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= psy2160
(773 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DIT|A Chain A, Solution Structure Of The Rrm_1 Domain Of Hiv Tat Specific
Factor 1 Variant
Length = 112
Score = 114 bits (286), Expect = 1e-25, Method: Composition-based stats.
Identities = 52/103 (50%), Positives = 74/103 (71%), Gaps = 5/103 (4%)
Query: 338 PDKMRGERSKNESVIIVKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLHDKHP 397
P +MR ER V+I+KN+F P F+ D ++ E ++DLR ECSK G ++K++L D+HP
Sbjct: 9 PSRMRHER-----VVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHP 63
Query: 398 EGVAQIFFKEPEAADACRELLNGRWFGQRQITAETWDGKTRYK 440
+GVA + F++PE AD C + L+GRWFG RQITA+ WDG T Y+
Sbjct: 64 DGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTTDYQ 106
Score = 114 bits (286), Expect = 1e-25, Method: Composition-based stats.
Identities = 52/103 (50%), Positives = 74/103 (71%), Gaps = 5/103 (4%)
Query: 623 PDKMRGERSKNESVIIVKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLHDKHP 682
P +MR ER V+I+KN+F P F+ D ++ E ++DLR ECSK G ++K++L D+HP
Sbjct: 9 PSRMRHER-----VVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHP 63
Query: 683 EGVAQIFFKEPEAADACRELLNGRWFGQRQITAETWDGKTRYK 725
+GVA + F++PE AD C + L+GRWFG RQITA+ WDG T Y+
Sbjct: 64 DGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTTDYQ 106
>pdb|2DNY|A Chain A, Solution Structure Of The Third Rna Binding Domain Of Fbp-
Interacting Repressor, Siahbp1
Length = 119
Score = 52.8 bits (125), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 55/98 (56%), Gaps = 14/98 (14%)
Query: 345 RSKNESVIIVKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLH------DKHPE 398
R + +V++++N+ DP D D+ + ++ EEC K G V +V+++ ++ E
Sbjct: 11 RKQESTVMVLRNMVDPKDIDDDL------EGEVTEECGKFGAVNRVIIYQEKQGEEEDAE 64
Query: 399 GVAQIFFKEPEAADACREL--LNGRWFGQRQITAETWD 434
+ +IF + A++ + + LNGRWF R++ AE +D
Sbjct: 65 IIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD 102
Score = 52.8 bits (125), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 55/98 (56%), Gaps = 14/98 (14%)
Query: 630 RSKNESVIIVKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLH------DKHPE 683
R + +V++++N+ DP D D+ + ++ EEC K G V +V+++ ++ E
Sbjct: 11 RKQESTVMVLRNMVDPKDIDDDL------EGEVTEECGKFGAVNRVIIYQEKQGEEEDAE 64
Query: 684 GVAQIFFKEPEAADACREL--LNGRWFGQRQITAETWD 719
+ +IF + A++ + + LNGRWF R++ AE +D
Sbjct: 65 IIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD 102
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 46/89 (51%)
Query: 498 QENTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTY 557
+N+ +YV L +T ++ + ++CG+V + T Q I +Y D T KGDA +Y
Sbjct: 13 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSY 72
Query: 558 IKKESVDLALSILDGYEIRGKKIKVERAK 586
+ A+ DG + +G K+KV A+
Sbjct: 73 EDPPTAKAAVEWFDGKDFQGSKLKVSLAR 101
Score = 49.3 bits (116), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 46/89 (51%)
Query: 213 EESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTY 272
+++ +YV L +T ++ + ++CG+V + T Q I +Y D T KGDA +Y
Sbjct: 13 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSY 72
Query: 273 IKKESVDLALSILDGYEIRGKKIKVERAK 301
+ A+ DG + +G K+KV A+
Sbjct: 73 EDPPTAKAAVEWFDGKDFQGSKLKVSLAR 101
>pdb|3DXB|A Chain A, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|B Chain B, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|C Chain C, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|D Chain D, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|E Chain E, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|F Chain F, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|G Chain G, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|H Chain H, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
Length = 222
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 53/93 (56%), Gaps = 14/93 (15%)
Query: 350 SVIIVKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLH------DKHPEGVAQI 403
+V++++N+ DP D D+ + ++ EEC K G V +V+++ ++ E + +I
Sbjct: 125 TVMVLRNMVDPKDIDDDL------EGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKI 178
Query: 404 FFKEPEAADACREL--LNGRWFGQRQITAETWD 434
F + A++ + + LNGRWF R++ AE +D
Sbjct: 179 FVEFSIASETHKAIQALNGRWFAGRKVVAEVYD 211
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 53/93 (56%), Gaps = 14/93 (15%)
Query: 635 SVIIVKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLH------DKHPEGVAQI 688
+V++++N+ DP D D+ + ++ EEC K G V +V+++ ++ E + +I
Sbjct: 125 TVMVLRNMVDPKDIDDDL------EGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKI 178
Query: 689 FFKEPEAADACREL--LNGRWFGQRQITAETWD 719
F + A++ + + LNGRWF R++ AE +D
Sbjct: 179 FVEFSIASETHKAIQALNGRWFAGRKVVAEVYD 211
>pdb|3UE2|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 1.23 A Resolution
pdb|3US5|A Chain A, Crystal Structure Of A Rna-Binding Domain Of A Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 1.38 A Resolution
Length = 118
Score = 49.7 bits (117), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 53/98 (54%), Gaps = 14/98 (14%)
Query: 345 RSKNESVIIVKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLH------DKHPE 398
R + +V +++N DP D D+ + ++ EEC K G V +V+++ ++ E
Sbjct: 16 RKQESTVXVLRNXVDPKDIDDDL------EGEVTEECGKFGAVNRVIIYQEKQGEEEDAE 69
Query: 399 GVAQIFFKEPEAADACREL--LNGRWFGQRQITAETWD 434
+ +IF + A++ + + LNGRWF R++ AE +D
Sbjct: 70 IIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD 107
Score = 49.7 bits (117), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 53/98 (54%), Gaps = 14/98 (14%)
Query: 630 RSKNESVIIVKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLH------DKHPE 683
R + +V +++N DP D D+ + ++ EEC K G V +V+++ ++ E
Sbjct: 16 RKQESTVXVLRNXVDPKDIDDDL------EGEVTEECGKFGAVNRVIIYQEKQGEEEDAE 69
Query: 684 GVAQIFFKEPEAADACREL--LNGRWFGQRQITAETWD 719
+ +IF + A++ + + LNGRWF R++ AE +D
Sbjct: 70 IIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD 107
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 42/88 (47%)
Query: 498 QENTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTY 557
+N ++V L ++T E + ++ G++ + T Q I LYTD T KG+A ++
Sbjct: 5 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSF 64
Query: 558 IKKESVDLALSILDGYEIRGKKIKVERA 585
S A+ DG E G IKV A
Sbjct: 65 DDPPSAKAAIDWFDGKEFSGNPIKVSFA 92
Score = 46.2 bits (108), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 42/87 (48%)
Query: 214 ESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 273
++ ++V L ++T E + ++ G++ + T Q I LYTD T KG+A ++
Sbjct: 6 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFD 65
Query: 274 KKESVDLALSILDGYEIRGKKIKVERA 300
S A+ DG E G IKV A
Sbjct: 66 DPPSAKAAIDWFDGKEFSGNPIKVSFA 92
>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 = 47.8 bits (112), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 42/87 (48%)
Query: 499 ENTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 558
+N ++V L ++T E + ++ G++ + T Q I LYTD T KG+A ++
Sbjct: 12 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFD 71
Query: 559 KKESVDLALSILDGYEIRGKKIKVERA 585
S A+ DG E G IKV A
Sbjct: 72 DPPSAKAAIDWFDGKEFSGNPIKVSFA 98
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 42/87 (48%)
Query: 214 ESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 273
++ ++V L ++T E + ++ G++ + T Q I LYTD T KG+A ++
Sbjct: 12 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFD 71
Query: 274 KKESVDLALSILDGYEIRGKKIKVERA 300
S A+ DG E G IKV A
Sbjct: 72 DPPSAKAAIDWFDGKEFSGNPIKVSFA 98
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 38.9 bits (89), Expect = 0.011, Method: Composition-based stats.
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 8/89 (8%)
Query: 497 AQENTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCT 556
A + VYVSNLP LT + + K G V +K+ + D T+ KG A
Sbjct: 13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKV--------VKVTIMKDKDTRKSKGVAFIL 64
Query: 557 YIKKESVDLALSILDGYEIRGKKIKVERA 585
++ K+S ++ ++ G+ IK A
Sbjct: 65 FLDKDSAQNCTRAINNKQLFGRVIKASIA 93
Score = 38.1 bits (87), Expect = 0.021, Method: Composition-based stats.
Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 8/90 (8%)
Query: 211 IGEESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALC 270
+ + VYVSNLP LT + + K G V +K+ + D T+ KG A
Sbjct: 12 LAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKV--------VKVTIMKDKDTRKSKGVAFI 63
Query: 271 TYIKKESVDLALSILDGYEIRGKKIKVERA 300
++ K+S ++ ++ G+ IK A
Sbjct: 64 LFLDKDSAQNCTRAINNKQLFGRVIKASIA 93
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 38.1 bits (87), Expect = 0.017, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 41/83 (49%), Gaps = 8/83 (9%)
Query: 218 VYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKES 277
V+V N+P + T+E+ ++ + G V+ +L D T KG C Y +E+
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVS--------FRLVYDRETGKPKGYGFCEYQDQET 62
Query: 278 VDLALSILDGYEIRGKKIKVERA 300
A+ L+G E G+ ++V+ A
Sbjct: 63 ALSAMRNLNGREFSGRALRVDNA 85
Score = 38.1 bits (87), Expect = 0.017, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 41/83 (49%), Gaps = 8/83 (9%)
Query: 503 VYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKES 562
V+V N+P + T+E+ ++ + G V+ +L D T KG C Y +E+
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVS--------FRLVYDRETGKPKGYGFCEYQDQET 62
Query: 563 VDLALSILDGYEIRGKKIKVERA 585
A+ L+G E G+ ++V+ A
Sbjct: 63 ALSAMRNLNGREFSGRALRVDNA 85
>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 = 36.2 bits (82), Expect = 0.062, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 41/82 (50%), Gaps = 8/82 (9%)
Query: 215 STKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIK 274
S VY+ ++P D T+E+ +++ G V+ +K+ DP T KG A +
Sbjct: 4 SRVVYLGSIPYDQTEEQILDLCSNVGPVIN--------LKMMFDPQTGRSKGYAFIEFRD 55
Query: 275 KESVDLALSILDGYEIRGKKIK 296
ES A+ L+GY++ + +K
Sbjct: 56 LESSASAVRNLNGYQLGSRFLK 77
Score = 36.2 bits (82), Expect = 0.073, Method: Composition-based stats.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 8/79 (10%)
Query: 503 VYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKES 562
VY+ ++P D T+E+ +++ G V+ +K+ DP T KG A + ES
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVIN--------LKMMFDPQTGRSKGYAFIEFRDLES 58
Query: 563 VDLALSILDGYEIRGKKIK 581
A+ L+GY++ + +K
Sbjct: 59 SASAVRNLNGYQLGSRFLK 77
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 36.2 bits (82), Expect = 0.062, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 41/82 (50%), Gaps = 8/82 (9%)
Query: 215 STKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIK 274
S VY+ ++P D T+E+ +++ G V+ +K+ DP T KG A +
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPVIN--------LKMMFDPQTGRSKGYAFIEFRD 53
Query: 275 KESVDLALSILDGYEIRGKKIK 296
ES A+ L+GY++ + +K
Sbjct: 54 LESSASAVRNLNGYQLGSRFLK 75
Score = 36.2 bits (82), Expect = 0.073, Method: Composition-based stats.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 8/79 (10%)
Query: 503 VYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKES 562
VY+ ++P D T+E+ +++ G V+ +K+ DP T KG A + ES
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVIN--------LKMMFDPQTGRSKGYAFIEFRDLES 56
Query: 563 VDLALSILDGYEIRGKKIK 581
A+ L+GY++ + +K
Sbjct: 57 SASAVRNLNGYQLGSRFLK 75
>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 = 36.2 bits (82), Expect = 0.062, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 41/82 (50%), Gaps = 8/82 (9%)
Query: 215 STKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIK 274
S VY+ ++P D T+E+ +++ G V+ +K+ DP T KG A +
Sbjct: 3 SRVVYLGSIPYDQTEEQILDLCSNVGPVIN--------LKMMFDPQTGRSKGYAFIEFRD 54
Query: 275 KESVDLALSILDGYEIRGKKIK 296
ES A+ L+GY++ + +K
Sbjct: 55 LESSASAVRNLNGYQLGSRFLK 76
Score = 36.2 bits (82), Expect = 0.073, Method: Composition-based stats.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 8/79 (10%)
Query: 503 VYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKES 562
VY+ ++P D T+E+ +++ G V+ +K+ DP T KG A + ES
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVIN--------LKMMFDPQTGRSKGYAFIEFRDLES 57
Query: 563 VDLALSILDGYEIRGKKIK 581
A+ L+GY++ + +K
Sbjct: 58 SASAVRNLNGYQLGSRFLK 76
>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 = 36.2 bits (82), Expect = 0.063, Method: Composition-based stats.
Identities = 32/126 (25%), Positives = 55/126 (43%), Gaps = 10/126 (7%)
Query: 175 VEEKSVDATAPMENPKAEEKVVPGQKRKPEPPKWFDIGEESTKVYVSNLPLDLTQEEFVE 234
+E +SVD T + + + GQ K P + + K+++ LP L ++ E
Sbjct: 58 LEFRSVDETT--QAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKE 115
Query: 235 VMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKESVDLALSILDGYEIRGKK 294
++ G + L D T KG A C Y+ D A++ L+G ++ KK
Sbjct: 116 LLTSFGPLKA--------FNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKK 167
Query: 295 IKVERA 300
+ V+RA
Sbjct: 168 LLVQRA 173
Score = 34.3 bits (77), Expect = 0.26, Method: Composition-based stats.
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 8/84 (9%)
Query: 502 KVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKE 561
K+++ LP L ++ E++ G + L D T KG A C Y+
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKA--------FNLVKDSATGLSKGYAFCEYVDIN 149
Query: 562 SVDLALSILDGYEIRGKKIKVERA 585
D A++ L+G ++ KK+ V+RA
Sbjct: 150 VTDQAIAGLNGMQLGDKKLLVQRA 173
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 36.2 bits (82), Expect = 0.063, Method: Composition-based stats.
Identities = 32/126 (25%), Positives = 55/126 (43%), Gaps = 10/126 (7%)
Query: 175 VEEKSVDATAPMENPKAEEKVVPGQKRKPEPPKWFDIGEESTKVYVSNLPLDLTQEEFVE 234
+E +SVD T + + + GQ K P + + K+++ LP L ++ E
Sbjct: 56 LEFRSVDETT--QAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKE 113
Query: 235 VMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKESVDLALSILDGYEIRGKK 294
++ G + L D T KG A C Y+ D A++ L+G ++ KK
Sbjct: 114 LLTSFGPLKA--------FNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKK 165
Query: 295 IKVERA 300
+ V+RA
Sbjct: 166 LLVQRA 171
Score = 34.3 bits (77), Expect = 0.26, Method: Composition-based stats.
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 8/84 (9%)
Query: 502 KVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKE 561
K+++ LP L ++ E++ G + L D T KG A C Y+
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKA--------FNLVKDSATGLSKGYAFCEYVDIN 147
Query: 562 SVDLALSILDGYEIRGKKIKVERA 585
D A++ L+G ++ KK+ V+RA
Sbjct: 148 VTDQAIAGLNGMQLGDKKLLVQRA 171
>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 = 0.093, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 8/86 (9%)
Query: 216 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 275
T + V+ LP ++TQEEF + G + KL D T G YI
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIES--------CKLVRDKITGQSLGYGFVNYIDP 54
Query: 276 ESVDLALSILDGYEIRGKKIKVERAK 301
+ + A++ L+G ++ K IKV A+
Sbjct: 55 KDAEKAINTLNGLRLQTKTIKVSYAR 80
Score = 35.8 bits (81), Expect = 0.093, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 8/86 (9%)
Query: 501 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 560
T + V+ LP ++TQEEF + G + KL D T G YI
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIES--------CKLVRDKITGQSLGYGFVNYIDP 54
Query: 561 ESVDLALSILDGYEIRGKKIKVERAK 586
+ + A++ L+G ++ K IKV A+
Sbjct: 55 KDAEKAINTLNGLRLQTKTIKVSYAR 80
>pdb|2LQ5|A Chain A, Nmr Structure Of The Rna Binding Motif 39 (Rbm39) From Mus
Musculus
Length = 113
Score = 35.8 bits (81), Expect = 0.10, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 42/79 (53%), Gaps = 5/79 (6%)
Query: 354 VKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLHDKHPEGVAQIFFKEPEAADA 413
+ N+F+P +++V E + D+ EEC+K G V + + +G ++ K P A A
Sbjct: 11 LSNMFNPQT-EEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSAQG--NVYVKCPSIAAA 67
Query: 414 CREL--LNGRWFGQRQITA 430
+ L+GRWF + ITA
Sbjct: 68 IAAVNALHGRWFAGKMITA 86
Score = 35.8 bits (81), Expect = 0.10, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 42/79 (53%), Gaps = 5/79 (6%)
Query: 639 VKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLHDKHPEGVAQIFFKEPEAADA 698
+ N+F+P +++V E + D+ EEC+K G V + + +G ++ K P A A
Sbjct: 11 LSNMFNPQT-EEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSAQG--NVYVKCPSIAAA 67
Query: 699 CREL--LNGRWFGQRQITA 715
+ L+GRWF + ITA
Sbjct: 68 IAAVNALHGRWFAGKMITA 86
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 35.4 bits (80), Expect = 0.12, Method: Composition-based stats.
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 8/89 (8%)
Query: 213 EESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTY 272
+ T + V+ LP ++TQ+EF + G D+++ KL D T G Y
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSIG----DIES----CKLVRDKITGQSLGYGFVNY 53
Query: 273 IKKESVDLALSILDGYEIRGKKIKVERAK 301
D A++ L+G +++ K IKV A+
Sbjct: 54 SDPNDADKAINTLNGLKLQTKTIKVSYAR 82
Score = 35.0 bits (79), Expect = 0.17, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 8/86 (9%)
Query: 501 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 560
T + V+ LP ++TQ+EF + G D+++ KL D T G Y
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIG----DIES----CKLVRDKITGQSLGYGFVNYSDP 56
Query: 561 ESVDLALSILDGYEIRGKKIKVERAK 586
D A++ L+G +++ K IKV A+
Sbjct: 57 NDADKAINTLNGLKLQTKTIKVSYAR 82
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 35.4 bits (80), Expect = 0.12, Method: Composition-based stats.
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 8/89 (8%)
Query: 213 EESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTY 272
+ T + V+ LP ++TQ+EF + G D+++ KL D T G Y
Sbjct: 2 DSKTNLIVNYLPQNMTQDEFKSLFGSIG----DIES----CKLVRDKITGQSLGYGFVNY 53
Query: 273 IKKESVDLALSILDGYEIRGKKIKVERAK 301
D A++ L+G +++ K IKV A+
Sbjct: 54 SDPNDADKAINTLNGLKLQTKTIKVSYAR 82
Score = 35.0 bits (79), Expect = 0.17, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 8/86 (9%)
Query: 501 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 560
T + V+ LP ++TQ+EF + G D+++ KL D T G Y
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIG----DIES----CKLVRDKITGQSLGYGFVNYSDP 56
Query: 561 ESVDLALSILDGYEIRGKKIKVERAK 586
D A++ L+G +++ K IKV A+
Sbjct: 57 NDADKAINTLNGLKLQTKTIKVSYAR 82
>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 = 35.4 bits (80), Expect = 0.14, Method: Composition-based stats.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 8/95 (8%)
Query: 211 IGEESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALC 270
+ + + K+++ LP L ++ E++ G + L D T KG A C
Sbjct: 110 VPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKA--------FNLVKDSATGLSKGYAFC 161
Query: 271 TYIKKESVDLALSILDGYEIRGKKIKVERAKFTMK 305
Y+ D A++ L+G ++ KK+ V+RA K
Sbjct: 162 EYVDINVTDQAIAGLNGMQLGDKKLLVQRASVGAK 196
Score = 34.7 bits (78), Expect = 0.20, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 40/89 (44%), Gaps = 8/89 (8%)
Query: 502 KVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKE 561
K+++ LP L ++ E++ G + L D T KG A C Y+
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKA--------FNLVKDSATGLSKGYAFCEYVDIN 167
Query: 562 SVDLALSILDGYEIRGKKIKVERAKFTMK 590
D A++ L+G ++ KK+ V+RA K
Sbjct: 168 VTDQAIAGLNGMQLGDKKLLVQRASVGAK 196
>pdb|2PE8|A Chain A, Crystal Structure Of The Uhm Domain Of Human Spf45 (free
Form)
pdb|2PEH|A Chain A, Crystal Structure Of The Uhm Domain Of Human Spf45 In
Complex With Sf3b155-Ulm5
pdb|2PEH|B Chain B, Crystal Structure Of The Uhm Domain Of Human Spf45 In
Complex With Sf3b155-Ulm5
Length = 105
Score = 35.0 bits (79), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 55/102 (53%), Gaps = 12/102 (11%)
Query: 351 VIIVKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLHD--KHPEGVA-QIF--F 405
V++++N+ D+D+ + + +EEC K G V K V+ + P+ A +IF F
Sbjct: 10 VVLLRNMVGAGEVDEDL------EVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEF 63
Query: 406 KEPEAADACRELLNGRWFGQRQITAETWDGKTRYKIQETAEE 447
+ E+A LNGR+FG R + A ++ ++++ + AE+
Sbjct: 64 ERVESAIKAVVDLNGRYFGGRVVKACFYN-LDKFRVLDLAEQ 104
Score = 35.0 bits (79), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 55/102 (53%), Gaps = 12/102 (11%)
Query: 636 VIIVKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLHD--KHPEGVA-QIF--F 690
V++++N+ D+D+ + + +EEC K G V K V+ + P+ A +IF F
Sbjct: 10 VVLLRNMVGAGEVDEDL------EVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEF 63
Query: 691 KEPEAADACRELLNGRWFGQRQITAETWDGKTRYKIQETAEE 732
+ E+A LNGR+FG R + A ++ ++++ + AE+
Sbjct: 64 ERVESAIKAVVDLNGRYFGGRVVKACFYN-LDKFRVLDLAEQ 104
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 34.7 bits (78), Expect = 0.20, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 40/89 (44%), Gaps = 8/89 (8%)
Query: 217 KVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKE 276
K+++ LP L ++ E++ G + L D T KG A C Y+
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKA--------FNLVKDSATGLSKGYAFCEYVDIN 54
Query: 277 SVDLALSILDGYEIRGKKIKVERAKFTMK 305
D A++ L+G ++ KK+ V+RA K
Sbjct: 55 VTDQAIAGLNGMQLGDKKLLVQRASVGAK 83
Score = 34.7 bits (78), Expect = 0.20, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 40/89 (44%), Gaps = 8/89 (8%)
Query: 502 KVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKE 561
K+++ LP L ++ E++ G + L D T KG A C Y+
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKA--------FNLVKDSATGLSKGYAFCEYVDIN 54
Query: 562 SVDLALSILDGYEIRGKKIKVERAKFTMK 590
D A++ L+G ++ KK+ V+RA K
Sbjct: 55 VTDQAIAGLNGMQLGDKKLLVQRASVGAK 83
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 34.3 bits (77), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 45/85 (52%), Gaps = 9/85 (10%)
Query: 216 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 275
K++V +P + + E E +K G+V + V + D + +G T+ +
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVV--------MIYDAEKQRPRGFGFITFEDE 62
Query: 276 ESVDLALSILDGYEIRGKKIKVERA 300
+SVD A++ + ++I GKK++V+RA
Sbjct: 63 QSVDQAVN-MHFHDIMGKKVEVKRA 86
Score = 34.3 bits (77), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 45/85 (52%), Gaps = 9/85 (10%)
Query: 501 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 560
K++V +P + + E E +K G+V + V + D + +G T+ +
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVV--------MIYDAEKQRPRGFGFITFEDE 62
Query: 561 ESVDLALSILDGYEIRGKKIKVERA 585
+SVD A++ + ++I GKK++V+RA
Sbjct: 63 QSVDQAVN-MHFHDIMGKKVEVKRA 86
>pdb|3S6E|A Chain A, Crystal Structure Of A Rna Binding Motif Protein 39
(Rbm39) From Mus Musculus At 0.95 A Resolution
pdb|3S6E|B Chain B, Crystal Structure Of A Rna Binding Motif Protein 39
(Rbm39) From Mus Musculus At 0.95 A Resolution
Length = 114
Score = 33.9 bits (76), Expect = 0.32, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 5/79 (6%)
Query: 354 VKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLHDKHPEGVAQIFFKEPEAADA 413
+ N F+P +++V E + D+ EEC+K G V + + +G ++ K P A A
Sbjct: 12 LSNXFNPQT-EEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSAQG--NVYVKCPSIAAA 68
Query: 414 CREL--LNGRWFGQRQITA 430
+ L+GRWF + ITA
Sbjct: 69 IAAVNALHGRWFAGKXITA 87
Score = 33.9 bits (76), Expect = 0.32, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 5/79 (6%)
Query: 639 VKNLFDPALFDKDVTLILEYQQDLREECSKCGHVKKVVLHDKHPEGVAQIFFKEPEAADA 698
+ N F+P +++V E + D+ EEC+K G V + + +G ++ K P A A
Sbjct: 12 LSNXFNPQT-EEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSAQG--NVYVKCPSIAAA 68
Query: 699 CREL--LNGRWFGQRQITA 715
+ L+GRWF + ITA
Sbjct: 69 IAAVNALHGRWFAGKXITA 87
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical
Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens
At 1.95 A Resolution
Length = 89
Score = 33.5 bits (75), Expect = 0.47, Method: Composition-based stats.
Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 9/84 (10%)
Query: 214 ESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 273
++ +YV N+ T EE CG V ++ + D ++ KG A +
Sbjct: 5 DARSIYVGNVDYGATAEELEAHFHGCGSV--------NRVTILCDKFSGHPKGFAYIEFS 56
Query: 274 KKESVDLALSILDGYEIRGKKIKV 297
KESV +L+ LD RG++IKV
Sbjct: 57 DKESVRTSLA-LDESLFRGRQIKV 79
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 33.1 bits (74), Expect = 0.55, Method: Composition-based stats.
Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 9/84 (10%)
Query: 214 ESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 273
++ +YV N+ T EE CG V ++ + D ++ KG A +
Sbjct: 4 DARSIYVGNVDYGATAEELEAHFHGCGSV--------NRVTILCDKFSGHPKGFAYIEFS 55
Query: 274 KKESVDLALSILDGYEIRGKKIKV 297
KESV +L+ LD RG++IKV
Sbjct: 56 DKESVRTSLA-LDESLFRGRQIKV 78
>pdb|4APO|A Chain A, Aip Tpr Domain In Complex With Human Tomm20 Peptide
pdb|4APO|B Chain B, Aip Tpr Domain In Complex With Human Tomm20 Peptide
Length = 165
Score = 33.1 bits (74), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 8/72 (11%)
Query: 178 KSVDATAPMENPKAEEKVVPGQKRKPEPPKWFDIGEESTKVYVSNLPLDLTQEEFVEVMQ 237
K DA A ++N + +E+ P P+W + ++ T + ++ L EE+ EV+
Sbjct: 36 KYYDAIACLKNLQMKEQ--------PGSPEWIQLDQQITPLLLNYCQCKLVVEEYYEVLD 87
Query: 238 KCGLVMKDVDTN 249
C ++ D N
Sbjct: 88 HCSSILNKYDDN 99
>pdb|4AIF|A Chain A, Aip Tpr Domain In Complex With Human Hsp90 Peptide
pdb|4AIF|B Chain B, Aip Tpr Domain In Complex With Human Hsp90 Peptide
Length = 144
Score = 33.1 bits (74), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 8/72 (11%)
Query: 178 KSVDATAPMENPKAEEKVVPGQKRKPEPPKWFDIGEESTKVYVSNLPLDLTQEEFVEVMQ 237
K DA A ++N + +E+ P P+W + ++ T + ++ L EE+ EV+
Sbjct: 30 KYYDAIACLKNLQMKEQ--------PGSPEWIQLDQQITPLLLNYCQCKLVVEEYYEVLD 81
Query: 238 KCGLVMKDVDTN 249
C ++ D N
Sbjct: 82 HCSSILNKYDDN 93
>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 = 33.1 bits (74), Expect = 0.60, Method: Composition-based stats.
Identities = 23/90 (25%), Positives = 38/90 (42%), Gaps = 8/90 (8%)
Query: 212 GEESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCT 271
G T + V+ LP ++TQ+E + G V KL D G
Sbjct: 1 GPGRTNLIVNYLPQNMTQDELRSLFSSIGEVES--------AKLIRDKVAGHSLGYGFVN 52
Query: 272 YIKKESVDLALSILDGYEIRGKKIKVERAK 301
Y+ + + A++ L+G ++ K IKV A+
Sbjct: 53 YVTAKDAERAINTLNGLRLQSKTIKVSYAR 82
Score = 32.3 bits (72), Expect = 0.94, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 501 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 560
T + V+ LP ++TQ+E + G V KL D G Y+
Sbjct: 5 TNLIVNYLPQNMTQDELRSLFSSIGEVES--------AKLIRDKVAGHSLGYGFVNYVTA 56
Query: 561 ESVDLALSILDGYEIRGKKIKVERAK 586
+ + A++ L+G ++ K IKV A+
Sbjct: 57 KDAERAINTLNGLRLQSKTIKVSYAR 82
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 32.7 bits (73), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 8/90 (8%)
Query: 213 EESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTY 272
E T + V NL + + V +K G V + + D YTK+ +G A +
Sbjct: 68 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGD--------VYIPRDRYTKESRGFAFVRF 119
Query: 273 IKKESVDLALSILDGYEIRGKKIKVERAKF 302
K + A+ +DG + G++++V+ A++
Sbjct: 120 HDKRDAEDAMDAMDGAVLDGRELRVQMARY 149
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 41/87 (47%), Gaps = 8/87 (9%)
Query: 501 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 560
T + V NL + + V +K G V + + D YTK+ +G A + K
Sbjct: 71 TSLKVDNLTYRTSPDTLRRVFEKYGRVGD--------VYIPRDRYTKESRGFAFVRFHDK 122
Query: 561 ESVDLALSILDGYEIRGKKIKVERAKF 587
+ A+ +DG + G++++V+ A++
Sbjct: 123 RDAEDAMDAMDGAVLDGRELRVQMARY 149
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 32.3 bits (72), Expect = 1.0, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 8/73 (10%)
Query: 499 ENTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 558
++T +YV+NLP +T ++ + K G + V N ++ KL P +G A Y
Sbjct: 88 KDTNLYVTNLPRTITDDQLDTIFGKYGSI---VQKNILRDKLTGRP-----RGVAFVRYN 139
Query: 559 KKESVDLALSILD 571
K+E A+S L+
Sbjct: 140 KREEAQEAISALN 152
Score = 31.6 bits (70), Expect = 1.6, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 214 ESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 273
+ T +YV+NLP +T ++ + K G + V N ++ KL P +G A Y
Sbjct: 88 KDTNLYVTNLPRTITDDQLDTIFGKYGSI---VQKNILRDKLTGRP-----RGVAFVRYN 139
Query: 274 KKESVDLALSILD 286
K+E A+S L+
Sbjct: 140 KREEAQEAISALN 152
Score = 30.8 bits (68), Expect = 3.0, Method: Composition-based stats.
Identities = 23/88 (26%), Positives = 41/88 (46%), Gaps = 10/88 (11%)
Query: 500 NTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKI-KLYTDPYTKDFKGDALCTYI 558
NT + V+ LP D+T E + + G + N +I + Y Y+ G A +
Sbjct: 3 NTNLIVNYLPQDMTDRELYALFRAIGPI------NTCRIMRDYKTGYSY---GYAFVDFT 53
Query: 559 KKESVDLALSILDGYEIRGKKIKVERAK 586
+ A+ +L+G +R K++KV A+
Sbjct: 54 SEMDSQRAIKVLNGITVRNKRLKVSYAR 81
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 27/84 (32%), Positives = 40/84 (47%), Gaps = 9/84 (10%)
Query: 499 ENTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 558
E K+++S LP T+EE E+ + G V KD ++L T+ K KG A Y
Sbjct: 16 EKHKLFISGLPFSCTKEELEEICKAHGTV-KD-------LRLVTNRAGKP-KGLAYVEYE 66
Query: 559 KKESVDLALSILDGYEIRGKKIKV 582
+ A+ +DG I+ IKV
Sbjct: 67 NESQASQAVMKMDGMTIKENIIKV 90
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 27/84 (32%), Positives = 40/84 (47%), Gaps = 9/84 (10%)
Query: 214 ESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 273
E K+++S LP T+EE E+ + G V KD ++L T+ K KG A Y
Sbjct: 16 EKHKLFISGLPFSCTKEELEEICKAHGTV-KD-------LRLVTNRAGKP-KGLAYVEYE 66
Query: 274 KKESVDLALSILDGYEIRGKKIKV 297
+ A+ +DG I+ IKV
Sbjct: 67 NESQASQAVMKMDGMTIKENIIKV 90
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 32.0 bits (71), Expect = 1.4, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 216 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 275
T + V+ LP ++TQ+E + G V KL D G Y+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVES--------AKLIRDKVAGHSLGYGFVNYVTA 54
Query: 276 ESVDLALSILDGYEIRGKKIKVERAK 301
+ + A++ L+G ++ K IKV A+
Sbjct: 55 KDAERAINTLNGLRLQSKTIKVSYAR 80
Score = 32.0 bits (71), Expect = 1.4, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 501 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 560
T + V+ LP ++TQ+E + G V KL D G Y+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVES--------AKLIRDKVAGHSLGYGFVNYVTA 54
Query: 561 ESVDLALSILDGYEIRGKKIKVERAK 586
+ + A++ L+G ++ K IKV A+
Sbjct: 55 KDAERAINTLNGLRLQSKTIKVSYAR 80
>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 = 32.0 bits (71), Expect = 1.5, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 216 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 275
T + V+ LP ++TQ+E + G V KL D G Y+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVES--------AKLIRDKVAGHSLGYGFVNYVTA 54
Query: 276 ESVDLALSILDGYEIRGKKIKVERAK 301
+ + A++ L+G ++ K IKV A+
Sbjct: 55 KDAERAINTLNGLRLQSKTIKVSYAR 80
Score = 32.0 bits (71), Expect = 1.5, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 501 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 560
T + V+ LP ++TQ+E + G V KL D G Y+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVES--------AKLIRDKVAGHSLGYGFVNYVTA 54
Query: 561 ESVDLALSILDGYEIRGKKIKVERAK 586
+ + A++ L+G ++ K IKV A+
Sbjct: 55 KDAERAINTLNGLRLQSKTIKVSYAR 80
>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 = 32.0 bits (71), Expect = 1.5, Method: Composition-based stats.
Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 8/90 (8%)
Query: 213 EESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTY 272
E T + V NL + + V +K G V + + D YTK+ +G A +
Sbjct: 45 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGD--------VYIPRDRYTKESRGFAFVRF 96
Query: 273 IKKESVDLALSILDGYEIRGKKIKVERAKF 302
K + A+ +DG + G++++V+ A++
Sbjct: 97 HDKRDAEDAMDAMDGAVLDGRELRVQMARY 126
Score = 31.2 bits (69), Expect = 2.1, Method: Composition-based stats.
Identities = 21/87 (24%), Positives = 41/87 (47%), Gaps = 8/87 (9%)
Query: 501 TKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKK 560
T + V NL + + V +K G V + + D YTK+ +G A + K
Sbjct: 48 TSLKVDNLTYRTSPDTLRRVFEKYGRVGD--------VYIPRDRYTKESRGFAFVRFHDK 99
Query: 561 ESVDLALSILDGYEIRGKKIKVERAKF 587
+ A+ +DG + G++++V+ A++
Sbjct: 100 RDAEDAMDAMDGAVLDGRELRVQMARY 126
>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 = 31.6 bits (70), Expect = 1.6, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 8/73 (10%)
Query: 499 ENTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 558
++T +YV+NLP +T ++ + K G + V N ++ KL P +G A Y
Sbjct: 99 KDTNLYVTNLPRTITDDQLDTIFGKYGSI---VQKNILRDKLTGRP-----RGVAFVRYN 150
Query: 559 KKESVDLALSILD 571
K+E A+S L+
Sbjct: 151 KREEAQEAISALN 163
Score = 31.2 bits (69), Expect = 2.5, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 214 ESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 273
+ T +YV+NLP +T ++ + K G + V N ++ KL P +G A Y
Sbjct: 99 KDTNLYVTNLPRTITDDQLDTIFGKYGSI---VQKNILRDKLTGRP-----RGVAFVRYN 150
Query: 274 KKESVDLALSILD 286
K+E A+S L+
Sbjct: 151 KREEAQEAISALN 163
Score = 28.9 bits (63), Expect = 10.0, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 40/92 (43%), Gaps = 18/92 (19%)
Query: 500 NTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFK-----GDAL 554
NT + V+ LP D T E + + G + N +I +D+K G A
Sbjct: 14 NTNLIVNYLPQDXTDRELYALFRAIGPI------NTCRI-------XRDYKTGYSFGYAF 60
Query: 555 CTYIKKESVDLALSILDGYEIRGKKIKVERAK 586
+ + A+ +L+G +R K++KV A+
Sbjct: 61 VDFTSEXDSQRAIKVLNGITVRNKRLKVSYAR 92
>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 = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 8/73 (10%)
Query: 499 ENTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 558
++T +YV+NLP +T ++ + K G + V N ++ KL P +G A Y
Sbjct: 12 KDTNLYVTNLPRTITDDQLDTIFGKYGSI---VQKNILRDKLTGRP-----RGVAFVRYN 63
Query: 559 KKESVDLALSILD 571
K+E A+S L+
Sbjct: 64 KREEAQEAISALN 76
Score = 30.8 bits (68), Expect = 2.7, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 214 ESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 273
+ T +YV+NLP +T ++ + K G + V N ++ KL P +G A Y
Sbjct: 12 KDTNLYVTNLPRTITDDQLDTIFGKYGSI---VQKNILRDKLTGRP-----RGVAFVRYN 63
Query: 274 KKESVDLALSILD 286
K+E A+S L+
Sbjct: 64 KREEAQEAISALN 76
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 31.2 bits (69), Expect = 2.0, Method: Composition-based stats.
Identities = 18/90 (20%), Positives = 40/90 (44%), Gaps = 8/90 (8%)
Query: 212 GEESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCT 271
G E +++ +LP + T + G N + K++ D T K +
Sbjct: 37 GPEGCNLFIYHLPQEFTDTDLASTFLPFG--------NVISAKVFIDKQTSLSKCFGFVS 88
Query: 272 YIKKESVDLALSILDGYEIRGKKIKVERAK 301
+ +S +A+ ++G+++ K++KV+ K
Sbjct: 89 FDNPDSAQVAIKAMNGFQVGTKRLKVQLKK 118
Score = 29.3 bits (64), Expect = 7.7, Method: Composition-based stats.
Identities = 17/88 (19%), Positives = 39/88 (44%), Gaps = 8/88 (9%)
Query: 499 ENTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 558
E +++ +LP + T + G N + K++ D T K ++
Sbjct: 39 EGCNLFIYHLPQEFTDTDLASTFLPFG--------NVISAKVFIDKQTSLSKCFGFVSFD 90
Query: 559 KKESVDLALSILDGYEIRGKKIKVERAK 586
+S +A+ ++G+++ K++KV+ K
Sbjct: 91 NPDSAQVAIKAMNGFQVGTKRLKVQLKK 118
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 31.2 bits (69), Expect = 2.2, Method: Composition-based stats.
Identities = 23/86 (26%), Positives = 41/86 (47%), Gaps = 16/86 (18%)
Query: 215 STKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIK 274
S+ ++V NLP D T + + +CG V LY D ++ K C +K
Sbjct: 5 SSGIFVRNLPFDFTWKMLKDKFNECGHV------------LYADIKMENGKSKG-CGVVK 51
Query: 275 KESVDL---ALSILDGYEIRGKKIKV 297
ES ++ A +++G ++ G++I V
Sbjct: 52 FESPEVAERACRMMNGMKLSGREIDV 77
Score = 30.4 bits (67), Expect = 3.6, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 32/55 (58%), Gaps = 4/55 (7%)
Query: 377 LREECSKCGHV--KKVVLHDKHPEGVAQIFFKEPEAAD-ACRELLNGRWFGQRQI 428
L+++ ++CGHV + + + +G + F+ PE A+ ACR ++NG R+I
Sbjct: 22 LKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACR-MMNGMKLSGREI 75
Score = 30.4 bits (67), Expect = 3.6, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 32/55 (58%), Gaps = 4/55 (7%)
Query: 662 LREECSKCGHV--KKVVLHDKHPEGVAQIFFKEPEAAD-ACRELLNGRWFGQRQI 713
L+++ ++CGHV + + + +G + F+ PE A+ ACR ++NG R+I
Sbjct: 22 LKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACR-MMNGMKLSGREI 75
Score = 30.0 bits (66), Expect = 5.5, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 16/86 (18%)
Query: 500 NTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIK 559
++ ++V NLP D T + + +CG V LY D ++ K C +K
Sbjct: 5 SSGIFVRNLPFDFTWKMLKDKFNECGHV------------LYADIKMENGKSKG-CGVVK 51
Query: 560 KESVDL---ALSILDGYEIRGKKIKV 582
ES ++ A +++G ++ G++I V
Sbjct: 52 FESPEVAERACRMMNGMKLSGREIDV 77
>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 = 31.2 bits (69), Expect = 2.2, Method: Composition-based stats.
Identities = 22/88 (25%), Positives = 37/88 (42%), Gaps = 8/88 (9%)
Query: 214 ESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 273
+ T + V+ LP + TQ+E + G V KL D G Y+
Sbjct: 18 QGTNLIVNYLPQNXTQDELRSLFSSIGEVES--------AKLIRDKVAGHSLGYGFVNYV 69
Query: 274 KKESVDLALSILDGYEIRGKKIKVERAK 301
+ + A++ L+G ++ K IKV A+
Sbjct: 70 TAKDAERAINTLNGLRLQSKTIKVSYAR 97
Score = 31.2 bits (69), Expect = 2.3, Method: Composition-based stats.
Identities = 22/88 (25%), Positives = 37/88 (42%), Gaps = 8/88 (9%)
Query: 499 ENTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 558
+ T + V+ LP + TQ+E + G V KL D G Y+
Sbjct: 18 QGTNLIVNYLPQNXTQDELRSLFSSIGEVES--------AKLIRDKVAGHSLGYGFVNYV 69
Query: 559 KKESVDLALSILDGYEIRGKKIKVERAK 586
+ + A++ L+G ++ K IKV A+
Sbjct: 70 TAKDAERAINTLNGLRLQSKTIKVSYAR 97
>pdb|1KCS|H Chain H, Crystal Structure Of Antibody Pc282 In Complex With Ps1
Peptide
pdb|1KCV|H Chain H, Crystal Structure Of Antibody Pc282
Length = 217
Score = 31.2 bits (69), Expect = 2.5, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 35/78 (44%), Gaps = 9/78 (11%)
Query: 5 YVHYEGDVAVYTDPQSRQQYTWDNEKNEWKLRQIDYEFDGSNYFYKDKTGTKYK-WDTAS 63
Y+ Y G + +SR T D KN++ L+ D + +Y + GT + W T +
Sbjct: 51 YISYSGSTSYNPSLKSRISITRDTSKNQFFLQLNSVTTDDTATYYCARGGTGFPYWGTGT 110
Query: 64 NSWV-------PSV-PLV 73
N V PSV PLV
Sbjct: 111 NVTVSAASTTAPSVFPLV 128
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 31.2 bits (69), Expect = 2.5, Method: Composition-based stats.
Identities = 23/88 (26%), Positives = 41/88 (46%), Gaps = 10/88 (11%)
Query: 500 NTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKI-KLYTDPYTKDFKGDALCTYI 558
NT + V+ LP D+T E + + G + N +I + Y Y+ G A +
Sbjct: 3 NTNLIVNYLPQDMTDRELYALFRAIGPI------NTCRIMRDYKTGYSY---GYAFVDFT 53
Query: 559 KKESVDLALSILDGYEIRGKKIKVERAK 586
+ A+ +L+G +R K++KV A+
Sbjct: 54 SEMDSQRAIKVLNGITVRNKRLKVSYAR 81
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 30.8 bits (68), Expect = 3.2, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 32/55 (58%), Gaps = 4/55 (7%)
Query: 377 LREECSKCGHV--KKVVLHDKHPEGVAQIFFKEPEAAD-ACRELLNGRWFGQRQI 428
L+++ ++CGHV + + + +G + F+ PE A+ ACR ++NG R+I
Sbjct: 25 LKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACR-MMNGMKLSGREI 78
Score = 30.8 bits (68), Expect = 3.2, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 32/55 (58%), Gaps = 4/55 (7%)
Query: 662 LREECSKCGHV--KKVVLHDKHPEGVAQIFFKEPEAAD-ACRELLNGRWFGQRQI 713
L+++ ++CGHV + + + +G + F+ PE A+ ACR ++NG R+I
Sbjct: 25 LKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACR-MMNGMKLSGREI 78
Score = 30.4 bits (67), Expect = 3.5, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 16/86 (18%)
Query: 215 STKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIK 274
+ +++V NLP D T + + +CG V LY D ++ K C +K
Sbjct: 8 ACQIFVRNLPFDFTWKMLKDKFNECGHV------------LYADIKMENGKSKG-CGVVK 54
Query: 275 KESVDL---ALSILDGYEIRGKKIKV 297
ES ++ A +++G ++ G++I V
Sbjct: 55 FESPEVAERACRMMNGMKLSGREIDV 80
Score = 30.4 bits (67), Expect = 3.7, Method: Composition-based stats.
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 16/84 (19%)
Query: 502 KVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYIKKE 561
+++V NLP D T + + +CG V LY D ++ K C +K E
Sbjct: 10 QIFVRNLPFDFTWKMLKDKFNECGHV------------LYADIKMENGKSKG-CGVVKFE 56
Query: 562 SVDL---ALSILDGYEIRGKKIKV 582
S ++ A +++G ++ G++I V
Sbjct: 57 SPEVAERACRMMNGMKLSGREIDV 80
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 42/87 (48%), Gaps = 14/87 (16%)
Query: 499 ENTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 558
+ ++++V NLP D+T+EE ++ +K G ++ ++ D KG
Sbjct: 21 QRSRLFVGNLPPDITEEEMRKLFEKYG--------KAGEVFIHKD------KGFGFIRLE 66
Query: 559 KKESVDLALSILDGYEIRGKKIKVERA 585
+ ++A LD +RGK+++V A
Sbjct: 67 TRTLAEIAKVELDNMPLRGKQLRVRFA 93
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 42/87 (48%), Gaps = 14/87 (16%)
Query: 214 ESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCTYI 273
+ ++++V NLP D+T+EE ++ +K G ++ ++ D KG
Sbjct: 21 QRSRLFVGNLPPDITEEEMRKLFEKYG--------KAGEVFIHKD------KGFGFIRLE 66
Query: 274 KKESVDLALSILDGYEIRGKKIKVERA 300
+ ++A LD +RGK+++V A
Sbjct: 67 TRTLAEIAKVELDNMPLRGKQLRVRFA 93
>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 = 30.4 bits (67), Expect = 4.3, Method: Composition-based stats.
Identities = 18/87 (20%), Positives = 40/87 (45%), Gaps = 8/87 (9%)
Query: 212 GEESTKVYVSNLPLDLTQEEFVEVMQKCGLVMKDVDTNQMKIKLYTDPYTKDFKGDALCT 271
G E +++ +LP + ++ +++ G N + K++ D T K +
Sbjct: 22 GPEGANLFIYHLPQEFGDQDLLQMFMPFG--------NVVSAKVFIDKQTNLSKCFGFVS 73
Query: 272 YIKKESVDLALSILDGYEIRGKKIKVE 298
Y S A+ ++G++I K++KV+
Sbjct: 74 YDNPVSAQAAIQSMNGFQIGMKRLKVQ 100
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 29.3 bits (64), Expect = 8.4, Method: Composition-based stats.
Identities = 11/31 (35%), Positives = 21/31 (67%)
Query: 498 QENTKVYVSNLPLDLTQEEFVEVMQKCGLVM 528
Q+ T +Y+SNLPL + ++E +++ G V+
Sbjct: 23 QDPTNLYISNLPLSMDEQELENMLKPFGQVI 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
0.315 0.133 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,024,264
Number of Sequences: 62578
Number of extensions: 889312
Number of successful extensions: 2078
Number of sequences better than 100.0: 61
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 45
Number of HSP's that attempted gapping in prelim test: 1948
Number of HSP's gapped (non-prelim): 154
length of query: 773
length of database: 14,973,337
effective HSP length: 106
effective length of query: 667
effective length of database: 8,340,069
effective search space: 5562826023
effective search space used: 5562826023
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.8 bits)