbjct: 6 GLSVNTTVE----DVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEK-VCEI 60
Query: 84 NKLELAGAQVEVKKA 98
+ E+ VE KKA
Sbjct: 61 HFHEINNKMVECKKA 75
>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 = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 38 FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKK 97
+D+F Q+G ++ +IM D + + RGF F+TFD +VD ++ + + G EV+K
Sbjct: 121 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHT-VNGHNCEVRK 179
Query: 98 AEPKKPNLPQPSYRR 112
A K+ S +R
Sbjct: 180 ALSKQEMASASSSQR 194
Score = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 44/76 (57%), Gaps = 7/76 (9%)
Query: 24 GLSLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLL-AK 82
GLS E + F Q+G + + +MRD +T RSRGFGF+T+ T + VD + A+
Sbjct: 20 GLSFETTDES----LRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 75
Query: 83 GNKLELAGAQVEVKKA 98
+K++ G VE K+A
Sbjct: 76 PHKVD--GRVVEPKRA 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 = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 38 FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKK 97
+D+F Q+G ++ +IM D + + RGF F+TFD +VD ++ + + G EV+K
Sbjct: 120 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHT-VNGHNCEVRK 178
Query: 98 AEPKKPNLPQPSYRR 112
A K+ S +R
Sbjct: 179 ALSKQEMASASSSQR 193
Score = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 44/76 (57%), Gaps = 7/76 (9%)
Query: 24 GLSLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLL-AK 82
GLS E + F Q+G + + +MRD +T RSRGFGF+T+ T + VD + A+
Sbjct: 19 GLSFETTDES----LRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 74
Query: 83 GNKLELAGAQVEVKKA 98
+K++ G VE K+A
Sbjct: 75 PHKVD--GRVVEPKRA 88
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 38 FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKK 97
+D+F Q+G ++ +IM D + + RGF F+TFD +VD ++ + + G EV+K
Sbjct: 122 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHT-VNGHNCEVRK 180
Query: 98 AEPKKPNLPQPSYRR 112
A K+ S +R
Sbjct: 181 ALSKQEMASASSSQR 195
Score = 44.3 bits (103), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 45/78 (57%), Gaps = 7/78 (8%)
Query: 22 MTGLSLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLL- 80
+ GLS E + F Q+G + + +MRD +T RSRGFGF+T+ T + VD +
Sbjct: 19 IGGLSFETTDES----LRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 74
Query: 81 AKGNKLELAGAQVEVKKA 98
A+ +K++ G VE K+A
Sbjct: 75 ARPHKVD--GRVVEPKRA 90
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 43/86 (50%), Gaps = 4/86 (4%)
Query: 24 GLSLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKG 83
GLS E +L++ F ++G + E +++D T RSRGFGF+TF+ D +
Sbjct: 19 GLSF-DTNEQSLEQV---FSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 84 NKLELAGAQVEVKKAEPKKPNLPQPS 109
N + G Q+ V +A N PS
Sbjct: 75 NGKSVDGRQIRVDQAGKSSDNRSGPS 100
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 47.8 bits (112), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 32 EPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGA 91
E + ++++ Q+G + + +MRD ++ RSRGFGF+TF + VD +A + G
Sbjct: 38 ETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSIDGR 96
Query: 92 QVEVKKAEPKKPNLPQPS 109
VE K+A ++ + PS
Sbjct: 97 VVEPKRAVAREESGSGPS 114
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 33/60 (55%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D + F FG ++ Q+M D T RS+G+GFITF + L + N ELAG ++V
Sbjct: 41 DMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKV 100
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 36/70 (51%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
DEFK F GD++ +++RD T +S G+GF+ + D + N L+L ++V
Sbjct: 19 DEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKV 78
Query: 96 KKAEPKKPNL 105
A P ++
Sbjct: 79 SYARPSSASI 88
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 38/65 (58%), Gaps = 1/65 (1%)
Query: 38 FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKK 97
+D+F Q+G ++ +IM D + + RGF F+TFD +VD ++ + + G EV+K
Sbjct: 119 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHT-VNGHNCEVRK 177
Query: 98 AEPKK 102
A K+
Sbjct: 178 ALSKQ 182
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 44/76 (57%), Gaps = 7/76 (9%)
Query: 24 GLSLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLL-AK 82
GLS E + F Q+G + + +MRD +T RSRGFGF+T+ T + VD + A+
Sbjct: 18 GLSFETTDES----LRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 73
Query: 83 GNKLELAGAQVEVKKA 98
+K++ G VE K+A
Sbjct: 74 PHKVD--GRVVEPKRA 87
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 38/65 (58%), Gaps = 1/65 (1%)
Query: 38 FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKK 97
+D+F Q+G ++ +IM D + + RGF F+TFD +VD ++ + + G EV+K
Sbjct: 121 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHT-VNGHNCEVRK 179
Query: 98 AEPKK 102
A K+
Sbjct: 180 ALSKQ 184
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 45/76 (59%), Gaps = 7/76 (9%)
Query: 24 GLSLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLL-AK 82
GLS E + + F Q+G + + +MRD +T RSRGFGF+T+ T + VD + A+
Sbjct: 20 GLSF----ETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 75
Query: 83 GNKLELAGAQVEVKKA 98
+K++ G VE K+A
Sbjct: 76 PHKVD--GRVVEPKRA 89
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 36/70 (51%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
DEFK F GD++ +++RD T +S G+GF+ + D + N L+L ++V
Sbjct: 19 DEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKV 78
Query: 96 KKAEPKKPNL 105
A P ++
Sbjct: 79 SYARPSSASI 88
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFD----TEQAVDDL 79
E + F Q+G + +I+ D +T SRG GFI FD E+A+ L
Sbjct: 106 EMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
>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 = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 38/65 (58%), Gaps = 1/65 (1%)
Query: 38 FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKK 97
+D+F Q+G ++ +IM D + + RGF F+TFD +VD ++ + + G EV+K
Sbjct: 114 LRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHT-VNGHNCEVRK 172
Query: 98 AEPKK 102
A K+
Sbjct: 173 ALSKQ 177
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 44/76 (57%), Gaps = 7/76 (9%)
Query: 24 GLSLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLL-AK 82
GLS E + F Q+G + + +MRD +T RSRGFGF+T+ T + VD + A+
Sbjct: 13 GLSFETTDES----LRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 68
Query: 83 GNKLELAGAQVEVKKA 98
+K++ G VE K+A
Sbjct: 69 PHKVD--GRVVEPKRA 82
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 1/66 (1%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
+ + +F Q+G+V + IM+D +T++SRGFGF+ F V +LA L G ++
Sbjct: 31 ETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDP 89
Query: 96 KKAEPK 101
K P+
Sbjct: 90 KPCTPR 95
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D+ K F FG ++ + RD +T + +G+GFI ++ Q+ D ++ N +L G + V
Sbjct: 124 DDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSXNLFDLGGQYLRV 183
Query: 96 KKA 98
KA
Sbjct: 184 GKA 186
Score = 33.9 bits (76), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 29/62 (46%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D + F FG ++ D T + +GF F+ ++ +A L + N + L G ++V
Sbjct: 27 DTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQXNSVXLGGRNIKV 86
Query: 96 KK 97
+
Sbjct: 87 GR 88
>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 = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D+ K F FG ++ + RD +T + +G+GFI ++ Q+ D ++ N +L G + V
Sbjct: 140 DDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRV 199
Query: 96 KKA 98
KA
Sbjct: 200 GKA 202
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D + F FG ++ + D T + +GF F+ ++ +A L + N + L G ++V
Sbjct: 43 DTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 102
Query: 96 KKAEPKKPNLPQP 108
+ P QP
Sbjct: 103 GR--PSNIGQAQP 113
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 45.4 bits (106), Expect = 3e-05, Method: Composition-based stats.
Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVK 96
+ KD+F +FG+V + I D +T RSRGFGFI F +V+ +L + + L G ++ K
Sbjct: 27 DLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ-KEHRLDGRVIDPK 85
Query: 97 KA 98
KA
Sbjct: 86 KA 87
>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 = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D+ K F FG ++ + RD +T + +G+GFI ++ Q+ D ++ N +L G + V
Sbjct: 125 DDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRV 184
Query: 96 KKA 98
KA
Sbjct: 185 GKA 187
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D + F FG ++ + D T + +GF F+ ++ +A L + N + L G ++V
Sbjct: 28 DTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 87
Query: 96 KKAEPKKPNLPQP 108
+ P QP
Sbjct: 88 GR--PSNIGQAQP 98
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 34/74 (45%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D + F FG + +M+D T RS+G+GFITF + L + N ELAG + V
Sbjct: 20 DMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRV 79
Query: 96 KKAEPKKPNLPQPS 109
+ PS
Sbjct: 80 GHVTERLDGGSGPS 93
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
++ K+ F QFG V +++ D T + +GFGF+ E++V + +AK + + G + V
Sbjct: 16 EQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQ-EESVSEAIAKLDNTDFMGRTIRV 74
Query: 96 KKAEPKK 102
+A PKK
Sbjct: 75 TEANPKK 81
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 3/80 (3%)
Query: 30 VTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELA 89
V+EP L E F+Q G V + +D T + +G+GF+ F +E+ D + + ++L
Sbjct: 27 VSEPLLWEL---FLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLY 83
Query: 90 GAQVEVKKAEPKKPNLPQPS 109
G + V KA NL PS
Sbjct: 84 GKPIRVNKASAHNKNLSGPS 103
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 44.3 bits (103), Expect = 7e-05, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 39/62 (62%), Gaps = 1/62 (1%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVK 96
+ KD+F +FG+V + + D T RSRGFGF+ F ++VD ++ + + +L G ++ K
Sbjct: 15 DLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQ-KEHKLNGKVIDPK 73
Query: 97 KA 98
+A
Sbjct: 74 RA 75
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 46/84 (54%), Gaps = 3/84 (3%)
Query: 27 LTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKL 86
L+P E ++ K F FG + + ++++D +T +S+G+GF++F + ++ + +
Sbjct: 23 LSP--EITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQ 80
Query: 87 ELAGAQVEVKKAEPKKPNLPQPSY 110
L G Q+ A +KP P+ +Y
Sbjct: 81 WLGGRQIRTNWAT-RKPPAPKSTY 103
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 40/74 (54%), Gaps = 8/74 (10%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITF----DTEQAVDDLLAKGNKLELAGA 91
+EF+ F G+++ +++RD T +S G+GF+ + D E+A++ L N L L
Sbjct: 17 EEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL----NGLRLQTK 72
Query: 92 QVEVKKAEPKKPNL 105
++V A P ++
Sbjct: 73 TIKVSYARPSSASI 86
Score = 36.6 bits (83), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFD----TEQAVDDL 79
E + F Q+G + +I+ D T SRG GFI FD E+A+ L
Sbjct: 104 ELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 8/72 (11%)
Query: 42 FMQFGDVQEHQIMRDHSTSRSRGFGFITF----DTEQAVDDLLAKGNKLELAGAQVEVKK 97
F+ FGD+ + QI D+ T + RGF F+ F D A+D++ N+ EL G + V
Sbjct: 33 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM----NESELFGRTIRVNL 88
Query: 98 AEPKKPNLPQPS 109
A+P + PS
Sbjct: 89 AKPMRIKESGPS 100
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 8/69 (11%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITF----DTEQAVDDLLAKGNKLELAGA 91
DE + F G+V+ +++RD S G+GF+ + D E+A++ L N L L
Sbjct: 19 DELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL----NGLRLQSK 74
Query: 92 QVEVKKAEP 100
++V A P
Sbjct: 75 TIKVSYARP 83
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 42/83 (50%), Gaps = 2/83 (2%)
Query: 27 LTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKL 86
L+P E ++ K F FG + + ++++D +T +S+G+GF++F + ++ +
Sbjct: 23 LSP--EITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHMGGQ 80
Query: 87 ELAGAQVEVKKAEPKKPNLPQPS 109
L G Q+ A K P PS
Sbjct: 81 WLGGRQIRTNWATRKPPAPSGPS 103
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 37/68 (54%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVK 96
+ ++ F ++G + + I+ D + RSRGF F+ F+ + + N +EL G ++ V
Sbjct: 28 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 87
Query: 97 KAEPKKPN 104
+ K+P+
Sbjct: 88 FSITKRPH 95
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 37/68 (54%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVK 96
+ ++ F ++G + + I+ D + RSRGF F+ F+ + + N +EL G ++ V
Sbjct: 31 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 90
Query: 97 KAEPKKPN 104
+ K+P+
Sbjct: 91 FSITKRPH 98
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 37/68 (54%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVK 96
+ ++ F ++G + + I+ D + RSRGF F+ F+ + + N +EL G ++ V
Sbjct: 62 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD 121
Query: 97 KAEPKKPN 104
+ K+P+
Sbjct: 122 FSITKRPH 129
>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 = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 8/69 (11%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITF----DTEQAVDDLLAKGNKLELAGA 91
DE + F G+V+ +++RD S G+GF+ + D E+A++ L N L L
Sbjct: 34 DELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL----NGLRLQSK 89
Query: 92 QVEVKKAEP 100
++V A P
Sbjct: 90 TIKVSYARP 98
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 41.6 bits (96), Expect = 5e-04, Method: Composition-based stats.
Identities = 26/74 (35%), Positives = 36/74 (48%), Gaps = 7/74 (9%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
DE ++FF Q+GDV + I + R F F+TF +Q L G L + G V +
Sbjct: 20 DELREFFSQYGDVMDVFIPKPF-----RAFAFVTFADDQIAQSLC--GEDLIIKGISVHI 72
Query: 96 KKAEPKKPNLPQPS 109
AEPK + PS
Sbjct: 73 SNAEPKHNSNSGPS 86
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 8/69 (11%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITF----DTEQAVDDLLAKGNKLELAGA 91
DE + F G+V+ +++RD S G+GF+ + D E+A++ L N L L
Sbjct: 17 DELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL----NGLRLQSK 72
Query: 92 QVEVKKAEP 100
++V A P
Sbjct: 73 TIKVSYARP 81
Score = 34.7 bits (78), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGN 84
+ +D F +FG + +++ D +T SRG FI FD ++ + N
Sbjct: 104 DVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFN 151
>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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 8/69 (11%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITF----DTEQAVDDLLAKGNKLELAGA 91
DE + F G+V+ +++RD S G+GF+ + D E+A++ L N L L
Sbjct: 17 DELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL----NGLRLQSK 72
Query: 92 QVEVKKAEP 100
++V A P
Sbjct: 73 TIKVSYARP 81
Score = 35.0 bits (79), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGN 84
+ +D F +FG + +++ D +T SRG FI FD ++ + N
Sbjct: 104 DVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSFN 151
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 32/59 (54%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
+ ++ F ++G + + I+ D + RSRGF F+ F+ + + N +EL G ++ V
Sbjct: 31 DLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV 89
>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 = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 8/61 (13%)
Query: 42 FMQFGDVQEHQIMRDHSTSRSRGFGFITF----DTEQAVDDLLAKGNKLELAGAQVEVKK 97
F+ FGD+ + QI D+ T + RGF F+ F D A+D++ N+ EL G + V
Sbjct: 23 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM----NESELFGRTIRVNL 78
Query: 98 A 98
A
Sbjct: 79 A 79
>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 = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 31/58 (53%)
Query: 42 FMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKKAE 99
F+ FGD+ + QI D+ T + RGF F+ F+ + + N+ EL G + V A+
Sbjct: 28 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK 85
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 39.3 bits (90), Expect = 0.002, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 31/58 (53%)
Query: 42 FMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKKAE 99
F+ FGD+ + QI D+ T + RGF F+ F+ + + N+ EL G + V A+
Sbjct: 26 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK 83
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 43/88 (48%), Gaps = 5/88 (5%)
Query: 19 TQKMTGL---SLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQA 75
+ MT L +LT T P D + F ++G V + I RD T SRGF F+ F ++
Sbjct: 44 VEGMTSLKVDNLTYRTSP--DTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRD 101
Query: 76 VDDLLAKGNKLELAGAQVEVKKAEPKKP 103
+D + + L G ++ V+ A +P
Sbjct: 102 AEDAMDAMDGAVLDGRELRVQMARYGRP 129
>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 = 38.9 bits (89), Expect = 0.003, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 31/47 (65%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAK 82
++ +++F FG+V+ ++ D+ T++ RGF FITF E+ V ++ K
Sbjct: 16 EKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 41/79 (51%), Gaps = 11/79 (13%)
Query: 38 FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITF----DTEQAVDDLLAKGNKLELAGAQV 93
K F + G + E +++D TS+SRGF FITF D + A D+ N L G +
Sbjct: 24 LKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKDM----NGKSLHGKAI 78
Query: 94 EVKKAEPKKPNLPQPSYRR 112
+V++A KKP+ RR
Sbjct: 79 KVEQA--KKPSFQSGGRRR 95
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 38.9 bits (89), Expect = 0.003, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 31/47 (65%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAK 82
++ +++F FG+V+ ++ D+ T++ RGF FITF E+ V ++ K
Sbjct: 14 EKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 8/61 (13%)
Query: 42 FMQFGDVQEHQIMRDHSTSRSRGFGFITF----DTEQAVDDLLAKGNKLELAGAQVEVKK 97
F+ FGD+ + QI D+ T + RGF F+ F D A+D++ N+ EL G + V
Sbjct: 84 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM----NESELFGRTIRVNL 139
Query: 98 A 98
A
Sbjct: 140 A 140
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 24/41 (58%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVD 77
+ +F FGD++E ++ D T +SRG+GF+T A +
Sbjct: 33 SLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAE 73
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 22 MTGL---SLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDD 78
MT L +LT T P D + F ++G V + I RD T SRGF F+ F ++ +D
Sbjct: 70 MTSLKVDNLTYRTSP--DTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAED 127
Query: 79 LLAKGNKLELAGAQVEVKKAEPKKP 103
+ + L G ++ V+ A +P
Sbjct: 128 AMDAMDGAVLDGRELRVQMARYGRP 152
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKG-NKLELAGAQVEV 95
+ +DFF G V++ +I+ D ++ RS+G ++ F Q+V LA G L G + V
Sbjct: 41 DLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVP--LAIGLTGQRLLGVPIIV 98
Query: 96 KKAEPKKPNLPQPS 109
+ ++ +K L PS
Sbjct: 99 QASQAEKNRLSGPS 112
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 33/62 (53%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVK 96
+ + F ++G ++ +I+ D T +SRG+GF+ F + + +A N + +++V
Sbjct: 58 QLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVA 117
Query: 97 KA 98
A
Sbjct: 118 LA 119
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFD----TEQAVDDL 79
E + F Q+G + +I+ D +T SRG GFI FD E+A+ L
Sbjct: 17 EMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 36/81 (44%), Gaps = 3/81 (3%)
Query: 32 EPALDE--FKDFFMQFGDV-QEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLEL 88
+P +DE D F FG + Q +IMRD T S+G+ FI F + A D + N L
Sbjct: 14 DPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYL 73
Query: 89 AGAQVEVKKAEPKKPNLPQPS 109
+ V A K PS
Sbjct: 74 CNRPITVSYAFKKDSKGSGPS 94
>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 = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 34/69 (49%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D+ K+ FG ++ +++D +T S+G+ F + D +A N ++L ++ V
Sbjct: 129 DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 188
Query: 96 KKAEPKKPN 104
++A N
Sbjct: 189 QRASVGAKN 197
>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 = 35.4 bits (80), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 32/57 (56%)
Query: 45 FGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKKAEPK 101
FG + + ++++D +T +S+G+GF++F + ++ + + L G Q+ A K
Sbjct: 30 FGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATRK 86
>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 = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 37/63 (58%), Gaps = 2/63 (3%)
Query: 40 DFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKKAE 99
D F FG++ +++ D + S+ G+GF+ F+T++A + + K N + L +V V + +
Sbjct: 122 DTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK 179
Query: 100 PKK 102
+K
Sbjct: 180 SRK 182
>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 = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 33/64 (51%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D+ K+ FG ++ +++D +T S+G+ F + D +A N ++L ++ V
Sbjct: 111 DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 170
Query: 96 KKAE 99
++A
Sbjct: 171 QRAS 174
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 35.0 bits (79), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 33/64 (51%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D+ K+ FG ++ +++D +T S+G+ F + D +A N ++L ++ V
Sbjct: 109 DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 168
Query: 96 KKAE 99
++A
Sbjct: 169 QRAS 172
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 35.0 bits (79), Expect = 0.044, Method: Composition-based stats.
Identities = 15/63 (23%), Positives = 33/63 (52%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
D+ K+ FG ++ +++D +T S+G+ F + D +A N ++L ++ V
Sbjct: 16 DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 75
Query: 96 KKA 98
++A
Sbjct: 76 QRA 78
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 35.0 bits (79), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITF 70
+ K++F FG+V Q+ +D T S+GFGF+ F
Sbjct: 31 DLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRF 64
>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 = 35.0 bits (79), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 37/63 (58%), Gaps = 2/63 (3%)
Query: 40 DFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKKAE 99
D F FG++ +++ D + S+ G+GF+ F+T++A + + K N + L +V V + +
Sbjct: 117 DTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK 174
Query: 100 PKK 102
+K
Sbjct: 175 SRK 177
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 35.0 bits (79), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 30/55 (54%)
Query: 42 FMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVK 96
F+ FG+V ++ D TS S+ FGF++FD + + N ++ +++V+
Sbjct: 61 FLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQ 115
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
A Ph 9.0
Length = 115
Score = 34.7 bits (78), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 37/63 (58%), Gaps = 2/63 (3%)
Query: 40 DFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKKAE 99
D F FG++ +++ D + S+ G+GF+ F+T++A + + K N + L +V V + +
Sbjct: 24 DTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK 81
Query: 100 PKK 102
+K
Sbjct: 82 SRK 84
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 34.7 bits (78), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 33/71 (46%)
Query: 32 EPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGA 91
E ++ KD F + G V +++ D T + +G+GF + ++ + N E +G
Sbjct: 19 EATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGR 78
Query: 92 QVEVKKAEPKK 102
+ V A +K
Sbjct: 79 ALRVDNAASEK 89
>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 = 33.9 bits (76), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 34/68 (50%)
Query: 42 FMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKKAEPK 101
FM FG+V ++ D T+ S+ FGF+++D + + N ++ +++V+ K
Sbjct: 46 FMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSK 105
Query: 102 KPNLPQPS 109
+ PS
Sbjct: 106 NDSKSGPS 113
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 33.9 bits (76), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 37/63 (58%), Gaps = 2/63 (3%)
Query: 40 DFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKKAE 99
D F FG++ +++ D + S+ G+GF+ F+T++A + + K N + L +V V + +
Sbjct: 30 DTFSAFGNILSCKVVCDENGSK--GYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK 87
Query: 100 PKK 102
+K
Sbjct: 88 SRK 90
>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 = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 32/54 (59%), Gaps = 1/54 (1%)
Query: 49 QEHQIMRDHSTSRSRGFGFITFDTEQ-AVDDLLAKGNKLELAGAQVEVKKAEPK 101
+E ++MR+ S+ +SRGF F+ F Q A + A + L + G +V + ++PK
Sbjct: 30 REVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSDPK 83
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVK 96
+ + F QFG + + +I+ + S+ GFGF+TF+ D K + + G ++EV
Sbjct: 31 DLRQMFGQFGKILDVEIIFNERGSK--GFGFVTFENSADADRAREKLHGTVVEGRKIEVN 88
Query: 97 KAEPKKPNLPQPS 109
A + PS
Sbjct: 89 NATARVMTNSGPS 101
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
Length = 88
Score = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 26/41 (63%), Gaps = 2/41 (4%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTS--RSRGFGFITFDTEQA 75
+ ++ F Q+G V E ++RD S + +S+G F+TF T +A
Sbjct: 19 DLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKA 59
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 39/84 (46%), Gaps = 9/84 (10%)
Query: 32 EPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLL------AKGNK 85
E AL E QFGD++ +++ T S+G F F T++A L A+G
Sbjct: 29 EEALGEV---LQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGG 85
Query: 86 LELAGAQVEVKKAEPKKPNLPQPS 109
L+L G Q++V A + PS
Sbjct: 86 LKLDGRQLKVDLAVTRDEAASGPS 109
>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 = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 44/91 (48%), Gaps = 5/91 (5%)
Query: 25 LSLTPVTEPAL-DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKG 83
L +T + E A DE ++ F +G+++ + D T S+G+ + ++T + L AK
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQA--LAAKE 132
Query: 84 --NKLELAGAQVEVKKAEPKKPNLPQPSYRR 112
N E+ G ++V K P + S +R
Sbjct: 133 ALNGAEIMGQTIQVDWCFVKGPKRVKKSEKR 163
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVK 96
+ + F QFG + + +I+ + S+ GFGF+TF+ D K + + G ++EV
Sbjct: 45 DLRQMFGQFGKILDVEIIFNERGSK--GFGFVTFENSADADRAREKLHGTVVEGRKIEVN 102
Query: 97 KAEPK 101
A +
Sbjct: 103 NATAR 107
>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 = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 2/42 (4%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTS--RSRGFGFITFDTEQAV 76
+ ++ F Q+G V E ++RD S + +S+G F+TF T +A
Sbjct: 19 DLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAA 60
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 32.3 bits (72), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 26/41 (63%), Gaps = 2/41 (4%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTS--RSRGFGFITFDTEQA 75
+ ++ F Q+G V E ++RD S + +S+G F+TF T +A
Sbjct: 19 DLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKA 59
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 2/42 (4%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTS--RSRGFGFITFDTEQAV 76
+ ++ F Q+G V E ++RD S + +S+G F+TF T +A
Sbjct: 31 DLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAA 72
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 32.0 bits (71), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 31/53 (58%), Gaps = 6/53 (11%)
Query: 52 QIMRDHSTSRSRGFGFITFDTEQ---AVDDLLAKGNKLELAGAQVEVKKAEPK 101
+I+ D T S+GFGF+ F++E+ A + + G E+ G +V + A+PK
Sbjct: 43 RIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDG---EIDGNKVTLDWAKPK 92
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 32.0 bits (71), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 41 FFMQFGDVQEHQIMRDHSTSRSRGFGFITF-DTEQAVDDLLAKGNK 85
F ++G V + IM+D T +S+G FI F D + A + A NK
Sbjct: 36 IFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNK 81
>pdb|2IUT|A Chain A, P. Aeruginosa Ftsk Motor Domain, Dimeric
pdb|2IUT|B Chain B, P. Aeruginosa Ftsk Motor Domain, Dimeric
Length = 574
Score = 31.6 bits (70), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 25/62 (40%), Gaps = 2/62 (3%)
Query: 25 LSLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDL--LAK 82
LS P +DEF D M G E I R +R+ G I +VD + L K
Sbjct: 339 LSTLPTIVVVVDEFADMMMIVGKKVEELIARIAQKARAAGIHLILATQRPSVDVITGLIK 398
Query: 83 GN 84
N
Sbjct: 399 AN 400
>pdb|2IUU|A Chain A, P. Aeruginosa Ftsk Motor Domain, Hexamer
pdb|2IUU|B Chain B, P. Aeruginosa Ftsk Motor Domain, Hexamer
pdb|2IUU|C Chain C, P. Aeruginosa Ftsk Motor Domain, Hexamer
pdb|2IUU|D Chain D, P. Aeruginosa Ftsk Motor Domain, Hexamer
pdb|2IUU|E Chain E, P. Aeruginosa Ftsk Motor Domain, Hexamer
pdb|2IUU|F Chain F, P. Aeruginosa Ftsk Motor Domain, Hexamer
Length = 491
Score = 31.2 bits (69), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 25/62 (40%), Gaps = 2/62 (3%)
Query: 25 LSLTPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDL--LAK 82
LS P +DEF D M G E I R +R+ G I +VD + L K
Sbjct: 339 LSTLPTIVVVVDEFADMMMIVGKKVEELIARIAQKARAAGIHLILATQRPSVDVITGLIK 398
Query: 83 GN 84
N
Sbjct: 399 AN 400
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 37/80 (46%), Gaps = 1/80 (1%)
Query: 25 LSLTPVTEPAL-DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKG 83
L +T + E A DE ++ F +G+++ + D T S+G+ + ++T +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 84 NKLELAGAQVEVKKAEPKKP 103
N E+ G ++V K P
Sbjct: 89 NGAEIMGQTIQVDWCFVKGP 108
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 30.8 bits (68), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 21/34 (61%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITF 70
+ ++ F FG + + +D +T +S+GF FI+F
Sbjct: 31 DLQELFRPFGSISRIYLAKDKTTGQSKGFAFISF 64
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 38/80 (47%), Gaps = 5/80 (6%)
Query: 5 LTEILTMFINRQTTTQKMTGLSLTPVTEPALDE-FKDFFMQFGDVQEHQIMRDHSTSRSR 63
+ +I F ++Q+++ L + + DE ++ F F +M D T SR
Sbjct: 70 IVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSR 129
Query: 64 GFGFITF----DTEQAVDDL 79
G+GF++F D + A+D +
Sbjct: 130 GYGFVSFTSQDDAQNAMDSM 149
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 29.6 bits (65), Expect = 2.0, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 30/49 (61%), Gaps = 4/49 (8%)
Query: 45 FGDVQEHQIMRDHSTSRSRGFGFITFDT----EQAVDDLLAKGNKLELA 89
+G + + + D +T++ +G+GF+ FD+ ++AV L A G + ++A
Sbjct: 29 YGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMA 77
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 34/74 (45%), Gaps = 2/74 (2%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
+ + F FG + ++M + RS+GFGF+ F + + + + N +A + V
Sbjct: 30 ERLRKAFSPFGTITSAKVMMEGG--RSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYV 87
Query: 96 KKAEPKKPNLPQPS 109
A+ K+ PS
Sbjct: 88 ALAQRKEERQSGPS 101
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 34 ALDE--FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITF 70
LDE K F +FG + E +++D T +G F+T+
Sbjct: 26 GLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTY 64
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 48 VQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEVKKAEPKKPNLPQ 107
++ +++RD T + +GF ++ FD ++ + L L L + V AE +K +
Sbjct: 41 IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGAL-LGDRSLRVDIAEGRKQDKSG 99
Query: 108 PS 109
PS
Sbjct: 100 PS 101
>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 = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 36/80 (45%), Gaps = 1/80 (1%)
Query: 25 LSLTPVTEPALDE-FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKG 83
L +T V E A +E D F ++G+++ + D T +G+ + ++T + +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 84 NKLELAGAQVEVKKAEPKKP 103
N +L G + V + P
Sbjct: 70 NGQDLMGQPISVDWCFVRGP 89
>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 = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 36/80 (45%), Gaps = 1/80 (1%)
Query: 25 LSLTPVTEPALDE-FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKG 83
L +T V E A +E D F ++G+++ + D T +G+ + ++T + +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 84 NKLELAGAQVEVKKAEPKKP 103
N +L G + V + P
Sbjct: 72 NGQDLMGQPISVDWCFVRGP 91
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 4/32 (12%)
Query: 52 QIMRDHSTSRSRGFGFITF----DTEQAVDDL 79
+M D T SRG+GF++F D + A+D +
Sbjct: 32 HVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 28.1 bits (61), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 35 LDE--FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITF 70
LDE K F +FG + E +++D T +G F+T+
Sbjct: 25 LDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTY 62
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 9/68 (13%)
Query: 37 EFKDFFMQFGDVQEHQIMRDHS-TSRSRGFGFITFDTEQ----AVDDLLAK----GNKLE 87
E ++ F FG+++ ++ + + T RGFGF+ F T+Q A + L G +L
Sbjct: 31 EIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLV 90
Query: 88 LAGAQVEV 95
L A EV
Sbjct: 91 LEWADSEV 98
>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 = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 6/63 (9%)
Query: 36 DEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLELAGAQVEV 95
+E + F ++G E I +D +GFGFI +T + + + + L G Q+ V
Sbjct: 30 EEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRV 83
Query: 96 KKA 98
+ A
Sbjct: 84 RFA 86
>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 = 27.3 bits (59), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 36/80 (45%), Gaps = 1/80 (1%)
Query: 25 LSLTPVTEPALDE-FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKG 83
L +T V E A +E D F ++G+++ + D T +G+ + ++T + +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 84 NKLELAGAQVEVKKAEPKKP 103
N +L G + V + P
Sbjct: 86 NGQDLMGQPISVDWCFVRGP 105
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 27.3 bits (59), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 32/63 (50%), Gaps = 14/63 (22%)
Query: 28 TPVTEPALDEFKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKGNKLE 87
T +TE ++FK F ++G+ E I RD RGFGFI ++ LA+ K E
Sbjct: 32 TDITE---EDFKRLFERYGEPSEVFINRD------RGFGFIRLESR-----TLAEIAKAE 77
Query: 88 LAG 90
L G
Sbjct: 78 LDG 80
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 27.3 bits (59), Expect = 8.6, Method: Composition-based stats.
Identities = 17/72 (23%), Positives = 34/72 (47%), Gaps = 1/72 (1%)
Query: 25 LSLTPVTEPALDE-FKDFFMQFGDVQEHQIMRDHSTSRSRGFGFITFDTEQAVDDLLAKG 83
L +T V E A +E D F ++G+++ + D T +G+ + ++T + +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 84 NKLELAGAQVEV 95
N +L G + V
Sbjct: 70 NGQDLMGQPISV 81
>pdb|3GDN|A Chain A, Almond Hydroxynitrile Lyase In Complex With Benzaldehyde
pdb|3GDN|B Chain B, Almond Hydroxynitrile Lyase In Complex With Benzaldehyde
pdb|3GDP|A Chain A, Hydroxynitrile Lyase From Almond, Monoclinic Crystal Form
pdb|3GDP|B Chain B, Hydroxynitrile Lyase From Almond, Monoclinic Crystal Form
Length = 521
Score = 27.3 bits (59), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 26/61 (42%), Gaps = 2/61 (3%)
Query: 39 KDFFMQFGDVQEHQIMRDHST-SRSRGFGFITFDTEQAVDDLLAKGNKLEL-AGAQVEVK 96
K F++ G H DH +R G F T A D+LL KGN L G V+
Sbjct: 159 KTAFLEAGVHPNHGFSLDHEEGTRITGSTFDNKGTRHAADELLNKGNSNNLRVGVHASVE 218
Query: 97 K 97
K
Sbjct: 219 K 219
>pdb|1JU2|A Chain A, Crystal Structure Of The Hydroxynitrile Lyase From Almond
pdb|1JU2|B Chain B, Crystal Structure Of The Hydroxynitrile Lyase From Almond
Length = 536
Score = 27.3 bits (59), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 26/61 (42%), Gaps = 2/61 (3%)
Query: 39 KDFFMQFGDVQEHQIMRDHST-SRSRGFGFITFDTEQAVDDLLAKGNKLEL-AGAQVEVK 96
K F++ G H DH +R G F T A D+LL KGN L G V+
Sbjct: 159 KTAFLEAGVHPNHGFSLDHEEGTRITGSTFDNKGTRHAADELLNKGNSNNLRVGVHASVE 218
Query: 97 K 97
K
Sbjct: 219 K 219
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
0.316 0.135 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,715,833
Number of Sequences: 62578
Number of extensions: 137813
Number of successful extensions: 446
Number of sequences better than 100.0: 103
Number of HSP's better than 100.0 without gapping: 85
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 342
Number of HSP's gapped (non-prelim): 119
length of query: 279
length of database: 14,973,337
effective HSP length: 98
effective length of query: 181
effective length of database: 8,840,693
effective search space: 1600165433
effective search space used: 1600165433
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)