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= 011382
(487 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 75.9 bits (185), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 36/90 (40%), Positives = 57/90 (63%), Gaps = 1/90 (1%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
N+ +YV GL D VT++++ + F +CG++K + T +P I IY+DKETG KGDA V+Y
Sbjct: 15 NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 74
Query: 348 EPSVALATQLLDGTPFRPDGKIPMSVTQAK 377
P+ A + DG F+ K+ +S+ + K
Sbjct: 75 PPTAKAAVEWFDGKDFQ-GSKLKVSLARKK 103
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 65.9 bits (159), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 33/92 (35%), Positives = 53/92 (57%), Gaps = 1/92 (1%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
N ++V GL ++VT+E + + F + GIIK + +T +P I +Y D+ETG KG+A V++
Sbjct: 7 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 66
Query: 348 EPSVALATQLLDGTPFRPDG-KIPMSVTQAKF 378
PS A DG F + K+ + +A F
Sbjct: 67 PPSAKAAIDWFDGKEFSGNPIKVSFATRRADF 98
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/89 (37%), Positives = 52/89 (58%), Gaps = 3/89 (3%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
N ++V GL ++VT+E + + F + GIIK + +T +P I +Y D+ETG KG+A V++
Sbjct: 13 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 72
Query: 348 EPSVALATQLLDGTPFRPDGKIPMSVTQA 376
PS A DG F + P+ V+ A
Sbjct: 73 PPSAKAAIDWFDGKEFSGN---PIKVSFA 98
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 52/113 (46%), Gaps = 20/113 (17%)
Query: 246 EKVNSADNVVEEKH--NGKRKQPDKQVEKKEANKPPDSWFELKVNTHVYVTGLPDDVTVE 303
EK +S D VV+ +H +GK P + + + E +K ++V G+ DV +
Sbjct: 53 EKPSSVDEVVKTQHILDGKVIDPKRAIPRDEQDK----------TGKIFVGGIGPDVRPK 102
Query: 304 EMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPSVALATQ 356
E E FS+ G I + ++ +DK+TG +G VTY +V Q
Sbjct: 103 EFEEFFSQWGTIID--------AQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ 147
Score = 32.7 bits (73), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 41/88 (46%), Gaps = 11/88 (12%)
Query: 286 KVNTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTY 345
K + +++ GL D T + + E F K G + + +KI D TG +G +++
Sbjct: 1 KESCKMFIGGLNWDTTEDNLREYFGKYGTVTD--------LKIMKDPATGRSRGFGFLSF 52
Query: 346 LKEPSV--ALATQ-LLDGTPFRPDGKIP 370
K SV + TQ +LDG P IP
Sbjct: 53 EKPSSVDEVVKTQHILDGKVIDPKRAIP 80
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 37.4 bits (85), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 55/109 (50%), Gaps = 12/109 (11%)
Query: 243 STEEKVNSADNVVEEKHNGKRKQPDKQVEKKEANKPPDSWFELKVNTHVYVTGLPDDVTV 302
+T E+V++A N K +G+ +P + V ++++ +P L V ++V G+ +D
Sbjct: 64 ATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP---GAHLTVKK-IFVGGIKEDTEE 119
Query: 303 EEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPSV 351
+ + F + G I+ I+I D+ +G K+G A VT+ SV
Sbjct: 120 HHLRDYFEQYGKIEV--------IEIMTDRGSGKKRGFAFVTFDDHDSV 160
>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 = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 55/109 (50%), Gaps = 12/109 (11%)
Query: 243 STEEKVNSADNVVEEKHNGKRKQPDKQVEKKEANKPPDSWFELKVNTHVYVTGLPDDVTV 302
+T E+V++A N K +G+ +P + V ++++ +P L V ++V G+ +D
Sbjct: 63 ATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP---GAHLTVKK-IFVGGIKEDTEE 118
Query: 303 EEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPSV 351
+ + F + G I+ I+I D+ +G K+G A VT+ SV
Sbjct: 119 HHLRDYFEQYGKIEV--------IEIMTDRGSGKKRGFAFVTFDDHDSV 159
>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 = 37.0 bits (84), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 55/109 (50%), Gaps = 12/109 (11%)
Query: 243 STEEKVNSADNVVEEKHNGKRKQPDKQVEKKEANKPPDSWFELKVNTHVYVTGLPDDVTV 302
+T E+V++A N K +G+ +P + V ++++ +P L V ++V G+ +D
Sbjct: 62 ATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRP---GAHLTVKK-IFVGGIKEDTEE 117
Query: 303 EEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPSV 351
+ + F + G I+ I+I D+ +G K+G A VT+ SV
Sbjct: 118 HHLRDYFEQYGKIEV--------IEIMTDRGSGKKRGFAFVTFDDHDSV 158
>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 = 37.0 bits (84), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 55/109 (50%), Gaps = 12/109 (11%)
Query: 243 STEEKVNSADNVVEEKHNGKRKQPDKQVEKKEANKPPDSWFELKVNTHVYVTGLPDDVTV 302
+T E+V++A N K +G+ +P + V ++++ +P L V ++V G+ +D
Sbjct: 56 ATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGA---HLTVKK-IFVGGIKEDTEE 111
Query: 303 EEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPSV 351
+ + F + G I+ I+I D+ +G K+G A VT+ SV
Sbjct: 112 HHLRDYFEQYGKIEV--------IEIMTDRGSGKKRGFAFVTFDDHDSV 152
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 36.6 bits (83), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 55/109 (50%), Gaps = 12/109 (11%)
Query: 243 STEEKVNSADNVVEEKHNGKRKQPDKQVEKKEANKPPDSWFELKVNTHVYVTGLPDDVTV 302
+T E+V++A N K +G+ +P + V ++++ +P L V ++V G+ +D
Sbjct: 63 ATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGA---HLTVKK-IFVGGIKEDTEE 118
Query: 303 EEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPSV 351
+ + F + G I+ I+I D+ +G K+G A VT+ SV
Sbjct: 119 HHLRDYFEQYGKIEV--------IEIMTDRGSGKKRGFAFVTFDDHDSV 159
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 36.6 bits (83), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 54/109 (49%), Gaps = 12/109 (11%)
Query: 243 STEEKVNSADNVVEEKHNGKRKQPDKQVEKKEANKPPDSWFELKVNTHVYVTGLPDDVTV 302
+T E+V++A N K +G+ +P + V ++++ +P K+ +V G+ +D
Sbjct: 61 ATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKI----FVGGIKEDTEE 116
Query: 303 EEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPSV 351
+ + F + G I+ I+I D+ +G K+G A VT+ SV
Sbjct: 117 HHLRDYFEQYGKIEV--------IEIMTDRGSGKKRGFAFVTFDDHDSV 157
>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 = 35.8 bits (81), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 47/90 (52%), Gaps = 11/90 (12%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
+ ++YV+GLP +T +E+ ++FS+ G I +I VD+ TG+ +G + + K
Sbjct: 88 DANLYVSGLPKTMTQKELEQLFSQYGRIITS--------RILVDQVTGVSRGVGFIRFDK 139
Query: 348 EPSVALATQLLDGTPFRPDGKI-PMSVTQA 376
A + L+G +P G P++V A
Sbjct: 140 RIEAEEAIKGLNGQ--KPSGATEPITVKFA 167
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 35.4 bits (80), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 8/73 (10%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
+ ++YV+GLP ++ +EM ++FS+ G I +I +D+ TG+ +G + + K
Sbjct: 1 DANLYVSGLPKTMSQKEMEQLFSQYGRIITS--------RILLDQATGVSRGVGFIRFDK 52
Query: 348 EPSVALATQLLDG 360
A + L+G
Sbjct: 53 RIEAEEAIKGLNG 65
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 35.4 bits (80), Expect = 0.070, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 286 KVNTHVYVTGLPDDVTVEEMVEVFSKCGIIKE-----DPETKKPRIKIYVD 331
+VN +Y+ LP +T EEM ++F K G I++ PET+ +Y D
Sbjct: 10 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYED 60
>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 = 35.4 bits (80), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 40/89 (44%), Gaps = 9/89 (10%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
+T++YVT LP +T +++ +F K G I + I DK TG +G A V Y K
Sbjct: 100 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQK--------NILRDKLTGRPRGVAFVRYNK 151
Query: 348 EPSVALATQLLDGTPFRPDGKIPMSVTQA 376
A L+ G P+SV A
Sbjct: 152 REEAQEAISALNNV-IPEGGSQPLSVRLA 179
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 33/77 (42%), Gaps = 8/77 (10%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
NT++ V LP D T E+ +F G I +I D +TG G A V +
Sbjct: 14 NTNLIVNYLPQDXTDRELYALFRAIGPINT--------CRIXRDYKTGYSFGYAFVDFTS 65
Query: 348 EPSVALATQLLDGTPFR 364
E A ++L+G R
Sbjct: 66 EXDSQRAIKVLNGITVR 82
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 35.0 bits (79), Expect = 0.10, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 286 KVNTHVYVTGLPDDVTVEEMVEVFSKCGIIKE-----DPETKKPRIKIYVD 331
+VN +Y+ LP +T EEM ++F K G I++ PET+ +Y D
Sbjct: 16 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYED 66
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 40/77 (51%), Gaps = 8/77 (10%)
Query: 284 ELKVNTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALV 343
E+ + ++Y++GLP +T +++ ++FS+ G I ++ VD+ TG+ +G A +
Sbjct: 84 EVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINS--------RVLVDQTTGLSRGVAFI 135
Query: 344 TYLKEPSVALATQLLDG 360
+ K A +G
Sbjct: 136 RFDKRSEAEEAITSFNG 152
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 8/73 (10%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
+ ++YV+GLP ++ +EM ++FS+ G I +I +D+ TG+ +G + + K
Sbjct: 90 DANLYVSGLPKTMSQKEMEQLFSQYGRIITS--------RILLDQATGVSRGVGFIRFDK 141
Query: 348 EPSVALATQLLDG 360
A + L+G
Sbjct: 142 RIEAEEAIKGLNG 154
>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 = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 38/73 (52%), Gaps = 8/73 (10%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
+ ++Y++GLP +T +++ ++FS+ G I ++ VD+ TG+ +G A + + K
Sbjct: 88 DANLYISGLPRTMTQKDVEDMFSRFGRIINS--------RVLVDQTTGLSRGVAFIRFDK 139
Query: 348 EPSVALATQLLDG 360
A +G
Sbjct: 140 RSEAEEAITSFNG 152
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 40/89 (44%), Gaps = 9/89 (10%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
+T++YVT LP +T +++ +F K G I + I DK TG +G A V Y K
Sbjct: 89 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQK--------NILRDKLTGRPRGVAFVRYNK 140
Query: 348 EPSVALATQLLDGTPFRPDGKIPMSVTQA 376
A L+ G P+SV A
Sbjct: 141 REEAQEAISALNNV-IPEGGSQPLSVRLA 168
Score = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 8/77 (10%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
NT++ V LP D+T E+ +F G I +I D +TG G A V +
Sbjct: 3 NTNLIVNYLPQDMTDRELYALFRAIGPINT--------CRIMRDYKTGYSYGYAFVDFTS 54
Query: 348 EPSVALATQLLDGTPFR 364
E A ++L+G R
Sbjct: 55 EMDSQRAIKVLNGITVR 71
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 34.3 bits (77), Expect = 0.14, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 286 KVNTHVYVTGLPDDVTVEEMVEVFSKCGIIKE-----DPETKKPRIKIYVD 331
+VN +Y+ LP +T EEM ++F K G I++ PET+ +Y D
Sbjct: 6 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYED 56
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 8/69 (11%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
VYV+ LP +T ++ +FSK G K ++ I DK+T KG A + +L + S
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYG--------KVVKVTIMKDKDTRKSKGVAFILFLDKDS 70
Query: 351 VALATQLLD 359
T+ ++
Sbjct: 71 AQNCTRAIN 79
>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 = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 28/90 (31%), Positives = 41/90 (45%), Gaps = 9/90 (10%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
+T++YVT LP +T +++ +F K G I + I DK TG +G A V Y K
Sbjct: 13 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQK--------NILRDKLTGRPRGVAFVRYNK 64
Query: 348 EPSVALATQLLDGTPFRPDGKIPMSVTQAK 377
A L+ G P+SV A+
Sbjct: 65 REEAQEAISALNNV-IPEGGSQPLSVRLAE 93
>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 = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 8/71 (11%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
++VT + ++ +E+ E F G IK I + +D+ TG KG ALV Y
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKN--------IHLNLDRRTGFSKGYALVEYETHKQ 126
Query: 351 VALATQLLDGT 361
A + L+G
Sbjct: 127 ALAAKEALNGA 137
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 33.5 bits (75), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 8/71 (11%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
++VT + ++ +E+ E F G IK I + +D+ TG KG ALV Y
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIK--------NIHLNLDRRTGFSKGYALVEYETHKQ 80
Query: 351 VALATQLLDGT 361
A + L+G
Sbjct: 81 ALAAKEALNGA 91
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 33.1 bits (74), Expect = 0.39, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 8/77 (10%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
NT++ V LP D+T E+ +F G I +I D +TG G A V +
Sbjct: 3 NTNLIVNYLPQDMTDRELYALFRAIGPINT--------CRIMRDYKTGYSYGYAFVDFTS 54
Query: 348 EPSVALATQLLDGTPFR 364
E A ++L+G R
Sbjct: 55 EMDSQRAIKVLNGITVR 71
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 32.7 bits (73), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 13/81 (16%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTY--LKE 348
++VTG+ ++ T E++ + F++ G IK I + +D+ TG KG LV Y KE
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIK--------NIHLNLDRRTGYLKGYTLVEYETYKE 76
Query: 349 PSVA---LATQLLDGTPFRPD 366
A L Q L G P D
Sbjct: 77 AQAAMEGLNGQDLMGQPISVD 97
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 32.7 bits (73), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 8/73 (10%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
V+V +P + T E++ ++FS+ G + ++ D+ETG KG Y + +
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVS--------FRLVYDRETGKPKGYGFCEYQDQET 62
Query: 351 VALATQLLDGTPF 363
A + L+G F
Sbjct: 63 ALSAMRNLNGREF 75
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 32.3 bits (72), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 37/74 (50%), Gaps = 9/74 (12%)
Query: 290 HVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEP 349
++YV L T E++ E+FS+ G K +K+ D+ET KG V ++E
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFG--------KVFNVKLIYDRETKKPKGFGFVE-MQEE 53
Query: 350 SVALATQLLDGTPF 363
SV+ A LD T F
Sbjct: 54 SVSEAIAKLDNTDF 67
>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 = 32.3 bits (72), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 13/81 (16%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTY--LKE 348
++VTG+ ++ T E++ + F++ G IK I + +D+ TG KG LV Y KE
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIK--------NIHLNLDRRTGYLKGYTLVEYETYKE 77
Query: 349 PSVA---LATQLLDGTPFRPD 366
A L Q L G P D
Sbjct: 78 AQAAMEGLNGQDLMGQPISVD 98
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 32.3 bits (72), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 13/81 (16%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTY--LKE 348
++VTG+ ++ T E++ + F++ G IK I + +D+ TG KG LV Y KE
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIK--------NIHLNLDRRTGYLKGYTLVEYETYKE 61
Query: 349 PSVA---LATQLLDGTPFRPD 366
A L Q L G P D
Sbjct: 62 AQAAMEGLNGQDLMGQPISVD 82
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 32.3 bits (72), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 13/81 (16%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTY--LKE 348
++VTG+ ++ T E++ + F++ G IK I + +D+ TG KG LV Y KE
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIK--------NIHLNLDRRTGYLKGYTLVEYETYKE 61
Query: 349 PSVA---LATQLLDGTPFRPD 366
A L Q L G P D
Sbjct: 62 AQAAMEGLNGQDLMGQPISVD 82
>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 = 32.0 bits (71), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 13/81 (16%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTY--LKE 348
++VTG+ ++ T E++ + F++ G IK I + +D+ TG KG LV Y KE
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIK--------NIHLNLDRRTGYLKGYTLVEYETYKE 61
Query: 349 PSVA---LATQLLDGTPFRPD 366
A L Q L G P D
Sbjct: 62 AQAAMEGLNGQDLMGQPISVD 82
>pdb|1PY1|A Chain A, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
pdb|1PY1|B Chain B, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
pdb|1PY1|C Chain C, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
pdb|1PY1|D Chain D, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
Length = 158
Score = 32.0 bits (71), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 40/88 (45%), Gaps = 19/88 (21%)
Query: 233 NDEVGKEKLNSTEEKVNSADNVVEEKHNGKRKQPDKQVEKKEANKPPDSWFELKVNTHVY 292
+DEVGK + +N VV K+ G R + K + EL + +
Sbjct: 83 HDEVGKFRF------LNELIKVVSPKYLGSRT----------SEKVKNKILEL---LYSW 123
Query: 293 VTGLPDDVTVEEMVEVFSKCGIIKEDPE 320
GLP++V + E ++ K GI+K DP+
Sbjct: 124 TVGLPEEVKIAEAYQMLKKQGIVKSDPK 151
>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 = 32.0 bits (71), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 13/81 (16%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTY--LKE 348
++VTG+ ++ T E++ + F++ G IK I + +D+ TG KG LV Y KE
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIK--------NIHLNLDRRTGYLKGYTLVEYETYKE 63
Query: 349 PSVA---LATQLLDGTPFRPD 366
A L Q L G P D
Sbjct: 64 AQAAMEGLNGQDLMGQPISVD 84
>pdb|2Q2H|A Chain A, Crystal Structure Of The Protein Secretion Chaperone Csaa
From Agrobacterium Tumefaciens With A Genetically Fused
Phage-Display Derived Peptide Substrate At The
N-Terminus.
pdb|2Q2H|B Chain B, Crystal Structure Of The Protein Secretion Chaperone Csaa
From Agrobacterium Tumefaciens With A Genetically Fused
Phage-Display Derived Peptide Substrate At The
N-Terminus
Length = 131
Score = 31.6 bits (70), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 319 PETKKPRIKIYVD--KETGMKKGDALVTYLKEPSVALATQLLDGTPFRP 365
PE +KP IK+ +D E G+KK A +T P + Q+L F P
Sbjct: 45 PEARKPAIKVKIDFGPEIGIKKSSAQITVHYTPESLVGRQVLGVVNFPP 93
>pdb|2Q2I|A Chain A, Crystal Structure Of The Protein Secretion Chaperone Csaa
From Agrobacterium Tumefaciens.
pdb|2Q2I|B Chain B, Crystal Structure Of The Protein Secretion Chaperone Csaa
From Agrobacterium Tumefaciens
Length = 116
Score = 31.6 bits (70), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 319 PETKKPRIKIYVD--KETGMKKGDALVTYLKEPSVALATQLLDGTPFRP 365
PE +KP IK+ +D E G+KK A +T P + Q+L F P
Sbjct: 30 PEARKPAIKVKIDFGPEIGIKKSSAQITVHYTPESLVGRQVLGVVNFPP 78
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 31.6 bits (70), Expect = 1.0, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 286 KVNTHVYVTGLPDDVTVEEMVEVFSKCGIIKE-----DPETKKPRIKIYVD 331
+VN + + LP +T EEM ++F K G I++ PET+ +Y D
Sbjct: 16 EVNRILMIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYED 66
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 11/69 (15%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
++V GL +D T E + E F G + R +I D+ETG KG V + E
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSV---------RARIVTDRETGSSKGFGFVDFNSEED 66
Query: 351 VALATQLLD 359
A + ++
Sbjct: 67 AKAAKEAME 75
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 30.8 bits (68), Expect = 2.0, Method: Composition-based stats.
Identities = 24/93 (25%), Positives = 40/93 (43%), Gaps = 8/93 (8%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
++V +P + +++ +F + G I E + + D+ TG+ KG A +TY S
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYE--------LTVLKDRLTGLHKGCAFLTYCARDS 69
Query: 351 VALATQLLDGTPFRPDGKIPMSVTQAKFEQKGE 383
A L P P+ V A E +GE
Sbjct: 70 ALKAQSALHEQKTLPGMNRPIQVKPAASEGRGE 102
>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 = 2.0, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 8/70 (11%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
VY+ +P D T E+++++ S G + +K+ D +TG KG A + + S
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVIN--------LKMMFDPQTGRSKGYAFIEFRDLES 57
Query: 351 VALATQLLDG 360
A A + L+G
Sbjct: 58 SASAVRNLNG 67
>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 = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 8/70 (11%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
VY+ +P D T E+++++ S G + +K+ D +TG KG A + + S
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVIN--------LKMMFDPQTGRSKGYAFIEFRDLES 58
Query: 351 VALATQLLDG 360
A A + L+G
Sbjct: 59 SASAVRNLNG 68
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 30.4 bits (67), Expect = 2.4, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 8/70 (11%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
VY+ +P D T E+++++ S G + +K+ D +TG KG A + + S
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVIN--------LKMMFDPQTGRSKGYAFIEFRDLES 56
Query: 351 VALATQLLDG 360
A A + L+G
Sbjct: 57 SASAVRNLNG 66
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 8/73 (10%)
Query: 288 NTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLK 347
N + VT L +D ++ E+F G I RI + DK TG KG A +++ +
Sbjct: 15 NATIRVTNLSEDTRETDLQELFRPFGSIS--------RIYLAKDKTTGQSKGFAFISFHR 66
Query: 348 EPSVALATQLLDG 360
A A + G
Sbjct: 67 REDAARAIAGVSG 79
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 40/95 (42%), Gaps = 16/95 (16%)
Query: 270 VEKKEANKPPDSWFELKVNTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIY 329
++ K KP + F + + ++V LP D+T EEM ++F K G E ++
Sbjct: 6 IDLKNFRKPGEKTFTQR--SRLFVGNLPPDITEEEMRKLFEKYGKAGE----------VF 53
Query: 330 VDKETGMKKGDALVTYLKEPSVALATQLLDGTPFR 364
+ K+ KG + +A LD P R
Sbjct: 54 IHKD----KGFGFIRLETRTLAEIAKVELDNMPLR 84
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 8/67 (11%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
++V G+P + E+ E F K G++ E + + D E +G +T+ E S
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTE--------VVMIYDAEKQRPRGFGFITFEDEQS 64
Query: 351 VALATQL 357
V A +
Sbjct: 65 VDQAVNM 71
>pdb|1GY2|A Chain A, Crystal Structure Of Met148leu Rusticyanin
pdb|1GY2|B Chain B, Crystal Structure Of Met148leu Rusticyanin
Length = 155
Score = 28.9 bits (63), Expect = 6.3, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 320 ETKKPRIKIYVDKETGMKKGDALVTYLKEPSVALATQLLDGTPF 363
E P++K ++K+TG GD VTY + +A +L G PF
Sbjct: 9 EATLPQVKAMLEKDTGKVSGDT-VTYSGKTVHVVAAAVLPGFPF 51
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 28.9 bits (63), Expect = 6.5, Method: Composition-based stats.
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 9/76 (11%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
++++GLP T EE+ E+ G +K+ +++ V G KG A V Y E
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKD--------LRL-VTNRAGKPKGLAYVEYENESQ 70
Query: 351 VALATQLLDGTPFRPD 366
+ A +DG + +
Sbjct: 71 ASQAVMKMDGMTIKEN 86
>pdb|1CUR|A Chain A, Reduced Rusticyanin, Nmr
Length = 155
Score = 28.9 bits (63), Expect = 6.6, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 320 ETKKPRIKIYVDKETGMKKGDALVTYLKEPSVALATQLLDGTPF 363
E P++K ++K+TG GD VTY + +A +L G PF
Sbjct: 9 EATLPQVKAMLEKDTGKVSGDT-VTYSGKTVHVVAAAVLPGFPF 51
>pdb|1E30|A Chain A, Crystal Structure Of The Met148gln Mutant Of Rusticyanin
At 1.5 Angstrom Resolution
pdb|1E30|B Chain B, Crystal Structure Of The Met148gln Mutant Of Rusticyanin
At 1.5 Angstrom Resolution
Length = 155
Score = 28.9 bits (63), Expect = 6.7, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 320 ETKKPRIKIYVDKETGMKKGDALVTYLKEPSVALATQLLDGTPF 363
E P++K ++K+TG GD VTY + +A +L G PF
Sbjct: 9 EATLPQVKAMLEKDTGKVSGDT-VTYSGKTVHVVAAAVLPGFPF 51
>pdb|2CAL|A Chain A, Crystal Structure Of His143met Rusticyanin
Length = 154
Score = 28.9 bits (63), Expect = 6.8, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 320 ETKKPRIKIYVDKETGMKKGDALVTYLKEPSVALATQLLDGTPF 363
E P++K ++K+TG GD VTY + +A +L G PF
Sbjct: 8 EATLPQVKAMLEKDTGKVSGDT-VTYSGKTVHVVAAAVLPGFPF 50
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 8/75 (10%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
+ V LP +T ++ E+ G ++ R + + TG KG Y+K+ S
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLE--------RCFLVYSERTGQSKGYGFAEYMKKDS 149
Query: 351 VALATQLLDGTPFRP 365
A A L G P P
Sbjct: 150 AARAKSDLLGKPLGP 164
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 28.9 bits (63), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 8/75 (10%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
+ V LP +T ++ E+ G ++ R + + TG KG Y+K+ S
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLE--------RCFLVYSERTGQSKGYGFAEYMKKDS 147
Query: 351 VALATQLLDGTPFRP 365
A A L G P P
Sbjct: 148 AARAKSDLLGKPLGP 162
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 28.5 bits (62), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 8/75 (10%)
Query: 291 VYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVTYLKEPS 350
+ V LP +T ++ E+ G ++ R + + TG KG Y+K+ S
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLE--------RCFLVYSERTGQSKGYGFAEYMKKDS 149
Query: 351 VALATQLLDGTPFRP 365
A A L G P P
Sbjct: 150 AARAKSDLLGKPLGP 164
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 28.5 bits (62), Expect = 8.5, Method: Composition-based stats.
Identities = 28/96 (29%), Positives = 43/96 (44%), Gaps = 10/96 (10%)
Query: 285 LKVNTHVYVTGLPDDVTVEEMVEVFSKCGIIKEDPETKKPRIKIYVDKETGMKKGDALVT 344
LK + +YV L T E++ E+FSK G IK +I + +DK G V
Sbjct: 36 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIK--------KIIMGLDKMKKTACGFCFVE 87
Query: 345 YLKEPSVALATQLLDGTPFRPDGKIPMSVTQAKFEQ 380
Y A + ++GT R D +I + A F++
Sbjct: 88 YYSRADAENAMRYINGT--RLDDRIIRTDWDAGFKE 121
>pdb|2DIT|A Chain A, Solution Structure Of The Rrm_1 Domain Of Hiv Tat Specific
Factor 1 Variant
Length = 112
Score = 28.5 bits (62), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 24/44 (54%)
Query: 414 AKLTIPATVILRFMFTPAEMRADENLRSELEADVQEECVKIGPV 457
+++ VI++ MF P + D + +E+ D++ EC K G +
Sbjct: 10 SRMRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQI 53
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.312 0.132 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,123,969
Number of Sequences: 62578
Number of extensions: 577236
Number of successful extensions: 1092
Number of sequences better than 100.0: 72
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 60
Number of HSP's that attempted gapping in prelim test: 1059
Number of HSP's gapped (non-prelim): 84
length of query: 487
length of database: 14,973,337
effective HSP length: 103
effective length of query: 384
effective length of database: 8,527,803
effective search space: 3274676352
effective search space used: 3274676352
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)