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= psy14476
(303 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1G9L|A Chain A, Solution Structure Of The Pabc Domain Of Human Poly(A)
Binding Protein
Length = 144
Score = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 54/67 (80%), Positives = 62/67 (92%)
Query: 219 EPLTSTMLAAAQPQEQKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNES 278
EPLT++MLA+A PQEQKQMLGERLFPLIQ M+P LAGKITGMLLEIDN+ELL+MLE ES
Sbjct: 51 EPLTASMLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPES 110
Query: 279 LKSKVEE 285
L+SKV+E
Sbjct: 111 LRSKVDE 117
>pdb|2RQG|B Chain B, Structure Of Gspt1ERF3A-Pabc
pdb|2RQH|B Chain B, Structure Of Gspt1ERF3A-Pabc
Length = 83
Score = 110 bits (274), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 54/67 (80%), Positives = 62/67 (92%)
Query: 219 EPLTSTMLAAAQPQEQKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNES 278
EPLT++MLA+A PQEQKQMLGERLFPLIQ M+P LAGKITGMLLEIDN+ELL+MLE ES
Sbjct: 3 EPLTASMLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPES 62
Query: 279 LKSKVEE 285
L+SKV+E
Sbjct: 63 LRSKVDE 69
>pdb|3PTH|A Chain A, The Pabc1 Mlle Domain Bound To The Variant Pam2 Motif Of
Larp4b
Length = 82
Score = 109 bits (273), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 54/67 (80%), Positives = 62/67 (92%)
Query: 219 EPLTSTMLAAAQPQEQKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNES 278
EPLT++MLA+A PQEQKQMLGERLFPLIQ M+P LAGKITGMLLEIDN+ELL+MLE ES
Sbjct: 4 EPLTASMLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPES 63
Query: 279 LKSKVEE 285
L+SKV+E
Sbjct: 64 LRSKVDE 70
>pdb|1JGN|A Chain A, Solution Structure Of The C-Terminal Pabc Domain Of Human
Poly(A)-Binding Protein In Complex With The Peptide From
Paip2
pdb|1JH4|A Chain A, Solution Structure Of The C-Terminal Pabc Domain Of Human
Poly(A)-Binding Protein In Complex With The Peptide From
Paip1
Length = 98
Score = 109 bits (273), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 53/66 (80%), Positives = 61/66 (92%)
Query: 220 PLTSTMLAAAQPQEQKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNESL 279
PLT++MLA+A PQEQKQMLGERLFPLIQ M+P LAGKITGMLLEIDN+ELL+MLE ESL
Sbjct: 6 PLTASMLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESL 65
Query: 280 KSKVEE 285
+SKV+E
Sbjct: 66 RSKVDE 71
>pdb|3KUS|A Chain A, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KUS|B Chain B, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KUT|A Chain A, Crystal Structure Of The Mlle Domain Of Poly(a)-binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KUT|B Chain B, Crystal Structure Of The Mlle Domain Of Poly(a)-binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KTP|A Chain A, Structural Basis Of Gw182 Recognition By Poly(a)-binding
Protein
pdb|3KTR|A Chain A, Structural Basis Of Ataxin-2 Recognition By
Poly(A)-Binding
pdb|3KUI|A Chain A, Crystal Structure Of C-Terminal Domain Of Pabpc1 In
Complex Binding Region Of Erf3a
pdb|3KUJ|A Chain A, Crystal Structure Of C-Terminal Domain Of Pabpc1 In
Complex With Binding Region Of Erf3a
pdb|3PKN|A Chain A, Crystal Structure Of Mlle Domain Of Poly(A) Binding
Protein In Complex With Pam2 Motif Of La-Related Protein
4 (Larp4)
Length = 88
Score = 108 bits (270), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 53/66 (80%), Positives = 61/66 (92%)
Query: 220 PLTSTMLAAAQPQEQKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNESL 279
PLT++MLA+A PQEQKQMLGERLFPLIQ M+P LAGKITGMLLEIDN+ELL+MLE ESL
Sbjct: 6 PLTASMLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESL 65
Query: 280 KSKVEE 285
+SKV+E
Sbjct: 66 RSKVDE 71
>pdb|3KUR|A Chain A, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|B Chain B, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|C Chain C, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|D Chain D, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|E Chain E, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|F Chain F, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|G Chain G, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|H Chain H, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
Length = 79
Score = 108 bits (269), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 53/66 (80%), Positives = 61/66 (92%)
Query: 220 PLTSTMLAAAQPQEQKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNESL 279
PLT++MLA+A PQEQKQMLGERLFPLIQ M+P LAGKITGMLLEIDN+ELL+MLE ESL
Sbjct: 6 PLTASMLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESL 65
Query: 280 KSKVEE 285
+SKV+E
Sbjct: 66 RSKVDE 71
>pdb|2X04|A Chain A, Crystal Structure Of The Pabc-Tnrc6c Complex
pdb|2X04|B Chain B, Crystal Structure Of The Pabc-Tnrc6c Complex
Length = 80
Score = 105 bits (263), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 52/65 (80%), Positives = 60/65 (92%)
Query: 221 LTSTMLAAAQPQEQKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNESLK 280
LT++MLA+A PQEQKQMLGERLFPLIQ M+P LAGKITGMLLEIDN+ELL+MLE ESL+
Sbjct: 6 LTASMLASAPPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLR 65
Query: 281 SKVEE 285
SKV+E
Sbjct: 66 SKVDE 70
>pdb|4IVE|A Chain A, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
pdb|4IVE|B Chain B, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
pdb|4IVE|C Chain C, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
pdb|4IVE|D Chain D, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
Length = 98
Score = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 48/67 (71%), Positives = 56/67 (83%)
Query: 219 EPLTSTMLAAAQPQEQKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNES 278
E LT++ LA+A PQ+QKQ LGERLFPLIQ +P LAGKITG LLEIDN+ELLY LE ES
Sbjct: 5 ETLTASRLASAPPQKQKQXLGERLFPLIQAXHPTLAGKITGXLLEIDNSELLYXLESPES 64
Query: 279 LKSKVEE 285
L+SKV+E
Sbjct: 65 LRSKVDE 71
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 94.0 bits (232), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 43/51 (84%), Positives = 48/51 (94%)
Query: 1 MSEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDRKA 51
M E GRSKGFGFVCFSSPEEATKAVTEMNGRI+ +KPLYVALAQRKE+R++
Sbjct: 48 MMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQRKEERQS 98
>pdb|2DYD|A Chain A, Solution Structure Of The Pabc Domain From Triticum
Aevestium Poly(A)-Binding Protein
Length = 85
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 29/63 (46%), Positives = 47/63 (74%)
Query: 223 STMLAAAQPQEQKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNESLKSK 282
++ LA + P+ Q+ MLGE L+PL+ ++ + A K+TGMLLE+D E+L++LE ++LK+K
Sbjct: 11 ASALANSPPETQRMMLGENLYPLVDQLEHDQAAKVTGMLLEMDQTEVLHLLESPDALKAK 70
Query: 283 VEE 285
V E
Sbjct: 71 VAE 73
>pdb|1NMR|A Chain A, Solution Structure Of C-Terminal Domain From Trypanosoma
Cruzi Poly(A)-Binding Protein
Length = 85
Score = 60.1 bits (144), Expect = 1e-09, Method: Composition-based stats.
Identities = 31/63 (49%), Positives = 44/63 (69%)
Query: 223 STMLAAAQPQEQKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNESLKSK 282
ST+LA P++QK +LGERL+ I + P A K+TGMLLE+DN E+L +L+ L +K
Sbjct: 12 STVLANLTPEQQKNVLGERLYNHIVAINPAAAAKVTGMLLEMDNGEILNLLDTPGLLDAK 71
Query: 283 VEE 285
V+E
Sbjct: 72 VQE 74
>pdb|3NTW|A Chain A, Structure Of The Mlle Domain Of Edd In Complex With A Pam2
Peptide From Paip1
pdb|3NTW|C Chain C, Structure Of The Mlle Domain Of Edd In Complex With A Pam2
Peptide From Paip1
Length = 65
Score = 50.8 bits (120), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 28/52 (53%), Positives = 38/52 (73%)
Query: 234 QKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNESLKSKVEE 285
+Q LGERL+P +Q M P A KITGMLLE+ A+LL +L +SL+++VEE
Sbjct: 6 HRQALGERLYPRVQAMQPAFASKITGMLLELSPAQLLLLLASEDSLRARVEE 57
>pdb|1I2T|A Chain A, X-Ray Structure Of The Human Hyperplastic Discs Protein:
An Ortholog Of The C-Terminal Domain Of Poly(A)-Binding
Protein
Length = 61
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/52 (51%), Positives = 38/52 (73%)
Query: 234 QKQMLGERLFPLIQRMYPELAGKITGMLLEIDNAELLYMLEHNESLKSKVEE 285
+Q LGERL+P +Q M P A KITGMLLE+ A+LL +L +SL+++V+E
Sbjct: 1 HRQALGERLYPRVQAMQPAFASKITGMLLELSPAQLLLLLASEDSLRARVDE 52
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 47/78 (60%), Gaps = 5/78 (6%)
Query: 1 MSEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDRKAHLASQYMQR 60
+ ++ SKG+GFV F + E A +A+ +MNG ++ + ++V + +++R+A L ++ +
Sbjct: 38 VCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRKEREAELGAR-AKE 96
Query: 61 IANMRMQQMGQLFQPGST 78
N+ ++ G PGST
Sbjct: 97 FTNVYIKNFG----PGST 110
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 29/47 (61%)
Query: 2 SEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKED 48
SE GRSKG+GF+ FS E A KA+ ++NG + +P+ V + D
Sbjct: 62 SETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVTERTD 108
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 37/56 (66%)
Query: 1 MSEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDRKAHLASQ 56
+ ++ SKG+GFV F + E A +A+ +MNG ++ + ++V + +++R+A L ++
Sbjct: 136 VCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRKEREAELGAR 191
Score = 35.0 bits (79), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 6 RSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKED-RKAHLASQYMQRI 61
RS G+ +V F P +A +A+ MN +I KP+ + +QR RK+ + + +++ +
Sbjct: 55 RSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNL 111
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 37/56 (66%)
Query: 1 MSEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDRKAHLASQ 56
+ ++ SKG+GFV F + E A +A+ +MNG ++ + ++V + +++R+A L ++
Sbjct: 131 VCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRKEREAELGAR 186
Score = 34.7 bits (78), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 6 RSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQR 45
RS G+ +V F P +A +A+ MN +I KP+ + +QR
Sbjct: 50 RSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQR 89
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 42.0 bits (97), Expect = 4e-04, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 34/49 (69%), Gaps = 1/49 (2%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDRKA 51
E+G SKG+GFV F + E A +A+ +MNG ++ + ++V + +++R+A
Sbjct: 47 ENG-SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRKEREA 94
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 26/45 (57%)
Query: 7 SKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDRKA 51
SK FGFV + +P A A+ MNG IG K L V L + K D K+
Sbjct: 66 SKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSKNDSKS 110
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 29/47 (61%)
Query: 2 SEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKED 48
S+ GRSKG+GF+ FS E A +A+ ++NG + +P+ V + D
Sbjct: 41 SDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVTERLD 87
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDRKAHLASQYMQRI-AN 63
G+S G+GFV +S P +A KA+ +NG + +K + V+ A R A+ Y+ +
Sbjct: 43 GQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKVSYA-RPSSASIRDANLYVSGLPKT 101
Query: 64 MRMQQMGQLF 73
M ++M QLF
Sbjct: 102 MSQKEMEQLF 111
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 29/44 (65%)
Query: 2 SEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQR 45
+DG+S+G G V F EA +A++ NG+++ +P++V + +R
Sbjct: 50 DKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDER 93
>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 = 38.9 bits (89), Expect = 0.003, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 28/45 (62%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKE 47
+ G S+G+GFV F+S ++A A+ M G+ + +PL + A + E
Sbjct: 38 QTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAKLE 82
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 28/46 (60%)
Query: 6 RSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDRKA 51
RS+GFGFV F + ++A A+ MNG+ + + + V A + D ++
Sbjct: 52 RSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGKSSDNRS 97
>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 = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 26/42 (61%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRK 46
G+SKG+GFV F + +A A+ +M G+ +G + + A RK
Sbjct: 45 GKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATRK 86
>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 = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 26/42 (61%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRK 46
G+SKG+GFV F + +A A+ +M G+ +G + + A RK
Sbjct: 54 GKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATRK 95
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 26/41 (63%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQR 45
G S+G+GFV F+S ++A A+ M G+ + +PL + A +
Sbjct: 126 GSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK 166
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 25/42 (59%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRK 46
G+SKG+GFV F + +A A+ M G+ +G + + A RK
Sbjct: 54 GKSKGYGFVSFYNKLDAENAIVHMGGQWLGGRQIRTNWATRK 95
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 37.0 bits (84), Expect = 0.012, Method: Composition-based stats.
Identities = 16/40 (40%), Positives = 27/40 (67%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
G+S G+GFV +S P +A KA+ +NG + +K + V+ A+
Sbjct: 43 GQSLGYGFVNYSDPNDADKAINTLNGLKLQTKTIKVSYAR 82
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif In Trna Selenocysteine Associated Protein
Length = 104
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 32/50 (64%), Gaps = 1/50 (2%)
Query: 1 MSEDGRSKGFGFVCFSSPEEATKAVTEMNGRI-IGSKPLYVALAQRKEDR 49
+ + G SKG+GFV F+ E +A+TE G + +GSKP+ +++A K R
Sbjct: 44 LDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSVAIPKASR 93
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 23/36 (63%)
Query: 7 SKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVAL 42
SK FGFV F +P+ A A+ MNG +G+K L V L
Sbjct: 81 SKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQL 116
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 25/40 (62%)
Query: 6 RSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQR 45
+S+GF F+ F +P +A A +MNG+ + K + V A++
Sbjct: 46 KSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAKK 85
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 36.6 bits (83), Expect = 0.018, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 31/47 (65%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDR 49
+ G SKG+ F+ F+S + + A+ MNG+ + ++P+ V+ A +K+ +
Sbjct: 43 DTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKKDSK 89
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 36.6 bits (83), Expect = 0.019, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 24/38 (63%)
Query: 4 DGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVA 41
+G+ K FGFVCF PE + A+ +NG + +P+ V+
Sbjct: 53 EGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVS 90
>pdb|1IFW|A Chain A, Solution Structure Of C-Terminal Domain Of Poly(A) Binding
Protein From Saccharomyces Cerevisiae
Length = 92
Score = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 35/56 (62%), Gaps = 2/56 (3%)
Query: 232 QEQKQMLGERLFPLI--QRMYPELAGKITGMLLEIDNAELLYMLEHNESLKSKVEE 285
Q+Q+Q LGE+L+ + + E AGKITGM+L++ E+ +LE +E + +E
Sbjct: 18 QKQRQALGEQLYKKVSAKTSNEEAAGKITGMILDLPPQEVFPLLESDELFEQHYKE 73
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 8 KGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYV 40
KGF FV F PE A KA E++G++ + L+V
Sbjct: 50 KGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHV 82
>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 = 35.4 bits (80), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDRKAHLASQYMQRI-AN 63
G+S G+GFV + P++A KA+ +NG + +K + V+ A R A+ Y+ +
Sbjct: 41 GQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYA-RPSSASIRDANLYVSGLPKT 99
Query: 64 MRMQQMGQLF 73
M +++ QLF
Sbjct: 100 MTQKELEQLF 109
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 35.0 bits (79), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDR 49
E +S+G+GFV F S A +A+ +NG I +K L VALA R
Sbjct: 79 ETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAASGHQR 125
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain
In Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 34.3 bits (77), Expect = 0.094, Method: Composition-based stats.
Identities = 17/40 (42%), Positives = 24/40 (60%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVAL 42
E+G+SKG G V F SPE A +A MNG + + + V +
Sbjct: 40 ENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRI 79
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 34.3 bits (77), Expect = 0.097, Method: Composition-based stats.
Identities = 17/40 (42%), Positives = 24/40 (60%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVAL 42
E+G+SKG G V F SPE A +A MNG + + + V +
Sbjct: 43 ENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRI 82
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/35 (54%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEM-NGRIIGSK 36
E G SKGFGFV F+S E+A A M +G I G+K
Sbjct: 49 ETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNK 83
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 1 MSEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
M E GF FV F E A KA+ E++G+ ++PL V ++
Sbjct: 58 MKEVKILNGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSK 101
>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 = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
G S G+GFV + + ++A +A+ +NG + SK + V+ A+
Sbjct: 43 GHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYAR 82
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALA 43
R +GFGF+ S A A E++G I+ S+PL + A
Sbjct: 55 NRDRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFA 93
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 33.5 bits (75), Expect = 0.15, Method: Composition-based stats.
Identities = 15/39 (38%), Positives = 24/39 (61%)
Query: 7 SKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQR 45
S GFGFV + PE+A KA+ ++ G + L V +++R
Sbjct: 49 SMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISER 87
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs
Of Human Antigen R
Length = 177
Score = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
G S G+GFV + + ++A +A+ +NG + SK + V+ A+
Sbjct: 41 GHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYAR 80
>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 = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
G S G+GFV + + ++A +A+ +NG + SK + V+ A+
Sbjct: 41 GHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYAR 80
>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 = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPL 38
GRSKG+ F+ F E + AV +NG +GS+ L
Sbjct: 43 GRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFL 76
>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 = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 4/36 (11%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTE----MNGRIIGSK 36
GRS+GFGFV F E K + + +NG++I K
Sbjct: 38 GRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPK 73
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 32.7 bits (73), Expect = 0.25, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 25/37 (67%)
Query: 8 KGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
+ + FV FS+ E+A +A+ +NG+++ P+ V LA+
Sbjct: 51 RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAK 87
>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 = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 7 SKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
S+GF FV F +A A+ M+G ++ + L V +A+
Sbjct: 88 SRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMAR 125
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 27/41 (65%)
Query: 2 SEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVAL 42
+++G+SKG+ F+ F+S E+A +A+ N R I + + + L
Sbjct: 47 NQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLEL 87
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 32.7 bits (73), Expect = 0.27, Method: Composition-based stats.
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPL 38
+ GRSKG+ F+ F E + AV +NG +GS+ L
Sbjct: 39 QTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFL 74
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 32.7 bits (73), Expect = 0.27, Method: Composition-based stats.
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPL 38
+ GRSKG+ F+ F E + AV +NG +GS+ L
Sbjct: 40 QTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFL 75
>pdb|2CQP|A Chain A, Solution Structure Of The Rna Binding Domain Of
Rna-Binding Protein 12
Length = 98
Score = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 24/41 (58%)
Query: 2 SEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVAL 42
+E G G V F S +EAT AV ++N R IGS+ + + L
Sbjct: 51 NEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVL 91
>pdb|3JXI|A Chain A, Crystal Structure Of The Chicken Trpv4 Ankyrin Repeat
Domain
pdb|3JXI|B Chain B, Crystal Structure Of The Chicken Trpv4 Ankyrin Repeat
Domain
pdb|3JXI|C Chain C, Crystal Structure Of The Chicken Trpv4 Ankyrin Repeat
Domain
pdb|3JXI|D Chain D, Crystal Structure Of The Chicken Trpv4 Ankyrin Repeat
Domain
pdb|3JXJ|A Chain A, Crystal Structure Of The Chicken Trpv4 Ankyrin Repeat
Domain
pdb|3JXJ|B Chain B, Crystal Structure Of The Chicken Trpv4 Ankyrin Repeat
Domain
Length = 260
Score = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 34 GSKPLYVALAQRKEDRKAHLASQYMQRIANMRMQQMGQLFQPGSTGGYF 82
G L++A+ E R H +++ A++ Q G+ FQP GGYF
Sbjct: 93 GQTALHIAI----ERRCKHYVELLVEKGADVHAQARGRFFQPKDEGGYF 137
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 7 SKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
S+GF FV F +A A+ M+G ++ + L V +A+
Sbjct: 111 SRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMAR 148
>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 = 32.0 bits (71), Expect = 0.47, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 26/40 (65%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
G S G+GFV + + ++A +A+ +NG + SK + V+ A+
Sbjct: 58 GHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYAR 97
>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 = 31.6 bits (70), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 25/40 (62%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
G S G+ FV F+S ++ +A+ +NG + +K L V+ A+
Sbjct: 53 GYSFGYAFVDFTSEXDSQRAIKVLNGITVRNKRLKVSYAR 92
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 31.6 bits (70), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 24/36 (66%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYV 40
G+SKG+GF + + A +A +++ G+ +G + LYV
Sbjct: 134 GQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYV 169
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 31.6 bits (70), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 9 GFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
GF FV F P +A AV E++GR + + V L+
Sbjct: 111 GFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSN 146
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 31.2 bits (69), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 24/36 (66%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYV 40
G+SKG+GF + + A +A +++ G+ +G + LYV
Sbjct: 134 GQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYV 169
>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 = 31.2 bits (69), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 24/36 (66%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYV 40
G+SKG+GF + + A +A +++ G+ +G + LYV
Sbjct: 132 GQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYV 167
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 31.2 bits (69), Expect = 0.69, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 9 GFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
GF FV F E A KA+ E++G+ ++PL V ++
Sbjct: 39 GFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSK 74
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 31.2 bits (69), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 25/40 (62%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
G S G+ FV F+S ++ +A+ +NG + +K L V+ A+
Sbjct: 42 GYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR 81
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 31.2 bits (69), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 7 SKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALA 43
SKGFGFV F + +A +A +++G ++ + + V A
Sbjct: 68 SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNA 104
>pdb|2KRB|A Chain A, Solution Structure Of Eif3b-Rrm Bound To Eif3j Peptide
Length = 81
Score = 30.8 bits (68), Expect = 0.94, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEMNG 30
EDG++KG+ F+ ++SP A AV +G
Sbjct: 42 EDGKTKGYIFLEYASPAHAVDAVKNADG 69
>pdb|2EK6|A Chain A, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|B Chain B, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|C Chain C, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|D Chain D, Crystal Structure Of Human Rna-Binding Protein 12
Length = 95
Score = 30.8 bits (68), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 21/35 (60%)
Query: 2 SEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSK 36
+E G G V F S +EAT AV ++N R IGS+
Sbjct: 51 NEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSR 85
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 7 SKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALA 43
SKGFGFV F + +A +A +++G ++ + + V A
Sbjct: 54 SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNA 90
>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 = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 6 RSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYV 40
+ KGF FV + PE A A+ +MN ++G + + V
Sbjct: 68 KHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 102
>pdb|2NLW|A Chain A, Solution Structure Of The Rrm Domain Of Human Eukaryotic
Initiation Factor 3b
Length = 105
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEMNG 30
EDG++KG+ F+ ++SP A AV +G
Sbjct: 56 EDGKTKGYIFLEYASPAHAVDAVKNADG 83
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 27/60 (45%)
Query: 1 MSEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDRKAHLASQYMQR 60
+S + +G FV F AT A+ M G KP+ + A+ D A + +++R
Sbjct: 45 VSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKTDSDIIAKMKGTFVER 104
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 9 GFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
GF FV F P +A AV +++GR + + V L+
Sbjct: 111 GFAFVEFEDPRDAADAVRDLDGRTLCGCRVRVELSN 146
>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 = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 5 GRSKGFGFVCF---SSPEEATKAVTEMNGRIIGSK 36
GRS+GFGF+ F SS +E K ++G++I K
Sbjct: 42 GRSRGFGFLSFEKPSSVDEVVKTQHILDGKVIDPK 76
>pdb|4DX1|A Chain A, Crystal Structure Of The Human Trpv4 Ankyrin Repeat Domain
pdb|4DX1|B Chain B, Crystal Structure Of The Human Trpv4 Ankyrin Repeat Domain
pdb|4DX2|A Chain A, Crystal Structure Of The Human Trpv4 Ankyrin Repeat Domain
pdb|4DX2|B Chain B, Crystal Structure Of The Human Trpv4 Ankyrin Repeat Domain
Length = 259
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 34 GSKPLYVALAQRKEDRKAHLASQYMQRIANMRMQQMGQLFQPGSTGGYF 82
G L++A+ E R H + + A++ Q G+ FQP GGYF
Sbjct: 91 GQTALHIAI----ERRCKHYVELLVAQGADVHAQARGRFFQPKDEGGYF 135
>pdb|2EK1|A Chain A, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|B Chain B, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|C Chain C, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|D Chain D, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|E Chain E, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|F Chain F, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|G Chain G, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|H Chain H, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
Length = 95
Score = 30.0 bits (66), Expect = 1.5, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 21/35 (60%)
Query: 2 SEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSK 36
+E G G V F S +EAT AV ++N R IGS+
Sbjct: 51 NEKGXPTGEAXVAFESRDEATAAVIDLNDRPIGSR 85
>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 = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 6 RSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYV 40
+ KGF FV + PE A A+ +MN ++G + + V
Sbjct: 53 KHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 87
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor
9g8
Length = 101
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 9 GFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALA 43
GF FV F P +A AV ++G++I + V L+
Sbjct: 38 GFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELS 72
>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 = 29.6 bits (65), Expect = 2.1, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 4/36 (11%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTE----MNGRIIGSK 36
GRS+GFGF+ F K + + ++GR+I K
Sbjct: 50 GRSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDPK 85
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 26/48 (54%)
Query: 3 EDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQRKEDRK 50
E G+ KG+GF + E A A+ +NGR + L V A +++++
Sbjct: 45 ETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAASEKNKE 92
>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 = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 22/32 (68%), Gaps = 4/32 (12%)
Query: 6 RSKGFGFVCFSSPEEATKAVT----EMNGRII 33
RS+GFGFV +++ EE A+ +++GR++
Sbjct: 52 RSRGFGFVTYATVEEVDAAMNARPHKVDGRVV 83
>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 = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 22/32 (68%), Gaps = 4/32 (12%)
Query: 6 RSKGFGFVCFSSPEEATKAVT----EMNGRII 33
RS+GFGFV +++ EE A+ +++GR++
Sbjct: 46 RSRGFGFVTYATVEEVDAAMNARPHKVDGRVV 77
>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 = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 22/32 (68%), Gaps = 4/32 (12%)
Query: 6 RSKGFGFVCFSSPEEATKAVT----EMNGRII 33
RS+GFGFV +++ EE A+ +++GR++
Sbjct: 53 RSRGFGFVTYATVEEVDAAMNARPHKVDGRVV 84
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 22/32 (68%), Gaps = 4/32 (12%)
Query: 6 RSKGFGFVCFSSPEEATKAVT----EMNGRII 33
RS+GFGFV +++ EE A+ +++GR++
Sbjct: 54 RSRGFGFVTYATVEEVDAAMNARPHKVDGRVV 85
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 29.3 bits (64), Expect = 2.5, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 7 SKGFGFVCFSSPEEATKAVTEMNG 30
SKG+ +V F +P+EA KA+ M+G
Sbjct: 46 SKGYAYVEFENPDEAEKALKHMDG 69
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 22/32 (68%), Gaps = 4/32 (12%)
Query: 6 RSKGFGFVCFSSPEEATKAVT----EMNGRII 33
RS+GFGFV +++ EE A+ +++GR++
Sbjct: 53 RSRGFGFVTYATVEEVDAAMNARPHKVDGRVV 84
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 4/32 (12%)
Query: 6 RSKGFGFVCFSSPEEATKAVT----EMNGRII 33
RS+GFGFV FSS E A+ ++GR++
Sbjct: 67 RSRGFGFVTFSSMAEVDAAMAARPHSIDGRVV 98
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 22/32 (68%), Gaps = 4/32 (12%)
Query: 6 RSKGFGFVCFSSPEEATKAVT----EMNGRII 33
RS+GFGFV +++ EE A+ +++GR++
Sbjct: 51 RSRGFGFVTYATVEEVDAAMNARPHKVDGRVV 82
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 5/38 (13%)
Query: 1 MSEDGRSKGFGFVCFSSPEEATKAV-----TEMNGRII 33
+S+DG+SKG ++ F + +A K TE++GR I
Sbjct: 123 VSKDGKSKGIAYIEFKTEADAEKTFEEKQGTEIDGRSI 160
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 29.3 bits (64), Expect = 3.0, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 1 MSEDGRSKGFGFVCFSSPEEATKAVTEMNG 30
+S+DG+SKG ++ F S +A K + E G
Sbjct: 46 VSQDGKSKGIAYIEFKSEADAEKNLEEKQG 75
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 29.3 bits (64), Expect = 3.0, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 25/40 (62%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALAQ 44
G S G+ FV F+S ++ +A+ +NG + +K L V+ A+
Sbjct: 42 GYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR 81
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 4 DGRSKGFGFVCFSSPEEATKAVTEMNG 30
DG SKG FV FSS EA A+ ++G
Sbjct: 52 DGSSKGCAFVKFSSHTEAQAAIHALHG 78
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 8 KGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALA 43
KG+ FV +S+ A AV NGR++ + L + +A
Sbjct: 62 KGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMA 97
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNG 30
G+SKGF F+ F E+A +A+ ++G
Sbjct: 54 GQSKGFAFISFHRREDAARAIAGVSG 79
>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 = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 1 MSEDGRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPL 38
+S+DG+SKG ++ F S +A K + E G I + +
Sbjct: 129 VSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSV 166
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 4 DGRSKGFGFVCFSSPEEATKAVTEMNG 30
DG SKG FV +SS EA A+ ++G
Sbjct: 52 DGNSKGCAFVKYSSHAEAQAAINALHG 78
>pdb|1RKT|A Chain A, Crystal Structure Of Yfir, A Putative Transcriptional
Regulator From Bacillus Subtilis
pdb|1RKT|B Chain B, Crystal Structure Of Yfir, A Putative Transcriptional
Regulator From Bacillus Subtilis
Length = 205
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 39 YVALAQRKEDRKAHLASQYMQRIANMRMQQMGQLFQPGSTGGYFVPTLP 87
Y+ A R E+R+ QY+++ ++ +++ +L Q G G F P P
Sbjct: 113 YLVTAWRNEERR-----QYLEKRYDLFVERFSRLLQKGIDQGEFQPVQP 156
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 8 KGFGFVCFSSPEEATKAVTEMNGRII 33
KG+ FV FS+ E A A+ +NG I
Sbjct: 61 KGYSFVRFSTHESAAHAIVSVNGTTI 86
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 27.7 bits (60), Expect = 7.9, Method: Composition-based stats.
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 6 RSKGFGFVCFSSPEEATKAVTEM 28
+ KG+GFV F SP A KAVT +
Sbjct: 45 KCKGYGFVDFDSPSAAQKAVTAL 67
>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 = 27.7 bits (60), Expect = 8.6, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 24/39 (61%)
Query: 5 GRSKGFGFVCFSSPEEATKAVTEMNGRIIGSKPLYVALA 43
G+ KG +V + + +A++AV +M+G I + VA++
Sbjct: 55 GKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAIS 93
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.315 0.131 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,901,548
Number of Sequences: 62578
Number of extensions: 298864
Number of successful extensions: 767
Number of sequences better than 100.0: 103
Number of HSP's better than 100.0 without gapping: 93
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 658
Number of HSP's gapped (non-prelim): 118
length of query: 303
length of database: 14,973,337
effective HSP length: 98
effective length of query: 205
effective length of database: 8,840,693
effective search space: 1812342065
effective search space used: 1812342065
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)