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= psy1185
(131 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DIS|A Chain A, Solution Structure Of The Rrm Domain Of Unnamed Protein
Product
Length = 109
Score = 80.1 bits (196), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 32/69 (46%), Positives = 51/69 (73%)
Query: 56 GLSQVIIYSSPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRLKVWGCDIIVDWADPQEE 115
G+ VI+Y+S D KNRGF F+EY+SH++A++A+++L GR+++WG I VDWA+P+ +
Sbjct: 35 GVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWAEPEID 94
Query: 116 PDTETMSKV 124
D + M V
Sbjct: 95 VDEDVMETV 103
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 77.4 bits (189), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 36/80 (45%), Positives = 55/80 (68%), Gaps = 9/80 (11%)
Query: 1 MSKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAIT------- 53
M+KVKVL+VRNL TEE L++AF Q+G++ERVK++KDYAF+HF++R A+
Sbjct: 8 MAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKDYAFIHFDERDGAVKAMEEMNG 67
Query: 54 --VTGLSQVIIYSSPDDNKK 71
+ G + I+++ P D K+
Sbjct: 68 KDLEGENIEIVFAKPPDQKR 87
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 75.9 bits (185), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 32/52 (61%), Positives = 44/52 (84%)
Query: 1 MSKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAI 52
M+KVKVL+VRNL TEE L+++F ++G++ERVK++KDYAFVHFEDR A+
Sbjct: 12 MAKVKVLFVRNLATTVTEEILEKSFSEFGKLERVKKLKDYAFVHFEDRGAAV 63
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 65.1 bits (157), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/69 (46%), Positives = 47/69 (68%), Gaps = 3/69 (4%)
Query: 1 MSKVKVLYVRNLTQYCTEEKLKEAFEQY--GRVERVKRIKDYAFVHFEDRQEAI-TVTGL 57
MS VK+LYVRNL +EE +++ F G VERVK+I+DYAFVHF +R++A+ + L
Sbjct: 12 MSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKAL 71
Query: 58 SQVIIYSSP 66
+ ++ SP
Sbjct: 72 NGKVLDGSP 80
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 30/45 (66%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEA 51
L++ NL + TE++++ FEQYG+V IK+Y FVH ED+ A
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDIIKNYGFVHIEDKTAA 55
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 34/52 (65%), Gaps = 1/52 (1%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAI-TVTGL 57
L+V N++ CT ++L+ FE+YG V +KDYAFVH E ++A+ + GL
Sbjct: 13 LHVGNISPTCTNQELRAKFEEYGPVIECDIVKDYAFVHMERAEDAVEAIRGL 64
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In
Rna-Binding Protein 14
Length = 90
Score = 45.8 bits (107), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 29/45 (64%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEA 51
++V N++ CT ++L+ FE+ GRV +KDYAFVH E +A
Sbjct: 12 IFVGNVSAACTSQELRSLFERRGRVIECDVVKDYAFVHMEKEADA 56
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 50/109 (45%), Gaps = 32/109 (29%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQVIIYS 64
K L+V+ L++ TEE LKE+F+ R V DR+ TG S
Sbjct: 16 KTLFVKGLSEDTTEETLKESFDGSVRARIVT-----------DRE-----TGSS------ 53
Query: 65 SPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRLKVWGCDIIVDWADPQ 113
+GF F++++S + A AK+ + G + G + +DWA P+
Sbjct: 54 --------KGFGFVDFNSEEDAKAAKEAMEDGEID--GNKVTLDWAKPK 92
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 8/54 (14%)
Query: 6 VLYVRNLTQYCTEEKLKEAFEQYGRVERV--------KRIKDYAFVHFEDRQEA 51
L V NLT + + L+ FE+YGRV V K + +AFV F DR++A
Sbjct: 15 TLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDA 68
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 7/67 (10%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVK------RIKDYAFVHFEDRQEAI-TVTGLSQ 59
LYV+NL +E+L++AF +G + K R K + FV F +EA VT ++
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNG 77
Query: 60 VIIYSSP 66
I+ + P
Sbjct: 78 RIVATKP 84
>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 = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV--------KRIKDYAFVHFEDRQEA 51
L V NLT + + L+ FE+YGRV V K + +AFV F D+++A
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA 102
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 3/63 (4%)
Query: 2 SKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERV---KRIKDYAFVHFEDRQEAITVTGLS 58
S ++V T TE++L+E F QYG V V K + +AFV F D Q A ++ G
Sbjct: 3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCGED 62
Query: 59 QVI 61
+I
Sbjct: 63 LII 65
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/33 (54%), Positives = 22/33 (66%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD 39
L VRNL QY + E L+EAF +G+VER I D
Sbjct: 99 LTVRNLPQYVSNELLEEAFSVFGQVERAVVIVD 131
Score = 34.3 bits (77), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 47/90 (52%), Gaps = 11/90 (12%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV--KRIKDYAFVHFEDRQEAITVTGLSQVIIYS 64
L+V NL TEE++++ FE+YG+ V + K + F+ E R T+ +++V + +
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETR----TLAEIAKVELDN 80
Query: 65 SPDDNKKNRGFCFLEYDSHKSASLAKKRLA 94
P K+ R + + H SASL + L
Sbjct: 81 MPLRGKQLR----VRFACH-SASLTVRNLP 105
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV--------KRIKDYAFVHFEDRQEA 51
L V NLT + + L+ FE+YGRV V K + +AFV F D+++A
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA 125
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 8/51 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVK--------RIKDYAFVHFEDRQ 49
LYV +L TE+ L+ FE +GR+E ++ R K Y F+ F D +
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 79
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 42/98 (42%), Gaps = 28/98 (28%)
Query: 1 MSKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQV 60
+ K LYV NL+ Y TEE++ E F + G ++++ + GL ++
Sbjct: 15 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKI-------------------IMGLDKM 55
Query: 61 IIYSSPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRL 98
K GFCF+EY S A A + + RL
Sbjct: 56 ---------KTACGFCFVEYYSRADAENAMRYINGTRL 84
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV--------KRIKDYAFVHFEDRQEA 51
L V L+ Y TE L+E F +YG + V +R + +AFV+FE+ +A
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDA 70
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV--------KRIKDYAFVHFEDRQEA 51
L V L+ Y TE L+E F +YG + V +R + +AFV+FE+ +A
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDA 101
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 34.7 bits (78), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV--------KRIKDYAFVHFEDRQEA 51
L V L+ Y TE L+E F +YG + V +R + +AFV+FE+ +A
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDA 70
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEA 51
L+VR E +L E F +G ++ VK + +AFV FE+ + A
Sbjct: 7 LFVRPFPLDVQESELNEIFGPFGPMKEVKILNGFAFVEFEEAESA 51
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV--------KRIKDYAFVHFEDRQEA 51
L V L+ Y TE L+E F +YG + V +R + +AFV+FE+ +A
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDA 67
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 7/54 (12%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD-------YAFVHFEDRQEA 51
+VLYV NL + TE+ LK+ F+ G + +K + D YAFV + +A
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDA 54
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV--KRIKDYAFVHFEDRQEA-ITVTGLSQVIIY 63
L+V NL TEE K FE+YG V R + + F+ E R A I L I+
Sbjct: 25 LFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEIAKAELDGTILK 84
Query: 64 SSP 66
S P
Sbjct: 85 SRP 87
Score = 29.3 bits (64), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 10/71 (14%)
Query: 6 VLYVRNLTQYCTEEKLKEAFEQYGRVERV-------KRIKDYAFVHFEDR---QEAITVT 55
L V+NL+ + E L++AF Q+G VE+ R FV F + ++A+
Sbjct: 98 ALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERC 157
Query: 56 GLSQVIIYSSP 66
G ++ ++P
Sbjct: 158 GDGAFLLTTTP 168
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 33.9 bits (76), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEA 51
L+VR E +L E F +G ++ VK + +AFV FE+ + A
Sbjct: 34 LFVRPFPLDVQESELNEIFGPFGPMKEVKILNGFAFVEFEEAESA 78
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 33.9 bits (76), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 8/58 (13%)
Query: 2 SKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERV--------KRIKDYAFVHFEDRQEA 51
S LYV +L TE+ L+ FE +G+++ + R K Y F+ F D + A
Sbjct: 3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECA 60
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor
9g8
Length = 101
Score = 33.5 bits (75), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV---KRIKDYAFVHFEDRQEA-ITVTGLSQVII 62
+YV NL + +L+ AF YG + V + +AFV FED ++A V GL +I
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKVI 62
Query: 63 YSS 65
S
Sbjct: 63 CGS 65
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 33.5 bits (75), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 21/33 (63%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD 39
+YV NL T E++KE F Q+G+V VK I D
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYD 36
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 42/98 (42%), Gaps = 27/98 (27%)
Query: 1 MSKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQV 60
+ K LYV NL+ Y TEE++ E F + G ++++ + GL ++
Sbjct: 36 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKI-------------------IMGLDKM 76
Query: 61 IIYSSPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRL 98
K GFCF+EY S A A + + RL
Sbjct: 77 --------KKTACGFCFVEYYSRADAENAMRYINGTRL 106
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 33.5 bits (75), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 45/104 (43%), Gaps = 29/104 (27%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQVIIYS 64
K L+V + TE KL+ FE YG ++R+ ++YS
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIH-------------------------MVYS 137
Query: 65 SPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRLKVWGCDIIVD 108
+ K RG+ F+EY+ + A K A G+ K+ G ++VD
Sbjct: 138 K--RSGKPRGYAFIEYEHERDMHSAYKH-ADGK-KIDGRRVLVD 177
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 33.5 bits (75), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 8/54 (14%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV--------KRIKDYAFVHFEDRQEAI 52
L+VRNL+ +EE L++ F YG + + K+ K +AFV F + A+
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAV 64
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition
Motif Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition
Motif Of Nono
Length = 99
Score = 33.5 bits (75), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 45/84 (53%), Gaps = 11/84 (13%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV--KRIKDYAFVHFEDRQEAITVTGLSQVIIYS 64
L+V NL TEE++++ FE+YG+ V + K + F+ E R T+ +++V + +
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETR----TLAEIAKVELDN 73
Query: 65 SPDDNKKNRGFCFLEYDSHKSASL 88
P K+ R + + H SASL
Sbjct: 74 MPLRGKQLR----VRFACH-SASL 92
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 33.1 bits (74), Expect = 0.040, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 8/54 (14%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRI--------KDYAFVHFEDRQE 50
K L+V + TE KL+ FE YG ++R+ + + YAF+ +E ++
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERD 156
>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 = 33.1 bits (74), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEA 51
++V +L+ T E +K AF +GR+ + +KD Y FV F ++ +A
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDA 70
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 33.1 bits (74), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 8/52 (15%)
Query: 4 VKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFED 47
VK ++V + + E L++ FEQYG++E ++ + D +AFV F+D
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 155
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 8/51 (15%)
Query: 3 KVKVLYVRNLTQYCTEEKLKEAFEQYG--------RVERVKRIKDYAFVHF 45
+++ L++ L+ T+E L+ FEQ+G R KR + + FV +
Sbjct: 12 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 62
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 33.1 bits (74), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 8/52 (15%)
Query: 4 VKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFED 47
VK ++V + + E L++ FEQYG++E ++ + D +AFV F+D
Sbjct: 105 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 156
Score = 26.6 bits (57), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 8/51 (15%)
Query: 3 KVKVLYVRNLTQYCTEEKLKEAFEQYG--------RVERVKRIKDYAFVHF 45
+++ L++ L+ T+E L+ FEQ+G R KR + + FV +
Sbjct: 13 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 63
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 33.1 bits (74), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 8/52 (15%)
Query: 4 VKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFED 47
VK ++V + + E L++ FEQYG++E ++ + D +AFV F+D
Sbjct: 103 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 154
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 8/51 (15%)
Query: 3 KVKVLYVRNLTQYCTEEKLKEAFEQYG--------RVERVKRIKDYAFVHF 45
+++ L++ L+ T+E L+ FEQ+G R KR + + FV +
Sbjct: 11 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 61
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 32.7 bits (73), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 8/52 (15%)
Query: 4 VKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFED 47
VK ++V + + E L++ FEQYG++E ++ + D +AFV F+D
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 155
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 8/51 (15%)
Query: 3 KVKVLYVRNLTQYCTEEKLKEAFEQYG--------RVERVKRIKDYAFVHF 45
+++ L++ L+ T+E L+ FEQ+G R KR + + FV +
Sbjct: 12 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 62
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 32.7 bits (73), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 8/52 (15%)
Query: 4 VKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFED 47
VK ++V + + E L++ FEQYG++E ++ + D +AFV F+D
Sbjct: 97 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 148
Score = 26.2 bits (56), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 17/78 (21%), Positives = 33/78 (42%), Gaps = 27/78 (34%)
Query: 3 KVKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQVII 62
+++ L++ L+ T+E L+ FEQ+G L+ ++
Sbjct: 5 QLRKLFIGGLSFETTDESLRSHFEQWGT--------------------------LTDCVV 38
Query: 63 YSSPDDNKKNRGFCFLEY 80
P + K++RGF F+ Y
Sbjct: 39 MRDP-NTKRSRGFGFVTY 55
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 32.7 bits (73), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEA 51
++V +L+ T E +K AF +G++ + +KD Y FV F ++ +A
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDA 70
>pdb|1HL6|A Chain A, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|C Chain C, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1RK8|A Chain A, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|A Chain A, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|C Chain C, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 165
Score = 32.7 bits (73), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 48/105 (45%), Gaps = 31/105 (29%)
Query: 6 VLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFE-DRQEAITVTGLSQVIIYS 64
+L+V ++ + E++++E F YG ++ + H DR+ TG S
Sbjct: 74 ILFVTSIHEEAQEDEIQEKFCDYGEIKNI---------HLNLDRR-----TGFS------ 113
Query: 65 SPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRLKVWGCDIIVDW 109
+G+ +EY++HK A AK+ L ++ G I VDW
Sbjct: 114 --------KGYALVEYETHKQALAAKEALNGA--EIMGQTIQVDW 148
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 32.7 bits (73), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 8/52 (15%)
Query: 4 VKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFED 47
VK ++V + + E L++ FEQYG++E ++ + D +AFV F+D
Sbjct: 102 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 153
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 8/51 (15%)
Query: 3 KVKVLYVRNLTQYCTEEKLKEAFEQYG--------RVERVKRIKDYAFVHF 45
+++ L++ L+ T+E L+ FEQ+G R KR + + FV +
Sbjct: 10 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 60
>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 = 32.7 bits (73), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 9/64 (14%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRV--------ERVKRIKDYAFVHFEDRQEAI-TVTGL 57
LYV NL + T+++L F +YG + + R + AFV + R+EA ++ L
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 58 SQVI 61
+ VI
Sbjct: 76 NNVI 79
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 32.3 bits (72), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 48/105 (45%), Gaps = 31/105 (29%)
Query: 6 VLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFE-DRQEAITVTGLSQVIIYS 64
+L+V ++ + E++++E F YG ++ + H DR+ TG S
Sbjct: 28 ILFVTSIHEEAQEDEIQEKFCDYGEIKNI---------HLNLDRR-----TGFS------ 67
Query: 65 SPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRLKVWGCDIIVDW 109
+G+ +EY++HK A AK+ L ++ G I VDW
Sbjct: 68 --------KGYALVEYETHKQALAAKEALNGA--EIMGQTIQVDW 102
>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 = 32.3 bits (72), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 2 SKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRI------KDYAFVHFEDRQEA 51
S V ++++NL + + L + F +G + K + K Y FVHFE ++ A
Sbjct: 101 SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAA 156
>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 = 32.3 bits (72), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 9/64 (14%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRV--------ERVKRIKDYAFVHFEDRQEAI-TVTGL 57
LYV NL + T+++L F +YG + + R + AFV + R+EA ++ L
Sbjct: 103 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 162
Query: 58 SQVI 61
+ VI
Sbjct: 163 NNVI 166
>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 = 0.079, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 9/64 (14%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRV--------ERVKRIKDYAFVHFEDRQEAI-TVTGL 57
LYV NL + T+++L F +YG + + R + AFV + R+EA ++ L
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 151
Query: 58 SQVI 61
+ VI
Sbjct: 152 NNVI 155
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 32.3 bits (72), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 27/51 (52%), Gaps = 8/51 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV--------KRIKDYAFVHFEDRQ 49
++V + C E +L+E F+++G V V +R + + F+ FED Q
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQ 63
>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 = 32.0 bits (71), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 30/53 (56%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGR-------VERVKRI-KDYAFVHFEDRQEA 51
LYV L + T+++L++ F QYGR V++V + + F+ F+ R EA
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEA 143
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEA 51
L V L Q T+E+ + F G +E K ++D Y FV++ D ++A
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDA 57
>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 = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 2 SKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRI------KDYAFVHFEDRQEA 51
S V ++++NL + + L + F +G + K + K Y FVHFE ++ A
Sbjct: 96 SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAA 151
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 7/56 (12%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYGRVE----RVKRIKDYAFVH---FEDRQEAIT 53
K L + NL+ TEE L+E FE+ ++ + + K YAF+ FED +EA+
Sbjct: 16 KTLVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALN 71
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 31.6 bits (70), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 2 SKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRI------KDYAFVHFEDRQEA 51
S V ++++NL + + L + F +G + K + K Y FVHFE ++ A
Sbjct: 9 SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAA 64
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 31.6 bits (70), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV---KRIKDYAFVHFEDRQEA 51
+YV NL + +L+ AF YG + V + +AFV FED ++A
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDA 123
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERV---KRIKDYAFVHFEDRQEA 51
+YV NL + +L+ AF YG + V + +AFV FED ++A
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDA 123
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 4 VKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRI--KDYAFVHFEDRQEA 51
+ LYV L TE L+ F Q+G + + + + AF+ F RQ A
Sbjct: 12 ITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAA 61
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYA--------FVHFEDRQEA 51
LYV L + +++++++ F QYGR+ + + D A F+ F+ R EA
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEA 145
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 31.2 bits (69), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEA 51
L+V L+ E+ L++ F +YG++ V +KD + FV FE+ +A
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDA 67
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 11/59 (18%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRI--------KDYAFVHFED---RQEAITV 54
LY+R L T++ L + + YG++ K I K Y FV F+ Q+A+T
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTA 66
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 14/87 (16%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYG-----RVERVKRIKDYAFVHFEDRQEAIT-VTGLS 58
++LY+RNL T E++ + F +YG RV + A+V +ED +A V LS
Sbjct: 9 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLS 68
Query: 59 QVIIYSSPDDNKKNRGFCFLEYDSHKS 85
N NR L Y+++++
Sbjct: 69 GF--------NVSNRYLVVLYYNANRA 87
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEA 51
+YV NL T L F +YG+V +V +KD AF+ F D+ A
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSA 71
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 31/54 (57%), Gaps = 9/54 (16%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVE----RVKRI-----KDYAFVHFEDRQEA 51
+++ LT+ T++ + E F YG+++ V+R+ K YA+V FE+ EA
Sbjct: 7 VHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEA 60
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 8/50 (16%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVER--------VKRIKDYAFVHFEDR 48
+++ L+ T+E L+E F Q+G V+ KR + + FV F D+
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQ 77
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYA--------FVHFEDRQEA 51
LYV L + +++++++ F QYGR+ + + D A F+ F+ R EA
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEA 56
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 5/52 (9%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYG-----RVERVKRIKDYAFVHFEDRQEA 51
++LY+RNL T E++ + F +YG RV + A+V +ED +A
Sbjct: 13 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDA 64
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 30.8 bits (68), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 5/48 (10%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYG-----RVERVKRIKDYAFVHFED 47
++LY+RNL T E++ + F +YG RV + A+V +ED
Sbjct: 19 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYED 66
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 44/108 (40%), Gaps = 29/108 (26%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQVIIYS 64
+VLYV L + ++ L AF +G + ++ DY
Sbjct: 13 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDY------------------------ 48
Query: 65 SPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRLKVWGCDIIVDWADP 112
+ +K+RGF F+E++ + A+ A + L +G I V+ A P
Sbjct: 49 ---ETEKHRGFAFVEFELAEDAAAAIDNMNESEL--FGRTIRVNLAKP 91
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human
Pabpc1 At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human
Pabpc1 A Ph 9.0
Length = 115
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 6/51 (11%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRI------KDYAFVHFEDRQEA 51
++++NL + + L + F +G + K + K Y FVHFE ++ A
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAA 58
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 9/70 (12%)
Query: 6 VLYVRNLTQYCTEEKLKEAFEQYGRVE--------RVKRIKDYAFVHFEDRQEA-ITVTG 56
+L+V + + TEE + + F +YG ++ R +K Y V +E +EA + G
Sbjct: 25 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 84
Query: 57 LSQVIIYSSP 66
L+ + P
Sbjct: 85 LNGQDLMGQP 94
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 8/50 (16%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVER--------VKRIKDYAFVHFEDR 48
+++ L+ T+E L+E F Q+G V+ KR + + FV F D+
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQ 52
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 8/59 (13%)
Query: 4 VKVLYVRNLTQYCTEEKLKEAFEQYGRV--------ERVKRIKDYAFVHFEDRQEAITV 54
++ ++V N+ TEE+LK+ F + G V + K Y F ++D++ A++
Sbjct: 8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSA 66
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 30.0 bits (66), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 9/70 (12%)
Query: 6 VLYVRNLTQYCTEEKLKEAFEQYGRVE--------RVKRIKDYAFVHFEDRQEA-ITVTG 56
+L+V + + TEE + + F +YG ++ R +K Y V +E +EA + G
Sbjct: 24 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 83
Query: 57 LSQVIIYSSP 66
L+ + P
Sbjct: 84 LNGQDLMGQP 93
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 8/56 (14%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEAITV 54
L+V L T+E L+ F QYG V +KD + FV F+D TV
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTV 74
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 9/70 (12%)
Query: 6 VLYVRNLTQYCTEEKLKEAFEQYGRVE--------RVKRIKDYAFVHFEDRQEA-ITVTG 56
+L+V + + TEE + + F +YG ++ R +K Y V +E +EA + G
Sbjct: 11 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 70
Query: 57 LSQVIIYSSP 66
L+ + P
Sbjct: 71 LNGQDLMGQP 80
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 44/106 (41%), Gaps = 31/106 (29%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQVIIYS 64
+ LYV NL++ TE + + F Q G + K I ++
Sbjct: 16 RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHT----------------------- 52
Query: 65 SPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRLKVWGCDIIVDWA 110
N +CF+E+ H+ A+ A + GR K+ G ++ V+WA
Sbjct: 53 ------SNDPYCFVEFYEHRDAAAALAAM-NGR-KILGKEVKVNWA 90
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 9/70 (12%)
Query: 6 VLYVRNLTQYCTEEKLKEAFEQYGRVE--------RVKRIKDYAFVHFEDRQEA-ITVTG 56
+L+V + + TEE + + F +YG ++ R +K Y V +E +EA + G
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 57 LSQVIIYSSP 66
L+ + P
Sbjct: 69 LNGQDLMGQP 78
>pdb|2XB2|D Chain D, Crystal Structure Of The Core
Mago-Y14-Eif4aiii-Barentsz- Upf3b Assembly Shows How
The Ejc Is Bridged To The Nmd Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core
Mago-Y14-Eif4aiii-Barentsz- Upf3b Assembly Shows How
The Ejc Is Bridged To The Nmd Machinery
Length = 90
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 9/70 (12%)
Query: 6 VLYVRNLTQYCTEEKLKEAFEQYGRVE--------RVKRIKDYAFVHFEDRQEA-ITVTG 56
+L+V + + TEE + + F +YG ++ R +K Y V +E +EA + G
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 57 LSQVIIYSSP 66
L+ + P
Sbjct: 69 LNGQDLMGQP 78
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At
3.2 A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At
3.2 A Resolution
Length = 109
Score = 29.6 bits (65), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 9/70 (12%)
Query: 6 VLYVRNLTQYCTEEKLKEAFEQYGRVE--------RVKRIKDYAFVHFEDRQEA-ITVTG 56
+L+V + + TEE + + F +YG ++ R +K Y V +E +EA + G
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 57 LSQVIIYSSP 66
L+ + P
Sbjct: 69 LNGQDLMGQP 78
>pdb|2LA4|A Chain A, Nmr Structure Of The C-Terminal Rrm Domain Of Poly(U)
Binding 1
Length = 101
Score = 29.3 bits (64), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 19/94 (20%), Positives = 35/94 (37%), Gaps = 33/94 (35%)
Query: 2 SKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQVI 61
+V Y+ N+ + TE L F+ +G + K H+ ++
Sbjct: 25 PRVTTAYIGNIPHFATEADLIPLFQNFGFILDFK--------HYPEK------------- 63
Query: 62 IYSSPDDNKKNRGFCFLEYDSHKSASLAKKRLAT 95
G CF++YD+H+ A++ LA
Sbjct: 64 ------------GCCFIKYDTHEQAAVCIVALAN 85
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 29.3 bits (64), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEA 51
LY+ L + T++ +++ F ++GR+ + + D AF+ F+ R EA
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEA 143
>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 = 29.3 bits (64), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEA 51
LY+ L + T++ +++ F ++GR+ + + D AF+ F+ R EA
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEA 143
>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 = 0.67, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 8/56 (14%)
Query: 4 VKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEA 51
++ L V + E +L++ FE+YG +E VK + D Y FV F+ A
Sbjct: 42 LRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSA 97
>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex
With Rna
pdb|2KM8|C Chain C, Interdomain Rrm Packing Contributes To Rna Recognition
In The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 167
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 8/48 (16%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFE 46
+++ L TE+ L+E F +YG V +K +KD + F+ FE
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFE 53
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 28.9 bits (63), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 7 LYVRNL-TQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEA 51
+++ NL T + ++ F +YGRV K YAFV + + + A
Sbjct: 30 VFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKGYAFVQYSNERHA 75
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
28
Length = 111
Score = 28.5 bits (62), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 8/59 (13%)
Query: 1 MSKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRI--------KDYAFVHFEDRQEA 51
+++ K +++RNL+ EE L E +Q+G ++ V+ + K AF F ++ A
Sbjct: 12 VTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAA 70
>pdb|3PJA|J Chain J, Crystal Structure Of Human C3po Complex
pdb|3PJA|K Chain K, Crystal Structure Of Human C3po Complex
pdb|3PJA|L Chain L, Crystal Structure Of Human C3po Complex
pdb|3QB5|K Chain K, Human C3po Complex In The Presence Of Mnso4
Length = 290
Score = 28.5 bits (62), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 52/113 (46%), Gaps = 12/113 (10%)
Query: 2 SKVKVLYVRNLTQYCTEEKLKEAFEQYGRVERV---KRIKDYAFVHFEDRQEAITVTGLS 58
S++K+ VR +E E Q+ R + ++ +F HF + I++ ++
Sbjct: 90 SEIKLDGVRQKIFQVAQELSGEDMHQFHRAITTGLQEYVEAVSFQHFIKTRSLISMDEIN 149
Query: 59 QVIIYSSPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRLKVWGCDIIVDWAD 111
+ +I+++ D+ K+N+ S+ K+ T RL+V D ++ AD
Sbjct: 150 KQLIFTTEDNGKENKT---------PSSDAQDKQFGTWRLRVTPVDYLLGVAD 193
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 36/86 (41%), Gaps = 20/86 (23%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYA----------FVHFEDRQEAI---- 52
++V + + +E+ L+E FEQYG V + ++D + FV F R+ A+
Sbjct: 18 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 77
Query: 53 ------TVTGLSQVIIYSSPDDNKKN 72
+ G+ I D K N
Sbjct: 78 ALHNMKVLPGMHHPIQMKPADSEKNN 103
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEA 51
+YV ++ Q +++ +K FE +G+++ +D Y F+ +E Q +
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSS 180
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 36/86 (41%), Gaps = 20/86 (23%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYA----------FVHFEDRQEAI---- 52
++V + + +E+ L+E FEQYG V + ++D + FV F R+ A+
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 53 ------TVTGLSQVIIYSSPDDNKKN 72
+ G+ I D K N
Sbjct: 66 ALHNMKVLPGMHHPIQMKPADSEKNN 91
>pdb|1X4F|A Chain A, Solution Structure Of The Second Rrm Domain In Matrin 3
Length = 112
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 32/55 (58%), Gaps = 5/55 (9%)
Query: 5 KVLYVRNL--TQYCTEEKLKEAFEQYGRVER--VKRIKDYAFVHFEDRQEAITVT 55
+V+++ NL + Y LK A E YG+++ + R+K AF+ E R++A+ +
Sbjct: 26 RVIHLSNLPHSGYSDSAVLKLA-EPYGKIKNYILMRMKSQAFIEMETREDAMAMV 79
>pdb|2DN5|A Chain A, Solution Structure Of Rsgi Ruh-057, A Gtf2i Domain In
Human Cdna
Length = 89
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 12/75 (16%)
Query: 19 EKLKEAF-EQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQVIIYSSPDDNKKNRGFCF 77
E++KE F E+YG + R + D +A+ VTGL I + +P+
Sbjct: 10 EQVKELFNEKYGEALGLNRPVLVPYKLIRDSPDAVEVTGLPDDIPFRNPN---------- 59
Query: 78 LEYDSHKSASLAKKR 92
YD H+ + K R
Sbjct: 60 -TYDIHRLEKILKAR 73
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
Length = 88
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 10/56 (17%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYA----------FVHFEDRQEAI 52
++V + + +E+ L+E FEQYG V + ++D + FV F R+ A+
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAAL 61
>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 = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 29/106 (27%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQVIIYS 64
+VLYV L + ++ L AF +G + ++ DY
Sbjct: 3 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDY------------------------ 38
Query: 65 SPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRLKVWGCDIIVDWA 110
+ +K+RGF F+E++ + A+ A + L +G I V+ A
Sbjct: 39 ---ETEKHRGFAFVEFELAEDAAAAIDNMNESEL--FGRTIRVNLA 79
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 8/52 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRV--------ERVKRIKDYAFVHFEDRQE 50
L++ L+ TEE L+ +EQ+G++ KR + + FV F E
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAE 81
>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 = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 29/106 (27%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQVIIYS 64
+VLYV L + ++ L AF +G + ++ DY
Sbjct: 8 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDY------------------------ 43
Query: 65 SPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRLKVWGCDIIVDWA 110
+ +K+RGF F+E++ + A+ A + L +G I V+ A
Sbjct: 44 ---ETEKHRGFAFVEFELAEDAAAAIDNMNESEL--FGRTIRVNLA 84
>pdb|2V5O|A Chain A, Structure Of Human Igf2r Domains 11-14
Length = 627
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 23/55 (41%), Gaps = 4/55 (7%)
Query: 77 FLEYDSHKSASLAKKRLATGRLKVWGCDIIVDWADPQEEPDTETMSKVLMLDQQL 131
+ + + S+ +L L+ CD + +W P PD M + D+QL
Sbjct: 254 LIAFHCKRGVSMGTPKL----LRTSECDFVFEWETPVVCPDEVRMDGCTLTDEQL 304
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of
The Spliceosomal Protein P14 Bound To A Region Of
Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of
The Spliceosomal Protein P14 Bound To A Region Of
Sf3b155
Length = 125
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYG-----RVERVKRIKDYAFVHFED 47
++L +RNL T E++ + F +YG RV + A+V +ED
Sbjct: 19 RILMIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYED 66
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 29/106 (27%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQVIIYS 64
+VLYV L + ++ L AF +G + ++ DY
Sbjct: 6 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDY------------------------ 41
Query: 65 SPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRLKVWGCDIIVDWA 110
+ +K+RGF F+E++ + A+ A + L +G I V+ A
Sbjct: 42 ---ETEKHRGFAFVEFELAEDAAAAIDNMNESEL--FGRTIRVNLA 82
>pdb|2V5P|A Chain A, Complex Structure Of Human Igf2r Domains 11-13 Bound To
Igf-Ii
pdb|2V5P|B Chain B, Complex Structure Of Human Igf2r Domains 11-13 Bound To
Igf-Ii
Length = 492
Score = 27.3 bits (59), Expect = 2.4, Method: Composition-based stats.
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 98 LKVWGCDIIVDWADPQEEPDTETMSKVLMLDQQL 131
L+ CD + +W P PD M + D+QL
Sbjct: 271 LRTSECDFVFEWETPVVCPDEVRMDGCTLTDEQL 304
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEA 51
+YV ++ Q +++ +K FE +G+++ +D Y F+ +E Q +
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSS 165
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 8/53 (15%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEA 51
+YV ++ Q +++ +K FE +G+++ +D Y F+ +E Q +
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSS 164
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD 39
L+V + + E+ LK FE++GR+ + +KD
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKD 50
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 8/48 (16%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVE--------RVKRIKDYAFVHFE 46
++V L+ T E +K FEQ+G+V+ R + + FV FE
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFE 49
>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 = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 8/49 (16%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFED 47
L++ L Y ++++KE +G ++ +KD YAF + D
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 165
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 26/60 (43%), Gaps = 8/60 (13%)
Query: 3 KVKVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFEDRQEAITV 54
K L V L TE+ LKE F +G V V+ KD + FV F + + + V
Sbjct: 14 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKV 73
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 8/49 (16%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFED 47
L++ L Y ++++KE +G ++ +KD YAF + D
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 52
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 26.6 bits (57), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 7 LYVRNL-TQYCTEEKLKEAFEQYGRVERV 34
+ +RNL T+ E L+E+FE +G +E++
Sbjct: 213 IXIRNLSTELLDENLLRESFEGFGSIEKI 241
>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 = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 8/49 (16%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFED 47
L++ L Y ++++KE +G ++ +KD YAF + D
Sbjct: 99 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 147
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 26.2 bits (56), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 8/49 (16%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKD--------YAFVHFED 47
L++ L Y ++++KE +G ++ +KD YAF + D
Sbjct: 97 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 145
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 10/55 (18%)
Query: 8 YVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYA----------FVHFEDRQEAI 52
+V + + +E+ L+E FEQYG V + ++D + FV F R+ A+
Sbjct: 7 FVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAAL 61
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 26.2 bits (56), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 20/94 (21%), Positives = 37/94 (39%), Gaps = 27/94 (28%)
Query: 5 KVLYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDYAFVHFEDRQEAITVTGLSQVIIYS 64
+VLYV L + ++ L AF +G + ++ DY
Sbjct: 64 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDY------------------------ 99
Query: 65 SPDDNKKNRGFCFLEYDSHKSASLAKKRLATGRL 98
+ +K+RGF F+E++ + A+ A + L
Sbjct: 100 ---ETEKHRGFAFVEFELAEDAAAAIDNMNESEL 130
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 25.8 bits (55), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 4 VKVLYVRNLTQYCTEEKLKEAFEQYGRVERVK---RIKDYAFVHFEDRQEA 51
+ L +NL+ TE++LKE FE + V + K A++ F+ +A
Sbjct: 99 ARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADA 149
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 25.4 bits (54), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 29/54 (53%), Gaps = 8/54 (14%)
Query: 7 LYVRNLTQYCTEEKLKEAFEQYGRVERVKRIKDY--------AFVHFEDRQEAI 52
L++ + + E+ LK FE++G++ + +KD AF+ + +R+ A+
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESAL 69
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 0.134 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,762,268
Number of Sequences: 62578
Number of extensions: 136338
Number of successful extensions: 558
Number of sequences better than 100.0: 115
Number of HSP's better than 100.0 without gapping: 73
Number of HSP's successfully gapped in prelim test: 42
Number of HSP's that attempted gapping in prelim test: 435
Number of HSP's gapped (non-prelim): 152
length of query: 131
length of database: 14,973,337
effective HSP length: 88
effective length of query: 43
effective length of database: 9,466,473
effective search space: 407058339
effective search space used: 407058339
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 46 (22.3 bits)