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= psy1680
(227 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 110 bits (274), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 52/97 (53%), Positives = 72/97 (74%), Gaps = 1/97 (1%)
Query: 2 GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEF 61
G + K LPTEPPYTA+VGNLP QGD++ F + + SVRLV+DK+TD+FKGFCYVEF
Sbjct: 4 GSSGKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEF 63
Query: 62 VDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKG 98
+V++L++AL DG + D +R+DIA+G++ D G
Sbjct: 64 DEVDSLKEALTYDGALLGD-RSLRVDIAEGRKQDKSG 99
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/43 (58%), Positives = 36/43 (83%)
Query: 183 TLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVD 225
++ SVRLV+DK+TD+FKGFCYVEF +V++L++AL DG + D
Sbjct: 40 SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALLGD 82
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 53/92 (57%), Gaps = 2/92 (2%)
Query: 8 LPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKE-TDRFKGFCYVEFVDVEN 66
LP PPYTAF+GNLP +T+ ++ FF + +VRL ++ +R KGF Y EF + +
Sbjct: 10 LPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEF-EDLD 68
Query: 67 LRQALLKDGRITVDGLQVRLDIADGKRNDNKG 98
+ L ++ ++R+D+AD ++ + G
Sbjct: 69 SLLSALSLNEESLGNKRIRVDVADQAQDKDSG 100
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation
Initiation Factor 4b
Length = 100
Score = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 30/84 (35%), Positives = 49/84 (58%), Gaps = 2/84 (2%)
Query: 8 LPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKE-TDRFKGFCYVEFVDVEN 66
LP PPYTAF+GNLP +T+ ++ FF + +VRL ++ +R KGF Y EF + +
Sbjct: 14 LPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEF-EDLD 72
Query: 67 LRQALLKDGRITVDGLQVRLDIAD 90
+ L ++ ++R+D+AD
Sbjct: 73 SLLSALSLNEESLGNRRIRVDVAD 96
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/84 (36%), Positives = 52/84 (61%), Gaps = 2/84 (2%)
Query: 17 FVGNLPNGITQGDVERFFPEQKLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 75
FVG L + +E+ F + +S V +VKD+ET R +GF +V F ++++ + A++
Sbjct: 16 FVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMN 75
Query: 76 RITVDGLQVRLDIADGKRNDNKGG 99
+VDG Q+R+D A GK +DN+ G
Sbjct: 76 GKSVDGRQIRVDQA-GKSSDNRSG 98
Score = 33.9 bits (76), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%)
Query: 184 LVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDG 226
+ V +VKD+ET R +GF +V F ++++ + A++ +VDG
Sbjct: 39 ISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDG 81
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 14 YTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 72
+ FVG+L IT D++ F P K+ R+VKD T + KG+ +V F + + A++
Sbjct: 16 FHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIV 75
Query: 73 KDGRITVDGLQVRLDIA 89
G + G Q+R + A
Sbjct: 76 HMGGQWLGGRQIRTNWA 92
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 43/81 (53%), Gaps = 1/81 (1%)
Query: 15 TAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 73
+ FVGN+P T+ ++ F E +VS RLV D+ET + KG+ + E+ D E A+
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 74 DGRITVDGLQVRLDIADGKRN 94
G +R+D A ++N
Sbjct: 70 LNGREFSGRALRVDNAASEKN 90
Score = 34.3 bits (77), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 177 MVTEVTTLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 216
+ +EV +VS RLV D+ET + KG+ + E+ D E A+
Sbjct: 28 IFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAM 67
>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 = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 14 YTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 72
+ FVG+L IT D++ F P ++ R+VKD T + KG+ +V F + + A+
Sbjct: 16 FHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 75
Query: 73 KDGRITVDGLQVRLDIA 89
+ G + G Q+R + A
Sbjct: 76 QMGGQWLGGRQIRTNWA 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 = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 32/50 (64%), Gaps = 1/50 (2%)
Query: 15 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVD 63
T +V NLP +T D+ R F + K+V V ++KDK+T + KG ++ F+D
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLD 67
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 43/82 (52%), Gaps = 6/82 (7%)
Query: 10 TEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 69
++P T FV L T+ ++ F V R+V D+ET KGF +V+F E+ +
Sbjct: 12 SQPSKTLFVKGLSEDTTEETLKESF--DGSVRARIVTDRETGSSKGFGFVDFNSEEDAKA 69
Query: 70 A--LLKDGRITVDGLQVRLDIA 89
A ++DG I DG +V LD A
Sbjct: 70 AKEAMEDGEI--DGNKVTLDWA 89
Score = 31.6 bits (70), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 185 VSVRLVKDKETDRFKGFCYVEFVDVENLRQA--LLKDGRI 222
V R+V D+ET KGF +V+F E+ + A ++DG I
Sbjct: 40 VRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEI 79
>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 = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 48/102 (47%), Gaps = 1/102 (0%)
Query: 2 GRNQKTLPTEPPYTAFVGNLPNGITQGDV-ERFFPEQKLVSVRLVKDKETDRFKGFCYVE 60
G + P+ P + +VG+L +T+ + E+F P ++S+R+ +D T R G+ YV
Sbjct: 4 GSMNPSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVN 63
Query: 61 FVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNN 102
F + +AL + G VR+ + + K G N
Sbjct: 64 FQQPADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGN 105
>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 = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 47/97 (48%), Gaps = 1/97 (1%)
Query: 7 TLPTEPPYTAFVGNLPNGITQGDV-ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVE 65
+ P+ P + +VG+L +T+ + E+F P ++S+R+ +D T R G+ YV F
Sbjct: 4 SAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPA 63
Query: 66 NLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNN 102
+ +AL + G VR+ + + K G N
Sbjct: 64 DAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGN 100
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 37/61 (60%), Gaps = 3/61 (4%)
Query: 13 PYTAFVGNLPNGITQGDVER--FFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 70
P +VG+L IT+ D+ R F P ++ S++L+ D ET R KG+ ++ F D E ++A
Sbjct: 26 PMRLYVGSLHFNITE-DMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKA 84
Query: 71 L 71
L
Sbjct: 85 L 85
Score = 32.0 bits (71), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 21/31 (67%)
Query: 186 SVRLVKDKETDRFKGFCYVEFVDVENLRQAL 216
S++L+ D ET R KG+ ++ F D E ++AL
Sbjct: 55 SIQLMMDSETGRSKGYGFITFSDSECAKKAL 85
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 45/79 (56%), Gaps = 2/79 (2%)
Query: 17 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 75
+VGNL T V+ F + K+ +V+L+ D+ET + KGF +VE + E++ +A+ K
Sbjct: 5 YVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAKLD 63
Query: 76 RITVDGLQVRLDIADGKRN 94
G +R+ A+ K++
Sbjct: 64 NTDFMGRTIRVTEANPKKS 82
Score = 26.9 bits (58), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 23/32 (71%), Gaps = 1/32 (3%)
Query: 187 VRLVKDKETDRFKGFCYVEFVDVENLRQALLK 218
V+L+ D+ET + KGF +VE + E++ +A+ K
Sbjct: 31 VKLIYDRETKKPKGFGFVEMQE-ESVSEAIAK 61
>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 = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 15 TAFVGNLPNGITQGDVERFFPEQKLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLK 73
+ +VGN+ G T ++E F V+ V ++ DK + KGF Y+EF D E++R +L
Sbjct: 8 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLAL 67
Query: 74 D 74
D
Sbjct: 68 D 68
Score = 30.4 bits (67), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 187 VRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 219
V ++ DK + KGF Y+EF D E++R +L D
Sbjct: 36 VTILCDKFSGHPKGFAYIEFSDKESVRTSLALD 68
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 36/57 (63%), Gaps = 3/57 (5%)
Query: 17 FVGNLPNGITQGDVER--FFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 71
+VG+L IT+ D+ R F P K+ ++ L+KD +T R KG+ ++ F D E R+AL
Sbjct: 9 YVGSLHFNITE-DMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRAL 64
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 187 VRLVKDKETDRFKGFCYVEFVDVENLRQAL 216
+ L+KD +T R KG+ ++ F D E R+AL
Sbjct: 35 IVLMKDSDTGRSKGYGFITFSDSECARRAL 64
>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 = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 15 TAFVGNLPNGITQGDVERFFPEQKLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLK 73
+ +VGN+ G T ++E F V+ V ++ DK + KGF Y+EF D E++R +L
Sbjct: 7 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLAL 66
Query: 74 D 74
D
Sbjct: 67 D 67
Score = 30.4 bits (67), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 187 VRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 219
V ++ DK + KGF Y+EF D E++R +L D
Sbjct: 35 VTILCDKFSGHPKGFAYIEFSDKESVRTSLALD 67
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 15 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 71
T F L I D+E FF K+ VR++ D+ + R KG YVEF +++++ A+
Sbjct: 27 TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI 84
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%)
Query: 187 VRLVKDKETDRFKGFCYVEFVDVENLRQAL 216
VR++ D+ + R KG YVEF +++++ A+
Sbjct: 55 VRIISDRNSRRSKGIAYVEFCEIQSVPLAI 84
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 41/69 (59%), Gaps = 1/69 (1%)
Query: 26 TQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQV 84
T+ D+ F + + V +V D+++ R +GF +V F +V++ ++A + + +DG ++
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 87
Query: 85 RLDIADGKR 93
R+D + KR
Sbjct: 88 RVDFSITKR 96
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 27/43 (62%)
Query: 184 LVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDG 226
+ V +V D+++ R +GF +V F +V++ ++A + + +DG
Sbjct: 42 IADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDG 84
>pdb|2M2B|A Chain A, Nmr Structure Of The Rrm2 Domain Of The Protein Rbm10 From
Homo Sapiens
Length = 131
Score = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 33/59 (55%), Gaps = 7/59 (11%)
Query: 42 VRLVKDKETDRFKGFCYVEFVDVE-----NLRQALLKDGRITVDGLQVRLDIADGKRND 95
VR++KDK+T +GF +++ +E + QAL +T+DG + ++ A G + D
Sbjct: 55 VRVIKDKQTQLNRGFAFIQLSTIEAAQLLQILQAL--HPPLTIDGKTINVEFAKGSKRD 111
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 7/45 (15%)
Query: 187 VRLVKDKETDRFKGFCYVEFVDVE-----NLRQALLKDGRITVDG 226
VR++KDK+T +GF +++ +E + QAL +T+DG
Sbjct: 55 VRVIKDKQTQLNRGFAFIQLSTIEAAQLLQILQAL--HPPLTIDG 97
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 37/63 (58%)
Query: 31 ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD 90
E F + V +V D+++ R +GF +V F +V++ ++A + + +DG ++R+D +
Sbjct: 65 EVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSI 124
Query: 91 GKR 93
KR
Sbjct: 125 TKR 127
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 27/43 (62%)
Query: 184 LVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDG 226
+ V +V D+++ R +GF +V F +V++ ++A + + +DG
Sbjct: 73 IADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDG 115
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 1/64 (1%)
Query: 9 PTEPPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENL 67
P + F+G LPN + V+ L + LVKD T KG+ + E+VD+
Sbjct: 90 PLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVT 149
Query: 68 RQAL 71
QA+
Sbjct: 150 DQAI 153
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 18/73 (24%)
Query: 17 FVGNLPNGITQGDVERFF------------PEQKLVSVRLVKDKETDRFKGFCYVEFVDV 64
+VGN+P GIT+ + FF P +++V++ +DK F ++EF V
Sbjct: 8 YVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FAFLEFRSV 61
Query: 65 ENLRQALLKDGRI 77
+ QA+ DG I
Sbjct: 62 DETTQAMAFDGII 74
Score = 31.2 bits (69), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 177 MVTEVTTLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 216
++T L + LVKD T KG+ + E+VD+ QA+
Sbjct: 114 LLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 153
>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 = 0.025, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 1/64 (1%)
Query: 9 PTEPPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENL 67
P + F+G LPN + V+ L + LVKD T KG+ + E+VD+
Sbjct: 92 PLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVT 151
Query: 68 RQAL 71
QA+
Sbjct: 152 DQAI 155
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 18/73 (24%)
Query: 17 FVGNLPNGITQGDVERFF------------PEQKLVSVRLVKDKETDRFKGFCYVEFVDV 64
+VGN+P GIT+ + FF P +++V++ +DK F ++EF V
Sbjct: 10 YVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FAFLEFRSV 63
Query: 65 ENLRQALLKDGRI 77
+ QA+ DG I
Sbjct: 64 DETTQAMAFDGII 76
Score = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 177 MVTEVTTLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 216
++T L + LVKD T KG+ + E+VD+ QA+
Sbjct: 116 LLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 155
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 17 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 71
F+G LPN + V+ L + LVKD T KG+ + E+VD+ QA+
Sbjct: 5 FIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60
Score = 30.8 bits (68), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 177 MVTEVTTLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 216
++T L + LVKD T KG+ + E+VD+ QA+
Sbjct: 21 LLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 41/69 (59%), Gaps = 1/69 (1%)
Query: 26 TQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQV 84
T+ D+ F + + V +V D+++ R +GF +V F +V++ ++A + + +DG ++
Sbjct: 25 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 84
Query: 85 RLDIADGKR 93
R+D + KR
Sbjct: 85 RVDFSITKR 93
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 27/43 (62%)
Query: 184 LVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDG 226
+ V +V D+++ R +GF +V F +V++ ++A + + +DG
Sbjct: 39 IADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDG 81
>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 = 34.7 bits (78), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 1/82 (1%)
Query: 9 PTEPPYTAFVGNL-PNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENL 67
P + FVG+L P T F P ++ R+VKD T + KG+ +V F + +
Sbjct: 2 PLGSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDA 61
Query: 68 RQALLKDGRITVDGLQVRLDIA 89
A+ + G + G Q+R + A
Sbjct: 62 ENAIQQMGGQWLGGRQIRTNWA 83
>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 = 34.7 bits (78), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 6 KTLPTEPPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDV 64
T+ + + F+G LPN + V+ L + LVKD T KG+ + E+VD+
Sbjct: 107 STVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDI 166
Query: 65 ENLRQAL 71
QA+
Sbjct: 167 NVTDQAI 173
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 18/73 (24%)
Query: 17 FVGNLPNGITQGDVERFF------------PEQKLVSVRLVKDKETDRFKGFCYVEFVDV 64
+VGN+P GIT+ + FF P +++V++ +DK F ++EF V
Sbjct: 8 YVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FAFLEFRSV 61
Query: 65 ENLRQALLKDGRI 77
+ QA+ DG I
Sbjct: 62 DETTQAMAFDGII 74
Score = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 177 MVTEVTTLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 216
++T L + LVKD T KG+ + E+VD+ QA+
Sbjct: 134 LLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 34.3 bits (77), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 18/84 (21%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 15 TAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 74
T + NL T+ ++ F + + V + + KG+ ++EF E+ ++AL
Sbjct: 17 TLVLSNLSYSATEETLQEVFEKATFIKV---PQNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 75 GRITVDGLQVRLDIADGKRNDNKG 98
+ ++G +RL++ + + N G
Sbjct: 74 NKREIEGRAIRLELQGPRGSPNSG 97
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 24/36 (66%)
Query: 183 TLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 218
T++SV++++++ T G+C+VEF D+ + L K
Sbjct: 36 TVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 17 FVGNLPNGITQGDVERFFPE--QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 73
++G+L + + + R F + ++SV++++++ T G+C+VEF D+ + L K
Sbjct: 13 WMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 46/79 (58%), Gaps = 8/79 (10%)
Query: 17 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-D 74
+VGNL N + ++ER F L SV + ++ GF +VEF D + A+ + D
Sbjct: 77 YVGNLGNNGNKTELERAFGYYGPLRSVWVARNP-----PGFAFVEFEDPRDAADAVRELD 131
Query: 75 GRITVDGLQVRLDIADGKR 93
GR T+ G +VR+++++G++
Sbjct: 132 GR-TLCGCRVRVELSNGEK 149
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 18/73 (24%)
Query: 17 FVGNLPNGITQGDVERFF------------PEQKLVSVRLVKDKETDRFKGFCYVEFVDV 64
+VGN+P GIT+ + FF P +++V++ +DK F ++EF V
Sbjct: 5 YVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FAFLEFRSV 58
Query: 65 ENLRQALLKDGRI 77
+ QA+ DG I
Sbjct: 59 DETTQAMAFDGII 71
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af
Large Subunit
Length = 87
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 18/73 (24%)
Query: 17 FVGNLPNGITQGDVERFF------------PEQKLVSVRLVKDKETDRFKGFCYVEFVDV 64
+VGN+P GIT+ + FF P +++V++ +DK F ++EF V
Sbjct: 10 YVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN------FAFLEFRSV 63
Query: 65 ENLRQALLKDGRI 77
+ QA+ DG I
Sbjct: 64 DETTQAMAFDGII 76
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor
9g8
Length = 101
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 43/77 (55%), Gaps = 8/77 (10%)
Query: 17 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-D 74
+VGNL G +G++ER F L +V + ++ GF +VEF D + A+ D
Sbjct: 4 YVGNLGTGAGKGELERAFSYYGPLRTVWIARNP-----PGFAFVEFEDPRDAEDAVRGLD 58
Query: 75 GRITVDGLQVRLDIADG 91
G++ + G +VR++++ G
Sbjct: 59 GKV-ICGSRVRVELSTG 74
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain
Of Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain
Of Xenopus Laevis Epabp2
Length = 124
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 15 TAFVGNLPNGITQGDVERFFPEQKLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLK 73
+ +VGN+ G T D+E F ++ + ++ DK + KG+ Y+EF + ++ A+
Sbjct: 38 SVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAM 97
Query: 74 D 74
D
Sbjct: 98 D 98
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 45/79 (56%), Gaps = 8/79 (10%)
Query: 17 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-D 74
+VGNL N + ++ER F L SV + ++ GF +VEF D + A+ D
Sbjct: 77 YVGNLGNNGNKTELERAFGYYGPLRSVWVARNP-----PGFAFVEFEDPRDAADAVRDLD 131
Query: 75 GRITVDGLQVRLDIADGKR 93
GR T+ G +VR+++++G++
Sbjct: 132 GR-TLCGCRVRVELSNGEK 149
>pdb|2DGW|A Chain A, Solution Structure Of The Second Rna Recognition Motif
In Rna-Binding Protein 19
Length = 91
Score = 32.0 bits (71), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 22 PNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 71
P +T+ +V F K V++R+V++ ++ G+ +V+F + E ++QAL
Sbjct: 19 PFNVTEKNVMEFLAPLKPVAIRIVRNAHGNK-TGYIFVDFSNEEEVKQAL 67
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 17 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 75
FVG L TQ + +F + ++V ++KDK T++ +GF +V+F D N +L
Sbjct: 20 FVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKD-PNCVGTVLASR 78
Query: 76 RITVDG 81
T+DG
Sbjct: 79 PHTLDG 84
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 39/79 (49%), Gaps = 4/79 (5%)
Query: 17 FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 75
++ L G T D+ + P K+VS + + DK T++ KG+ +V+F ++A+
Sbjct: 9 YIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVT--- 65
Query: 76 RITVDGLQVRLDIADGKRN 94
+ G+Q ++ G +
Sbjct: 66 ALKASGVQAQMAKQSGPSS 84
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 2/82 (2%)
Query: 17 FVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGR 76
+VGNLP I D+E F K ++R + K F +VEF D + A+
Sbjct: 26 YVGNLPPDIRTKDIEDVF--YKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDG 83
Query: 77 ITVDGLQVRLDIADGKRNDNKG 98
DG ++R++ R G
Sbjct: 84 YDYDGYRLRVEFPRSGRGTGSG 105
>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 = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 11/40 (27%), Positives = 27/40 (67%)
Query: 177 MVTEVTTLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 216
+ + V +++++++ D +T R KG+ ++EF D+E+ A+
Sbjct: 24 LCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 63
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 12 PPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 70
P ++G++P T+ + +++++++ D +T R KG+ ++EF D+E+ A
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 62
Query: 71 L 71
+
Sbjct: 63 V 63
>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 = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 11/40 (27%), Positives = 27/40 (67%)
Query: 177 MVTEVTTLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 216
+ + V +++++++ D +T R KG+ ++EF D+E+ A+
Sbjct: 23 LCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 62
Score = 30.0 bits (66), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 12 PPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 70
P ++G++P T+ + +++++++ D +T R KG+ ++EF D+E+ A
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 61
Query: 71 L 71
+
Sbjct: 62 V 62
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 31.6 bits (70), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 33/56 (58%)
Query: 31 ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRL 86
E F + V +V D+++ R +GF +V F +V++ ++A + + +DG ++R+
Sbjct: 34 EVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV 89
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 30/50 (60%)
Query: 177 MVTEVTTLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDG 226
+ ++ + V +V D+++ R +GF +V F +V++ ++A + + +DG
Sbjct: 35 VFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDG 84
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 31.6 bits (70), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 42/85 (49%), Gaps = 1/85 (1%)
Query: 15 TAFVGNLPNGITQGDV-ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 73
T +VG L +++ + E F +V+ + KD+ T + +G+ +VEF+ E+ A+
Sbjct: 17 TVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKI 76
Query: 74 DGRITVDGLQVRLDIADGKRNDNKG 98
I + G +R++ A + G
Sbjct: 77 MDMIKLYGKPIRVNKASAHNKNLSG 101
>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 = 31.2 bits (69), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 7/73 (9%)
Query: 17 FVGNLPNGITQGDVERFFPEQKLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 75
F+ LP T+ ++E V +RLV ++ + KG YVE+ + QA++K
Sbjct: 21 FISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMK-- 77
Query: 76 RITVDGLQVRLDI 88
+DG+ ++ +I
Sbjct: 78 ---MDGMTIKENI 87
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 31.2 bits (69), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 11/40 (27%), Positives = 27/40 (67%)
Query: 177 MVTEVTTLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 216
+ + V +++++++ D +T R KG+ ++EF D+E+ A+
Sbjct: 22 LCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 12 PPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 70
P ++G++P T+ + +++++++ D +T R KG+ ++EF D+E+ A
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 71 L 71
+
Sbjct: 61 V 61
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 31.2 bits (69), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 18 VGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGR 76
V NL + D++ F P + + L KDK T + KGF ++ F E+ +A+
Sbjct: 20 VTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG 79
Query: 77 ITVDGLQVRLDIADGKRNDNKG 98
D L + ++ A K + N G
Sbjct: 80 FGYDHLILNVEWA--KPSTNSG 99
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 31.2 bits (69), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%)
Query: 33 FFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGK 92
F P + +++ D ET++ +GF +VEF E+ A+ + G +R+++A
Sbjct: 33 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKPM 92
Query: 93 RNDNKG 98
R G
Sbjct: 93 RIKESG 98
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 22 PNGITQGDVERFFPEQKLV--SVRLVKDKETDRFKGFCYVEF---VDVENLRQALLK-DG 75
P+ + + P L ++RL+KDK+T + +GF +V+ +D L Q L
Sbjct: 19 PHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHP 78
Query: 76 RITVDGLQVRLDIA 89
+ +DG + +D A
Sbjct: 79 PLKIDGKTIGVDFA 92
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 187 VRLVKDKETDRFKGFCYVEF---VDVENLRQAL 216
+RL+KDK+T + +GF +V+ +D L Q L
Sbjct: 41 IRLIKDKQTQQNRGFAFVQLSSAMDASQLLQIL 73
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 30.8 bits (68), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 6/82 (7%)
Query: 17 FVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGR 76
FVG +T+ ++ FF + V + F+ F +V F D + + Q+L +
Sbjct: 9 FVGRCTGDMTEDELREFFSQYGDVMDVFIPKP----FRAFAFVTFAD-DQIAQSLCGEDL 63
Query: 77 ITVDGLQVRLDIADGKRNDNKG 98
I + G+ V + A+ K N N G
Sbjct: 64 I-IKGISVHISNAEPKHNSNSG 84
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 17 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEF 61
++ LP +TQ DVE F ++++ R++ D+ T +G ++ F
Sbjct: 92 YISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 17 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEF 61
++ LP +TQ DVE F ++++ R++ D+ T +G ++ F
Sbjct: 92 YISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRF 137
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 30/57 (52%)
Query: 33 FFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA 89
F P + +++ D ET++ +GF +VEF E+ A+ + G +R+++A
Sbjct: 26 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 82
>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 = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 30/57 (52%)
Query: 33 FFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA 89
F P + +++ D ET++ +GF +VEF E+ A+ + G +R+++A
Sbjct: 28 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 84
>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 = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 21 LPNGITQGDVERFFPEQKLVS--VRLVKDKETDRFKGFCYVEFVDVENL-RQALLKDGRI 77
LP T+ D+ + + VRL+++K + + +GF +VEF +++ R +
Sbjct: 9 LPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSL 68
Query: 78 TVDGLQVRLDIADGKRNDNK 97
+ G +V + +D K N+
Sbjct: 69 NILGQKVSMHYSDPKPKINE 88
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 27/41 (65%), Gaps = 3/41 (7%)
Query: 31 ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 71
ER+ P + SV++V D+ET + +G+ +V+F + +QA+
Sbjct: 64 ERYGP---IESVKIVCDRETRQSRGYGFVKFQSGSSAQQAI 101
>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 = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 17 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 71
V LP +TQ + F ++ S +LV+DK T + G+ +V ++D ++ +A+
Sbjct: 6 IVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 17 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEF 61
+V LP +TQ ++E+ F + ++++ R++ D+ T +G ++ F
Sbjct: 92 YVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRF 137
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 29.3 bits (64), Expect = 2.0, Method: Composition-based stats.
Identities = 15/58 (25%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 17 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 73
FVG L + + +F ++ S+ L D +T++ +GFC++ F + E +++ + K
Sbjct: 3 FVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60
Score = 27.3 bits (59), Expect = 7.5, Method: Composition-based stats.
Identities = 10/33 (30%), Positives = 22/33 (66%)
Query: 186 SVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 218
S+ L D +T++ +GFC++ F + E +++ + K
Sbjct: 28 SIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60
>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 = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 30/57 (52%)
Query: 33 FFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA 89
F P + +++ D ET++ +GF +VEF E+ A+ + G +R+++A
Sbjct: 23 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 79
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 30/57 (52%)
Query: 33 FFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA 89
F P + +++ D ET++ +GF +VEF E+ A+ + G +R+++A
Sbjct: 84 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 140
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 17 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEF 61
FVG L T DV+ +F + K+ L+ DK T+R +GF +V F
Sbjct: 3 FVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTF 48
>pdb|3I6X|A Chain A, Crystal Structure Of The Calponin Homology Domain Of
Iqgap1
pdb|3I6X|B Chain B, Crystal Structure Of The Calponin Homology Domain Of
Iqgap1
pdb|3I6X|C Chain C, Crystal Structure Of The Calponin Homology Domain Of
Iqgap1
pdb|3I6X|D Chain D, Crystal Structure Of The Calponin Homology Domain Of
Iqgap1
Length = 193
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 12 PPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKG 55
PP T L NG+ + FF K+VS++ + D+E R+K
Sbjct: 65 PPTTELEEGLRNGVYLAKLGNFF-SPKVVSLKKIYDREQTRYKA 107
>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 = 2.9, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 17 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 70
FVG +P G+ + D++ F E ++ + ++KD+ T KG ++ + ++ +A
Sbjct: 19 FVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKA 73
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 17 FVGNLPNGITQGDVER-FFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 71
F+ +LP T D+ F P ++S ++ DK+T K F +V F + ++ + A+
Sbjct: 44 FIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAI 99
>pdb|2RR8|A Chain A, Solution Structure Of Calponin Homology Domain Of Iqgap1
Length = 190
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 12 PPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKG 55
PP T L NG+ + FF K+VS++ + D+E R+K
Sbjct: 43 PPTTELEEGLRNGVYLAKLGNFF-SPKVVSLKKIYDREQTRYKA 85
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif In Trna Selenocysteine Associated Protein
Length = 104
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 42/88 (47%), Gaps = 8/88 (9%)
Query: 12 PPYTAFVGNLPNGITQGDVERFF----PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENL 67
P Y+ FVG+L + G + FF P + V L +T KG+ +V+F D
Sbjct: 8 PEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVL---DQTGVSKGYGFVKFTDELEQ 64
Query: 68 RQALLK-DGRITVDGLQVRLDIADGKRN 94
++AL + G + + VRL +A K +
Sbjct: 65 KRALTECQGAVGLGSKPVRLSVAIPKAS 92
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 9 PTEPPYTA----FVGNLPNGITQGDVERFF 34
P E YT FVGNLP IT+ D +R F
Sbjct: 14 PGEKTYTQRCRLFVGNLPTDITEEDFKRLF 43
>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 = 27.7 bits (60), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 17 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 73
FVG L + + +F ++ S+ L D +T++ +GFC++ F + E +++ + K
Sbjct: 5 FVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
>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 = 27.3 bits (59), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 46/86 (53%), Gaps = 6/86 (6%)
Query: 17 FVGNLPNGITQGDV-ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL--LK 73
F+ +LP D+ + F P +VS ++ DK+T+ K F +V + + + + A+ +
Sbjct: 29 FIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMN 88
Query: 74 DGRITVDGLQVRLDIADGKRNDNKGG 99
+I + L+V+L + +ND+K G
Sbjct: 89 GFQIGMKRLKVQLKRS---KNDSKSG 111
>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 = 26.9 bits (58), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 2/49 (4%)
Query: 42 VRLVKDKETDRFKGFCYVEFVDVENLRQAL-LKDGRITVDGLQVRLDIA 89
V + +D+ T +GF +V F D + A+ DG + +DG ++R+ +A
Sbjct: 77 VYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAV-LDGRELRVQMA 124
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
0.319 0.140 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,656,883
Number of Sequences: 62578
Number of extensions: 197296
Number of successful extensions: 531
Number of sequences better than 100.0: 84
Number of HSP's better than 100.0 without gapping: 48
Number of HSP's successfully gapped in prelim test: 36
Number of HSP's that attempted gapping in prelim test: 400
Number of HSP's gapped (non-prelim): 160
length of query: 227
length of database: 14,973,337
effective HSP length: 95
effective length of query: 132
effective length of database: 9,028,427
effective search space: 1191752364
effective search space used: 1191752364
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)