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= 023286
(284 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 89.0 bits (219), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 42/89 (47%), Positives = 59/89 (66%)
Query: 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
N ++YV L D LA++F G++K +KRTG+P + +Y DK T + KGDATV+YED
Sbjct: 15 NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 74
Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
P A AAVEWF+ KDF G+ + V +A +
Sbjct: 75 PPTAKAAVEWFDGKDFQGSKLKVSLARKK 103
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 37/90 (41%), Positives = 60/90 (66%)
Query: 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
N +++V L + +A+YF IG++K +K+TG+P + LY D+ T + KG+ATV+++D
Sbjct: 7 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 66
Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESRG 94
P +A AA++WF+ K+F GN I V A R
Sbjct: 67 PPSAKAAIDWFDGKEFSGNPIKVSFATRRA 96
>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 = 81.3 bits (199), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 36/86 (41%), Positives = 59/86 (68%)
Query: 5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
N +++V L + +A+YF IG++K +K+TG+P + LY D+ T + KG+ATV+++D
Sbjct: 13 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 72
Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIA 90
P +A AA++WF+ K+F GN I V A
Sbjct: 73 PPSAKAAIDWFDGKEFSGNPIKVSFA 98
>pdb|3G9Y|A Chain A, Crystal Structure Of The Second Zinc Finger From
Zranb2ZNF265 BOUND To 6 Nt Ssrna Sequence Agguaa
pdb|2K1P|A Chain A, Solution Structure Of The Second Zinc Finger Domain Of
Zranb2ZNF265
Length = 33
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 16/26 (61%), Positives = 21/26 (80%)
Query: 214 NDWSCPMCGNINWAKRTKCNICNTNK 239
NDW C C N+NWA+R++CN+CNT K
Sbjct: 5 NDWQCKTCSNVNWARRSECNMCNTPK 30
Score = 27.3 bits (59), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 15/23 (65%), Gaps = 2/23 (8%)
Query: 148 DWMCPNTSCSNVNFAFRGVCNRC 170
DW C +CSNVN+A R CN C
Sbjct: 6 DWQCK--TCSNVNWARRSECNMC 26
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 41/82 (50%), Gaps = 9/82 (10%)
Query: 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDP 65
G +++ L T+E ML FG G + + V L +D+T+ + +G A +T+E+P
Sbjct: 8 GKLFIGGLNRETNEKMLKAVFGKHGPISE--------VLLIKDRTS-KSRGFAFITFENP 58
Query: 66 HAALAAVEWFNNKDFHGNLIGV 87
A A + N K HG I V
Sbjct: 59 ADAKNAAKDMNGKSLHGKAIKV 80
>pdb|1N0Z|A Chain A, Solution Structure Of The First Zinc-Finger Domain From
Znf265
Length = 45
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 16/26 (61%), Positives = 19/26 (73%)
Query: 145 QDGDWMCPNTSCSNVNFAFRGVCNRC 170
DGDW+CP+ C NVNFA R C+RC
Sbjct: 11 SDGDWICPDKKCGNVNFARRTSCDRC 36
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 215 DWSCP--MCGNINWAKRTKCNICNTNK 239
DW CP CGN+N+A+RT C+ C K
Sbjct: 14 DWICPDKKCGNVNFARRTSCDRCGREK 40
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 18/86 (20%)
Query: 7 SVYVCNLPHGTDEDMLAEYFGTIG-----LLKKDKRTGRPKVWLYRDKTTNEYKGDATVT 61
SV+V N+P+ E+ L + F +G L D+ TG+PK G
Sbjct: 10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPK-------------GYGFCE 56
Query: 62 YEDPHAALAAVEWFNNKDFHGNLIGV 87
Y+D AL+A+ N ++F G + V
Sbjct: 57 YQDQETALSAMRNLNGREFSGRALRV 82
>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 = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 44/97 (45%), Gaps = 12/97 (12%)
Query: 2 TMANGSVYVCNLPHGTDEDMLAEYFGTIG-LLKKDKRTGRPKVWLYRDKTTNEYKGDATV 60
++ + ++YV NLP +D L FG G +++K+ + RDK T +G A V
Sbjct: 10 SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKN---------ILRDKLTGRPRGVAFV 60
Query: 61 TYEDPHAALAAVEWFNNKDFHG--NLIGVFIAESRGK 95
Y A A+ NN G + V +AE GK
Sbjct: 61 RYNKREEAQEAISALNNVIPEGGSQPLSVRLAEEHGK 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 = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 44/97 (45%), Gaps = 12/97 (12%)
Query: 2 TMANGSVYVCNLPHGTDEDMLAEYFGTIG-LLKKDKRTGRPKVWLYRDKTTNEYKGDATV 60
++ + ++YV NLP +D L FG G +++K+ + RDK T +G A V
Sbjct: 97 SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKN---------ILRDKLTGRPRGVAFV 147
Query: 61 TYEDPHAALAAVEWFNNKDFHG--NLIGVFIAESRGK 95
Y A A+ NN G + V +AE GK
Sbjct: 148 RYNKREEAQEAISALNNVIPEGGSQPLSVRLAEEHGK 184
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 36.6 bits (83), Expect = 0.015, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 37/87 (42%), Gaps = 8/87 (9%)
Query: 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
+ +VYV NLP + L F G + K V + +DK T + KG A + +
Sbjct: 15 SKSTVYVSNLPFSLTNNDLYRIFSKYGKVVK--------VTIMKDKDTRKSKGVAFILFL 66
Query: 64 DPHAALAAVEWFNNKDFHGNLIGVFIA 90
D +A NNK G +I IA
Sbjct: 67 DKDSAQNCTRAINNKQLFGRVIKASIA 93
>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 = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 37/80 (46%), Gaps = 8/80 (10%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
VYV ++ + ED + + F G +K + W D T ++KG A V YE P A
Sbjct: 31 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMS-----W---DSVTMKHKGFAFVEYEVPEA 82
Query: 68 ALAAVEWFNNKDFHGNLIGV 87
A A+E N+ G I V
Sbjct: 83 AQLALEQMNSVMLGGRNIKV 102
Score = 31.2 bits (69), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 8/80 (10%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
+YV ++ +D + F G +K L RD TT ++KG + YE +
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKS--------ATLARDPTTGKHKGYGFIEYEKAQS 179
Query: 68 ALAAVEWFNNKDFHGNLIGV 87
+ AV N D G + V
Sbjct: 180 SQDAVSSMNLFDLGGQYLRV 199
>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 = 35.4 bits (80), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 37/80 (46%), Gaps = 8/80 (10%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
VYV ++ + ED + + F G +K + W D T ++KG A V YE P A
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXS-----W---DSVTXKHKGFAFVEYEVPEA 66
Query: 68 ALAAVEWFNNKDFHGNLIGV 87
A A+E N+ G I V
Sbjct: 67 AQLALEQXNSVXLGGRNIKV 86
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 8/80 (10%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
+YV ++ +D + F G +K L RD TT ++KG + YE +
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKS--------CTLARDPTTGKHKGYGFIEYEKAQS 163
Query: 68 ALAAVEWFNNKDFHGNLIGV 87
+ AV N D G + V
Sbjct: 164 SQDAVSSXNLFDLGGQYLRV 183
>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 = 35.4 bits (80), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 37/80 (46%), Gaps = 8/80 (10%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
VYV ++ + ED + + F G +K + W D T ++KG A V YE P A
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMS-----W---DSVTMKHKGFAFVEYEVPEA 67
Query: 68 ALAAVEWFNNKDFHGNLIGV 87
A A+E N+ G I V
Sbjct: 68 AQLALEQMNSVMLGGRNIKV 87
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 8/80 (10%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
+YV ++ +D + F G +K L RD TT ++KG + YE +
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKS--------CTLARDPTTGKHKGYGFIEYEKAQS 164
Query: 68 ALAAVEWFNNKDFHGNLIGV 87
+ AV N D G + V
Sbjct: 165 SQDAVSSMNLFDLGGQYLRV 184
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 35.0 bits (79), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 10/77 (12%)
Query: 2 TMANGSVYVCNLPHGTDEDMLAEYFGTIG-LLKKDKRTGRPKVWLYRDKTTNEYKGDATV 60
++ + ++YV NLP +D L FG G +++K+ + RDK T +G A V
Sbjct: 86 SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKN---------ILRDKLTGRPRGVAFV 136
Query: 61 TYEDPHAALAAVEWFNN 77
Y A A+ NN
Sbjct: 137 RYNKREEAQEAISALNN 153
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With
The Au-Rich Element
Length = 174
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 32/80 (40%), Gaps = 8/80 (10%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
+ V LP +D FG+IG ++ K L RDK T + G V Y DP+
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCK--------LVRDKITGQSLGYGFVNYSDPND 58
Query: 68 ALAAVEWFNNKDFHGNLIGV 87
A A+ N I V
Sbjct: 59 ADKAINTLNGLKLQTKTIKV 78
>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 = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
++V ++ ED + E F G +K + L D+ T KG A V YE
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKN--------IHLNLDRRTGFSKGYALVEYETHKQ 126
Query: 68 ALAAVEWFNNKDFHGNLIGV 87
ALAA E N + G I V
Sbjct: 127 ALAAKEALNGAEIMGQTIQV 146
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 33.1 bits (74), Expect = 0.18, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 31/78 (39%), Gaps = 8/78 (10%)
Query: 13 LPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAV 72
LP +D FG+IG ++ K L RDK T + G V Y DP+ A A+
Sbjct: 12 LPQNMTQDEFKSLFGSIGDIESCK--------LVRDKITGQSLGYGFVNYSDPNDADKAI 63
Query: 73 EWFNNKDFHGNLIGVFIA 90
N I V A
Sbjct: 64 NTLNGLKLQTKTIKVSYA 81
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 36/87 (41%), Gaps = 8/87 (9%)
Query: 1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATV 60
M G ++V L T+E L + F G + +V + +D+ T +G V
Sbjct: 8 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQI--------SEVVVVKDRETQRSRGFGFV 59
Query: 61 TYEDPHAALAAVEWFNNKDFHGNLIGV 87
T+E+ A A+ N K G I V
Sbjct: 60 TFENIDDAKDAMMAMNGKSVDGRQIRV 86
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 24/100 (24%), Positives = 44/100 (44%), Gaps = 13/100 (13%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
++V +PH E L EYF G++ +V + D +G +T+ED +
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVT--------EVVMIYDAEKQRPRGFGFITFEDEQS 64
Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAG 107
AV N FH +++G + R + + +S ++G
Sbjct: 65 VDQAV----NMHFH-DIMGKKVEVKRAEPRDSKSSGPSSG 99
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 39/93 (41%), Gaps = 12/93 (12%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
+YV NL ED+L +YF G + K+ + ++ Y A V Y H
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPI------ANIKIMIDKNNKNVNY---AFVEYHQSHD 53
Query: 68 ALAAVEWFNNKDFHGNLIGV---FIAESRGKDD 97
A A++ N K N++ + F ++ DD
Sbjct: 54 ANIALQTLNGKQIENNIVKINWAFQSQQSSSDD 86
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
++V ++ ED + E F G +K + L D+ T KG A V YE
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKN--------IHLNLDRRTGFSKGYALVEYETHKQ 80
Query: 68 ALAAVEWFNNKDFHGNLIGV 87
ALAA E N + G I V
Sbjct: 81 ALAAKEALNGAEIMGQTIQV 100
>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 = 31.2 bits (69), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 31/80 (38%), Gaps = 8/80 (10%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
+ V LP ++ FG+IG ++ K L RDK T + G V Y DP
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCK--------LVRDKITGQSLGYGFVNYIDPKD 56
Query: 68 ALAAVEWFNNKDFHGNLIGV 87
A A+ N I V
Sbjct: 57 AEKAINTLNGLRLQTKTIKV 76
>pdb|3GJ8|B Chain B, Crystal Structure Of Human Rangdp-Nup153znf34 Complex
pdb|3GJ8|D Chain D, Crystal Structure Of Human Rangdp-Nup153znf34 Complex
Length = 92
Score = 30.0 bits (66), Expect = 1.3, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 216 WSCPMCGNINWAKRTKCNICNTNKPG 241
W CP+C N A+ ++C C + KPG
Sbjct: 9 WECPVCCVSNKAEDSRCVSCTSEKPG 34
Score = 28.1 bits (61), Expect = 6.3, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 216 WSCPMCGNINWAKRTKCNICNTNKPG 241
W C +C N A TKC C + KPG
Sbjct: 66 WDCEVCLVQNKADSTKCIACESAKPG 91
>pdb|3GJ5|B Chain B, Crystal Structure Of Human Rangdp-Nup153znf4 Complex
pdb|3GJ5|D Chain D, Crystal Structure Of Human Rangdp-Nup153znf4 Complex
Length = 34
Score = 30.0 bits (66), Expect = 1.6, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 16/33 (48%)
Query: 209 GLFGPNDWSCPMCGNINWAKRTKCNICNTNKPG 241
G G W C +C N A TKC C + KPG
Sbjct: 1 GPLGSGSWDCEVCLVQNKADSTKCIACESAKPG 33
>pdb|3B08|B Chain B, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B08|E Chain E, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B08|H Chain H, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B08|K Chain K, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B0A|B Chain B, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B0A|E Chain E, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
Length = 64
Score = 29.3 bits (64), Expect = 2.8, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 13/28 (46%)
Query: 213 PNDWSCPMCGNINWAKRTKCNICNTNKP 240
P W CP C IN R C +C +P
Sbjct: 6 PVGWQCPGCTFINKPTRPGCEMCCRARP 33
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIG-----LLKKDKRTGRPK 42
+ V LP T E L EYF T G +KKD +TG K
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSK 57
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 8/61 (13%)
Query: 6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDP 65
G ++V L T ++ L YF G + + +DKTTN+ +G V ++DP
Sbjct: 17 GKLFVGGLDWSTTQETLRSYFSQYGEVVD--------CVIMKDKTTNQSRGFGFVKFKDP 68
Query: 66 H 66
+
Sbjct: 69 N 69
>pdb|1JQG|A Chain A, Crystal Structure Of The Carboxypeptidase A From
Helicoverpa Armigera
Length = 433
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 68 ALAAVEWFNNKDFH-GNLIGVFIAESRGKDDHAYNSAA 104
A+ V+W +NKD+ GN+ V A S G D+A +AA
Sbjct: 338 AIDRVKWSSNKDYIVGNIFHVLYAASGGASDYAMQAAA 375
>pdb|2CRC|A Chain A, Solution Structure Of The Zf-Ranbp Domain Of The Protein
Hbv Associated Factor
Length = 52
Score = 28.1 bits (61), Expect = 5.7, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 13/28 (46%)
Query: 213 PNDWSCPMCGNINWAKRTKCNICNTNKP 240
P W CP C IN R C +C +P
Sbjct: 8 PVGWQCPGCTFINKPTRPGCEMCCRARP 35
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 11/70 (15%)
Query: 4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
N +Y+ NLP+ + + + FG G +++ R G T E +G A V YE
Sbjct: 7 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQI-RVG----------NTPETRGTAYVVYE 55
Query: 64 DPHAALAAVE 73
D A AV+
Sbjct: 56 DIFDAKNAVD 65
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 8/81 (9%)
Query: 8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
++V NL + + E+ L + F G L + + D T + KG A VT+ P
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSE--------LHYPIDSLTKKPKGFAFVTFMFPEH 62
Query: 68 ALAAVEWFNNKDFHGNLIGVF 88
A+ A + + F G ++ V
Sbjct: 63 AVKAYAEVDGQVFQGRMLHVL 83
>pdb|2EBR|A Chain A, Solution Structure Of The Fourth Zf-Ranbp Domain From
Human Nuclear Pore Complex Protein Nup153
Length = 47
Score = 28.1 bits (61), Expect = 6.1, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 216 WSCPMCGNINWAKRTKCNICNTNKPG 241
W C +C N A TKC C + KPG
Sbjct: 12 WDCELCLVQNKADSTKCLACESAKPG 37
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 42/95 (44%), Gaps = 20/95 (21%)
Query: 7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
+ YV NLP T + + F + + V L RDK T+++KG V +++
Sbjct: 17 TAYVGNLPFNTVQGDIDAIFKDLSIRS---------VRLVRDKDTDKFKGFCYVEFDEVD 67
Query: 67 AALAAVEWFNNKDFHGNLIG-----VFIAESRGKD 96
+ A+ + G L+G V IAE R +D
Sbjct: 68 SLKEALTY------DGALLGDRSLRVDIAEGRKQD 96
>pdb|2ZQ7|A Chain A, Apo Structure Of Class A Beta-Lactamase Toho-1
E166aR274NR276N TRIPLE MUTANT
pdb|2ZQ9|A Chain A, Cephalothin Acyl-Intermediate Structure Of Class A Beta-
Lactamase Toho-1 E166aR274NR276N TRIPLE MUTANT
pdb|2ZQA|A Chain A, Cefotaxime Acyl-Intermediate Structure Of Class A
Beta-Lacta Toho-1 E166aR274NR276N TRIPLE MUTANT
pdb|2ZQC|A Chain A, Aztreonam Acyl-Intermediate Structure Of Class A
Beta-Lactam Toho-1 E166aR274NR276N TRIPLE MUTANT
pdb|2ZQD|A Chain A, Ceftazidime Acyl-Intermediate Structure Of Class A
Beta-Lact Toho-1 E166aR274NR276N TRIPLE MUTANT
Length = 262
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 37 RTGRPKVWLYRDKT-TNEY--KGDATVTYEDPHAALAAVEWFNNKD 79
R G PK W+ DKT + +Y D V + + HA L V +F +
Sbjct: 196 RAGLPKSWVVGDKTGSGDYGTTNDIAVIWPENHAPLVLVTYFTQPE 241
>pdb|4BD0|A Chain A, X-ray Structure Of A Perdeuterated Toho-1 R274n R276n
Double Mutant Beta-lactamase In Complex With A Fully
Deuterated Boronic Acid (bzb)
Length = 261
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 37 RTGRPKVWLYRDKT-TNEY--KGDATVTYEDPHAALAAVEWFNNKD 79
R G PK W+ DKT + +Y D V + + HA L V +F +
Sbjct: 195 RAGLPKSWVVGDKTGSGDYGTTNDIAVIWPENHAPLVLVTYFTQPE 240
>pdb|1VRQ|D Chain D, Crystal Structure Of Heterotetrameric Sarcosine Oxidase
From Corynebacterium Sp. U-96 In Complex With Folinic
Acid
pdb|1X31|D Chain D, Crystal Structure Of Heterotetrameric Sarcosine Oxidase
From Corynebacterium Sp. U-96
pdb|3AD7|D Chain D, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Methylthio Acetate
pdb|3AD8|D Chain D, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Pyrrole 2-Carboxylate
pdb|3AD9|D Chain D, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 Sarcosine-Reduced Form
pdb|3ADA|D Chain D, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Sulfite
Length = 99
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 47 RDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVF 88
R++ +Y G+A V Y + AL+ EW + GN G+F
Sbjct: 12 RNENEFKYGGEAHVAYPEDPNALSDKEWSRYLFYRGNKKGIF 53
>pdb|2XQZ|A Chain A, Neutron Structure Of The Perdeuterated Toho-1 R274n R276n
Double Mutant Beta-Lactamase
Length = 260
Score = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 37 RTGRPKVWLYRDKT-TNEY--KGDATVTYEDPHAALAAVEWFNNKD 79
R G PK W+ DKT + +Y D V + + HA L V +F +
Sbjct: 194 RAGLPKSWVVGDKTGSGDYGTTNDIAVIWPENHAPLVLVTYFTQPE 239
>pdb|2ZQ8|A Chain A, Apo Structure Of Class A Beta-Lactamase Toho-1 R274nR276N
Double Mutant
Length = 262
Score = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 37 RTGRPKVWLYRDKT-TNEY--KGDATVTYEDPHAALAAVEWFNNKD 79
R G PK W+ DKT + +Y D V + + HA L V +F +
Sbjct: 196 RAGLPKSWVVGDKTGSGDYGTTNDIAVIWPENHAPLVLVTYFTQPE 241
>pdb|2XR0|A Chain A, Room Temperature X-Ray Structure Of The Perdeuterated
Toho-1 R274n R276n Double Mutant Beta-Lactamase
Length = 260
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 37 RTGRPKVWLYRDKT-TNEY--KGDATVTYEDPHAALAAVEWFNNKD 79
R G PK W+ DKT + +Y D V + + HA L V +F +
Sbjct: 194 RAGLPKSWVVGDKTGSGDYGTTNDIAVIWPENHAPLVLVTYFTQPE 239
>pdb|4BD1|A Chain A, Neutron Structure Of A Perdeuterated Toho-1 R274n R276n
Double Mutant Beta-lactamase In Complex With A Fully
Deuterated Boronic Acid (bzb)
Length = 261
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 37 RTGRPKVWLYRDKT-TNEY--KGDATVTYEDPHAALAAVEWFNNKD 79
R G PK W+ DKT + +Y D V + + HA L V +F +
Sbjct: 195 RAGLPKSWVVGDKTGSGDYGTTNDIAVIWPENHAPLVLVTYFTQPE 240
>pdb|2WYX|A Chain A, Neutron Structure Of A Class A Beta-Lactamase Toho-1
E166a R274n R276n Triple Mutant
Length = 256
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 37 RTGRPKVWLYRDKT-TNEY--KGDATVTYEDPHAALAAVEWFNNKD 79
R G PK W+ DKT + +Y D V + + HA L V +F +
Sbjct: 193 RAGLPKSWVVGDKTGSGDYGTTNDIAVIWPENHAPLVLVTYFTQPE 238
>pdb|1IYS|A Chain A, Crystal Structure Of Class A Beta-Lactamase Toho-1
Length = 262
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 37 RTGRPKVWLYRDKT-TNEY--KGDATVTYEDPHAALAAVEWFNNKD 79
R G PK W+ DKT + +Y D V + + HA L V +F +
Sbjct: 196 RAGLPKSWVVGDKTGSGDYGTTNDIAVIWPENHAPLVLVTYFTQPE 241
>pdb|1IYO|A Chain A, Toho-1 Beta-Lactamase In Complex With Cefotaxime
pdb|1IYP|A Chain A, Toho-1 Beta-Lactamase In Complex With Cephalothin
pdb|1IYQ|A Chain A, Toho-1 Beta-Lactamase In Complex With Benzylpenicillin
pdb|1BZA|A Chain A, Beta-Lactamase Toho-1 From Escherichia Coli Tuh12191
Length = 262
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 37 RTGRPKVWLYRDKT-TNEY--KGDATVTYEDPHAALAAVEWFNNKD 79
R G PK W+ DKT + +Y D V + + HA L V +F +
Sbjct: 196 RAGLPKSWVVGDKTGSGDYGTTNDIAVIWPENHAPLVLVTYFTQPE 241
>pdb|3GJ4|B Chain B, Crystal Structure Of Human Rangdp-Nup153znf3 Complex
pdb|3GJ4|D Chain D, Crystal Structure Of Human Rangdp-Nup153znf3 Complex
Length = 33
Score = 27.7 bits (60), Expect = 8.0, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 216 WSCPMCGNINWAKRTKCNICNTNKP 240
W CP+C N A+ ++C C + KP
Sbjct: 9 WECPVCCVSNKAEDSRCVSCTSEKP 33
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
0.317 0.134 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,559,589
Number of Sequences: 62578
Number of extensions: 291421
Number of successful extensions: 717
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 678
Number of HSP's gapped (non-prelim): 60
length of query: 284
length of database: 14,973,337
effective HSP length: 98
effective length of query: 186
effective length of database: 8,840,693
effective search space: 1644368898
effective search space used: 1644368898
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: 51 (24.3 bits)