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= 012564
(460 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3Q90|A Chain A, Crystal Structure Of The Ntf2 Domain Of Ras
Gtpase-Activating Protein- Binding Protein 1
pdb|3Q90|B Chain B, Crystal Structure Of The Ntf2 Domain Of Ras
Gtpase-Activating Protein- Binding Protein 1
Length = 140
Score = 85.1 bits (209), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 49/131 (37%), Positives = 77/131 (58%), Gaps = 6/131 (4%)
Query: 9 PSAQVVGNAFVEQYYHILHSTPELVFRFYQDSS--VLSRPDSNGV-MTSVTTMEGINQKI 65
PS +VG FV QYY +L+ P+++ RFY +S V DSNG +V + I++K+
Sbjct: 7 PSPLLVGREFVRQYYTLLNQAPDMLHRFYGKNSSYVHGGLDSNGKPADAVYGQKEIHRKV 66
Query: 66 LSLDYKNYKAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQD---NGYF 122
+S ++ N +I+ DA + +GV V V G L+ + R+F Q+F LAP+ N ++
Sbjct: 67 MSQNFTNCHTKIRHVDAHATLNDGVVVQVMGLLSNNNQALRRFMQTFVLAPEGSVANKFY 126
Query: 123 VLNDVFRYVDD 133
V ND+FRY D+
Sbjct: 127 VHNDIFRYQDE 137
>pdb|3UJM|A Chain A, Crystal Structure Of The Ntf2-Like Domain Of The
Drosophila Melanogaster Rasputin Protein
pdb|3UJM|B Chain B, Crystal Structure Of The Ntf2-Like Domain Of The
Drosophila Melanogaster Rasputin Protein
Length = 120
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 44/118 (37%), Positives = 61/118 (51%), Gaps = 5/118 (4%)
Query: 14 VGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSLDYKNY 73
VG FV QYY +L+ P + RFY +S +S V I+ +I L++ +
Sbjct: 6 VGREFVRQYYTLLNKAPNHLHRFYNHNSSYIHGES----KLVVGQREIHNRIQQLNFNDC 61
Query: 74 KAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQD-NGYFVLNDVFRY 130
A+I DAQ + GV V VTG L+ R+F Q+F LA Q Y+V ND+FRY
Sbjct: 62 HAKISQVDAQATLGNGVVVQVTGELSNDGQPMRRFTQTFVLAAQSPKKYYVHNDIFRY 119
>pdb|1ZO2|A Chain A, Structure Of Nuclear Transport Factor 2 (Ntf2) From
Cryptosporidium Parvum
pdb|1ZO2|B Chain B, Structure Of Nuclear Transport Factor 2 (Ntf2) From
Cryptosporidium Parvum
Length = 129
Score = 55.5 bits (132), Expect = 7e-08, Method: Composition-based stats.
Identities = 39/122 (31%), Positives = 53/122 (43%), Gaps = 6/122 (4%)
Query: 9 PSAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSL 68
P +G FV+ YY + + Y S+L+ D T I K SL
Sbjct: 9 PQFDQIGKQFVQHYYQTFQTNRPALGGLYGPQSMLTWED-----TQFQGQANIVNKFNSL 63
Query: 69 DYKNYKAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQDNGYF-VLNDV 127
+++ + EI D Q S G V VTG + D KF+Q F L P NG F + ND+
Sbjct: 64 NFQRVQFEITRVDCQPSPNNGSIVFVTGDVRIDDGQPLKFSQVFNLMPSGNGGFMIFNDL 123
Query: 128 FR 129
FR
Sbjct: 124 FR 125
>pdb|1GY7|A Chain A, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|B Chain B, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|C Chain C, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|D Chain D, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GYB|A Chain A, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|B Chain B, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|C Chain C, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|D Chain D, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
Length = 125
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 61/118 (51%), Gaps = 7/118 (5%)
Query: 14 VGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSLDYKNY 73
+ F + YY+ + + Y++ S+L+ S + + I +K++SL ++
Sbjct: 8 LAQNFTQFYYNQFDTDRSQLGNLYRNESMLTFETS-----QLQGAKDIVEKLVSLPFQKV 62
Query: 74 KAEIKTADAQNSHKEG-VTVLVTG-CLTGKDNLRRKFAQSFFLAPQDNGYFVLNDVFR 129
+ I T DAQ + G V V++TG L ++ ++F+Q F L P N Y+V ND+FR
Sbjct: 63 QHRITTLDAQPASPYGDVLVMITGDLLIDEEQNPQRFSQVFHLIPDGNSYYVFNDIFR 120
>pdb|1ASK|A Chain A, Nuclear Transport Factor 2 (Ntf2) H66a Mutant
pdb|1ASK|B Chain B, Nuclear Transport Factor 2 (Ntf2) H66a Mutant
Length = 127
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 28/121 (23%), Positives = 53/121 (43%), Gaps = 5/121 (4%)
Query: 9 PSAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSL 68
P + +G++F++ YY + + + Y D+S L+ I +K+ SL
Sbjct: 5 PIWEQIGSSFIQHYYQLFDNDRTQLGAIYIDASCLTWEGQQ-----FQGKAAIVEKLSSL 59
Query: 69 DYKNYKAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQDNGYFVLNDVF 128
++ +A I D Q + + +V G L ++ F Q F L ++ + ND+F
Sbjct: 60 PFQKIQASITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMF 119
Query: 129 R 129
R
Sbjct: 120 R 120
>pdb|1QMA|A Chain A, Nuclear Transport Factor 2 (Ntf2) W7a Mutant
pdb|1QMA|B Chain B, Nuclear Transport Factor 2 (Ntf2) W7a Mutant
pdb|1QMA|C Chain C, Nuclear Transport Factor 2 (Ntf2) W7a Mutant
pdb|1QMA|D Chain D, Nuclear Transport Factor 2 (Ntf2) W7a Mutant
Length = 126
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 28/121 (23%), Positives = 53/121 (43%), Gaps = 5/121 (4%)
Query: 9 PSAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSL 68
P A+ +G++F++ YY + + + Y D+S L+ I +K+ SL
Sbjct: 4 PIAEQIGSSFIQHYYQLFDNDRTQLGAIYIDASCLTWEGQQ-----FQGKAAIVEKLSSL 58
Query: 69 DYKNYKAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQDNGYFVLNDVF 128
++ + I D Q + + +V G L ++ F Q F L ++ + ND+F
Sbjct: 59 PFQKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMF 118
Query: 129 R 129
R
Sbjct: 119 R 119
>pdb|1GY5|A Chain A, D92n,D94n Double Point Mutant Of Human Nuclear Transport
Factor 2 (Ntf2)
pdb|1GY5|B Chain B, D92n,D94n Double Point Mutant Of Human Nuclear Transport
Factor 2 (Ntf2)
Length = 127
Score = 42.7 bits (99), Expect = 4e-04, Method: Composition-based stats.
Identities = 28/121 (23%), Positives = 52/121 (42%), Gaps = 5/121 (4%)
Query: 9 PSAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSL 68
P + +G++F++ YY + + + Y D+S L+ I +K+ SL
Sbjct: 5 PIWEQIGSSFIQHYYQLFDNDRTQLGAIYIDASCLTWEGQQ-----FQGKAAIVEKLSSL 59
Query: 69 DYKNYKAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQDNGYFVLNDVF 128
++ + I D Q + + +V G L +N F Q F L ++ + ND+F
Sbjct: 60 PFQKIQHSITAQDHQPTPDSCIISMVVGQLKANENPIMGFHQMFLLKNINDAWVCTNDMF 119
Query: 129 R 129
R
Sbjct: 120 R 120
>pdb|1ZX2|A Chain A, Crystal Structure Of Yeast Ubp3-Associated Protein Bre5
pdb|1ZX2|B Chain B, Crystal Structure Of Yeast Ubp3-Associated Protein Bre5
Length = 147
Score = 42.4 bits (98), Expect = 6e-04, Method: Composition-based stats.
Identities = 36/141 (25%), Positives = 64/141 (45%), Gaps = 18/141 (12%)
Query: 10 SAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTS----------VTTME 59
+ Q + AF++ YY + + P + FY ++ L+ + T+ VT E
Sbjct: 5 TVQDICFAFLQNYYERMRTDPSKLAYFYASTAELTHTNYQSKSTNEKDDVLPTVKVTGRE 64
Query: 60 GINQKILSLDYK--NYKAEIKTADAQNS---HKEGVTVLVTGCLTGKDNLRRKFAQSFFL 114
IN+ D K + K ++ T D Q + HK + ++ TG + KF Q+F L
Sbjct: 65 NINKFFSRNDAKVRSLKLKLDTIDFQYTGHLHKS-ILIMATGEMFWTGTPVYKFCQTFIL 123
Query: 115 APQDNG--YFVLNDVFRYVDD 133
P NG + + ND+ R++ +
Sbjct: 124 LPSSNGSTFDITNDIIRFISN 144
>pdb|2QIY|A Chain A, Yeast Deubiquitinase Ubp3 And Bre5 Cofactor Complex
pdb|2QIY|B Chain B, Yeast Deubiquitinase Ubp3 And Bre5 Cofactor Complex
Length = 154
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 66/146 (45%), Gaps = 18/146 (12%)
Query: 10 SAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTS----------VTTME 59
+ Q + AF++ YY + + P + FY ++ L+ + T+ VT E
Sbjct: 10 TVQDICFAFLQNYYERMRTDPSKLAYFYASTAELTHTNYQSKSTNEKDDVLPTVKVTGRE 69
Query: 60 GINQKILSLDYK--NYKAEIKTADAQNS---HKEGVTVLVTGCLTGKDNLRRKFAQSFFL 114
IN+ D K + K ++ T D Q + HK + ++ TG + KF Q+F L
Sbjct: 70 NINKFFSRNDAKVRSLKLKLDTIDFQYTGHLHK-SILIMATGEMFWTGTPVYKFCQTFIL 128
Query: 115 APQDNG--YFVLNDVFRYVDDGEVLE 138
P NG + + ND+ R++ + LE
Sbjct: 129 LPSSNGSTFDITNDIIRFISNSFKLE 154
>pdb|1AR0|A Chain A, Nuclear Transport Factor 2 (Ntf2) E42k Mutant
pdb|1AR0|B Chain B, Nuclear Transport Factor 2 (Ntf2) E42k Mutant
Length = 127
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 27/121 (22%), Positives = 52/121 (42%), Gaps = 5/121 (4%)
Query: 9 PSAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSL 68
P + +G++F++ YY + + + Y D+S L+ I +K+ SL
Sbjct: 5 PIWEQIGSSFIQHYYQLFDNDRTQLGAIYIDASCLTWKGQQ-----FQGKAAIVEKLSSL 59
Query: 69 DYKNYKAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQDNGYFVLNDVF 128
++ + I D Q + + +V G L ++ F Q F L ++ + ND+F
Sbjct: 60 PFQKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMF 119
Query: 129 R 129
R
Sbjct: 120 R 120
>pdb|1OUN|A Chain A, Crystal Structure Of Nuclear Transport Factor 2 (Ntf2)
pdb|1OUN|B Chain B, Crystal Structure Of Nuclear Transport Factor 2 (Ntf2)
pdb|1A2K|A Chain A, Gdpran-Ntf2 Complex
pdb|1A2K|B Chain B, Gdpran-Ntf2 Complex
pdb|1GY6|A Chain A, Ntf2 From Rat, Ammonium Sulphate Conditions
pdb|1GY6|B Chain B, Ntf2 From Rat, Ammonium Sulphate Conditions
Length = 127
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 27/121 (22%), Positives = 52/121 (42%), Gaps = 5/121 (4%)
Query: 9 PSAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSL 68
P + +G++F++ YY + + + Y D+S L+ I +K+ SL
Sbjct: 5 PIWEQIGSSFIQHYYQLFDNDRTQLGAIYIDASCLTWEGQQ-----FQGKAAIVEKLSSL 59
Query: 69 DYKNYKAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQDNGYFVLNDVF 128
++ + I D Q + + +V G L ++ F Q F L ++ + ND+F
Sbjct: 60 PFQKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMF 119
Query: 129 R 129
R
Sbjct: 120 R 120
>pdb|1U5O|A Chain A, Structure Of The D23a Mutant Of The Nuclear Transport
Carrier Ntf2
pdb|1U5O|B Chain B, Structure Of The D23a Mutant Of The Nuclear Transport
Carrier Ntf2
Length = 127
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 27/121 (22%), Positives = 52/121 (42%), Gaps = 5/121 (4%)
Query: 9 PSAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSL 68
P + +G++F++ YY + + + Y D+S L+ I +K+ SL
Sbjct: 5 PIWEQIGSSFIQHYYQLFANDRTQLGAIYIDASCLTWEGQQ-----FQGKAAIVEKLSSL 59
Query: 69 DYKNYKAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQDNGYFVLNDVF 128
++ + I D Q + + +V G L ++ F Q F L ++ + ND+F
Sbjct: 60 PFQKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMF 119
Query: 129 R 129
R
Sbjct: 120 R 120
>pdb|1JB4|A Chain A, Crystal Structure Of Ntf2 M102e Mutant
pdb|1JB4|B Chain B, Crystal Structure Of Ntf2 M102e Mutant
Length = 127
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 27/121 (22%), Positives = 51/121 (42%), Gaps = 5/121 (4%)
Query: 9 PSAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSL 68
P + +G++F+ YY + + + Y D+S L+ I +K+ SL
Sbjct: 5 PIWEQIGSSFINHYYQLFDNDRTQLGAIYIDASCLTWEGQQ-----FQGKAAIVEKLSSL 59
Query: 69 DYKNYKAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQDNGYFVLNDVF 128
++ + I D Q + + +V G L ++ F Q F L ++ + ND+F
Sbjct: 60 PFQKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQEFLLKNINDAWVCTNDMF 119
Query: 129 R 129
R
Sbjct: 120 R 120
>pdb|1JB5|A Chain A, Crystal Structure Of Ntf2 M118e Mutant
pdb|1JB5|B Chain B, Crystal Structure Of Ntf2 M118e Mutant
Length = 127
Score = 38.5 bits (88), Expect = 0.008, Method: Composition-based stats.
Identities = 27/121 (22%), Positives = 50/121 (41%), Gaps = 5/121 (4%)
Query: 9 PSAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSL 68
P + +G++F+ YY + + + Y D+S L+ I +K+ SL
Sbjct: 5 PIWEQIGSSFINHYYQLFDNDRTQLGAIYIDASCLTWEGQQ-----FQGKAAIVEKLSSL 59
Query: 69 DYKNYKAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQDNGYFVLNDVF 128
++ + I D Q + + +V G L ++ F Q F L ++ + ND F
Sbjct: 60 PFQKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDEF 119
Query: 129 R 129
R
Sbjct: 120 R 120
>pdb|1JB2|A Chain A, Crystal Structure Of Ntf2 M84e Mutant
pdb|1JB2|B Chain B, Crystal Structure Of Ntf2 M84e Mutant
Length = 127
Score = 37.7 bits (86), Expect = 0.013, Method: Composition-based stats.
Identities = 27/121 (22%), Positives = 50/121 (41%), Gaps = 5/121 (4%)
Query: 9 PSAQVVGNAFVEQYYHILHSTPELVFRFYQDSSVLSRPDSNGVMTSVTTMEGINQKILSL 68
P + +G++F+ YY + + + Y D+S L+ I +K+ SL
Sbjct: 5 PIWEQIGSSFINHYYQLFDNDRTQLGAIYIDASCLTWEGQQ-----FQGKAAIVEKLSSL 59
Query: 69 DYKNYKAEIKTADAQNSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQDNGYFVLNDVF 128
++ + I D Q + + V G L ++ F Q F L ++ + ND+F
Sbjct: 60 PFQKIQHSITAQDHQPTPDSCIISEVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMF 119
Query: 129 R 129
R
Sbjct: 120 R 120
>pdb|3NV0|B Chain B, Crystal Structure And Mutational Analysis Of The Nxf2NXT1
Heterodimeric Complex From Caenorhabditis Elegans At
1.84 A Resolution
Length = 154
Score = 35.8 bits (81), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 7/64 (10%)
Query: 76 EIKTADAQ-------NSHKEGVTVLVTGCLTGKDNLRRKFAQSFFLAPQDNGYFVLNDVF 128
+I++ DAQ G+ + V G +T + +R F Q+ L +D Y V +D F
Sbjct: 91 DIQSLDAQRLPEGVTGDMSGGMLLNVAGAVTVDGDSKRAFTQTLLLGVEDGKYKVKSDRF 150
Query: 129 RYVD 132
RYVD
Sbjct: 151 RYVD 154
>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 = 35.8 bits (81), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 13/92 (14%)
Query: 301 SIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFGFVEFQSSSSVDNAIQ-AS 359
+I+I+NL ++ +L F FG + + N +GFV F++ + + AI+ +
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 159
Query: 360 PITIGGQEAFVEKKKKTRVGSGRGRFPSERER 391
+ + ++ FV GRF S +ER
Sbjct: 160 GMLLNDRKVFV------------GRFKSRKER 179
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 35.8 bits (81), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 34/61 (55%), Gaps = 6/61 (9%)
Query: 300 HSIYIRNLPDTMTVASLEVEFKKFGPVKQGGI----QVRHNKGYCFGFVEFQSSSSVDNA 355
++ + +P T+ L F+++GP++ I + R ++GY GFV+FQS SS A
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGY--GFVKFQSGSSAQQA 100
Query: 356 I 356
I
Sbjct: 101 I 101
>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 = 35.4 bits (80), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 13/92 (14%)
Query: 301 SIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFGFVEFQSSSSVDNAIQ-AS 359
+I+I+NL ++ +L F FG + + N +GFV F++ + + AI+ +
Sbjct: 105 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 164
Query: 360 PITIGGQEAFVEKKKKTRVGSGRGRFPSERER 391
+ + ++ FV GRF S +ER
Sbjct: 165 GMLLNDRKVFV------------GRFKSRKER 184
>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 = 35.4 bits (80), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 301 SIYIRNLPDTMTVASLEVEFKK-FGPVKQGGIQVRHNKGYCFGFVEFQSSSSVDNAIQAS 359
+++I NL +VA L+V + F + VR FG+V+F+S+ ++ A++ +
Sbjct: 15 NLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELT 74
Query: 360 PITIGGQEAFVEKKK 374
+ + G E +EK K
Sbjct: 75 GLKVFGNEIKLEKPK 89
>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 = 35.4 bits (80), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 41/96 (42%), Gaps = 6/96 (6%)
Query: 288 PESSNAHEEVEGHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVR----HNKGYCFGF 343
P S+ +E++ S+Y+ N+ T LE F G + + I H KGY +
Sbjct: 25 PLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGY--AY 82
Query: 344 VEFQSSSSVDNAIQASPITIGGQEAFVEKKKKTRVG 379
+EF +SVD A+ G+ V K+ G
Sbjct: 83 IEFAERNSVDAAVAMDETVFRGRTIKVLPKRTNMPG 118
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 35.0 bits (79), Expect = 0.085, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 295 EEVEGHSIYIRNLPDTMTVASLEVEFKK-FGPVKQGGIQVRHNKGYCFGFVEFQSSSSVD 353
E +++I NL +VA L+V + F + VR FG+V+F+S+ ++
Sbjct: 13 ESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLE 72
Query: 354 NAIQASPITIGGQEAFVEKKK 374
A++ + + + G E +EK K
Sbjct: 73 KALELTGLKVFGNEIKLEKPK 93
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 35.0 bits (79), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 295 EEVEGHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFG--FVEFQSSSSV 352
E ++ ++YI LP TMT +E F +FG + + V G G F+ F S
Sbjct: 84 EVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEA 143
Query: 353 DNAIQA 358
+ AI +
Sbjct: 144 EEAITS 149
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 35.0 bits (79), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 2/68 (2%)
Query: 293 AHEEVEGHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFG--FVEFQSSS 350
+ E ++ ++YI LP TMT +E F +FG + + V G G F+ F S
Sbjct: 82 SSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRS 141
Query: 351 SVDNAIQA 358
+ AI +
Sbjct: 142 EAEEAITS 149
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 13/92 (14%)
Query: 301 SIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFGFVEFQSSSSVDNAIQA-S 359
+I+I+NL ++ +L F FG + + N +GFV F++ + + AI+ +
Sbjct: 13 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 72
Query: 360 PITIGGQEAFVEKKKKTRVGSGRGRFPSERER 391
+ + ++ FV GRF S +ER
Sbjct: 73 GMLLNDRKVFV------------GRFKSRKER 92
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 38/83 (45%), Gaps = 3/83 (3%)
Query: 295 EEVEGHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGY--CFGFVEFQSSSSV 352
E EG +++I +LP T L F FG V + + CFGFV F + S
Sbjct: 36 EGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSA 95
Query: 353 DNAIQA-SPITIGGQEAFVEKKK 374
AI+A + +G + V+ KK
Sbjct: 96 QVAIKAMNGFQVGTKRLKVQLKK 118
>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 = 34.3 bits (77), Expect = 0.17, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 13/92 (14%)
Query: 301 SIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFGFVEFQSSSSVDNAIQA-S 359
+I+I+NL ++ +L F FG + + N +GFV F++ + + AI+ +
Sbjct: 7 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 66
Query: 360 PITIGGQEAFVEKKKKTRVGSGRGRFPSERER 391
+ + ++ FV GRF S +ER
Sbjct: 67 GMLLNDRKVFV------------GRFKSRKER 86
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 32.3 bits (72), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 301 SIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFG--FVEFQSSSSVDNAIQA 358
++ + LP MT L F+ GP+ I + GY +G FV+F S AI+
Sbjct: 5 NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKV 64
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 295 EEVEGHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFG--FVEFQSSSSV 352
E ++ ++Y+ NLP T+T L+ F K+G + Q I G G FV +
Sbjct: 85 ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 144
Query: 353 DNAIQA 358
AI A
Sbjct: 145 QEAISA 150
>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 = 0.89, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 295 EEVEGHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFG--FVEFQSSSSV 352
E ++ ++Y+ NLP T+T L+ F K+G + Q I G G FV +
Sbjct: 96 ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 155
Query: 353 DNAIQA 358
AI A
Sbjct: 156 QEAISA 161
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 30/73 (41%), Gaps = 9/73 (12%)
Query: 288 PESSNAHEEVEGHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFG--FVE 345
P +SN + + + LP T L F+ GP+ I + GY FG FV+
Sbjct: 10 PRASNTN-------LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVD 62
Query: 346 FQSSSSVDNAIQA 358
F S AI+
Sbjct: 63 FTSEXDSQRAIKV 75
>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 = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 2/85 (2%)
Query: 276 SSETSAPVSTDAPESSNAHEEVEGHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQV-- 333
SS +S + + E EG +++I +LP L F FG V + +
Sbjct: 2 SSGSSGLTQQSIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDK 61
Query: 334 RHNKGYCFGFVEFQSSSSVDNAIQA 358
+ N CFGFV + + S AIQ+
Sbjct: 62 QTNLSKCFGFVSYDNPVSAQAAIQS 86
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 24/55 (43%)
Query: 302 IYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFGFVEFQSSSSVDNAI 356
+Y++NL D + L F FG + + + + FGFV F S A+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAV 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 = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 295 EEVEGHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFG--FVEFQSSSSV 352
E ++ ++Y+ NLP T+T L+ F K+G + Q I G G FV +
Sbjct: 9 ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 68
Query: 353 DNAIQA 358
AI A
Sbjct: 69 QEAISA 74
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 302 IYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFGFVEFQSSSSVDNAI 356
IY+ NLP + +E F K+G ++ ++ R G F FVEF+ ++A+
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRG-GPPFAFVEFEDPRDAEDAV 78
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 31.2 bits (69), Expect = 1.3, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 301 SIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFG--FVEFQSSSSVDNAIQ 357
++ + LP MT L F+ GP+ I + GY +G FV+F S AI+
Sbjct: 5 NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 10/74 (13%)
Query: 288 PESSNAHEEVEGH----SIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFGF 343
P S+ H EG +++R P + + L F FGP+K+ +++ + F F
Sbjct: 16 PRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKE--VKILNG----FAF 69
Query: 344 VEFQSSSSVDNAIQ 357
VEF+ + S AI+
Sbjct: 70 VEFEEAESAAKAIE 83
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 302 IYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKG-----YCFGFVEFQSSSSVDNAI 356
++I+NL + T +L+ F K G +K I + NK FGFVE++ A+
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 357 Q 357
+
Sbjct: 68 K 68
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 30.8 bits (68), Expect = 1.6, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 302 IYIRNLPDTMTVASLEVEFKKFGPVKQ 328
+YIRNLP +T + F K+GP++Q
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQ 41
>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 = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 301 SIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYC--FGFVEFQSSSSVDNAIQA 358
++Y+ LP TMT LE F ++G + I V G GF+ F + AI+
Sbjct: 90 NLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKG 149
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 5/67 (7%)
Query: 302 IYIRNLPDTMTVASLEVEFKKFGPVKQGGIQV-RHNKGYCFGFVEFQSSSSVDNAIQASP 360
+Y+ NL +T L+ F+ GP+ I + ++NK + FVE+ S + A+Q
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQ--- 59
Query: 361 ITIGGQE 367
T+ G++
Sbjct: 60 -TLNGKQ 65
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 49/110 (44%), Gaps = 16/110 (14%)
Query: 268 PIKSENPPSSETSAPVSTDAPESSNAHEEVEGHSIYIRNLPDTMTVASLEVEFKKFGPVK 327
P SENP S VST P+S+ H ++I LP+ + ++ FGP+K
Sbjct: 92 PGMSENP-SVYVPGVVSTVVPDSA--------HKLFIGGLPNYLNDDQVKELLTSFGPLK 142
Query: 328 QGGI----QVRHNKGYCFGFVEFQSSSSVDNAIQA-SPITIGGQEAFVEK 372
+ +KGY F E+ + D AI + + +G ++ V++
Sbjct: 143 AFNLVKDSATGLSKGYA--FCEYVDINVTDQAIAGLNGMQLGDKKLLVQR 190
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 28/54 (51%)
Query: 302 IYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFGFVEFQSSSSVDNA 355
I++RNLP T L+ +F + G V I++ + K G V+F+S + A
Sbjct: 11 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERA 64
>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 = 30.4 bits (67), Expect = 2.4, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 302 IYIRNLPDTMTVASLEVEFKKFGPVKQ 328
+YIRNLP +T + F K+GP++Q
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQ 47
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 30.0 bits (66), Expect = 2.7, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 28/54 (51%)
Query: 302 IYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFGFVEFQSSSSVDNA 355
I++RNLP T L+ +F + G V I++ + K G V+F+S + A
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERA 61
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 299 GHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQV-RHNKGYCFGFVEFQSSSSVDNAIQ 357
G ++ ++NL ++ LE F +FGPV++ + V + GFVEF + A++
Sbjct: 96 GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALE 155
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 331 IQVRHNKGYCFGFVEFQSSSSVDNAIQASPITIGGQEAFVEKKK 374
+ VR FG+V+F+S+ ++ A++ + + + G E +EK K
Sbjct: 40 VDVRIGMTRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPK 83
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 29.6 bits (65), Expect = 3.3, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 302 IYIRNLPDTMTVASLEVEFKKFGPVKQ 328
+YIRNLP +T + F K+GP++Q
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQ 37
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 302 IYIRNLPDTMTVASLEVEFKKFGPVKQGGI--QVRHNKGYCFGFVEFQSSSSVDNAIQAS 359
I++ +P L FKKFG V + + + FGF+ F+ SVD A+
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMH 72
Query: 360 PITIGGQEAFVEK 372
I G++ V++
Sbjct: 73 FHDIMGKKVEVKR 85
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%), Gaps = 4/54 (7%)
Query: 302 IYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFGFVEFQSSSSVDNA 355
+++ NLP +T + F+K+G K G + + +KG FGF+ ++ + + A
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYG--KAGEVFIHKDKG--FGFIRLETRTLAEIA 74
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 28.5 bits (62), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 12/75 (16%)
Query: 301 SIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYC--FGFVEFQSSSSVDNAIQ- 357
++Y+ LP TM+ +E F ++G + I + G GF+ F + AI+
Sbjct: 3 NLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKG 62
Query: 358 ---------ASPITI 363
A PIT+
Sbjct: 63 LNGQKPLGAAEPITV 77
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 33/79 (41%), Gaps = 12/79 (15%)
Query: 297 VEGHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYC--FGFVEFQSSSSVDN 354
+ ++Y+ LP TM+ +E F ++G + I + G GF+ F +
Sbjct: 88 IRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEE 147
Query: 355 AIQ----------ASPITI 363
AI+ A PIT+
Sbjct: 148 AIKGLNGQKPLGAAEPITV 166
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 28.1 bits (61), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 296 EVEGHSIYIRNLPDTMTVASLEVEFKKFGPVKQGGIQVRHNKGYCFGFVEFQSSSSVDNA 355
E+ +++R P + + L F FGP+K +V+ G F FVEF+ + S A
Sbjct: 1 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMK----EVKILNG--FAFVEFEEAESAAKA 54
Query: 356 IQ 357
I+
Sbjct: 55 IE 56
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
0.311 0.129 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,195,493
Number of Sequences: 62578
Number of extensions: 471108
Number of successful extensions: 851
Number of sequences better than 100.0: 56
Number of HSP's better than 100.0 without gapping: 33
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 795
Number of HSP's gapped (non-prelim): 62
length of query: 460
length of database: 14,973,337
effective HSP length: 102
effective length of query: 358
effective length of database: 8,590,381
effective search space: 3075356398
effective search space used: 3075356398
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)