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= 008442
(565 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 56.2 bits (134), Expect = 4e-08, Method: Composition-based stats.
Identities = 28/90 (31%), Positives = 51/90 (56%)
Query: 390 DECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAA 449
D+ + ++ N++ +T +DL FS G ++ I IL DKF+G +G AY++F + + AA
Sbjct: 35 DKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAA 94
Query: 450 VAKNKQMFLGKKLSIARSNPKQRKDSSGER 479
VA ++ +F G+ + + SS +R
Sbjct: 95 VAMDETVFRGRTIKVLPKRTNMPGISSTDR 124
>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 = 55.8 bits (133), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 46/76 (60%)
Query: 389 TDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAA 448
D + ++ N++ AT E+L F G V+ + IL DKF+G +G AY++F D E +
Sbjct: 3 ADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRT 62
Query: 449 AVAKNKQMFLGKKLSI 464
++A ++ +F G+++ +
Sbjct: 63 SLALDESLFRGRQIKV 78
>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 = 55.1 bits (131), Expect = 9e-08, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 46/75 (61%)
Query: 390 DECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAA 449
D + ++ N++ AT E+L F G V+ + IL DKF+G +G AY++F D E + +
Sbjct: 5 DARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTS 64
Query: 450 VAKNKQMFLGKKLSI 464
+A ++ +F G+++ +
Sbjct: 65 LALDESLFRGRQIKV 79
>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 = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 46/87 (52%), Gaps = 1/87 (1%)
Query: 392 CTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVA 451
C F+ +N T ++LR +F G V+ ++I+ D TG+SRG ++ F + V
Sbjct: 4 CKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSF-EKPSSVDEVV 62
Query: 452 KNKQMFLGKKLSIARSNPKQRKDSSGE 478
K + + GK + R+ P+ +D +G+
Sbjct: 63 KTQHILDGKVIDPKRAIPRDEQDKTGK 89
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+ I ++ FFS G + +++ DK TG+SRG +V + D V +NK
Sbjct: 91 FVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTY-DSADAVDRVCQNK 149
Query: 455 QM-FLGKKLSIARSNPKQ 471
+ F +K+ I R+ P+
Sbjct: 150 FIDFKDRKIEIKRAEPRH 167
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 32/94 (34%), Positives = 53/94 (56%), Gaps = 4/94 (4%)
Query: 393 TAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDE-HLAAAVA 451
+ F+ NI +AT E L+ FS+VG V S R+++D+ TGK +G + ++ D E L+A
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 452 KNKQMFLGKKLSIARSNPKQRKD---SSGERAPT 482
N + F G+ L + + ++ K+ S G AP
Sbjct: 70 LNGREFSGRALRVDNAASEKNKEELKSLGTGAPV 103
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 45/84 (53%), Gaps = 1/84 (1%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK-N 453
F+ N++ ++ EDL + FS G +S + D T K +G A+V F+ EH A A+ +
Sbjct: 12 FVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVD 71
Query: 454 KQMFLGKKLSIARSNPKQRKDSSG 477
Q+F G+ L + S K+ SG
Sbjct: 72 GQVFQGRMLHVLPSTIKKEASQSG 95
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 49.7 bits (117), Expect = 4e-06, Method: Composition-based stats.
Identities = 28/100 (28%), Positives = 51/100 (51%)
Query: 376 PIKDAVPGRTKGFTDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGL 435
P+++ V + D T F + + DL FFS VG V +RI+ D+ + +S+G+
Sbjct: 10 PVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGI 69
Query: 436 AYVDFIDDEHLAAAVAKNKQMFLGKKLSIARSNPKQRKDS 475
AYV+F + + + A+ Q LG + + S ++ + S
Sbjct: 70 AYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQAEKNRLS 109
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 49/78 (62%), Gaps = 2/78 (2%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK-N 453
++ N+ AT E ++ FS G V ++++++D+ T K +G +V+ + +E ++ A+AK +
Sbjct: 5 YVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVE-MQEESVSEAIAKLD 63
Query: 454 KQMFLGKKLSIARSNPKQ 471
F+G+ + + +NPK+
Sbjct: 64 NTDFMGRTIRVTEANPKK 81
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 47.0 bits (110), Expect = 3e-05, Method: Composition-based stats.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 2/67 (2%)
Query: 393 TAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHL--AAAV 450
T ++SN+ T DL R FS G V + I+ DK T KS+G+A++ F+D +
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRA 77
Query: 451 AKNKQMF 457
NKQ+F
Sbjct: 78 INNKQLF 84
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 45.4 bits (106), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%)
Query: 392 CTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVA 451
C F+ ++ + T E LR +F G V ++ D T +SRG +V F+D + +A
Sbjct: 26 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA 85
Query: 452 KNKQ 455
+++
Sbjct: 86 QSRH 89
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%)
Query: 392 CTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVA 451
C F+ ++ + T E LR +F G V ++ D T +SRG +V F+D + +A
Sbjct: 1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA 60
Query: 452 KNKQ 455
+++
Sbjct: 61 QSRH 64
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 41/81 (50%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+ I +LR +F G V+ + +++D + RG ++ F D++ + AV +
Sbjct: 14 FVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHF 73
Query: 455 QMFLGKKLSIARSNPKQRKDS 475
+GKK+ + R+ P+ K S
Sbjct: 74 HDIMGKKVEVKRAEPRDSKSS 94
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 43.1 bits (100), Expect = 5e-04, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 45/79 (56%), Gaps = 2/79 (2%)
Query: 393 TAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK 452
T F+ I+++ ++R FF+ G V ++I+ D+ TG S+G +V F +D + V +
Sbjct: 12 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV-E 69
Query: 453 NKQMFLGKKLSIARSNPKQ 471
++ F GKKL + + KQ
Sbjct: 70 SQINFHGKKLKLGPAIRKQ 88
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 42.7 bits (99), Expect = 5e-04, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 45/79 (56%), Gaps = 2/79 (2%)
Query: 393 TAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK 452
T F+ I+++ ++R FF+ G V ++I+ D+ TG S+G +V F +D + V +
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV-E 68
Query: 453 NKQMFLGKKLSIARSNPKQ 471
++ F GKKL + + KQ
Sbjct: 69 SQINFHGKKLKLGPAIRKQ 87
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 42.7 bits (99), Expect = 6e-04, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 36/81 (44%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+ ++ T E LR +FS G V I+ DK T +SRG +V F D + +A
Sbjct: 20 FVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRP 79
Query: 455 QMFLGKKLSIARSNPKQRKDS 475
G+ + P+ + S
Sbjct: 80 HTLDGRNIDPKPCTPRGMQPS 100
>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 = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 42/79 (53%)
Query: 383 GRTKGFTDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFID 442
G+ K ++ F+ +++ + T ED++ F+ G +S R++ D TGKS+G +V F +
Sbjct: 7 GQKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFN 66
Query: 443 DEHLAAAVAKNKQMFLGKK 461
A+ + +LG +
Sbjct: 67 KWDAENAIQQMGGQWLGGR 85
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 42.4 bits (98), Expect = 7e-04, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 45/79 (56%), Gaps = 2/79 (2%)
Query: 393 TAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK 452
T F+ I+++ ++R FF+ G V ++I+ D+ TG S+G +V F +D + V +
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV-E 68
Query: 453 NKQMFLGKKLSIARSNPKQ 471
++ F GKKL + + KQ
Sbjct: 69 SQINFHGKKLKLGPAIRKQ 87
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 25/91 (27%), Positives = 46/91 (50%), Gaps = 2/91 (2%)
Query: 383 GRTKGFTDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFID 442
G+ K ++ F+ +++ + T ED++ F+ G +S R++ D TGKS+G +V F +
Sbjct: 7 GQKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYN 66
Query: 443 DEHLAAAVAKNKQMFLGKKLSIARSNPKQRK 473
A+ +LG + R+N RK
Sbjct: 67 KLDAENAIVHMGGQWLGGRQ--IRTNWATRK 95
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 28/47 (59%)
Query: 404 TYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAV 450
T E+ R F +G + S +++ DK TG+S G +V++ID + A+
Sbjct: 15 TQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61
Score = 35.4 bits (80), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 391 ECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF 440
+ ++S + T ++L + FS G + + RIL D+ TG SRG+ ++ F
Sbjct: 88 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRF 137
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 1/78 (1%)
Query: 398 NINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNKQMF 457
+ K T +DL+ +FS G V +++ D TG S+G +V F + E V + M
Sbjct: 22 GLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYE-TQVKVMSQRHMI 80
Query: 458 LGKKLSIARSNPKQRKDS 475
G+ N KQ +DS
Sbjct: 81 DGRWCDCKLPNSKQSQDS 98
>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 = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
+L +I T E + S+VG V +++++ D TG+S+G A+++F D E A+AV
Sbjct: 7 YLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLN 66
Query: 455 QMFLGKKL 462
LG +
Sbjct: 67 GYQLGSRF 74
>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 = 39.3 bits (90), Expect = 0.006, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
+L +I T E + S+VG V +++++ D TG+S+G A+++F D E A+AV
Sbjct: 8 YLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLN 67
Query: 455 QMFLGKKL 462
LG +
Sbjct: 68 GYQLGSRF 75
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 39.3 bits (90), Expect = 0.006, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 38/68 (55%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
+L +I T E + S+VG V +++++ D TG+S+G A+++F D E A+AV
Sbjct: 6 YLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLN 65
Query: 455 QMFLGKKL 462
LG +
Sbjct: 66 GYQLGSRF 73
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 390 DECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAA 449
D T ++N++ DL+ F G +S I + DK TG+S+G A++ F E A A
Sbjct: 14 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARA 73
Query: 450 VA 451
+A
Sbjct: 74 IA 75
>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 = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 36/82 (43%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+ I LR +F G + I I+ D+ +GK RG A+V F D + + V +
Sbjct: 108 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 167
Query: 455 QMFLGKKLSIARSNPKQRKDSS 476
G + ++ KQ S+
Sbjct: 168 HTVNGHNCEVRKALSKQEMASA 189
>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 = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 36/82 (43%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+ I LR +F G + I I+ D+ +GK RG A+V F D + + V +
Sbjct: 107 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 166
Query: 455 QMFLGKKLSIARSNPKQRKDSS 476
G + ++ KQ S+
Sbjct: 167 HTVNGHNCEVRKALSKQEMASA 188
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 36/82 (43%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+ I LR +F G + I I+ D+ +GK RG A+V F D + + V +
Sbjct: 109 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 168
Query: 455 QMFLGKKLSIARSNPKQRKDSS 476
G + ++ KQ S+
Sbjct: 169 HTVNGHNCEVRKALSKQEMASA 190
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 34/77 (44%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+ I LR +F G + I I+ D+ +GK RG A+V F D + + V +
Sbjct: 108 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 167
Query: 455 QMFLGKKLSIARSNPKQ 471
G + ++ KQ
Sbjct: 168 HTVNGHNCEVRKALSKQ 184
>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 = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 36/82 (43%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+ I LR +F G + I I+ D+ +GK RG A+V F D + + V +
Sbjct: 101 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 160
Query: 455 QMFLGKKLSIARSNPKQRKDSS 476
G + ++ KQ S+
Sbjct: 161 HTVNGHNCEVRKALSKQEMASA 182
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 34/77 (44%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+ I LR +F G + I I+ D+ +GK RG A+V F D + + V +
Sbjct: 106 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 165
Query: 455 QMFLGKKLSIARSNPKQ 471
G + ++ KQ
Sbjct: 166 HTVNGHNCEVRKALSKQ 182
>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 = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 28/48 (58%)
Query: 393 TAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF 440
T F++ +N T LRR F G + I +++ K +GK RG A++++
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEY 151
>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 = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 393 TAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFID--DEHLAAAV 450
T F++ +N T LRR F G + I +++ K +GK RG A++++ D H A
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 451 AKNKQM 456
A K++
Sbjct: 164 ADGKKI 169
>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 = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 42/78 (53%), Gaps = 4/78 (5%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+S + T E+L G V +R++ ++ GK +GLAYV++ ++ + AV K
Sbjct: 21 FISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMKMD 79
Query: 455 QMFLGK---KLSIARSNP 469
M + + K++I+ S P
Sbjct: 80 GMTIKENIIKVAISNSGP 97
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 392 CTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF--IDDEHLAAA 449
C + ++L T DLR FS G ++ + I++D+ + +SRG A+V F +DD A
Sbjct: 16 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 75
Query: 450 VAKNKQM 456
A ++
Sbjct: 76 RANGMEL 82
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 47/99 (47%), Gaps = 11/99 (11%)
Query: 392 CTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVA 451
T F++N++ K ++ L+ FS G V IL DK GKSRG+ V F A++
Sbjct: 16 STVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDK-DGKSRGIGTVTFEQSIEAVQAIS 74
Query: 452 K-NKQMFLGKKLSIA---RSNPKQRKDSSGERAPTEQAQ 486
N Q+ + + + R+ PK G+ P E+ Q
Sbjct: 75 MFNGQLLFDRPMHVKMDERALPK------GDFFPPERPQ 107
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 37.4 bits (85), Expect = 0.021, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 392 CTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF--IDDEHLAAA 449
C + ++L T DLR FS G ++ + I++D+ + +SRG A+V F +DD A
Sbjct: 47 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 106
Query: 450 VAKNKQM 456
A ++
Sbjct: 107 RANGMEL 113
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 37.4 bits (85), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 41/96 (42%), Gaps = 19/96 (19%)
Query: 389 TDECTAFLSNINLKATYEDLRRFFSDVG--------GVSSIRILHDKFTGKSRGLAYVDF 440
+D ++ +N T +DL FF G G I I DK TGK +G A V +
Sbjct: 13 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSY 72
Query: 441 IDDEHLAAAVAKNKQMFLGK-------KLSIARSNP 469
D AAV + F GK K+S+AR P
Sbjct: 73 EDPPTAKAAV----EWFDGKDFQGSKLKVSLARKKP 104
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 37.4 bits (85), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 1/70 (1%)
Query: 396 LSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAV-AKNK 454
+ N+ + + + LRR F G V + I D++T +SRG A+V F D A+ A +
Sbjct: 75 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 134
Query: 455 QMFLGKKLSI 464
+ G++L +
Sbjct: 135 AVLDGRELRV 144
>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 = 37.4 bits (85), Expect = 0.025, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 396 LSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAV-AKNK 454
+ N+ + + + LRR F G V + I D++T +SRG A+V F D A+ A +
Sbjct: 52 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG 111
Query: 455 QMFLGKKLSIARSNPKQRKDS 475
+ G++L + + + DS
Sbjct: 112 AVLDGRELRVQMARYGRPPDS 132
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 37.0 bits (84), Expect = 0.027, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 392 CTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF--IDDEHLAAA 449
C + ++L T DLR FS G ++ + I++D+ + +SRG A+V F +DD A
Sbjct: 13 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 72
Query: 450 VAKNKQM 456
A ++
Sbjct: 73 RANGMEL 79
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 37.0 bits (84), Expect = 0.031, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 392 CTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF--IDDEHLAAA 449
C + ++L T DLR FS G ++ + I++D+ + +SRG A+V F +DD A
Sbjct: 16 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 75
Query: 450 VAKNKQM 456
A ++
Sbjct: 76 RANGMEL 82
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 36.6 bits (83), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 393 TAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK 452
TA++ N+ D+ F D+ + S+R++ DK T K +G YV+F + + L A+
Sbjct: 17 TAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTY 75
Query: 453 NKQMFLGKKLSI 464
+ + + L +
Sbjct: 76 DGALLGDRSLRV 87
>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 = 36.2 bits (82), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+ ++ T +DL+ +FS G V + D TG+SRG +V F + E + + + +
Sbjct: 3 FIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKE 62
Query: 455 QMFLGKKLSIARS 467
GK + R+
Sbjct: 63 HKLNGKVIDPKRA 75
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 36.2 bits (82), Expect = 0.048, Method: Composition-based stats.
Identities = 14/46 (30%), Positives = 25/46 (54%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF 440
F+ +++ T ED++ +F G V ++ DK T + RG +V F
Sbjct: 3 FVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTF 48
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 36.2 bits (82), Expect = 0.048, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 31/59 (52%)
Query: 386 KGFTDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDE 444
KG ++ +++ T + LR F G + SI+++ D TG+S+G ++ F D E
Sbjct: 21 KGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 79
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 35.8 bits (81), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF-IDDEHLAAAVAKN 453
F+++I+ +A ++++ F D G + +I + D+ TG S+G A V++ + LAA A N
Sbjct: 30 FVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALN 89
Query: 454 KQMFLGKKLSI 464
+G+ + +
Sbjct: 90 GAEIMGQTIQV 100
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 35.8 bits (81), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF 440
F+ I+ K T D+R FS G + RIL G SRG A+V F
Sbjct: 99 FIGMISKKCTENDIRVMFSSFGQIEECRILRGP-DGLSRGCAFVTF 143
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 35.8 bits (81), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF 440
F+ I+ K T D+R FS G + RIL G SRG A+V F
Sbjct: 111 FIGMISKKCTENDIRVMFSSFGQIEECRILRGP-DGLSRGCAFVTF 155
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 35.8 bits (81), Expect = 0.073, Method: Composition-based stats.
Identities = 28/94 (29%), Positives = 44/94 (46%), Gaps = 18/94 (19%)
Query: 397 SNINLKATY-------EDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDD------ 443
SN NL Y +L F +G +++ RI+ D TG S G A+VDF +
Sbjct: 2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 61
Query: 444 -EHLAAAVAKNKQMFLGKKLSIARSNPKQRKDSS 476
+ L +NK++ K+S AR + KD++
Sbjct: 62 IKVLNGITVRNKRL----KVSYARPGGESIKDTN 91
Score = 34.7 bits (78), Expect = 0.16, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 29/57 (50%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVA 451
+++N+ T + L F G + IL DK TG+ RG+A+V + E A++
Sbjct: 93 YVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 149
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 35.4 bits (80), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 404 TYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFI 441
T ++LR FS +G V S +++ DK G S G +V+++
Sbjct: 32 TQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYV 69
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 35.4 bits (80), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 28/55 (50%)
Query: 390 DECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDE 444
D F+ I +DL+ F + G + + +L D+FTG +G A++ + + E
Sbjct: 12 DAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERE 66
>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 = 35.4 bits (80), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 404 TYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFI 441
T ++LR FS +G V S +++ DK G S G +V+++
Sbjct: 15 TQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYV 52
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 35/70 (50%), Gaps = 12/70 (17%)
Query: 371 QPKKQPIKDAVPGRTKGFTDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTG 430
+P + IKDA ++S + T +D+ FS G + + R+L D+ TG
Sbjct: 80 RPSSEVIKDA------------NLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTG 127
Query: 431 KSRGLAYVDF 440
SRG+A++ F
Sbjct: 128 LSRGVAFIRF 137
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 35.4 bits (80), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 404 TYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFI 441
T ++LR FS +G V S +++ DK G S G +V+++
Sbjct: 15 TQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYV 52
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 35/70 (50%), Gaps = 12/70 (17%)
Query: 371 QPKKQPIKDAVPGRTKGFTDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTG 430
+P + IKDA ++S + T +D+ FS G + + R+L D+ TG
Sbjct: 80 RPSSEVIKDA------------NLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTG 127
Query: 431 KSRGLAYVDF 440
SRG+A++ F
Sbjct: 128 LSRGVAFIRF 137
>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 = 35.4 bits (80), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF-IDDEHLAAAVAKN 453
F+++I+ +A ++++ F D G + +I + D+ TG S+G A V++ + LAA A N
Sbjct: 76 FVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALN 135
Query: 454 KQMFLGKKLSI 464
+G+ + +
Sbjct: 136 GAEIMGQTIQV 146
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 35.4 bits (80), Expect = 0.094, Method: Composition-based stats.
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 404 TYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFI 441
T ++LR FS +G V S +++ DK G S G +V+++
Sbjct: 17 TQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYV 54
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 35.4 bits (80), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 38/79 (48%), Gaps = 4/79 (5%)
Query: 393 TAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAV-A 451
T F+ ++ T E L+ F G RI+ D+ TG S+G +VDF +E AA A
Sbjct: 17 TLFVKGLSEDTTEETLKESFD---GSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEA 73
Query: 452 KNKQMFLGKKLSIARSNPK 470
G K+++ + PK
Sbjct: 74 MEDGEIDGNKVTLDWAKPK 92
>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 = 35.0 bits (79), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF 440
F+ I+ K T D+R FS G + RIL G SRG A+V F
Sbjct: 99 FIGXISKKCTENDIRVXFSSFGQIEECRILRGP-DGLSRGCAFVTF 143
>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 = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 39/71 (54%), Gaps = 3/71 (4%)
Query: 403 ATYEDLRRFFSDVG-GVSSIRILHDKFTGKSRGLAYVDF--IDDEHLAAAVAKNKQMFLG 459
AT +D+R G +R++ +K +G+SRG A+V+F + D ++ LG
Sbjct: 13 ATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILG 72
Query: 460 KKLSIARSNPK 470
+K+S+ S+PK
Sbjct: 73 QKVSMHYSDPK 83
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 34.7 bits (78), Expect = 0.13, Method: Composition-based stats.
Identities = 26/89 (29%), Positives = 39/89 (43%), Gaps = 18/89 (20%)
Query: 408 LRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK-NKQMFLGKKLSIAR 466
LR+ F G + S++I+ D+ T +SRG +V F A+A N L K+L +A
Sbjct: 59 LRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVAL 118
Query: 467 SNPKQRKDSSGERAPTEQAQSHQQTGNAG 495
+ A HQ+ G AG
Sbjct: 119 A-----------------ASGHQRPGIAG 130
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%)
Query: 391 ECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAV 450
+ +++N+ T + L F G + IL DK TG+ RG+A+V + E A+
Sbjct: 13 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 72
Query: 451 A 451
+
Sbjct: 73 S 73
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 26/47 (55%)
Query: 404 TYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAV 450
T ++ + F +G + S +++ DK TG+S G +V++ D A+
Sbjct: 17 TQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
Score = 32.3 bits (72), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 29/50 (58%)
Query: 391 ECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF 440
+ ++S + + +++ + FS G + + RIL D+ TG SRG+ ++ F
Sbjct: 90 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRF 139
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 34.3 bits (77), Expect = 0.18, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 8/81 (9%)
Query: 397 SNINLKATY-------EDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAA 449
SN NL Y +L F +G +++ RI+ D TG S G A+VDF + A
Sbjct: 2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 61
Query: 450 V-AKNKQMFLGKKLSIARSNP 469
+ N K+L ++ + P
Sbjct: 62 IKVLNGITVRNKRLKVSYARP 82
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 34.3 bits (77), Expect = 0.20, Method: Composition-based stats.
Identities = 18/70 (25%), Positives = 31/70 (44%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNK 454
F+ + T LR++F G + ++ D+ TGKSRG +V D A
Sbjct: 21 FVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPN 80
Query: 455 QMFLGKKLSI 464
+ G+K ++
Sbjct: 81 PIIDGRKANV 90
>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 = 33.9 bits (76), Expect = 0.23, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 29/57 (50%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVA 451
+++N+ T + L F G + IL DK TG+ RG+A+V + E A++
Sbjct: 104 YVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 160
Score = 33.5 bits (75), Expect = 0.33, Method: Composition-based stats.
Identities = 28/94 (29%), Positives = 43/94 (45%), Gaps = 18/94 (19%)
Query: 397 SNINLKATY-------EDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAA 449
SN NL Y +L F +G +++ RI D TG S G A+VDF + A
Sbjct: 13 SNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRA 72
Query: 450 V-------AKNKQMFLGKKLSIARSNPKQRKDSS 476
+ +NK++ K+S AR + KD++
Sbjct: 73 IKVLNGITVRNKRL----KVSYARPGGESIKDTN 102
>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 = 0.25, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 28/50 (56%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDE 444
++ +++ T + LR F G + +I ++ D TG+S+G ++ F D E
Sbjct: 9 YVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSE 58
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 33.5 bits (75), Expect = 0.31, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 24/39 (61%)
Query: 404 TYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFID 442
T ++ + F +G + S +++ DK TG+S G +V++ D
Sbjct: 17 TQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSD 55
>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 = 33.5 bits (75), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 390 DECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAA 449
D F+ ++ + +DL+ +F+ G V I D TG+SRG ++ F D AA+
Sbjct: 10 DAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKD----AAS 65
Query: 450 VAK 452
V K
Sbjct: 66 VEK 68
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 33.5 bits (75), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 43/85 (50%), Gaps = 4/85 (4%)
Query: 391 ECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF---IDDEHLA 447
+ ++S + + +++ + FS G + + RIL D+ TG SRG+ ++ F I+ E
Sbjct: 1 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 60
Query: 448 AAVAKNKQMFLGKKLSIA-RSNPKQ 471
+ K + + +++ +NP Q
Sbjct: 61 KGLNGQKPLGAAEPITVKFANNPSQ 85
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 33.1 bits (74), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 35/94 (37%), Gaps = 15/94 (15%)
Query: 390 DECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAA 449
D ++SN+ L ++L G V S RIL D +G SRG+ + E A
Sbjct: 24 DPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEAV 82
Query: 450 VAKNKQMFLGKKLSIARSNPKQRKDSSGERAPTE 483
+ F+ K G APTE
Sbjct: 83 IGHFNGKFI--------------KTPPGVSAPTE 102
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 33.1 bits (74), Expect = 0.42, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 412 FSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK-NKQMFLGKKLSIARSNPK 470
F G ++ I+I D T K RG A+V+F E AAA+ N+ G+ + + + P
Sbjct: 33 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKPM 92
Query: 471 QRKDS 475
+ K+S
Sbjct: 93 RIKES 97
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKS--RGLAYVDFIDDE 444
+ NI +A ++R FS G + ++R L K TG RG +VDFI +
Sbjct: 19 LVRNIPFQANQREIRELFSTFGELKTVR-LPKKMTGTGAHRGFGFVDFITKQ 69
>pdb|2OOE|A Chain A, Crystal Structure Of Hat Domain Of Murine Cstf-77
Length = 530
Score = 32.7 bits (73), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 66/277 (23%), Positives = 110/277 (39%), Gaps = 30/277 (10%)
Query: 30 LKYEQSSGDPGRVQLLYERAITDFPVSSDLWLDYTQYLDKTLKVGNVVRDVYSRATKNCP 89
L+ E + RV YE+ + D+W + QYL+++ K+ A K
Sbjct: 245 LRTEDQTLITKRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKL---------LAEK--- 292
Query: 90 WVGELWVXXXXXXXXXXXXXXXISTVFEKSLLC--AFSTFEEYLDLFLTRIDGLRRRILF 147
G++ IST+ +K++L A++ +EE + ++ + R+L
Sbjct: 293 --GDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE-SRMKYEKVHSIYNRLLA 349
Query: 148 SGEVEGVLDYSLIRETFQRASDYLSEQM----KNTDGLLR--LYAYWAHLEQSMGKDMVS 201
+++ L Y + +RA S +M D R +Y A +E KD
Sbjct: 350 IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSV 409
Query: 202 ARGVWERLLKISGAMLEAWQSYISMEIELDHINEARSIYKRCY-SKRFTGTGSEDICHAW 260
A ++E LK G + E +YI L+ N R +++R S S +I +
Sbjct: 410 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARF 469
Query: 261 LRFEREYGTLEDFDHSVQKVTPRLEELRLFRSQQESK 297
L FE G L S+ KV R FR + E K
Sbjct: 470 LAFESNIGDLA----SILKVEKR--RFTAFREEYEGK 500
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 32.7 bits (73), Expect = 0.56, Method: Composition-based stats.
Identities = 27/94 (28%), Positives = 41/94 (43%), Gaps = 15/94 (15%)
Query: 383 GRTKGFTDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKS-RGLAYVDFI 441
G + F CT + T ++LR FFS G V D F K R A+V F
Sbjct: 4 GSSGVFVGRCTGDM-------TEDELREFFSQYGDVM------DVFIPKPFRAFAFVTFA 50
Query: 442 DDEHLAAAVAKNKQMFLGKKLSIARSNPKQRKDS 475
DD+ +A ++ + G + I+ + PK +S
Sbjct: 51 DDQ-IAQSLCGEDLIIKGISVHISNAEPKHNSNS 83
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 32.7 bits (73), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 7/57 (12%)
Query: 382 PGRTKGFTDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYV 438
PG K +T C F+ N+ T ED +R F G S + F + RG ++
Sbjct: 14 PGE-KTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEV------FINRDRGFGFI 63
>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 = 32.3 bits (72), Expect = 0.66, Method: Composition-based stats.
Identities = 22/89 (24%), Positives = 43/89 (48%), Gaps = 8/89 (8%)
Query: 381 VPGRTKGFTDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF 440
+PG K F +L++ + ++ + G + + ++ D TG S+G A+ ++
Sbjct: 93 LPGAHKLFIGGLPNYLND-------DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 145
Query: 441 IDDEHLAAAVAKNKQMFLG-KKLSIARSN 468
+D A+A M LG KKL + R++
Sbjct: 146 VDINVTDQAIAGLNGMQLGDKKLLVQRAS 174
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 32.3 bits (72), Expect = 0.75, Method: Composition-based stats.
Identities = 22/89 (24%), Positives = 43/89 (48%), Gaps = 8/89 (8%)
Query: 381 VPGRTKGFTDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF 440
+PG K F +L++ + ++ + G + + ++ D TG S+G A+ ++
Sbjct: 91 LPGAHKLFIGGLPNYLND-------DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEY 143
Query: 441 IDDEHLAAAVAKNKQMFLG-KKLSIARSN 468
+D A+A M LG KKL + R++
Sbjct: 144 VDINVTDQAIAGLNGMQLGDKKLLVQRAS 172
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 32.3 bits (72), Expect = 0.76, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 1/76 (1%)
Query: 390 DECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFID-DEHLAA 448
D F+ ++N+ E LR F D S ++ D TG SRG +V F D+ A
Sbjct: 86 DTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNA 145
Query: 449 AVAKNKQMFLGKKLSI 464
+ Q G+ L I
Sbjct: 146 MDSMQGQDLNGRPLRI 161
>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 = 0.93, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 32/69 (46%), Gaps = 3/69 (4%)
Query: 412 FSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAV-AKNKQMFLGKKLSIARS--N 468
FS G + SIR+ D T +S G AYV+F A+ N + GK + I S +
Sbjct: 31 FSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQRD 90
Query: 469 PKQRKDSSG 477
P RK G
Sbjct: 91 PSLRKSGVG 99
>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 = 32.0 bits (71), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 39/86 (45%), Gaps = 3/86 (3%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAV-AKN 453
++ +++ T L FS G + SIR+ D T +S G AYV+F A+ N
Sbjct: 19 YVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMN 78
Query: 454 KQMFLGKKLSIARS--NPKQRKDSSG 477
+ GK + I S +P RK G
Sbjct: 79 FDVIKGKPVRIMWSQRDPSLRKSGVG 104
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 32.0 bits (71), Expect = 0.98, Method: Composition-based stats.
Identities = 17/64 (26%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 406 EDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNKQMFLG-KKLSI 464
+ ++ + G + + ++ D TG S+G A+ +++D A+A M LG KKL +
Sbjct: 16 DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 75
Query: 465 ARSN 468
R++
Sbjct: 76 QRAS 79
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 32.0 bits (71), Expect = 1.0, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 1/71 (1%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFID-DEHLAAAVAKN 453
F+ ++N+ E LR F D S ++ D TG SRG +V F D+ A +
Sbjct: 5 FVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQ 64
Query: 454 KQMFLGKKLSI 464
Q G+ L I
Sbjct: 65 GQDLNGRPLRI 75
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 1/70 (1%)
Query: 390 DECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFID-DEHLAA 448
D F+ I +DL+ F + G + + +L D+ TG +G A++ + D L A
Sbjct: 14 DAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKA 73
Query: 449 AVAKNKQMFL 458
A ++Q L
Sbjct: 74 QSALHEQKTL 83
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 32.0 bits (71), Expect = 1.1, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 2/83 (2%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGV-SSIRILHDKFTGKSRGLAYVDFID-DEHLAAAVAK 452
F+ N++ + + L FS G + + +I+ D TG S+G A+++F D AA A
Sbjct: 9 FIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAM 68
Query: 453 NKQMFLGKKLSIARSNPKQRKDS 475
N Q + ++++ + K K S
Sbjct: 69 NGQYLCNRPITVSYAFKKDSKGS 91
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 43/84 (51%), Gaps = 5/84 (5%)
Query: 393 TAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAV-A 451
T LSN++ AT E L+ F + I++ ++ GKS+G A+++F E A+ +
Sbjct: 17 TLVLSNLSYSATEETLQEVFEKA---TFIKVPQNQ-NGKSKGYAFIEFASFEDAKEALNS 72
Query: 452 KNKQMFLGKKLSIARSNPKQRKDS 475
NK+ G+ + + P+ +S
Sbjct: 73 CNKREIEGRAIRLELQGPRGSPNS 96
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 46/84 (54%), Gaps = 2/84 (2%)
Query: 393 TAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTG-KSRGLAYVDFIDDEHLAAAVA 451
TAFL N+ T E ++ FF + +S++R+ + + +G Y +F D + L +A++
Sbjct: 17 TAFLGNLPYDVTEESIKEFFRGL-NISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALS 75
Query: 452 KNKQMFLGKKLSIARSNPKQRKDS 475
N++ K++ + ++ Q KDS
Sbjct: 76 LNEESLGNKRIRVDVADQAQDKDS 99
>pdb|1Q2L|A Chain A, Crystal Structure Of Pitrilysin
Length = 939
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 51/104 (49%), Gaps = 6/104 (5%)
Query: 199 MVSARGVWERLLKISGAMLEAWQSYISMEIELDHINEARSIYKRCYSKRFTGTGSED-IC 257
MV+A G +RL ++ A+LE + SY + E D + +A+S Y + G E I
Sbjct: 580 MVNANGYTQRLPQLFQALLEGYFSYTATE---DQLEQAKSWYNQMMDSAEKGKAFEQAIM 636
Query: 258 HAWLRFEREYGTLEDFDHSVQKVTPRLEELRLFRSQQESKSLPE 301
A + + Y + ++ + +T L+E+ +R +S + PE
Sbjct: 637 PAQMLSQVPYFSRDERRKILPSIT--LKEVLAYRDALKSGARPE 678
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 43/88 (48%), Gaps = 2/88 (2%)
Query: 391 ECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAV 450
+ T ++ ++ K + L F G V + + D+ TG+ +G +V+F+ +E A+
Sbjct: 15 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74
Query: 451 AKNKQMFL-GKKLSIARSNPKQRKDSSG 477
+ L GK + + +++ K+ SG
Sbjct: 75 KIMDMIKLYGKPIRVNKAS-AHNKNLSG 101
>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 = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 406 EDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNKQMFLG-KKLSI 464
+ ++ + G + + ++ D TG S+G A+ +++D A+A M LG KKL +
Sbjct: 129 DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 188
Query: 465 ARS 467
R+
Sbjct: 189 QRA 191
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 395 FLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAV 450
F+ +N + + +D+RR F G + IL G S+G A+V + AA+
Sbjct: 19 FVGMLNKQQSEDDVRRLFEAFGNIEECTILRGP-DGNSKGCAFVKYSSHAEAQAAI 73
>pdb|1NKT|A Chain A, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis Complex With Adpbs
pdb|1NKT|B Chain B, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis Complex With Adpbs
pdb|1NL3|A Chain A, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis In Apo Form
pdb|1NL3|B Chain B, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis In Apo Form
Length = 922
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 26/110 (23%), Positives = 45/110 (40%), Gaps = 6/110 (5%)
Query: 437 YVDFIDDEHLAAAVAKNKQMFLGKKLSIARSNPKQRKDSSGERAPTE--QAQSHQQTGNA 494
Y+ +DD +A AK + + +G S+ RS R+ + R P A+ H+Q
Sbjct: 446 YIAVVDD--VAERYAKGQPVLIGTT-SVERSEYLSRQ-FTKRRIPHNVLNAKYHEQEATI 501
Query: 495 GTSASKESSIETSKQSRGRGDSVQLKGKNTFAVPRNVRPLGFPAIKPKTE 544
A + + + GRG + L G F + +R G ++ E
Sbjct: 502 IAVAGRRGGVTVATNMAGRGTDIVLGGNVDFLTDQRLRERGLDPVETPEE 551
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 390 DECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDF 440
D T N+ K T ++L+ F D + IR++ GKS+G+AY++F
Sbjct: 92 DARTLLAKNLPYKVTQDELKEVFEDA---AEIRLVSKD--GKSKGIAYIEF 137
>pdb|2W5Q|A Chain A, Structure-Based Mechanism Of Lipoteichoic Acid Synthesis
By Staphylococcus Aureus Ltas.
pdb|2W5S|A Chain A, Structure-Based Mechanism Of Lipoteichoic Acid Synthesis
By Staphylococcus Aureus Ltas.
pdb|2W5T|A Chain A, Structure-Based Mechanism Of Lipoteichoic Acid Synthesis
By Staphylococcus Aureus Ltas
Length = 424
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 34/72 (47%), Gaps = 2/72 (2%)
Query: 455 QMFL-GKKLSIARSNPKQRKDSSGERAPTEQAQSHQQTGNAGTSASKESSIETSKQSRGR 513
Q FL KK++ P K SSG+ T QTG TS S E +++ S +
Sbjct: 41 QTFLINKKVNGKEVTPFLNKLSSGKEQFTYFPNFFHQTGQGKTSDS-EFTMDNSLYGLPQ 99
Query: 514 GDSVQLKGKNTF 525
G + LKG NT+
Sbjct: 100 GSAFSLKGDNTY 111
>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 = 30.0 bits (66), Expect = 3.2, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 416 GGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNKQMFLGKKLSIARSNPKQRK 473
G +S R++ D TGKS+G +V F + A+ + +LG + R+N RK
Sbjct: 31 GRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQ--IRTNWATRK 86
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%)
Query: 392 CTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFID 442
T + N+ + + + LRR F G V + I + T RG A+V F D
Sbjct: 14 ITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHD 64
>pdb|1WG5|A Chain A, Solution Structure Of The First Rrm Domain In
Heterogeneous Nuclear Ribonucleoprotein H
Length = 104
Score = 30.0 bits (66), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%)
Query: 396 LSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNKQ 455
L + + E++ +FFS + V + L F G+S G A+V F E A+ K+K+
Sbjct: 20 LRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKE 79
Query: 456 MFLGKKLSIARSN 468
+ + I +S+
Sbjct: 80 RIGHRYIEIFKSS 92
>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 = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 392 CTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVA 451
CT ++ N++ T E + FS G + I + DK + G +V E+ + A A
Sbjct: 40 CTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFV-----EYYSRADA 94
Query: 452 KNKQMFL 458
+N ++
Sbjct: 95 ENAMRYI 101
>pdb|2LXU|A Chain A, Solution Nmr Structure Of The Eukaryotic Rna Recognition
Motif, Rrm1, From The Heterogeneous Nuclear
Ribonucleoprotein H From Homo Sapiens, Northeast
Structural Genomics Consortium (Nesg) Target Hr8614a
Length = 108
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 38/69 (55%), Gaps = 4/69 (5%)
Query: 403 ATYEDLRRFFSDV---GGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNKQMFLG 459
+ ++++RFFSD G IR ++ + G+ G A+V+ ++ + A+ K+++
Sbjct: 19 CSADEVQRFFSDCKIQNGAQGIRFIYTR-EGRPSGEAFVELESEDEVKLALKKDRETMGH 77
Query: 460 KKLSIARSN 468
+ + + +SN
Sbjct: 78 RYVEVFKSN 86
>pdb|2B30|A Chain A, Initial Crystallographic Structural Analysis Of A Putative
HadCOF-Like Hydrolase From Plasmodium Vivax
pdb|2B30|B Chain B, Initial Crystallographic Structural Analysis Of A Putative
HadCOF-Like Hydrolase From Plasmodium Vivax
pdb|2B30|C Chain C, Initial Crystallographic Structural Analysis Of A Putative
HadCOF-Like Hydrolase From Plasmodium Vivax
pdb|2B30|D Chain D, Initial Crystallographic Structural Analysis Of A Putative
HadCOF-Like Hydrolase From Plasmodium Vivax
Length = 301
Score = 29.3 bits (64), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 45/97 (46%), Gaps = 5/97 (5%)
Query: 400 NLKATYEDLRRFFSDVGGVSSI-RILHDKFTGKSRGLAYVDFIDDEHLAAAVAKNKQMFL 458
NLK +++ F+ G + + ++ HDK+TG + L + + +D+ L A+N L
Sbjct: 197 NLKQKFKNKLTIFTTYNGHAEVTKLGHDKYTGINYLLKHYNISNDQVLVVGDAENDIAML 256
Query: 459 GK-KLSIARSNPKQRKDSSGERAPTEQAQSHQQTGNA 494
K S A +N DS+ A SH++ A
Sbjct: 257 SNFKYSFAVANA---TDSAKSHAKCVLPVSHREGAVA 290
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 29.3 bits (64), Expect = 6.4, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 412 FSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK-NKQMFLGKKLSI 464
F G ++ I+I D T K RG A+V+F E AAA+ N+ G+ + +
Sbjct: 84 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRV 137
>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 = 29.3 bits (64), Expect = 6.5, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 34/82 (41%), Gaps = 12/82 (14%)
Query: 390 DECTAFLSNINLKATYEDLRRFFSDVG--------GVSSIRILHDKFTGKSRGLAYVDFI 441
D T F+ + T E + +F +G G I + D+ TGK +G A V F
Sbjct: 12 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFD 71
Query: 442 DDEHLAAAVAKNKQMFLGKKLS 463
D AA+ F GK+ S
Sbjct: 72 DPPSAKAAI----DWFDGKEFS 89
>pdb|2W5R|A Chain A, Structure-Based Mechanism Of Lipoteichoic Acid Synthesis
By Staphylococcus Aureus Ltas
Length = 424
Score = 28.9 bits (63), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 34/72 (47%), Gaps = 2/72 (2%)
Query: 455 QMFL-GKKLSIARSNPKQRKDSSGERAPTEQAQSHQQTGNAGTSASKESSIETSKQSRGR 513
Q FL KK++ P K SSG+ T QTG G ++ E +++ S +
Sbjct: 41 QTFLINKKVNGKEVTPFLNKLSSGKEQFTYFPNFFHQTG-QGKASDSEFTMDNSLYGLPQ 99
Query: 514 GDSVQLKGKNTF 525
G + LKG NT+
Sbjct: 100 GSAFSLKGDNTY 111
>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 = 28.9 bits (63), Expect = 7.5, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 412 FSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK-NKQMFLGKKLSI 464
F G ++ I+I D T K RG A+V+F E AAA+ N+ G+ + +
Sbjct: 28 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRV 81
>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 = 7.6, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 412 FSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK-NKQMFLGKKLSI 464
F G ++ I+I D T K RG A+V+F E AAA+ N+ G+ + +
Sbjct: 23 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRV 76
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 28.9 bits (63), Expect = 8.1, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 412 FSDVGGVSSIRILHDKFTGKSRGLAYVDFIDDEHLAAAVAK-NKQMFLGKKLSI 464
F G ++ I+I D T K RG A+V+F E AAA+ N+ G+ + +
Sbjct: 26 FIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRV 79
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 28.5 bits (62), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 388 FTDECTAFLSNINLKATYEDLRRFFSDVGGVSSIRILHDKFTGKSRGLAYV 438
F T LSNI + EDL+ FS GGV + KF K R +A +
Sbjct: 117 FPPSATLHLSNIPPSVSEEDLKVLFSSNGGV----VKGFKFFQKDRKMALI 163
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 28.5 bits (62), Expect = 9.8, Method: Composition-based stats.
Identities = 24/83 (28%), Positives = 35/83 (42%), Gaps = 12/83 (14%)
Query: 389 TDECTAFLSNINLKATYEDLRRFFSDVG--------GVSSIRILHDKFTGKSRGLAYVDF 440
+D T F+ + T E + +F +G G I + D+ TGK +G A V F
Sbjct: 5 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSF 64
Query: 441 IDDEHLAAAVAKNKQMFLGKKLS 463
D AA+ F GK+ S
Sbjct: 65 DDPPSAKAAI----DWFDGKEFS 83
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.315 0.131 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,169,858
Number of Sequences: 62578
Number of extensions: 657527
Number of successful extensions: 1751
Number of sequences better than 100.0: 131
Number of HSP's better than 100.0 without gapping: 84
Number of HSP's successfully gapped in prelim test: 47
Number of HSP's that attempted gapping in prelim test: 1643
Number of HSP's gapped (non-prelim): 154
length of query: 565
length of database: 14,973,337
effective HSP length: 104
effective length of query: 461
effective length of database: 8,465,225
effective search space: 3902468725
effective search space used: 3902468725
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 54 (25.4 bits)