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= 009076
(544 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 187 bits (476), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 100/202 (49%), Positives = 133/202 (65%), Gaps = 10/202 (4%)
Query: 244 ARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVE 303
ARR+YVG +P E+++ FF+ M +GG T PG+ V+ V IN +K FAF+E RSV+
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMR-LGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62
Query: 304 EASNAMALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGLTPGSAGGLEG 363
E + AMA DGIIF+G +K+RRP DY P + PS P + V P SA
Sbjct: 63 ETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVV---PDSA----- 114
Query: 364 PDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIAC 423
++F+GGLP Y + Q++ELL SFGPL+ F+LVKD TG SKGYAFC Y D++VTD A
Sbjct: 115 -HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173
Query: 424 AALNGIKMGDKTLTVRRANQGA 445
A LNG+++GDK L V+RA+ GA
Sbjct: 174 AGLNGMQLGDKKLLVQRASVGA 195
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 180 bits (457), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 93/199 (46%), Positives = 124/199 (62%), Gaps = 30/199 (15%)
Query: 244 ARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVE 303
ARR+YVG +P E+++ FF+ M +GG T PG+ V+ V IN +K FAF+E RSV+
Sbjct: 4 ARRLYVGNIPFGITEEAMMDFFNAQMR-LGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62
Query: 304 EASNAMALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGLTPGSAGGLEG 363
E + AMA DGIIF+G +K+RRP DY P L G
Sbjct: 63 ETTQAMAFDGIIFQGQSLKIRRPHDYQP-----------------------------LPG 93
Query: 364 PDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIAC 423
++F+GGLP Y + Q++ELL SFGPL+ F+LVKD TG SKGYAFC Y D++VTD A
Sbjct: 94 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 153
Query: 424 AALNGIKMGDKTLTVRRAN 442
A LNG+++GDK L V+RA+
Sbjct: 154 AGLNGMQLGDKKLLVQRAS 172
>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 = 180 bits (456), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 93/199 (46%), Positives = 124/199 (62%), Gaps = 30/199 (15%)
Query: 244 ARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVE 303
ARR+YVG +P E+++ FF+ M +GG T PG+ V+ V IN +K FAF+E RSV+
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMR-LGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 64
Query: 304 EASNAMALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGLTPGSAGGLEG 363
E + AMA DGIIF+G +K+RRP DY P L G
Sbjct: 65 ETTQAMAFDGIIFQGQSLKIRRPHDYQP-----------------------------LPG 95
Query: 364 PDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIAC 423
++F+GGLP Y + Q++ELL SFGPL+ F+LVKD TG SKGYAFC Y D++VTD A
Sbjct: 96 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 155
Query: 424 AALNGIKMGDKTLTVRRAN 442
A LNG+++GDK L V+RA+
Sbjct: 156 AGLNGMQLGDKKLLVQRAS 174
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 106 bits (264), Expect = 4e-23, Method: Composition-based stats.
Identities = 48/80 (60%), Positives = 63/80 (78%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++F+GGLP Y + Q++ELL SFGPL+ F+LVKD TG SKGYAFC Y D++VTD A A
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 426 LNGIKMGDKTLTVRRANQGA 445
LNG+++GDK L V+RA+ GA
Sbjct: 63 LNGMQLGDKKLLVQRASVGA 82
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 94.4 bits (233), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 45/88 (51%), Positives = 61/88 (69%), Gaps = 1/88 (1%)
Query: 244 ARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVE 303
ARR+YVG +P E+++ FF+ M +GG T PG+ V+ V IN +K FAF+E RSV+
Sbjct: 1 ARRLYVGNIPFGITEEAMMDFFNAQMR-LGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 59
Query: 304 EASNAMALDGIIFEGAPVKVRRPSDYNP 331
E + AMA DGIIF+G +K+RRP DY P
Sbjct: 60 ETTQAMAFDGIIFQGQSLKIRRPHDYQP 87
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large
Subunit
Length = 87
Score = 86.7 bits (213), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 42/83 (50%), Positives = 58/83 (69%), Gaps = 1/83 (1%)
Query: 244 ARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVE 303
ARR+YVG +P E+++ FF+ M +GG T PG+ V+ V IN +K FAF+E RSV+
Sbjct: 6 ARRLYVGNIPFGITEEAMMDFFNAQMR-LGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 64
Query: 304 EASNAMALDGIIFEGAPVKVRRP 326
E + AMA DGIIF+G +K+RRP
Sbjct: 65 ETTQAMAFDGIIFQGQSLKIRRP 87
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 68.9 bits (167), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 34/81 (41%), Positives = 44/81 (54%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+FVG +PY TE Q++++ GP+ F LV DRETG KGY FC YQD A L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 427 NGIKMGDKTLTVRRANQGANQ 447
NG + + L V A N+
Sbjct: 71 NGREFSGRALRVDNAASEKNK 91
Score = 32.7 bits (73), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 46/106 (43%), Gaps = 14/106 (13%)
Query: 242 RHARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVY---INHEKKFAFVE 298
R R V+VG +P A E+ + FS+V GP + VY K + F E
Sbjct: 6 RSLRSVFVGNIPYEATEEQLKDIFSEV---------GPVVSFRLVYDRETGKPKGYGFCE 56
Query: 299 MRSVEEASNAMA-LDGIIFEGAPVKVRR-PSDYNPSLAATLGPSQP 342
+ E A +AM L+G F G ++V S+ N +LG P
Sbjct: 57 YQDQETALSAMRNLNGREFSGRALRVDNAASEKNKEELKSLGTGAP 102
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/69 (42%), Positives = 41/69 (59%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
+IFVGGLPY+ T+A +R+ E FG + ++ DR+TG S+GY F D + + AC
Sbjct: 19 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 78
Query: 426 LNGIKMGDK 434
N I G K
Sbjct: 79 PNPIIDGRK 87
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 43/82 (52%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+ V +P E Q+R+L E +GP+ +V DRET S+GY F +Q S A A L
Sbjct: 45 LMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL 104
Query: 427 NGIKMGDKTLTVRRANQGANQP 448
NG + +K L V A G +P
Sbjct: 105 NGFNILNKRLKVALAASGHQRP 126
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 32/86 (37%), Positives = 44/86 (51%), Gaps = 4/86 (4%)
Query: 353 LTPGSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCV 412
L GSAG P R++VG L + TE +R + E FG + L+ D ETG SKGY F
Sbjct: 19 LQKGSAG----PMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFIT 74
Query: 413 YQDLSVTDIACAALNGIKMGDKTLTV 438
+ D A LNG ++ + + V
Sbjct: 75 FSDSECAKKALEQLNGFELAGRPMKV 100
>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 = 58.5 bits (140), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 54/208 (25%), Positives = 91/208 (43%), Gaps = 25/208 (12%)
Query: 235 AMTQQATRHARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKF 294
A Q+A RVYVG + E ++ F+ G + +V + H K F
Sbjct: 4 AQRQRALAIMCRVYVGSIYYELGEDTIRQAFAPF-----GPIKSIDMSWDSVTMKH-KGF 57
Query: 295 AFVEMRSVEEASNAMA-LDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGL 353
AFVE E A A+ ++ ++ G +KV RPS+ +G +QP +
Sbjct: 58 AFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSN--------IGQAQP----------I 99
Query: 354 TPGSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVY 413
A +RI+V + ++ I+ + E+FG ++ L +D TG KGY F Y
Sbjct: 100 IDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEY 159
Query: 414 QDLSVTDIACAALNGIKMGDKTLTVRRA 441
+ + A +++N +G + L V +A
Sbjct: 160 EKAQSSQDAVSSMNLFDLGGQYLRVGKA 187
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 45/88 (51%), Gaps = 1/88 (1%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
R++VG + Y E IR+ FGP++ D+ D T KG+AF Y+ +A
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 426 LNGIKMGDKTLTVRR-ANQGANQPKPEQ 452
+N + +G + + V R +N G QP +Q
Sbjct: 75 MNSVMLGGRNIKVGRPSNIGQAQPIIDQ 102
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 30/75 (40%), Positives = 46/75 (61%), Gaps = 1/75 (1%)
Query: 363 GPDRI-FVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDI 421
GP R+ ++G +PY TE QI +L + GP+ ++ D +TG SKGYAF ++DL +
Sbjct: 1 GPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSAS 60
Query: 422 ACAALNGIKMGDKTL 436
A LNG ++G + L
Sbjct: 61 AVRNLNGYQLGSRFL 75
>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 = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 55/212 (25%), Positives = 92/212 (43%), Gaps = 33/212 (15%)
Query: 235 AMTQQATRHARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVV----NVYINH 290
A Q A RVYVG + E ++ F+ GP ++ +V + H
Sbjct: 19 AQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPF---------GPIKSIDMSWDSVTMKH 69
Query: 291 EKKFAFVEMRSVEEASNAMA-LDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLA 349
K FAFVE E A A+ ++ ++ G +KV RPS+ +G +QP
Sbjct: 70 -KGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSN--------IGQAQP------- 113
Query: 350 AVGLTPGSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYA 409
+ A +RI+V + ++ I+ + E+FG ++ L +D TG KGY
Sbjct: 114 ---IIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYG 170
Query: 410 FCVYQDLSVTDIACAALNGIKMGDKTLTVRRA 441
F Y+ + A +++N +G + L V +A
Sbjct: 171 FIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKA 202
Score = 55.5 bits (132), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 47/95 (49%), Gaps = 1/95 (1%)
Query: 359 GGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSV 418
G L R++VG + Y E IR+ FGP++ D+ D T KG+AF Y+
Sbjct: 23 GALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEA 82
Query: 419 TDIACAALNGIKMGDKTLTVRR-ANQGANQPKPEQ 452
+A +N + +G + + V R +N G QP +Q
Sbjct: 83 AQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQ 117
>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 = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 45/74 (60%), Gaps = 1/74 (1%)
Query: 364 PDRI-FVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIA 422
P R+ ++G +PY TE QI +L + GP+ ++ D +TG SKGYAF ++DL + A
Sbjct: 3 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 62
Query: 423 CAALNGIKMGDKTL 436
LNG ++G + L
Sbjct: 63 VRNLNGYQLGSRFL 76
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 56.2 bits (134), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 45/74 (60%), Gaps = 1/74 (1%)
Query: 364 PDRI-FVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIA 422
P R+ ++G +PY TE QI +L + GP+ ++ D +TG SKGYAF ++DL + A
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 423 CAALNGIKMGDKTL 436
LNG ++G + L
Sbjct: 61 VRNLNGYQLGSRFL 74
>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 = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 54/208 (25%), Positives = 87/208 (41%), Gaps = 25/208 (12%)
Query: 235 AMTQQATRHARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKF 294
A Q+A RVYVG + E ++ F+ G + +V H K F
Sbjct: 3 AQRQRALAIXCRVYVGSIYYELGEDTIRQAFAPF-----GPIKSIDXSWDSVTXKH-KGF 56
Query: 295 AFVEMRSVEEASNAMA-LDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGL 353
AFVE E A A+ + + G +KV RPS+ +G +QP +
Sbjct: 57 AFVEYEVPEAAQLALEQXNSVXLGGRNIKVGRPSN--------IGQAQP----------I 98
Query: 354 TPGSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVY 413
A +RI+V + ++ I+ + E+FG ++ L +D TG KGY F Y
Sbjct: 99 IDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEY 158
Query: 414 QDLSVTDIACAALNGIKMGDKTLTVRRA 441
+ + A ++ N +G + L V +A
Sbjct: 159 EKAQSSQDAVSSXNLFDLGGQYLRVGKA 186
Score = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 43/88 (48%), Gaps = 1/88 (1%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
R++VG + Y E IR+ FGP++ D D T KG+AF Y+ +A
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 426 LNGIKMGDKTLTVRR-ANQGANQPKPEQ 452
N + +G + + V R +N G QP +Q
Sbjct: 74 XNSVXLGGRNIKVGRPSNIGQAQPIIDQ 101
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 57/126 (45%), Gaps = 2/126 (1%)
Query: 361 LEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTD 420
++ + V LP T+ + + L S G + LV+D+ TG S GY F Y D + D
Sbjct: 1 MDSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDAD 60
Query: 421 IACAALNGIKMGDKTLTVRRANQGANQPKPEQESV--LLHAQQQIALQRLMLQPGSVPSK 478
A LNG+K+ KT+ V A + + V L Q +++L Q G + +
Sbjct: 61 KAINTLNGLKLQTKTIKVSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITS 120
Query: 479 VVCLTQ 484
+ L Q
Sbjct: 121 RILLDQ 126
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 32/64 (50%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
++V GLP ++ ++ +L +G + ++ D+ TG S+G F + + A L
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 427 NGIK 430
NG K
Sbjct: 153 NGQK 156
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 53.5 bits (127), Expect = 3e-07, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 40/79 (50%)
Query: 360 GLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVT 419
G G ++VG L + TE +R + E FG + L+KD +TG SKGY F + D
Sbjct: 1 GSSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECA 60
Query: 420 DIACAALNGIKMGDKTLTV 438
A LNG ++ + + V
Sbjct: 61 RRALEQLNGFELAGRPMRV 79
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 51.6 bits (122), Expect = 1e-06, Method: Composition-based stats.
Identities = 29/76 (38%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
I+VG L Y T Q++EL FG + L+ DRET KG+ F Q+ SV++ A A L
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSE-AIAKL 62
Query: 427 NGIKMGDKTLTVRRAN 442
+ +T+ V AN
Sbjct: 63 DNTDFMGRTIRVTEAN 78
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 31/91 (34%), Positives = 41/91 (45%), Gaps = 17/91 (18%)
Query: 245 RRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKK---FAFVEMRS 301
R +YVG L +A + V FSQ G V +Y KK F FVEM+
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQF---------GKVFNVKLIYDRETKKPKGFGFVEMQE 52
Query: 302 VEEASNAMA-LDGIIFEGAPVKVRRPSDYNP 331
E S A+A LD F G ++V ++ NP
Sbjct: 53 -ESVSEAIAKLDNTDFMGRTIRV---TEANP 79
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 45/184 (24%), Positives = 74/184 (40%), Gaps = 45/184 (24%)
Query: 245 RRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKK--FAFVEMRSV 302
R++++GGL ++S+ + F Q D VV N ++ F FV +V
Sbjct: 15 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 66
Query: 303 EEASNAM-----ALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQ-PNPNLNLAAVGLTPG 356
EE AM +DG + E P A + SQ P +L +
Sbjct: 67 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 106
Query: 357 SAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDL 416
+IFVGG+ E +R+ E +G + +++ DR +G +G+AF + D
Sbjct: 107 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 157
Query: 417 SVTD 420
D
Sbjct: 158 DSVD 161
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++F+GGL + T+ +R E +G L +++D T S+G+ F Y + D A A
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 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 = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 45/184 (24%), Positives = 74/184 (40%), Gaps = 45/184 (24%)
Query: 245 RRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKK--FAFVEMRSV 302
R++++GGL ++S+ + F Q D VV N ++ F FV +V
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 65
Query: 303 EEASNAM-----ALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQ-PNPNLNLAAVGLTPG 356
EE AM +DG + E P A + SQ P +L +
Sbjct: 66 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 105
Query: 357 SAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDL 416
+IFVGG+ E +R+ E +G + +++ DR +G +G+AF + D
Sbjct: 106 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 156
Query: 417 SVTD 420
D
Sbjct: 157 DSVD 160
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++F+GGL + T+ +R E +G L +++D T S+G+ F Y + D A A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
>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 = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 45/184 (24%), Positives = 74/184 (40%), Gaps = 45/184 (24%)
Query: 245 RRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKK--FAFVEMRSV 302
R++++GGL ++S+ + F Q D VV N ++ F FV +V
Sbjct: 13 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 64
Query: 303 EEASNAM-----ALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQ-PNPNLNLAAVGLTPG 356
EE AM +DG + E P A + SQ P +L +
Sbjct: 65 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 104
Query: 357 SAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDL 416
+IFVGG+ E +R+ E +G + +++ DR +G +G+AF + D
Sbjct: 105 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 155
Query: 417 SVTD 420
D
Sbjct: 156 DSVD 159
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++F+GGL + T+ +R E +G L +++D T S+G+ F Y + D A A
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 73
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 51.6 bits (122), Expect = 1e-06, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 41/81 (50%)
Query: 361 LEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTD 420
++ + V LP T+ + + L S G + LV+D+ TG S GY F Y D + D
Sbjct: 1 MDSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDAD 60
Query: 421 IACAALNGIKMGDKTLTVRRA 441
A LNG+K+ KT+ V A
Sbjct: 61 KAINTLNGLKLQTKTIKVSYA 81
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 45/184 (24%), Positives = 74/184 (40%), Gaps = 45/184 (24%)
Query: 245 RRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKK--FAFVEMRSV 302
R++++GGL ++S+ + F Q D VV N ++ F FV +V
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 65
Query: 303 EEASNAM-----ALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQ-PNPNLNLAAVGLTPG 356
EE AM +DG + E P A + SQ P +L +
Sbjct: 66 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 105
Query: 357 SAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDL 416
+IFVGG+ E +R+ E +G + +++ DR +G +G+AF + D
Sbjct: 106 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 156
Query: 417 SVTD 420
D
Sbjct: 157 DSVD 160
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++F+GGL + T+ +R E +G L +++D T S+G+ F Y + D A A
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 74
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 45/184 (24%), Positives = 74/184 (40%), Gaps = 45/184 (24%)
Query: 245 RRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKK--FAFVEMRSV 302
R++++GGL ++S+ + F Q D VV N ++ F FV +V
Sbjct: 12 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 63
Query: 303 EEASNAM-----ALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQ-PNPNLNLAAVGLTPG 356
EE AM +DG + E P A + SQ P +L +
Sbjct: 64 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 103
Query: 357 SAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDL 416
+IFVGG+ E +R+ E +G + +++ DR +G +G+AF + D
Sbjct: 104 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 154
Query: 417 SVTD 420
D
Sbjct: 155 DSVD 158
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++F+GGL + T+ +R E +G L +++D T S+G+ F Y + D A A
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 72
>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 = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 45/184 (24%), Positives = 74/184 (40%), Gaps = 45/184 (24%)
Query: 245 RRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKK--FAFVEMRSV 302
R++++GGL ++S+ + F Q D VV N ++ F FV +V
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATV 58
Query: 303 EEASNAM-----ALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQ-PNPNLNLAAVGLTPG 356
EE AM +DG + E P A + SQ P +L +
Sbjct: 59 EEVDAAMNARPHKVDGRVVE-------------PKRAVSREDSQRPGAHLTVK------- 98
Query: 357 SAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDL 416
+IFVGG+ E +R+ E +G + +++ DR +G +G+AF + D
Sbjct: 99 ---------KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDH 149
Query: 417 SVTD 420
D
Sbjct: 150 DSVD 153
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++F+GGL + T+ +R E +G L +++D T S+G+ F Y + D A A
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67
>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 = 50.8 bits (120), Expect = 2e-06, Method: Composition-based stats.
Identities = 36/121 (29%), Positives = 55/121 (45%), Gaps = 2/121 (1%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+ V LP T+ + R L S G + LV+D+ TG S GY F Y D + A L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 427 NGIKMGDKTLTVRRANQGANQPKPEQESV--LLHAQQQIALQRLMLQPGSVPSKVVCLTQ 484
NG+++ KT+ V A + + V L Q L++L Q G + + + + Q
Sbjct: 65 NGLRLQTKTIKVSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQ 124
Query: 485 V 485
V
Sbjct: 125 V 125
Score = 34.3 bits (77), Expect = 0.18, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
++V GLP T+ ++ +L +G + ++ D+ TG S+G F + + A L
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 427 NGIKMGDKT--LTVRRA 441
NG K T +TV+ A
Sbjct: 151 NGQKPSGATEPITVKFA 167
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 45/81 (55%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++FVGGL + E + ++ +G + +VKDRET S+G+ F ++++ A A
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 426 LNGIKMGDKTLTVRRANQGAN 446
+NG + + + V +A + ++
Sbjct: 74 MNGKSVDGRQIRVDQAGKSSD 94
Score = 33.5 bits (75), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 40/82 (48%), Gaps = 13/82 (15%)
Query: 246 RVYVGGLPPTANEQSVATFFS---QVMAAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSV 302
+++VGGL NEQS+ FS Q+ + V + + F FV ++
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVV---------VVKDRETQRSRGFGFVTFENI 64
Query: 303 EEASNA-MALDGIIFEGAPVKV 323
++A +A MA++G +G ++V
Sbjct: 65 DDAKDAMMAMNGKSVDGRQIRV 86
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 39/79 (49%)
Query: 363 GPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIA 422
G + V LP T+ ++R L S G + L++D+ G+S GY F Y + A
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 423 CAALNGIKMGDKTLTVRRA 441
LNG+++ KT+ V A
Sbjct: 61 INTLNGLRLQSKTIKVSYA 79
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+++ GLP T+ + ++ FG + ++ D+ TG S+G AF + S + A +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 427 NGIK 430
NG K
Sbjct: 151 NGHK 154
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 39/79 (49%)
Query: 363 GPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIA 422
G + V LP T+ ++R L S G + L++D+ G+S GY F Y + A
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERA 60
Query: 423 CAALNGIKMGDKTLTVRRA 441
LNG+++ KT+ V A
Sbjct: 61 INTLNGLRLQSKTIKVSYA 79
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+++ GLP T+ + ++ FG + ++ D+ TG S+G AF + S + A +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 427 NGIK 430
NG K
Sbjct: 151 NGHK 154
>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 = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 27/81 (33%), Positives = 41/81 (50%), Gaps = 2/81 (2%)
Query: 363 GPDR--IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTD 420
GP R + V LP T+ ++R L S G + L++D+ G+S GY F Y +
Sbjct: 1 GPGRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAE 60
Query: 421 IACAALNGIKMGDKTLTVRRA 441
A LNG+++ KT+ V A
Sbjct: 61 RAINTLNGLRLQSKTIKVSYA 81
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 47.0 bits (110), Expect = 3e-05, Method: Composition-based stats.
Identities = 28/83 (33%), Positives = 44/83 (53%), Gaps = 1/83 (1%)
Query: 360 GLEGPDRIFVGGLPYYFTEAQIRELLESFGP-LRGFDLVKDRETGNSKGYAFCVYQDLSV 418
G G IF+G L E + + +FG L+ +++D +TGNSKGYAF +
Sbjct: 1 GSSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDA 60
Query: 419 TDIACAALNGIKMGDKTLTVRRA 441
+D A A+NG + ++ +TV A
Sbjct: 61 SDAAIEAMNGQYLCNRPITVSYA 83
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 47/88 (53%), Gaps = 3/88 (3%)
Query: 354 TPGSAGGLEGPD---RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAF 410
+ GS+G PD + V GL Y TE +RE+ +GP+ +V D+++ S+G+AF
Sbjct: 2 SSGSSGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAF 61
Query: 411 CVYQDLSVTDIACAALNGIKMGDKTLTV 438
++++ A NG+++ + + V
Sbjct: 62 VYFENVDDAKEAKERANGMELDGRRIRV 89
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 55/224 (24%), Positives = 81/224 (36%), Gaps = 53/224 (23%)
Query: 237 TQQATRHARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAF 296
T++ R+ R++ + GLP Q V S + +++ K AF
Sbjct: 15 TERQFRNRRKILIRGLPGDVTNQEVHDLLSDY-------------ELKYCFVDKYKGTAF 61
Query: 297 VEMRSVEEASNAMALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGLTPG 356
V + + E+A A+ F + ++ R S V L P
Sbjct: 62 VTLLNGEQAEAAIN----AFHQSRLRERELS-----------------------VQLQPT 94
Query: 357 SAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDL 416
A + V LP T+ Q EL+ FG L LV TG SKGY F Y
Sbjct: 95 DA-------LLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKK 147
Query: 417 SVTDIACAALNGIKMGDKTLTVRRANQGANQPKPEQESVLLHAQ 460
A + L G +G +TL V + G P LLH++
Sbjct: 148 DSAARAKSDLLGKPLGPRTLYVHWTDAGQLTP------ALLHSR 185
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 55/224 (24%), Positives = 81/224 (36%), Gaps = 53/224 (23%)
Query: 237 TQQATRHARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAF 296
T++ R+ R++ + GLP Q V S + +++ K AF
Sbjct: 15 TERQFRNRRKILIRGLPGDVTNQEVHDLLSDY-------------ELKYCFVDKYKGTAF 61
Query: 297 VEMRSVEEASNAMALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGLTPG 356
V + + E+A A+ F + ++ R S V L P
Sbjct: 62 VTLLNGEQAEAAIN----AFHQSRLRERELS-----------------------VQLQPT 94
Query: 357 SAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDL 416
A + V LP T+ Q EL+ FG L LV TG SKGY F Y
Sbjct: 95 DA-------LLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKK 147
Query: 417 SVTDIACAALNGIKMGDKTLTVRRANQGANQPKPEQESVLLHAQ 460
A + L G +G +TL V + G P LLH++
Sbjct: 148 DSAARAKSDLLGKPLGPRTLYVHWTDAGQLTP------ALLHSR 185
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 55/224 (24%), Positives = 81/224 (36%), Gaps = 53/224 (23%)
Query: 237 TQQATRHARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAF 296
T++ R+ R++ + GLP Q V S + +++ K AF
Sbjct: 13 TERQFRNRRKILIRGLPGDVTNQEVHDLLSDY-------------ELKYCFVDKYKGTAF 59
Query: 297 VEMRSVEEASNAMALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGLTPG 356
V + + E+A A+ F + ++ R S V L P
Sbjct: 60 VTLLNGEQAEAAIN----AFHQSRLRERELS-----------------------VQLQPT 92
Query: 357 SAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDL 416
A + V LP T+ Q EL+ FG L LV TG SKGY F Y
Sbjct: 93 DA-------LLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKK 145
Query: 417 SVTDIACAALNGIKMGDKTLTVRRANQGANQPKPEQESVLLHAQ 460
A + L G +G +TL V + G P LLH++
Sbjct: 146 DSAARAKSDLLGKPLGPRTLYVHWTDAGQLTP------ALLHSR 183
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 47/88 (53%), Gaps = 3/88 (3%)
Query: 354 TPGSAGGLEGPD---RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAF 410
+ GS+G PD + V GL Y TE +RE+ +GP+ +V D+++ S+G+AF
Sbjct: 2 SSGSSGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAF 61
Query: 411 CVYQDLSVTDIACAALNGIKMGDKTLTV 438
++++ A NG+++ + + V
Sbjct: 62 VYFENVDDAKEAKERANGMELDGRRIRV 89
>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 = 45.8 bits (107), Expect = 7e-05, Method: Composition-based stats.
Identities = 30/94 (31%), Positives = 47/94 (50%), Gaps = 11/94 (11%)
Query: 364 PDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFC-VYQDLSVTDIA 422
P+ +FVGG+ E +IR +G ++ ++ DR TG SKGY F Y D+ V I
Sbjct: 9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 67
Query: 423 CAALN----GIKMGDKTLTVRRANQGAN--QPKP 450
+ +N +K+G +R+ N QP+P
Sbjct: 68 ESQINFHGKKLKLGP---AIRKQNLSTYHVQPRP 98
>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 = 45.4 bits (106), Expect = 7e-05, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 38/75 (50%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+ V LP T+ ++R L S G + L++D+ G+S GY F Y + A L
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 427 NGIKMGDKTLTVRRA 441
NG+++ KT+ V A
Sbjct: 82 NGLRLQSKTIKVSYA 96
>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 = 44.7 bits (104), Expect = 1e-04, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 35/65 (53%), Gaps = 2/65 (3%)
Query: 364 PDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFC-VYQDLSVTDIA 422
P+ +FVGG+ E +IR +G ++ ++ DR TG SKGY F Y D+ V I
Sbjct: 9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 67
Query: 423 CAALN 427
+ +N
Sbjct: 68 ESQIN 72
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 35/65 (53%), Gaps = 2/65 (3%)
Query: 364 PDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFC-VYQDLSVTDIA 422
P+ +FVGG+ E +IR +G ++ ++ DR TG SKGY F Y D+ V I
Sbjct: 10 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIV 68
Query: 423 CAALN 427
+ +N
Sbjct: 69 ESQIN 73
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 39/70 (55%)
Query: 369 VGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAALNG 428
V GL Y TE +RE+ +GP+ +V D+++ S+G+AF ++++ A NG
Sbjct: 51 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 110
Query: 429 IKMGDKTLTV 438
+++ + + V
Sbjct: 111 MELDGRRIRV 120
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 39/80 (48%), Gaps = 6/80 (7%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
R+FVG LP TE + L E +G + +DR G+ F + ++ +IA A
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR------GFGFIRLESRTLAEIAKAE 77
Query: 426 LNGIKMGDKTLTVRRANQGA 445
L+G + + L +R A GA
Sbjct: 78 LDGTILKSRPLRIRFATHGA 97
Score = 36.6 bits (83), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 13/80 (16%)
Query: 246 RVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVEEA 305
R++VG LP E+ F + P + V+IN ++ F F+ + S A
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERY--------GEPSE----VFINRDRGFGFIRLESRTLA 71
Query: 306 SNAMA-LDGIIFEGAPVKVR 324
A A LDG I + P+++R
Sbjct: 72 EIAKAELDGTILKSRPLRIR 91
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 39/70 (55%)
Query: 369 VGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAALNG 428
V GL Y TE +RE+ +GP+ +V D+++ S+G+AF ++++ A NG
Sbjct: 17 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 76
Query: 429 IKMGDKTLTV 438
+++ + + V
Sbjct: 77 MELDGRRIRV 86
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 40/83 (48%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+ V LP T+ ++ L + GP+ +++D +TG S GYAF + + A L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 427 NGIKMGDKTLTVRRANQGANQPK 449
NGI + +K L V A G K
Sbjct: 66 NGITVRNKRLKVSYARPGGESIK 88
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 38/76 (50%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
++VGGL +E + EL GP+ + KDR TG +GY F + D A +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 427 NGIKMGDKTLTVRRAN 442
+ IK+ K + V +A+
Sbjct: 78 DMIKLYGKPIRVNKAS 93
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 40/83 (48%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+ V LP T+ ++ L + GP+ +++D +TG S GYAF + + A L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 427 NGIKMGDKTLTVRRANQGANQPK 449
NGI + +K L V A G K
Sbjct: 66 NGITVRNKRLKVSYARPGGESIK 88
Score = 38.1 bits (87), Expect = 0.013, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
++V LP T+ Q+ + +G + ++++D+ TG +G AF Y A +AL
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 151
Query: 427 NGI--KMGDKTLTVRRA 441
N + + G + L+VR A
Sbjct: 152 NNVIPEGGSQPLSVRLA 168
>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 = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 21/79 (26%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++F+ GLP+ T+ ++ E+ ++ G ++ LV +R G KG A+ Y++ S A
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMK 77
Query: 426 LNGIKMGDKTLTVRRANQG 444
++G+ + + + V +N G
Sbjct: 78 MDGMTIKENIIKVAISNSG 96
>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 = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 37/72 (51%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+FV + Y TE+++R E +GP++ +V + +G +GYAF Y+ A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 427 NGIKMGDKTLTV 438
+G K+ + + V
Sbjct: 165 DGKKIDGRRVLV 176
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 24/84 (28%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 364 PDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIAC 423
P ++F+GGL E ++ + GP+ L+KDR T S+G+AF +++ + A
Sbjct: 7 PGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAA 65
Query: 424 AALNGIKMGDKTLTVRRANQGANQ 447
+NG + K + V +A + + Q
Sbjct: 66 KDMNGKSLHGKAIKVEQAKKPSFQ 89
>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 = 42.7 bits (99), Expect = 5e-04, Method: Composition-based stats.
Identities = 27/102 (26%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+++ LPY T ++ ++ +GP+R ++ T ++G A+ VY+D+ AC L
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKNACDHL 77
Query: 427 NGIKMGDKTLTV-----RRANQGANQPKPEQESVLLHAQQQI 463
+G + ++ L V RA Q + K E++ LL + I
Sbjct: 78 SGFNVCNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKYGI 119
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
R+FVG LP TE ++R+L E +G + KD KG+ F + ++ +IA
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 77
Query: 426 LNGIKMGDKTLTVRRANQGAN 446
L+ + + K L VR A A+
Sbjct: 78 LDNMPLRGKQLRVRFACHSAS 98
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 39/81 (48%), Gaps = 15/81 (18%)
Query: 246 RVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFV--EMRSVE 303
R++VG LPP E+ + F + AG V+I+ +K F F+ E R++
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKY------GKAG------EVFIHKDKGFGFIRLETRTLA 71
Query: 304 EASNAMALDGIIFEGAPVKVR 324
E + + LD + G ++VR
Sbjct: 72 EIAK-VELDNMPLRGKQLRVR 91
>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 = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 37/72 (51%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+FV + Y TE+++R E +GP++ +V + +G +GYAF Y+ A
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164
Query: 427 NGIKMGDKTLTV 438
+G K+ + + V
Sbjct: 165 DGKKIDGRRVLV 176
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 41/81 (50%), Gaps = 2/81 (2%)
Query: 361 LEGPD--RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSV 418
+EGP+ +F+ LP FT+ + FG + + D++T SK + F + +
Sbjct: 35 IEGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDS 94
Query: 419 TDIACAALNGIKMGDKTLTVR 439
+A A+NG ++G K L V+
Sbjct: 95 AQVAIKAMNGFQVGTKRLKVQ 115
>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 = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 39/83 (46%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+ V LP T+ ++ L + GP+ + +D +TG S GYAF + + A L
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 427 NGIKMGDKTLTVRRANQGANQPK 449
NGI + +K L V A G K
Sbjct: 77 NGITVRNKRLKVSYARPGGESIK 99
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 38/153 (24%), Positives = 64/153 (41%), Gaps = 32/153 (20%)
Query: 294 FAFVEMRSVEEASNAM-ALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVG 352
+AFV+ S ++ A+ L+GI +KV S A G S + NL
Sbjct: 58 YAFVDFTSEXDSQRAIKVLNGITVRNKRLKV--------SYARPGGESIKDTNL------ 103
Query: 353 LTPGSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCV 412
+V LP T+ Q+ + +G + ++++D+ TG +G AF
Sbjct: 104 ---------------YVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVR 148
Query: 413 YQDLSVTDIACAALNGI--KMGDKTLTVRRANQ 443
Y A +ALN + + G + L+VR A +
Sbjct: 149 YNKREEAQEAISALNNVIPEGGSQPLSVRLAEE 181
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 40/77 (51%), Gaps = 1/77 (1%)
Query: 365 DRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACA 424
++IFVGG+P+ E ++RE + FG + ++ D E +G+ F ++D D A
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN 70
Query: 425 ALNGIKMGDKTLTVRRA 441
MG K + V+RA
Sbjct: 71 MHFHDIMG-KKVEVKRA 86
>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 = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 31/55 (56%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTD 420
++F+GGL + TE +RE +G + ++KD TG S+G+ F ++ S D
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVD 59
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
+IFVGG+ + E +G + L+ D++TG S+G+ F Y D C
Sbjct: 89 KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQN 148
Query: 426 LNGIKMGDKTLTVRRA 441
I D+ + ++RA
Sbjct: 149 -KFIDFKDRKIEIKRA 163
>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 = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 27/102 (26%), Positives = 50/102 (49%), Gaps = 8/102 (7%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+ + LPY T ++ ++ +GP+R ++ T ++G A+ VY+D+ AC L
Sbjct: 21 LMIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKNACDHL 77
Query: 427 NGIKMGDKTLTV-----RRANQGANQPKPEQESVLLHAQQQI 463
+G + ++ L V RA Q + K E++ LL + I
Sbjct: 78 SGFNVCNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKYGI 119
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 39/84 (46%), Gaps = 2/84 (2%)
Query: 362 EGPDR-IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTD 420
E DR +FVG L E + EL GPL + KDRE G K + F ++
Sbjct: 13 EEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESVS 71
Query: 421 IACAALNGIKMGDKTLTVRRANQG 444
A A LNGI++ + + V + G
Sbjct: 72 YAIALLNGIRLYGRPINVSGPSSG 95
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 26/84 (30%), Positives = 42/84 (50%), Gaps = 3/84 (3%)
Query: 356 GSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQD 415
GS+G G +IFV LP+ FT +++ G + D+ E G SKG ++
Sbjct: 1 GSSGS-SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFES 57
Query: 416 LSVTDIACAALNGIKMGDKTLTVR 439
V + AC +NG+K+ + + VR
Sbjct: 58 PEVAERACRMMNGMKLSGREIDVR 81
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 29/86 (33%), Positives = 42/86 (48%), Gaps = 1/86 (1%)
Query: 353 LTPGSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCV 412
L PG +EG +FV + E +I+E +G ++ L DR TG SKGYA
Sbjct: 16 LEPGPQRSVEGW-ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVE 74
Query: 413 YQDLSVTDIACAALNGIKMGDKTLTV 438
Y+ A ALNG ++ +T+ V
Sbjct: 75 YETHKQALAAKEALNGAEIMGQTIQV 100
>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 = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 29/86 (33%), Positives = 42/86 (48%), Gaps = 1/86 (1%)
Query: 353 LTPGSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCV 412
L PG +EG +FV + E +I+E +G ++ L DR TG SKGYA
Sbjct: 62 LEPGPQRSVEGW-ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVE 120
Query: 413 YQDLSVTDIACAALNGIKMGDKTLTV 438
Y+ A ALNG ++ +T+ V
Sbjct: 121 YETHKQALAAKEALNGAEIMGQTIQV 146
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 23/62 (37%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 356 GSAG--GLEGPD--RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFC 411
GS+G G++ D ++F+G +P E ++ L E FG + ++KDR TG KG AF
Sbjct: 1 GSSGSSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFL 60
Query: 412 VY 413
Y
Sbjct: 61 TY 62
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVY 413
++FVG +P E ++ L E FG + ++KDR TG KG AF Y
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTY 64
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 38/80 (47%), Gaps = 2/80 (2%)
Query: 360 GLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVT 419
G G IFV LP+ FT +++ G + D+ E G SKG ++ V
Sbjct: 1 GSSGSSGIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVA 58
Query: 420 DIACAALNGIKMGDKTLTVR 439
+ AC +NG+K+ + + VR
Sbjct: 59 ERACRMMNGMKLSGREIDVR 78
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 41/82 (50%), Gaps = 9/82 (10%)
Query: 359 GGLEGPD-------RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETG--NSKGYA 409
G L+ PD ++FVG +P ++E +REL E +G + ++++DR SKG
Sbjct: 3 GTLDHPDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCC 62
Query: 410 FCVYQDLSVTDIACAALNGIKM 431
F + A AL+ +K+
Sbjct: 63 FVTFYTRKAALEAQNALHNMKV 84
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++F+G + TE IR + SFG + +++ + G S+G AF + ++ A A
Sbjct: 109 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAMAQTAIKA 167
Query: 426 LN 427
++
Sbjct: 168 MH 169
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 26/102 (25%), Positives = 50/102 (49%), Gaps = 8/102 (7%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+++ LPY T ++ ++ +GP+R ++ T ++G A+ VY+D+ A L
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKNAVDHL 67
Query: 427 NGIKMGDKTLTV-----RRANQGANQPKPEQESVLLHAQQQI 463
+G + ++ L V RA Q + K E++ LL + I
Sbjct: 68 SGFNVSNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKYGI 109
>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 = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 26/81 (32%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
R+FVG LP TE ++R+L E +G + KD KG+ F + ++ +IA
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVE 70
Query: 426 LNGIKMGDKTLTVRRANQGAN 446
L+ + + K L VR A A+
Sbjct: 71 LDNMPLRGKQLRVRFACHSAS 91
Score = 32.7 bits (73), Expect = 0.56, Method: Composition-based stats.
Identities = 28/97 (28%), Positives = 45/97 (46%), Gaps = 18/97 (18%)
Query: 246 RVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFV--EMRSVE 303
R++VG LPP E+ + F + AG V+I+ +K F F+ E R++
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKY------GKAG------EVFIHKDKGFGFIRLETRTLA 64
Query: 304 EASNAMALDGIIFEGAPVKVRRPSDYNPSLAATLGPS 340
E + + LD + G ++VR S + T GPS
Sbjct: 65 EIAK-VELDNMPLRGKQLRVRFACH---SASLTSGPS 97
>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 = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 41/84 (48%)
Query: 361 LEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTD 420
+EG + V L Y + +R + E +G + + +DR T S+G+AF + D +
Sbjct: 44 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAE 103
Query: 421 IACAALNGIKMGDKTLTVRRANQG 444
A A++G + + L V+ A G
Sbjct: 104 DAMDAMDGAVLDGRELRVQMARYG 127
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 20/76 (26%), Positives = 40/76 (52%), Gaps = 3/76 (3%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+++ LPY T ++ ++ +GP+R ++ T ++G A+ VY+D+ AC L
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKNACDHL 71
Query: 427 NGIKMGDKTLTVRRAN 442
+G + ++ L V N
Sbjct: 72 SGFNVCNRYLVVLYYN 87
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 41/78 (52%), Gaps = 4/78 (5%)
Query: 354 TPGSAGGLEGP---DRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAF 410
+ GS+G L P ++FVG L +E +R L E+FG + +++ + GNSKG AF
Sbjct: 2 SSGSSGCLRQPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPD-GNSKGCAF 60
Query: 411 CVYQDLSVTDIACAALNG 428
Y + A AL+G
Sbjct: 61 VKYSSHAEAQAAINALHG 78
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 33/60 (55%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++F+GGL + TE +R E +G L +++D + S+G+ F + ++ D A AA
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 36/68 (52%), Gaps = 2/68 (2%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETG--NSKGYAFCVYQDLSVTDIAC 423
++FVG +P ++E +REL E +G + ++++DR SKG F + A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 424 AALNGIKM 431
AL+ +K+
Sbjct: 65 NALHNMKV 72
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 41/79 (51%), Gaps = 2/79 (2%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
++V LP T+ Q+ + +G + ++++D+ TG +G AF Y A +AL
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 427 NGI--KMGDKTLTVRRANQ 443
N + + G + L+VR A +
Sbjct: 76 NNVIPEGGSQPLSVRLAEE 94
>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 = 39.3 bits (90), Expect = 0.006, Method: Composition-based stats.
Identities = 26/88 (29%), Positives = 38/88 (43%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+FVG L T I+ FG + +VKD TG SKGY F + + + A +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 427 NGIKMGDKTLTVRRANQGANQPKPEQES 454
G +G + + A + PK ES
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPKSTYES 105
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 39/74 (52%), Gaps = 2/74 (2%)
Query: 352 GLTP-GSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAF 410
GL P GS G G ++F+GGL + T+ +RE FG ++ +++D T S+G+ F
Sbjct: 13 GLVPRGSHMGSSGC-KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGF 71
Query: 411 CVYQDLSVTDIACA 424
+ D + D A
Sbjct: 72 VTFMDQAGVDKVLA 85
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 20/65 (30%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 354 TPGSAG---GLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAF 410
+ GS+G ++ + V GLP+ TE ++E +FG + + KD +TG+SKG+ F
Sbjct: 2 SSGSSGVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGF 61
Query: 411 CVYQD 415
+ +
Sbjct: 62 VRFTE 66
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 38.9 bits (89), Expect = 0.008, Method: Composition-based stats.
Identities = 23/84 (27%), Positives = 41/84 (48%)
Query: 361 LEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTD 420
+EG + V L Y + +R + E +G + + +DR T S+G+AF + D +
Sbjct: 67 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAE 126
Query: 421 IACAALNGIKMGDKTLTVRRANQG 444
A A++G + + L V+ A G
Sbjct: 127 DAMDAMDGAVLDGRELRVQMARYG 150
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 38.5 bits (88), Expect = 0.009, Method: Composition-based stats.
Identities = 31/98 (31%), Positives = 41/98 (41%), Gaps = 8/98 (8%)
Query: 356 GSAGGLEGPDR-------IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGY 408
GS+G GP+R I V L E ++EL FG + L KD+ TG SKG+
Sbjct: 1 GSSGS-SGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGF 59
Query: 409 AFCVYQDLSVTDIACAALNGIKMGDKTLTVRRANQGAN 446
AF + A A ++G L V A N
Sbjct: 60 AFISFHRREDAARAIAGVSGFGYDHLILNVEWAKPSTN 97
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 36/68 (52%), Gaps = 2/68 (2%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETG--NSKGYAFCVYQDLSVTDIAC 423
++FVG +P ++E +REL E +G + ++++DR SKG F + A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 424 AALNGIKM 431
AL+ +K+
Sbjct: 65 NALHNMKV 72
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
++F+G + TE IR + SFG + +++ + G S+G AF + ++ A A
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTFTTRAMAQTAIKA 155
Query: 426 LN 427
++
Sbjct: 156 MH 157
>pdb|2CPZ|A Chain A, Solution Structure Of Rna Binding Domain 3 In Cug Triplet
Repeat Rna-Binding Protein 1
pdb|2RQ4|A Chain A, Refinement Of Rna Binding Domain 3 In Cug Triplet Repeat
Rna-Binding Protein 1
pdb|2RQC|A Chain A, Solution Structure Of Rna-Binding Domain 3 Of Cugbp1 In
Complex With Rna (Ug)3
Length = 115
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 46/97 (47%), Gaps = 6/97 (6%)
Query: 349 AAVGLTPGSAGGL----EGPD--RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRET 402
+ GLT S G EGP+ +F+ LP F + + ++ FG + + D++T
Sbjct: 4 GSSGLTQQSIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQT 63
Query: 403 GNSKGYAFCVYQDLSVTDIACAALNGIKMGDKTLTVR 439
SK + F Y + A ++NG ++G K L V+
Sbjct: 64 NLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQ 100
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 38.1 bits (87), Expect = 0.012, Method: Composition-based stats.
Identities = 28/95 (29%), Positives = 43/95 (45%), Gaps = 8/95 (8%)
Query: 356 GSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQD 415
GS+G +IFVG + T ++R L E G + D+VKD YAF +
Sbjct: 1 GSSGSSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEK 52
Query: 416 LSVTDIACAALNGIKMGDKTLTVRRANQGANQPKP 450
+ A A LNG ++ K + V + +G + P
Sbjct: 53 EADAKAAIAQLNGKEVKGKRINVELSTKGQKKSGP 87
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 364 PDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIAC 423
P R+ V +P+ F + +R++ FG + +++ + E G SKG+ F +++ + D A
Sbjct: 29 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN-ERG-SKGFGFVTFENSADADRAR 86
Query: 424 AALNGIKMGDKTLTVRRA 441
L+G + + + V A
Sbjct: 87 EKLHGTVVEGRKIEVNNA 104
>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 = 37.7 bits (86), Expect = 0.017, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 1/87 (1%)
Query: 352 GLTPGSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFC 411
G PG +EG +FV G+ TE I + +G ++ L DR TG KGY
Sbjct: 11 GDEPGPQRSVEGW-ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLV 69
Query: 412 VYQDLSVTDIACAALNGIKMGDKTLTV 438
Y+ A LNG + + ++V
Sbjct: 70 EYETYKEAQAAMEGLNGQDLMGQPISV 96
>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 = 37.7 bits (86), Expect = 0.018, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQD 415
+IFVGGL E +IRE FG + +L D +T +G+ F +++
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKE 52
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 37.4 bits (85), Expect = 0.019, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 31/55 (56%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTD 420
++F+GGL + T+ +RE FG ++ +++D T S+G+ F + D + D
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVD 56
>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 = 37.0 bits (84), Expect = 0.025, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 1/87 (1%)
Query: 352 GLTPGSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFC 411
G PG +EG +FV G+ TE I + +G ++ L DR TG KGY
Sbjct: 12 GDEPGPQRSVEGW-ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLV 70
Query: 412 VYQDLSVTDIACAALNGIKMGDKTLTV 438
Y+ A LNG + + ++V
Sbjct: 71 EYETYKEAQAAMEGLNGQDLMGQPISV 97
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 37.0 bits (84), Expect = 0.025, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 3/82 (3%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+FVG L T I+ FG + +VKD TG SKGY F + + + A +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 427 NGIKMGDKTLTVRRANQGANQP 448
G +G + + R N +P
Sbjct: 78 GGQWLGGRQI---RTNWATRKP 96
>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 = 37.0 bits (84), Expect = 0.027, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 35/82 (42%), Gaps = 6/82 (7%)
Query: 363 GPDR------IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDL 416
GP R +FV G+ TE I + +G ++ L DR TG KGY Y+
Sbjct: 2 GPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 61
Query: 417 SVTDIACAALNGIKMGDKTLTV 438
A LNG + + ++V
Sbjct: 62 KEAQAAMEGLNGQDLMGQPISV 83
>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 = 37.0 bits (84), Expect = 0.030, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 32/72 (44%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+FV G+ TE I + +G ++ L DR TG KGY Y+ A L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 427 NGIKMGDKTLTV 438
NG + + ++V
Sbjct: 70 NGQDLMGQPISV 81
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 37.0 bits (84), Expect = 0.030, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 29/50 (58%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQD 415
++FVGGL + T+ +R +G + ++KD+ T S+G+ F ++D
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKD 67
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 36.6 bits (83), Expect = 0.034, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 26/49 (53%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQD 415
IFVGGL E +IRE FG + +L D +T +G+ F +++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKE 50
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 36.6 bits (83), Expect = 0.037, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 32/72 (44%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+FV G+ TE I + +G ++ L DR TG KGY Y+ A L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 427 NGIKMGDKTLTV 438
NG + + ++V
Sbjct: 70 NGQDLMGQPISV 81
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 36.6 bits (83), Expect = 0.041, Method: Composition-based stats.
Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 8/81 (9%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAA 425
R++VGGL + A + + FG +R D VK G+S +A+ Y+ L ACA
Sbjct: 19 RLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK----GDS--FAYIQYESLDAAQAACAK 72
Query: 426 LNGIKMG--DKTLTVRRANQG 444
+ G +G D+ L V A G
Sbjct: 73 MRGFPLGGPDRRLRVDFAKSG 93
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 36.2 bits (82), Expect = 0.045, Method: Composition-based stats.
Identities = 16/65 (24%), Positives = 32/65 (49%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
++V LP+ T + + +G + ++KD++T SKG AF ++ D A+
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 427 NGIKM 431
N ++
Sbjct: 79 NNKQL 83
>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 = 36.2 bits (82), Expect = 0.045, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 32/72 (44%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+FV G+ TE I + +G ++ L DR TG KGY Y+ A L
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 427 NGIKMGDKTLTV 438
NG + + ++V
Sbjct: 70 NGQDLMGQPISV 81
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 36.2 bits (82), Expect = 0.052, Method: Composition-based stats.
Identities = 33/134 (24%), Positives = 54/134 (40%), Gaps = 34/134 (25%)
Query: 282 AVVNVYINHEKKFAFVEMRSVEEASNAMALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQ 341
AVV+V I +KF +V+ S E+ A+ L G+ G +K+ +P
Sbjct: 38 AVVDVRIGMTRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPK-------------- 83
Query: 342 PNPNLNLAAVGLTPGSAGGLEGPDRIFVG-GLPYYFTEAQIRELLESFGPLRGFDLVKDR 400
G E R + LPY T+ +++E+ E +R LV
Sbjct: 84 --------------GKDSKKERDARTLLAKNLPYKVTQDELKEVFEDAAEIR---LVS-- 124
Query: 401 ETGNSKGYAFCVYQ 414
+ G SKG A+ ++
Sbjct: 125 KDGKSKGIAYIEFK 138
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 35.8 bits (81), Expect = 0.067, Method: Composition-based stats.
Identities = 18/78 (23%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 364 PDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIAC 423
P R+ V +P+ F + +R++ FG + +++ + SKG+ F +++ + D A
Sbjct: 15 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER--GSKGFGFVTFENSADADRAR 72
Query: 424 AALNGIKMGDKTLTVRRA 441
L+G + + + V A
Sbjct: 73 EKLHGTVVEGRKIEVNNA 90
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 35.8 bits (81), Expect = 0.069, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 27/57 (47%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIAC 423
IFVGGL T ++ E FG + L+ D+ T +G+ F ++ + + C
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVC 58
>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 = 35.8 bits (81), Expect = 0.070, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 29/54 (53%)
Query: 362 EGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQD 415
E + FVGGL + ++ +++ FG + + D TG S+G+ F +++D
Sbjct: 9 EDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKD 62
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 35.4 bits (80), Expect = 0.072, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 9/76 (11%)
Query: 356 GSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQD 415
GS+G G ++F+G LP TE +IR L E +G + D++K+ Y F +D
Sbjct: 1 GSSGS-SGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--------YGFVHIED 51
Query: 416 LSVTDIACAALNGIKM 431
+ + A L+ K+
Sbjct: 52 KTAAEDAIRNLHHYKL 67
>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 = 35.4 bits (80), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 44/198 (22%), Positives = 78/198 (39%), Gaps = 42/198 (21%)
Query: 247 VYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVV---NVYINHEKKFAFVEMRSVE 303
+YVG L P E + FS AGP ++ ++ +A+V +
Sbjct: 13 LYVGDLHPDVTEAMLYEKFS---------PAGPILSIRVCRDMITRRSLGYAYVNFQQPA 63
Query: 304 EASNAM-ALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGLTPGSAGGLE 362
+A A+ ++ + +G PV++ SQ +P+L + VG
Sbjct: 64 DAERALDTMNFDVIKGKPVRIMW--------------SQRDPSLRKSGVG---------- 99
Query: 363 GPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIA 422
IF+ L + + +FG + +V D E G SKGY F ++ + A
Sbjct: 100 ---NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERA 154
Query: 423 CAALNGIKMGDKTLTVRR 440
+NG+ + D+ + V R
Sbjct: 155 IEKMNGMLLNDRKVFVGR 172
>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 = 35.0 bits (79), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 44/198 (22%), Positives = 78/198 (39%), Gaps = 42/198 (21%)
Query: 247 VYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVV---NVYINHEKKFAFVEMRSVE 303
+YVG L P E + FS AGP ++ ++ +A+V +
Sbjct: 18 LYVGDLHPDVTEAMLYEKFS---------PAGPILSIRVCRDMITRRSLGYAYVNFQQPA 68
Query: 304 EASNAM-ALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGLTPGSAGGLE 362
+A A+ ++ + +G PV++ SQ +P+L + VG
Sbjct: 69 DAERALDTMNFDVIKGKPVRIMW--------------SQRDPSLRKSGVG---------- 104
Query: 363 GPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIA 422
IF+ L + + +FG + +V D E G SKGY F ++ + A
Sbjct: 105 ---NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERA 159
Query: 423 CAALNGIKMGDKTLTVRR 440
+NG+ + D+ + V R
Sbjct: 160 IEKMNGMLLNDRKVFVGR 177
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
++V GLP ++ ++ +L +G + ++ D+ TG S+G F + + A L
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 427 NGIK-MG-DKTLTVRRAN 442
NG K +G + +TV+ AN
Sbjct: 64 NGQKPLGAAEPITVKFAN 81
>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 = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 6/80 (7%)
Query: 244 ARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVE 303
AR +YVG + A + + F G + + + + H K FA++E E
Sbjct: 5 ARSIYVGNVDYGATAEELEAHFH------GCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 58
Query: 304 EASNAMALDGIIFEGAPVKV 323
++ALD +F G +KV
Sbjct: 59 SVRTSLALDESLFRGRQIKV 78
>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 = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 7/80 (8%)
Query: 247 VYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVEEAS 306
+++G L P +SVA ++ AI A AVV+V +KF +V+ S E+
Sbjct: 16 LFIGNLNPN---KSVA----ELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLE 68
Query: 307 NAMALDGIIFEGAPVKVRRP 326
A+ L G+ G +K+ +P
Sbjct: 69 KALELTGLKVFGNEIKLEKP 88
>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 = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 6/80 (7%)
Query: 244 ARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVE 303
AR +YVG + A + + F G + + + + H K FA++E E
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFH------GCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 59
Query: 304 EASNAMALDGIIFEGAPVKV 323
++ALD +F G +KV
Sbjct: 60 SVRTSLALDESLFRGRQIKV 79
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 34.3 bits (77), Expect = 0.17, Method: Composition-based stats.
Identities = 27/99 (27%), Positives = 48/99 (48%), Gaps = 6/99 (6%)
Query: 354 TPGSAGG---LEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAF 410
+ GS+G E P +VG LP+ + I + + +R LV+D++T KG+ +
Sbjct: 2 SSGSSGKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCY 60
Query: 411 CVYQDLSVTDIACAALNGIKMGDKTLTVRRANQGANQPK 449
+ ++ A +G +GD++L V A +G Q K
Sbjct: 61 VEFDEVDSLKEAL-TYDGALLGDRSLRVDIA-EGRKQDK 97
>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 = 34.3 bits (77), Expect = 0.18, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 29/54 (53%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTD 420
+F+GGL + T+ +++ FG + L D TG S+G+ F ++++ D
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVD 55
>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 = 34.3 bits (77), Expect = 0.19, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETG--NSKGYAFCVY 413
+ FVG +P ++E +REL E +G + ++++DR SKG F +
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 54
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 34.3 bits (77), Expect = 0.20, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 7/80 (8%)
Query: 247 VYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVEEAS 306
+++G L P +SVA ++ AI A AVV+V +KF +V+ S E+
Sbjct: 20 LFIGNLNPN---KSVA----ELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLE 72
Query: 307 NAMALDGIIFEGAPVKVRRP 326
A+ L G+ G +K+ +P
Sbjct: 73 KALELTGLKVFGNEIKLEKP 92
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVY 413
R+FV L Y +E + +L ++GPL D T KG+AF +
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTF 57
>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 = 33.1 bits (74), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 27/117 (23%), Positives = 49/117 (41%), Gaps = 7/117 (5%)
Query: 220 LVTGQFGALPVMPVQAMTQQATRHARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGP 279
+ G + P P+ A ++ R VYVG + + Q + FS +I T
Sbjct: 13 MTAGAYTEGPPQPLSAEEKKEI-DKRSVYVGNVDYGSTAQDLEAHFSSC-GSINRITI-- 68
Query: 280 GDAVVNVYINHEKKFAFVEMRSVEEASNAMALDGIIFEGAPVKVRRPSDYNPSLAAT 336
+ + + H K +A++E A+A+D +F G +KV P +++T
Sbjct: 69 ---LCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLPKRTNMPGISST 122
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 29/58 (50%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACA 424
++VG + Y T + S G + ++ D+ +G+ KGYA+ + + + D A A
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVA 96
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 33.1 bits (74), Expect = 0.39, Method: Composition-based stats.
Identities = 20/77 (25%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
++VG L TE +++ + GP+ ++ D+ N YAF Y +IA L
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVN-YAFVEYHQSHDANIALQTL 61
Query: 427 NGIKMGDKTLTVRRANQ 443
NG ++ + + + A Q
Sbjct: 62 NGKQIENNIVKINWAFQ 78
Score = 31.6 bits (70), Expect = 1.0, Method: Composition-based stats.
Identities = 44/201 (21%), Positives = 73/201 (36%), Gaps = 41/201 (20%)
Query: 245 RRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEKK---FAFVEMRS 301
R +YVG L E + +F +GG A + + I+ K +AFVE
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQ-----VGGPIAN-----IKIMIDKNNKNVNYAFVEYHQ 50
Query: 302 VEEASNAM-ALDGIIFEGAPVKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGLTPGSAGG 360
+A+ A+ L+G E VK+ N + + S NL
Sbjct: 51 SHDANIALQTLNGKQIENNIVKI------NWAFQSQQSSSDDTFNL-------------- 90
Query: 361 LEGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTD 420
FVG L + +R + F ++ D +TG+S+GY F +
Sbjct: 91 -------FVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQ 143
Query: 421 IACAALNGIKMGDKTLTVRRA 441
A ++ G + + L + A
Sbjct: 144 NAMDSMQGQDLNGRPLRINWA 164
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 32.3 bits (72), Expect = 0.74, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 354 TPGSAGGL---EGPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRE-TGNSKGYA 409
+ GS+G + + +I V +P+ + +IREL +FG L+ L K TG +G+
Sbjct: 2 SSGSSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFG 61
Query: 410 F 410
F
Sbjct: 62 F 62
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 32.0 bits (71), Expect = 0.95, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 4/55 (7%)
Query: 366 RIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGN---SKGYAFCVYQDLS 417
++FVGGLP E +I FGPL D E+ + KGYAF ++Q+ S
Sbjct: 10 KVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEES 63
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 32.0 bits (71), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVY--QDLSVTDIACA 424
+F+ L + E + E+L+ FG L+ +V +T +SKG AF + Q+ + +A A
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77
Query: 425 ALN----GIKMGDKTLTVRRA 441
+L G+K+ + L V A
Sbjct: 78 SLEAEGGGLKLDGRQLKVDLA 98
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 24/67 (35%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+FV GL TE ++E + G +R +V DRETG+SKG+ F D + + A AA
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSVRA-RIVTDRETGSSKGFGFV---DFNSEEDAKAAK 71
Query: 427 NGIKMGD 433
++ G+
Sbjct: 72 EAMEDGE 78
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/65 (21%), Positives = 29/65 (44%), Gaps = 1/65 (1%)
Query: 364 PDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIAC 423
P +++ LP E ++ +L+ FG + +++D +G S+G F + +
Sbjct: 25 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAVI 83
Query: 424 AALNG 428
NG
Sbjct: 84 GHFNG 88
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 363 GPDR-IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQ 414
G DR +FVG L T+ +R++ E FG + +++ + G SKG AF +Q
Sbjct: 10 GEDRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQ 61
>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 = 30.4 bits (67), Expect = 2.6, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 372 LPYYFTEAQIRELLESFG-PLRGFDLVKDRETGNSKGYAFCVYQDL 416
LP TE IR L+S G R L++++ +G S+G+AF + L
Sbjct: 9 LPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHL 54
>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 = 30.4 bits (67), Expect = 2.9, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 363 GPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIA 422
G IF+ L + + +FG + +V D E G SKGY F ++ + A
Sbjct: 4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERA 61
Query: 423 CAALNGIKMGDKTLTVRR 440
+NG+ + D+ + V R
Sbjct: 62 IEKMNGMLLNDRKVFVGR 79
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 30.0 bits (66), Expect = 3.1, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 363 GPDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIA 422
G IF+ L + + +FG + +V D E G SKGY F ++ + A
Sbjct: 10 GVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFVHFETQEAAERA 67
Query: 423 CAALNGIKMGDKTLTVRR 440
+NG+ + D+ + V R
Sbjct: 68 IEKMNGMLLNDRKVFVGR 85
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 30.0 bits (66), Expect = 3.3, Method: Composition-based stats.
Identities = 26/97 (26%), Positives = 45/97 (46%), Gaps = 5/97 (5%)
Query: 354 TPGSAGGLEG---PDRIFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAF 410
+ GS+G +E P ++VG L TE I +L GP + ++ + + + Y F
Sbjct: 2 SSGSSGMMEDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDP--YCF 59
Query: 411 CVYQDLSVTDIACAALNGIKMGDKTLTVRRANQGANQ 447
+ + A AA+NG K+ K + V A ++Q
Sbjct: 60 VEFYEHRDAAAALAAMNGRKILGKEVKVNWATTPSSQ 96
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 30.0 bits (66), Expect = 3.5, Method: Composition-based stats.
Identities = 25/91 (27%), Positives = 39/91 (42%), Gaps = 7/91 (7%)
Query: 238 QQATRHARRVYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEK-KFAF 296
+Q ++V GL +SVA +F Q+ I G ++N+Y + E K
Sbjct: 1 EQDNSDNNTIFVQGLGENVTIESVADYFKQI--GIIKTNKKTGQPMINLYTDRETGKLKG 58
Query: 297 VEMRSVEEASNAMA----LDGIIFEGAPVKV 323
S ++ +A A DG F G P+KV
Sbjct: 59 EATVSFDDPPSAKAAIDWFDGKEFSGNPIKV 89
>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 = 30.0 bits (66), Expect = 3.8, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 7/82 (8%)
Query: 247 VYVGGLPPTANEQSVATFFSQVMAAIGGNTAGPGDAVVNVYINHEK-KFAFVEMRSVEEA 305
++V GL +SVA +F Q+ I G ++N+Y + E K S ++
Sbjct: 16 IFVQGLGENVTIESVADYFKQI--GIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDP 73
Query: 306 SNAMA----LDGIIFEGAPVKV 323
+A A DG F G P+KV
Sbjct: 74 PSAKAAIDWFDGKEFSGNPIKV 95
>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 = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 32/75 (42%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+FVG L + +R + F ++ D +TG+S+GY F + A ++
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 427 NGIKMGDKTLTVRRA 441
G + + L + A
Sbjct: 64 QGQDLNGRPLRINWA 78
>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 = 29.3 bits (64), Expect = 5.2, Method: Composition-based stats.
Identities = 25/82 (30%), Positives = 36/82 (43%), Gaps = 3/82 (3%)
Query: 367 IFVGGLPYYFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLSVTDIACAAL 426
+FVG L T A I FG + +VKD TG SKGY F + + + A +
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 427 NGIKMGDKTLTVRRANQGANQP 448
G +G + + R N +P
Sbjct: 69 GGQWLGGRQI---RTNWATRKP 87
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
0.318 0.135 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,942,555
Number of Sequences: 62578
Number of extensions: 429100
Number of successful extensions: 1161
Number of sequences better than 100.0: 148
Number of HSP's better than 100.0 without gapping: 119
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 949
Number of HSP's gapped (non-prelim): 206
length of query: 544
length of database: 14,973,337
effective HSP length: 104
effective length of query: 440
effective length of database: 8,465,225
effective search space: 3724699000
effective search space used: 3724699000
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)