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= psy7530
(60 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/25 (80%), Positives = 22/25 (88%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
IFVGGLS TT+EDVK+YFEQFG V
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKV 26
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 24/37 (64%)
Query: 5 INISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
IN S+ K FVGGLS T+ +D+K+YF +FG V
Sbjct: 2 INASKNEEDAGKXFVGGLSWDTSKKDLKDYFTKFGEV 38
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 24/32 (75%), Gaps = 2/32 (6%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTAC 46
+K+F+GGLS TT E ++NY+EQ+G + T C
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKL--TDC 57
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 22/34 (64%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
S M + K+F+GGLS TT E ++ YF QFG V
Sbjct: 19 SHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEV 52
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 20/25 (80%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
+F+GGLS TT +D+K+YF +FG V
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEV 26
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 19/26 (73%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+F+GGLS TT E ++ YF QFG V
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEV 27
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 34.3 bits (77), Expect = 0.020, Method: Composition-based stats.
Identities = 13/25 (52%), Positives = 21/25 (84%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFG 39
+K+F+GGLS TT E ++++FEQ+G
Sbjct: 15 RKLFIGGLSFETTDESLRSHFEQWG 39
Score = 33.9 bits (76), Expect = 0.024, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
KKIFVGG+ T +++YFEQ+G +
Sbjct: 106 KKIFVGGIKEDTEEHHLRDYFEQYGKI 132
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 34.3 bits (77), Expect = 0.020, Method: Composition-based stats.
Identities = 13/25 (52%), Positives = 21/25 (84%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFG 39
+K+F+GGLS TT E ++++FEQ+G
Sbjct: 12 RKLFIGGLSFETTDESLRSHFEQWG 36
Score = 33.9 bits (76), Expect = 0.024, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
KKIFVGG+ T +++YFEQ+G +
Sbjct: 103 KKIFVGGIKEDTEEHHLRDYFEQYGKI 129
>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 = 34.3 bits (77), Expect = 0.020, Method: Composition-based stats.
Identities = 13/25 (52%), Positives = 21/25 (84%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFG 39
+K+F+GGLS TT E ++++FEQ+G
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWG 31
Score = 33.9 bits (76), Expect = 0.024, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
KKIFVGG+ T +++YFEQ+G +
Sbjct: 98 KKIFVGGIKEDTEEHHLRDYFEQYGKI 124
>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 = 34.3 bits (77), Expect = 0.020, Method: Composition-based stats.
Identities = 13/25 (52%), Positives = 21/25 (84%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFG 39
+K+F+GGLS TT E ++++FEQ+G
Sbjct: 13 RKLFIGGLSFETTDESLRSHFEQWG 37
Score = 33.9 bits (76), Expect = 0.024, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
KKIFVGG+ T +++YFEQ+G +
Sbjct: 104 KKIFVGGIKEDTEEHHLRDYFEQYGKI 130
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 34.3 bits (77), Expect = 0.020, Method: Composition-based stats.
Identities = 13/25 (52%), Positives = 21/25 (84%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFG 39
+K+F+GGLS TT E ++++FEQ+G
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWG 38
Score = 33.9 bits (76), Expect = 0.024, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
KKIFVGG+ T +++YFEQ+G +
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKI 131
>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 = 34.3 bits (77), Expect = 0.020, Method: Composition-based stats.
Identities = 13/25 (52%), Positives = 21/25 (84%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFG 39
+K+F+GGLS TT E ++++FEQ+G
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWG 38
Score = 33.9 bits (76), Expect = 0.024, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
KKIFVGG+ T +++YFEQ+G +
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKI 131
>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 = 32.7 bits (73), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 16/27 (59%), Positives = 18/27 (66%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
KKIFVGGLS T E ++ YF FG V
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEV 28
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 32.7 bits (73), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 19/26 (73%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+FVGGL TT E +++YF Q+G V
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEV 43
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 7 ISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + V +T + V GL TT +D+K YF FG V
Sbjct: 8 VKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEV 42
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 19/33 (57%)
Query: 9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
Q T KIFVGGL TT ++ YFE FG +
Sbjct: 12 QKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDI 44
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 9/45 (20%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG 60
K+F+G L T +++++ FEQ+G V CD +KN+G
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVL--ECD-------IIKNYG 45
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In
Rna-Binding Protein 14
Length = 90
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 2/34 (5%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD 47
T KIFVG +SA T +++++ FE+ G V CD
Sbjct: 9 TWKIFVGNVSAACTSQELRSLFERRGRVIE--CD 40
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
++VGGL T D++N+F QFG +
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEI 39
>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 = 0.58, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
IFVGGLS T E ++ YF FG V
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEV 26
>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 = 0.71, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 20/26 (76%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+F+GGL+ TT ++++ YF ++G V
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTV 30
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 28.9 bits (63), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+K+FVG L T EDV+ FE FG +
Sbjct: 13 RKLFVGMLGKQQTDEDVRKMFEPFGTI 39
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVY 42
K+FVG + + +D++ FEQ+G VY
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVY 31
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVY 42
+ I+VG L T E VK F QFG V+
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVF 29
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD 47
K+ VG +S T ++++ FE++GPV CD
Sbjct: 12 KLHVGNISPTCTNQELRAKFEEYGPVI--ECD 41
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFG 39
T+ ++FVG L T ED K FE++G
Sbjct: 20 TQRCRLFVGNLPTDITEEDFKRLFERYG 47
>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 = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVY 42
K+FVG + + +D++ FEQ+G VY
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVY 31
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVY 42
K+FVG + + +D++ FEQ+G VY
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVY 43
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
+FVG LS T ED+K+ F FG +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKI 42
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFG 39
Q + IFV GL T+E V +YF+Q G
Sbjct: 1 EQDNSDNNTIFVQGLGENVTIESVADYFKQIG 32
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFG 39
IFV GL T+E V +YF+Q G
Sbjct: 16 IFVQGLGENVTIESVADYFKQIG 38
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+K+FVG L+ + +DV+ FE FG +
Sbjct: 16 RKLFVGMLNKQQSEDDVRRLFEAFGNI 42
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 26.9 bits (58), Expect = 2.8, Method: Composition-based stats.
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFG 39
T+ ++FVG L T E+++ FE++G
Sbjct: 20 TQRSRLFVGNLPPDITEEEMRKLFEKYG 47
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
M + K+FVGGLS T + ++ F ++G +
Sbjct: 8 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQI 39
>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 = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVY 42
K FVG + + +D++ FEQ+G VY
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVY 31
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+K+FVGGL +++ F +FGP+
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFGPL 35
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTAC--DRF 49
K+F+G + +D+K FE+FG +Y DRF
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRF 50
>pdb|3SCM|D Chain D, Crystal Structure Of Autoreactive-Valpha14-Vbeta6 Nkt Tcr
In Complex With Cd1d-Isoglobotrihexosylceramide
pdb|3SDA|D Chain D, Crystal Structure Of Autoreactive-Valpha14-Vbeta6 Nkt Tcr
In Complex With Cd1d-Beta-Galactosylceramide
pdb|3SDC|D Chain D, Crystal Structure Of Autoreactive-Valpha14-Vbeta6 Nkt Tcr
In Complex With Cd1d-Globotrihexosylceramide
pdb|3SDD|D Chain D, Crystal Structure Of Autoreactive-Valpha14-Vbeta6 Nkt Tcr
In Complex With Cd1d-Beta-Lactosylceramide
Length = 245
Score = 26.2 bits (56), Expect = 5.2, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 1 MAAFINISQMVTRTKKIFVGGLSAPTTLEDVKNYF 35
MA F+ S + +++F G + T +ED+KN F
Sbjct: 88 MAVFLCASGSLLDVREVFFGKGTRLTVVEDLKNVF 122
>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 = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
+FVG LS T ED+K F FG +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRI 42
>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 = 26.2 bits (56), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFG 39
T+ ++FVG L T E+++ FE++G
Sbjct: 13 TQRSRLFVGNLPPDITEEEMRKLFEKYG 40
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVY 42
K+FVG + +D+K FE+FG +Y
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIY 43
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
T +++VGGL T+L + F++FG +
Sbjct: 17 TTRLWVGGLGPNTSLAALAREFDRFGSI 44
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 25.4 bits (54), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+FVG + T E+++ +F Q+G V
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEV 38
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 25.4 bits (54), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFG 39
I+V GL+ TL+D+ ++F+Q G
Sbjct: 18 IYVQGLNDSVTLDDLADFFKQCG 40
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
0.327 0.142 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,660,581
Number of Sequences: 62578
Number of extensions: 49451
Number of successful extensions: 309
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 50
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 248
Number of HSP's gapped (non-prelim): 61
length of query: 60
length of database: 14,973,337
effective HSP length: 31
effective length of query: 29
effective length of database: 13,033,419
effective search space: 377969151
effective search space used: 377969151
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)