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= 043634
(121 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 4/74 (5%)
Query: 21 TLLIKHLPDAIPQDTLSRIFSHYGASSVRPCS----AGRLRNCVFVDFGNEPLASQAQMQ 76
L +K+L + + L +F+ + P GR+R F+ F N+ +A QA
Sbjct: 27 VLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHL 86
Query: 77 LNGLRFLGKVLSVE 90
+NG + GK+L +E
Sbjct: 87 VNGYKLYGKILVIE 100
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs
Of Human Antigen R
Length = 177
Score = 38.5 bits (88), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 39/81 (48%), Gaps = 5/81 (6%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L++ +LP + QD L +FS G A +R AG FV++ A +A L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 78 NGLRFLGKVLSVERASKPNEE 98
NGLR K + V A +P+ E
Sbjct: 65 NGLRLQSKTIKVSYA-RPSSE 84
Score = 25.0 bits (53), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 4/62 (6%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L I LP + Q + +FS +G + + + G R F+ F A +A
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 78 NG 79
NG
Sbjct: 151 NG 152
>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 = 38.5 bits (88), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 39/81 (48%), Gaps = 5/81 (6%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L++ +LP + QD L +FS G A +R AG FV++ A +A L
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 64
Query: 78 NGLRFLGKVLSVERASKPNEE 98
NGLR K + V A +P+ E
Sbjct: 65 NGLRLQSKTIKVSYA-RPSSE 84
Score = 25.4 bits (54), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 4/62 (6%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L I LP + Q + +FS +G + + + G R F+ F A +A
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 78 NG 79
NG
Sbjct: 151 NG 152
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 4/75 (5%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L++ +LP + QD L +FS G A +R AG FV++ A +A L
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 66
Query: 78 NGLRFLGKVLSVERA 92
NGLR K + V A
Sbjct: 67 NGLRLQSKTIKVSYA 81
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 38/79 (48%), Gaps = 3/79 (3%)
Query: 21 TLLIKHLPDAIPQDTLSRIFSHYGASSVRPCSA-GRLRNCVFVDFGNEPLASQAQMQLNG 79
TLL K+LP + QD L +F A+ +R S G+ + +++F E A + + G
Sbjct: 95 TLLAKNLPYKVTQDELKEVFED--AAEIRLVSKDGKSKGIAYIEFKTEADAEKTFEEKQG 152
Query: 80 LRFLGKVLSVERASKPNEE 98
G+ +S+ +P E
Sbjct: 153 TEIDGRSISLYYTGEPKGE 171
>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 = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 34/75 (45%), Gaps = 4/75 (5%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L++ +LP QD L +FS G A +R AG FV++ A +A L
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL 81
Query: 78 NGLRFLGKVLSVERA 92
NGLR K + V A
Sbjct: 82 NGLRLQSKTIKVSYA 96
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 2/81 (2%)
Query: 19 LVTLLIKHLPDAIPQDTLSRIFSHYGA--SSVRPCSAGRLRNCVFVDFGNEPLASQAQMQ 76
+V L +K+L D I + L + FS +G S+ GR + FV F + A++A +
Sbjct: 15 VVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTE 74
Query: 77 LNGLRFLGKVLSVERASKPNE 97
+NG K L V A + E
Sbjct: 75 MNGRIVATKPLYVALAQRKEE 95
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 41/86 (47%), Gaps = 14/86 (16%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLRNCV---------FVDFGNEPLASQ 72
L IK+L + ++TL +FS GA ++ C+ + +N FV++ A +
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGA--IKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQK 65
Query: 73 AQMQLNGLRFLGKVLSV---ERASKP 95
A QL G G L V ERA+KP
Sbjct: 66 ALKQLQGHTVDGHKLEVRISERATKP 91
>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 = 32.7 bits (73), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 37/71 (52%), Gaps = 3/71 (4%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG-ASSVRPCS--AGRLRNCVFVDFGNEPLASQAQMQLN 78
L I LP + ++ L I +G +R + AG+ + +V++ NE ASQA M+++
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMD 79
Query: 79 GLRFLGKVLSV 89
G+ ++ V
Sbjct: 80 GMTIKENIIKV 90
>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 = 32.7 bits (73), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 27/61 (44%), Gaps = 4/61 (6%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGA----SSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L + +LP I D L IF YG+ + +R GR R FV + A +A L
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 78 N 78
N
Sbjct: 76 N 76
>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 = 32.3 bits (72), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 4/63 (6%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGA----SSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L + +LP I D L IF YG+ + +R GR R FV + A +A L
Sbjct: 103 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 162
Query: 78 NGL 80
N +
Sbjct: 163 NNV 165
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 35/92 (38%), Gaps = 4/92 (4%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGASSV----RPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L++ +LP L +F G + R G FVDF +E + +A L
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 78 NGLRFLGKVLSVERASKPNEENKHKHFEAQSI 109
NG+ K L V A E K + ++
Sbjct: 77 NGITVRNKRLKVSYARPGGESIKDTNLYVTNL 108
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 32.0 bits (71), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 4/63 (6%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGA----SSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L + +LP I D L IF YG+ + +R GR R FV + A +A L
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 151
Query: 78 NGL 80
N +
Sbjct: 152 NNV 154
Score = 28.1 bits (61), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 37/92 (40%), Gaps = 4/92 (4%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGASS----VRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L++ +LP + L +F G + +R G FVDF +E + +A L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 78 NGLRFLGKVLSVERASKPNEENKHKHFEAQSI 109
NG+ K L V A E K + ++
Sbjct: 66 NGITVRNKRLKVSYARPGGESIKDTNLYVTNL 97
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 32.0 bits (71), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 10 PQNKQETENLVTLLIKHLPDAIPQDTLSRIFSHYGA----SSVRPCSAGRLRNCVFVDFG 65
P + Q L I LP+ + D + + + +G + V+ + G + F ++
Sbjct: 87 PHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYV 146
Query: 66 NEPLASQAQMQLNGLRFLGKVLSVERAS 93
+ + QA LNG++ K L V+RAS
Sbjct: 147 DINVTDQAIAGLNGMQLGDKKLLVQRAS 174
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 10 PQNKQETENLVTLLIKHLPDAIPQDTLSRIFSHYGA----SSVRPCSAGRLRNCVFVDFG 65
P + Q L I LP+ + D + + + +G + V+ + G + F ++
Sbjct: 85 PHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYV 144
Query: 66 NEPLASQAQMQLNGLRFLGKVLSVERAS 93
+ + QA LNG++ K L V+RAS
Sbjct: 145 DINVTDQAIAGLNGMQLGDKKLLVQRAS 172
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 31.6 bits (70), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L++ +LP + QD +F G VR G+ FV++ + A +A L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 78 NGLRFLGKVLSVERA 92
NGL+ K + V A
Sbjct: 67 NGLKLQTKTIKVSYA 81
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With
The Au-Rich Element
Length = 174
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L++ +LP + QD +F G VR G+ FV++ + A +A L
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTL 66
Query: 78 NGLRFLGKVLSVERA 92
NGL+ K + V A
Sbjct: 67 NGLKLQTKTIKVSYA 81
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 6/82 (7%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L + LP + Q + ++FS YG + + + G R F+ F A +A L
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 78 NGLRFLGKV--LSVERASKPNE 97
NG + LG ++V+ A+ P++
Sbjct: 153 NGQKPLGAAEPITVKFANNPSQ 174
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 4/76 (5%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L I LP+ + D + + + +G + V+ + G + F ++ + + QA L
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 78 NGLRFLGKVLSVERAS 93
NG++ K L V+RAS
Sbjct: 64 NGMQLGDKKLLVQRAS 79
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 39/87 (44%), Gaps = 4/87 (4%)
Query: 11 QNKQETENLVTLLIKHLPDAIPQDTLSRIFSHYG-ASSVRPC---SAGRLRNCVFVDFGN 66
Q E + L L++ ++P + + L ++F YG SV+ + R FV F +
Sbjct: 34 QMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQS 93
Query: 67 EPLASQAQMQLNGLRFLGKVLSVERAS 93
A QA LNG L K L V A+
Sbjct: 94 GSSAQQAIAGLNGFNILNKRLKVALAA 120
>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 = 31.2 bits (69), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 4/76 (5%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGA----SSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L I LP+ + D + + + +G + V+ + G + F ++ + + QA L
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 176
Query: 78 NGLRFLGKVLSVERAS 93
NG++ K L V+RAS
Sbjct: 177 NGMQLGDKKLLVQRAS 192
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 35/85 (41%), Gaps = 3/85 (3%)
Query: 15 ETENLVTLLIKHLPDAIPQDTLSRIFSHYGASS---VRPCSAGRLRNCVFVDFGNEPLAS 71
E ++ L I L + L +F +G S + + R F+ F N A
Sbjct: 3 EADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAK 62
Query: 72 QAQMQLNGLRFLGKVLSVERASKPN 96
A +NG GK + VE+A KP+
Sbjct: 63 NAAKDMNGKSLHGKAIKVEQAKKPS 87
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 2/72 (2%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQLNGLR 81
L + +LP I ++ R+F YG S R R F+ + LA A+ +L+G
Sbjct: 25 LFVGNLPTDITEEDFKRLFERYGEPS--EVFINRDRGFGFIRLESRTLAEIAKAELDGTI 82
Query: 82 FLGKVLSVERAS 93
+ L + A+
Sbjct: 83 LKSRPLRIRFAT 94
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 6/82 (7%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L + LP + Q + ++FS YG + + + G R F+ F A +A L
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 78 NGLRFLGKV--LSVERASKPNE 97
NG + LG ++V+ A+ P++
Sbjct: 64 NGQKPLGAAEPITVKFANNPSQ 85
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 8/89 (8%)
Query: 8 SGPQNKQETENLVTLLIKHLPDAIPQDTLSRIFSHYGASSV----RPCSAGRLRNCVFVD 63
SGP + + ++TL + +L D+L R+F YG R R FV
Sbjct: 6 SGP----DVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVR 61
Query: 64 FGNEPLASQAQMQLNGLRFLGKVLSVERA 92
F + A A+ ++G G+ L V+ A
Sbjct: 62 FHDRRDAQDAEAAMDGAELDGRELRVQVA 90
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 4/82 (4%)
Query: 15 ETENLVTLLIKHLPDAIPQDTLSRIFSHYG-ASSV---RPCSAGRLRNCVFVDFGNEPLA 70
+ E + +L + +L DTL R+F YG V R R FV F ++ A
Sbjct: 66 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA 125
Query: 71 SQAQMQLNGLRFLGKVLSVERA 92
A ++G G+ L V+ A
Sbjct: 126 EDAMDAMDGAVLDGRELRVQMA 147
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 4/72 (5%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGASS----VRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L + L I +D L IF +G ++ GR + F+ F + A +A QL
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL 67
Query: 78 NGLRFLGKVLSV 89
NG G+ + V
Sbjct: 68 NGFELAGRPMRV 79
>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 = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L++ +LP + Q+ +F G VR G+ FV++ + A +A L
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64
Query: 78 NGLRFLGKVLSVERA 92
NGLR K + V A
Sbjct: 65 NGLRLQTKTIKVSYA 79
>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 = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 36/91 (39%), Gaps = 4/91 (4%)
Query: 15 ETENLVTLLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRL----RNCVFVDFGNEPLA 70
+ E + +L + +L DTL R+F YG R R FV F ++ A
Sbjct: 43 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA 102
Query: 71 SQAQMQLNGLRFLGKVLSVERASKPNEENKH 101
A ++G G+ L V+ A + H
Sbjct: 103 EDAMDAMDGAVLDGRELRVQMARYGRPPDSH 133
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 4/72 (5%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L + L I +D L IF +G + GR + F+ F + A +A QL
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 78 NGLRFLGKVLSV 89
NG G+ + V
Sbjct: 89 NGFELAGRPMKV 100
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 28.9 bits (63), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 34/71 (47%), Gaps = 4/71 (5%)
Query: 21 TLLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQ 76
T+ + +LP ++ + L RIFS YG + ++ + + F+ F ++ A
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRA 77
Query: 77 LNGLRFLGKVL 87
+N + G+V+
Sbjct: 78 INNKQLFGRVI 88
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding
Domains Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding
Domains Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding
Domains Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding
Domains Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding
Domains Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding
Domains Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding
Domains Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding
Domains Of The Yeast Splicing Factor Prp24
Length = 292
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 2 ATAPFDSGPQNKQETEN--LVTLLIKHLPDAIPQDTLSRIFSHYG 44
A A S N+ T N L T+L+K+LP + Q+ + + F H G
Sbjct: 22 AAAGLTSKKANEALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCG 66
>pdb|2OSR|A Chain A, Nmr Structure Of Rrm-2 Of Yeast Npl3 Protein
Length = 87
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 62 VDFGNEPLASQAQMQLNGLRFLGKVLSVERASKP 95
++F +E + +A +LN + F G V++VER P
Sbjct: 50 LEFPSEEILVEALERLNNIEFRGSVITVERDDNP 83
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 32/68 (47%), Gaps = 2/68 (2%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQLNGLR 81
L + +LP I ++ + ++F YG + + + F+ LA A+++L+ +
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAG--EVFIHKDKGFGFIRLETRTLAEIAKVELDNMP 82
Query: 82 FLGKVLSV 89
GK L V
Sbjct: 83 LRGKQLRV 90
>pdb|3EGN|A Chain A, C-Terminal Rna Recognition Motif Of The U11U12 65K PROTEIN
Length = 143
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 42/91 (46%), Gaps = 11/91 (12%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGASS---------VRPCSAGRLRNCVFVDFGNEPLASQ 72
+ +K+L + + L IF Y S +R GR++ F+ NE A++
Sbjct: 48 IYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAK 107
Query: 73 AQMQLNGLRFLGKVLSVE--RASKPNEENKH 101
A + NG GK + V+ R+++P ++ K
Sbjct: 108 ALKEANGYVLFGKPMVVQFARSARPKQDPKE 138
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 33/83 (39%), Gaps = 4/83 (4%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYG----ASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQL 77
L++ +LP + L +F G +R G FVDF +E + +A L
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 65
Query: 78 NGLRFLGKVLSVERASKPNEENK 100
NG+ K L V A E K
Sbjct: 66 NGITVRNKRLKVSYARPGGESIK 88
>pdb|2JVR|A Chain A, Segmental Isotope Labeling Of Npl3p
Length = 111
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 62 VDFGNEPLASQAQMQLNGLRFLGKVLSVERASKP 95
++F +E + +A +LN + F G V++VER P
Sbjct: 72 LEFPSEEILVEALERLNNIEFRGSVITVERDDNP 105
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 3/88 (3%)
Query: 6 FDSGPQNKQETENLVTLLIKHLPDAIPQDTLSRIFSHYGA---SSVRPCSAGRLRNCVFV 62
FDSG + E LL+ +L + + +F+ +G ++V +GR V
Sbjct: 22 FDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADV 81
Query: 63 DFGNEPLASQAQMQLNGLRFLGKVLSVE 90
F A +A Q G+ G+ + ++
Sbjct: 82 HFERRADALKAMKQYKGVPLDGRPMDIQ 109
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 3/88 (3%)
Query: 6 FDSGPQNKQETENLVTLLIKHLPDAIPQDTLSRIFSHYGA---SSVRPCSAGRLRNCVFV 62
FDSG + E LL+ +L + + +F+ +G ++V +GR V
Sbjct: 22 FDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADV 81
Query: 63 DFGNEPLASQAQMQLNGLRFLGKVLSVE 90
F A +A Q G+ G+ + ++
Sbjct: 82 HFERRADALKAMKQYKGVPLDGRPMDIQ 109
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 3/88 (3%)
Query: 6 FDSGPQNKQETENLVTLLIKHLPDAIPQDTLSRIFSHYGA---SSVRPCSAGRLRNCVFV 62
FDSG + E LL+ +L + + +F+ +G ++V +GR V
Sbjct: 75 FDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADV 134
Query: 63 DFGNEPLASQAQMQLNGLRFLGKVLSVE 90
F A +A Q G+ G+ + ++
Sbjct: 135 HFERRADALKAMKQYKGVPLDGRPMDIQ 162
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition
Motif Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition
Motif Of Nono
Length = 99
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 33/71 (46%), Gaps = 2/71 (2%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLRNCVFVDFGNEPLASQAQMQLNGLR 81
L + +LP I ++ + ++F YG + + + F+ LA A+++L+ +
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAG--EVFIHKDKGFGFIRLETRTLAEIAKVELDNMP 75
Query: 82 FLGKVLSVERA 92
GK L V A
Sbjct: 76 LRGKQLRVRFA 86
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 16 TENLVTLLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLRNCVFVDFGNEPLASQAQM 75
+ +V L I +LP + + +F YG V C ++N FV ++ A A
Sbjct: 5 SSGMVKLFIGNLPREATEQEIRSLFEQYG--KVLECDI--IKNYGFVHIEDKTAAEDAIR 60
Query: 76 QLNGLRFLGKVLSVERASK 94
L+ + G ++VE ASK
Sbjct: 61 NLHHYKLHGVNINVE-ASK 78
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 16 TENLVTLLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLRNCVFVDF 64
T N L ++ +PD +P T FS +++ + RL N +F+D
Sbjct: 15 TYNCENLGLREIPDTLPNTTEVLEFSFNFLPTIQNTTFSRLINLIFLDL 63
>pdb|3CBW|A Chain A, Crystal Structure Of The Ydht Protein From Bacillus
Subtilis
pdb|3CBW|B Chain B, Crystal Structure Of The Ydht Protein From Bacillus
Subtilis
Length = 353
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 20/49 (40%)
Query: 12 NKQETENLVTLLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLRNCV 60
N Q+T V + HLP+ LS F Y + A R+R+
Sbjct: 18 NAQQTTKTVMNWLAHLPNRTENRVLSGAFGGYSHDTFSMAEADRIRSAT 66
>pdb|2WHK|A Chain A, Structure Of Bacillus Subtilis Mannanase Man26
Length = 336
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 20/49 (40%)
Query: 12 NKQETENLVTLLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLRNCV 60
N Q+T V + HLP+ LS F Y + A R+R+
Sbjct: 9 NAQQTTKTVMNWLAHLPNRTENRVLSGAFGGYSHDTFSMAEADRIRSAT 57
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 46/93 (49%), Gaps = 4/93 (4%)
Query: 8 SGPQNKQETENLVTLL-IKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLRNCVFVDFGN 66
SG ++T + V +L +++L + ++ + + F++ +V ++R+ FV F N
Sbjct: 3 SGSSGDEDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVK--KIRDYAFVHFSN 60
Query: 67 EPLASQAQMQLNGLRFLGKVLSVERASKPNEEN 99
A +A LNG G + V A KP +++
Sbjct: 61 REDAVEAMKALNGKVLDGSPIEVTLA-KPVDKD 92
>pdb|2QHA|A Chain A, From Structure To Function: Insights Into The Catalytic
Substrate Specificity And Thermostability Displayed By
Bacillus Subtilis Mannanase Bcman
pdb|2QHA|B Chain B, From Structure To Function: Insights Into The Catalytic
Substrate Specificity And Thermostability Displayed By
Bacillus Subtilis Mannanase Bcman
Length = 342
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 20/49 (40%)
Query: 12 NKQETENLVTLLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLRNCV 60
N Q+T V + HLP+ LS F Y + A R+R+
Sbjct: 9 NAQQTTKTVMNWLAHLPNRTENRVLSGAFGGYSHDTFSMAEADRIRSAT 57
>pdb|3LS8|A Chain A, Crystal Structure Of Human Pik3c3 In Complex With 3-[4-(4-
Morpholinyl)thieno[3,2-D]pyrimidin-2-Yl]-Phenol
pdb|3LS8|B Chain B, Crystal Structure Of Human Pik3c3 In Complex With 3-[4-(4-
Morpholinyl)thieno[3,2-D]pyrimidin-2-Yl]-Phenol
Length = 614
Score = 26.2 bits (56), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 14 QETENLVTLLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLR 57
QE + + LL K P + +D+L + SHY +VR + RLR
Sbjct: 78 QEAKQALELLGKWKPMDV-EDSLELLSSHYTNPTVRRYAVARLR 120
>pdb|3IHY|A Chain A, Human Pik3c3 Crystal Structure
pdb|3IHY|B Chain B, Human Pik3c3 Crystal Structure
pdb|3IHY|C Chain C, Human Pik3c3 Crystal Structure
pdb|3IHY|D Chain D, Human Pik3c3 Crystal Structure
pdb|3IHY|E Chain E, Human Pik3c3 Crystal Structure
Length = 600
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 14 QETENLVTLLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLR 57
QE + + LL K P + +D+L + SHY +VR + RLR
Sbjct: 64 QEAKQALELLGKWKPMDV-EDSLELLSSHYTNPTVRRYAVARLR 106
>pdb|2CQI|A Chain A, Solution Structure Of The Rna Binding Domain Of
Nucleolysin Tiar
Length = 103
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 39/85 (45%), Gaps = 12/85 (14%)
Query: 21 TLLIKHLPDAIPQDTLSRIFSHYGASSVRPCSAGRLRN-------CVFVDFGNEPLASQA 73
TL + +L + + + ++FS G PC + ++ FV+F A+ A
Sbjct: 17 TLYVGNLSRDVTEVLILQLFSQIG-----PCKSCKMITEHTSNDPYCFVEFYEHRDAAAA 71
Query: 74 QMQLNGLRFLGKVLSVERASKPNEE 98
+NG + LGK + V A+ P+ +
Sbjct: 72 LAAMNGRKILGKEVKVNWATTPSSQ 96
>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex
pdb|2ATX|B Chain B, Crystal Structure Of The Tc10 Gppnhp Complex
Length = 194
Score = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 22 LLIKHLPDAIPQDTLSRIFSHYGAS 46
LL+ + DA P++ + +F HY S
Sbjct: 34 LLMSYANDAFPEEYVPTVFDHYAVS 58
>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
Length = 161
Score = 25.8 bits (55), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 19 LVTLLIKHLPDAIPQDTLSRIFSHYG 44
L T+L+K+LP + Q+ + + F H G
Sbjct: 4 LTTVLVKNLPKSYNQNKVYKYFKHCG 29
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 25.4 bits (54), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 18/38 (47%)
Query: 57 RNCVFVDFGNEPLASQAQMQLNGLRFLGKVLSVERASK 94
RNC FV + A QA +LNG + L V A K
Sbjct: 49 RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARK 86
>pdb|2L9W|A Chain A, Solution Structure Of The C-Terminal Domain Of Prp24
Length = 117
Score = 25.4 bits (54), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 33/82 (40%), Gaps = 5/82 (6%)
Query: 9 GPQNKQETENLVTLLIKHLPDAIPQDTLSRIFS---HYGASSVRPCSAGRLRNCVFVDFG 65
+N +E E L+ L L D + + + H +R N + F
Sbjct: 13 ASRNSKELETLICLF--PLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDFNGAIIIFR 70
Query: 66 NEPLASQAQMQLNGLRFLGKVL 87
+ A++ M LNG +F GKV+
Sbjct: 71 DSKFAAKMLMILNGSQFQGKVI 92
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 25.4 bits (54), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 18/38 (47%)
Query: 57 RNCVFVDFGNEPLASQAQMQLNGLRFLGKVLSVERASK 94
RNC FV + A QA +LNG + L V A K
Sbjct: 73 RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARK 110
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 0.128 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,092,974
Number of Sequences: 62578
Number of extensions: 97147
Number of successful extensions: 338
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 308
Number of HSP's gapped (non-prelim): 60
length of query: 121
length of database: 14,973,337
effective HSP length: 83
effective length of query: 38
effective length of database: 9,779,363
effective search space: 371615794
effective search space used: 371615794
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: 45 (21.9 bits)