RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13906
(914 letters)
>2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding,
DNA-binding, nucleus, phosph ribonucleoprotein,
RNA-binding, RNA binding protein; NMR {Homo sapiens}
Length = 160
Score = 168 bits (426), Expect = 2e-48
Identities = 79/155 (50%), Positives = 115/155 (74%), Gaps = 1/155 (0%)
Query: 442 MRHIMQGKEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLI 501
+R +M GKEVGSIIGK GE+VKK+REESG++I IS+ + PERI+T+ G +++F+AF++I
Sbjct: 7 IRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFKAFAMI 66
Query: 502 TKNIEEFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVA 561
+EE + + + LRL+VPASQCGS+IGKGG +IK IRE++GA V VA
Sbjct: 67 IDKLEEDISSSMTN-STAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVA 125
Query: 562 SDMLPNSTEREVNIKGVPDAVTQAIYQICLIMVDS 596
DMLPNSTER + I G+P ++ + + QIC++M+++
Sbjct: 126 GDMLPNSTERAITIAGIPQSIIECVKQICVVMLET 160
Score = 166 bits (421), Expect = 1e-47
Identities = 78/151 (51%), Positives = 112/151 (74%), Gaps = 1/151 (0%)
Query: 1 MQGKEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNI 60
M GKEVGSIIGK GE+VKK+REESG++I IS+ + PERI+T+ G +++F+AF++I +
Sbjct: 11 MHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFKAFAMIIDKL 70
Query: 61 EEFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDML 120
EE + + + LRL+VPASQCGS+IGKGG +IK IRE++GA V VA DML
Sbjct: 71 EEDISSSMTN-STAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDML 129
Query: 121 PNSTEREVNIKGVPDAVTQAIYQICLIMVDS 151
PNSTER + I G+P ++ + + QIC++M+++
Sbjct: 130 PNSTERAITIAGIPQSIIECVKQICVVMLET 160
Score = 75.2 bits (185), Expect = 6e-16
Identities = 25/85 (29%), Positives = 43/85 (50%), Gaps = 2/85 (2%)
Query: 244 NRNNRDGPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEE 303
+ + T + +T + VP G++IGKGG KI EIR+ +GA ++++ +
Sbjct: 71 EEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAG--DM 128
Query: 304 EEDSNDRTITMTGTPDAIALAQYLI 328
+S +R IT+ G P +I I
Sbjct: 129 LPNSTERAITIAGIPQSIIECVKQI 153
Score = 75.2 bits (185), Expect = 6e-16
Identities = 25/85 (29%), Positives = 43/85 (50%), Gaps = 2/85 (2%)
Query: 689 NRNNRDGPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEE 748
+ + T + +T + VP G++IGKGG KI EIR+ +GA ++++ +
Sbjct: 71 EEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAG--DM 128
Query: 749 EEDSNDRTITMTGTPDAIALAQYLI 773
+S +R IT+ G P +I I
Sbjct: 129 LPNSTERAITIAGIPQSIIECVKQI 153
Score = 71.3 bits (175), Expect = 1e-14
Identities = 23/82 (28%), Positives = 42/82 (51%), Gaps = 3/82 (3%)
Query: 76 ESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPD 135
++ + +RL++ + GSIIGK G +K +RE SGA + ++ N ER + + G +
Sbjct: 1 KNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISE---GNCPERIITLAGPTN 57
Query: 136 AVTQAIYQICLIMVDSPPKGAT 157
A+ +A I + + T
Sbjct: 58 AIFKAFAMIIDKLEEDISSSMT 79
Score = 71.3 bits (175), Expect = 1e-14
Identities = 23/82 (28%), Positives = 42/82 (51%), Gaps = 3/82 (3%)
Query: 521 ESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPD 580
++ + +RL++ + GSIIGK G +K +RE SGA + ++ N ER + + G +
Sbjct: 1 KNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISE---GNCPERIITLAGPTN 57
Query: 581 AVTQAIYQICLIMVDSPPKGAT 602
A+ +A I + + T
Sbjct: 58 AIFKAFAMIIDKLEEDISSSMT 79
Score = 67.1 bits (164), Expect = 4e-13
Identities = 26/110 (23%), Positives = 49/110 (44%), Gaps = 8/110 (7%)
Query: 258 QQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT 317
+ +T + + + +G++IGK G + ++R+ SGA I IS+ + E R IT+ G
Sbjct: 1 KNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPE-----RIITLAGP 55
Query: 318 PDAIALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNNLPSSAPLAGL 367
+AI A +I ++ L +++ + L A G
Sbjct: 56 TNAIFKAFAMI---IDKLEEDISSSMTNSTAASRPPVTLRLVVPASQCGS 102
Score = 67.1 bits (164), Expect = 4e-13
Identities = 26/110 (23%), Positives = 49/110 (44%), Gaps = 8/110 (7%)
Query: 703 QQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT 762
+ +T + + + +G++IGK G + ++R+ SGA I IS+ + E R IT+ G
Sbjct: 1 KNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPE-----RIITLAGP 55
Query: 763 PDAIALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNNLPSSAPLAGL 812
+AI A +I ++ L +++ + L A G
Sbjct: 56 TNAIFKAFAMI---IDKLEEDISSSMTNSTAASRPPVTLRLVVPASQCGS 102
Score = 60.6 bits (147), Expect = 7e-11
Identities = 19/86 (22%), Positives = 39/86 (45%), Gaps = 3/86 (3%)
Query: 425 PQGPNYANIQTTGVQRRMRHIMQGKEVGSIIGKSGETVKKLREESGSKIYISDSSTP--- 481
+ + +R ++ + GS+IGK G +K++RE +G+++ ++ P
Sbjct: 74 ISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPNST 133
Query: 482 ERIVTVIGSMDSLFRAFSLITKNIEE 507
ER +T+ G S+ I + E
Sbjct: 134 ERAITIAGIPQSIIECVKQICVVMLE 159
>2anr_A Neuro-oncological ventral antigen 1; protein-RNA complex, KH
domain, hairpin, RNA-binding protein complex; HET: 5BU;
1.94A {Homo sapiens} PDB: 2ann_A*
Length = 178
Score = 153 bits (387), Expect = 8e-43
Identities = 51/170 (30%), Positives = 85/170 (50%), Gaps = 14/170 (8%)
Query: 442 MRHIMQGKEVGSIIGKSGETVKKLREESGSKIYISDSS-----TPERIVTVIGSMDSLFR 496
++ ++ GSIIGK G+T+ +L++E+G+ I +S S T ER+ + G++++L
Sbjct: 8 LKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNA 67
Query: 497 AFSLITKNIEEFHKNQNKHL--------GGNGESQLIQLRLIVPASQCGSIIGKGGSQIK 548
I + I E +N K + Q+++IVP S G IIGKGG+ +K
Sbjct: 68 VHGFIAEKIREMPQNVAKTEPVSILQPQTTVNPDRANQVKIIVPNSTAGLIIGKGGATVK 127
Query: 549 TIRETSGASVYVASD-MLPNSTEREVNIKGVPDAVTQAIYQICLIMVDSP 597
I E SGA V ++ N R V + G P+ +A+ I + + P
Sbjct: 128 AIMEQSGAWVQLSQKPDGINLQNRVVTVSGEPEQNRKAVELIIQKIQEDP 177
Score = 151 bits (383), Expect = 2e-42
Identities = 51/166 (30%), Positives = 82/166 (49%), Gaps = 14/166 (8%)
Query: 1 MQGKEVGSIIGKSGETVKKLREESGSKIYISDSS-----TPERIVTVIGSMDSLFRAFSL 55
+ GSIIGK G+T+ +L++E+G+ I +S S T ER+ + G++++L
Sbjct: 12 IPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNAVHGF 71
Query: 56 ITKNIEEFHKNQNKHL--------GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRE 107
I + I E +N K + Q+++IVP S G IIGKGG+ +K I E
Sbjct: 72 IAEKIREMPQNVAKTEPVSILQPQTTVNPDRANQVKIIVPNSTAGLIIGKGGATVKAIME 131
Query: 108 TSGASVYVASD-MLPNSTEREVNIKGVPDAVTQAIYQICLIMVDSP 152
SGA V ++ N R V + G P+ +A+ I + + P
Sbjct: 132 QSGAWVQLSQKPDGINLQNRVVTVSGEPEQNRKAVELIIQKIQEDP 177
Score = 77.6 bits (191), Expect = 1e-16
Identities = 23/94 (24%), Positives = 39/94 (41%), Gaps = 1/94 (1%)
Query: 235 NQNQNQNQHNRNNRDGPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAM 294
+ Q T ++ VPN G +IGKGG + I + SGA
Sbjct: 77 REMPQNVAKTEPVSILQPQTTVNPDRANQVKIIVPNSTAGLIIGKGGATVKAIMEQSGAW 136
Query: 295 IRISKSSEEEEDSNDRTITMTGTPDAIALAQYLI 328
+++S + + +R +T++G P+ A LI
Sbjct: 137 VQLS-QKPDGINLQNRVVTVSGEPEQNRKAVELI 169
Score = 77.6 bits (191), Expect = 1e-16
Identities = 23/94 (24%), Positives = 39/94 (41%), Gaps = 1/94 (1%)
Query: 680 NQNQNQNQHNRNNRDGPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAM 739
+ Q T ++ VPN G +IGKGG + I + SGA
Sbjct: 77 REMPQNVAKTEPVSILQPQTTVNPDRANQVKIIVPNSTAGLIIGKGGATVKAIMEQSGAW 136
Query: 740 IRISKSSEEEEDSNDRTITMTGTPDAIALAQYLI 773
+++S + + +R +T++G P+ A LI
Sbjct: 137 VQLS-QKPDGINLQNRVVTVSGEPEQNRKAVELI 169
Score = 74.5 bits (183), Expect = 2e-15
Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 2/97 (2%)
Query: 77 SQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYV--ASDMLPNSTEREVNIKGVP 134
L++++P+ GSIIGKGG I +++ +GA++ + + D P +TER I+G
Sbjct: 3 GSQYFLKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTI 62
Query: 135 DAVTQAIYQICLIMVDSPPKGATIPYRPLPQNAGGPG 171
+A+ I + + P A + Q
Sbjct: 63 EALNAVHGFIAEKIREMPQNVAKTEPVSILQPQTTVN 99
Score = 74.5 bits (183), Expect = 2e-15
Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 2/97 (2%)
Query: 522 SQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYV--ASDMLPNSTEREVNIKGVP 579
L++++P+ GSIIGKGG I +++ +GA++ + + D P +TER I+G
Sbjct: 3 GSQYFLKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTI 62
Query: 580 DAVTQAIYQICLIMVDSPPKGATIPYRPLPQNAGGPG 616
+A+ I + + P A + Q
Sbjct: 63 EALNAVHGFIAEKIREMPQNVAKTEPVSILQPQTTVN 99
Score = 73.3 bits (180), Expect = 4e-15
Identities = 22/98 (22%), Positives = 47/98 (47%)
Query: 260 NQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPD 319
+Q ++ +P+ G++IGKGG I +++K +GA I++SKS + + +R + GT +
Sbjct: 4 SQYFLKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIE 63
Query: 320 AIALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNN 357
A+ I + + N+ + + +
Sbjct: 64 ALNAVHGFIAEKIREMPQNVAKTEPVSILQPQTTVNPD 101
Score = 73.3 bits (180), Expect = 4e-15
Identities = 22/98 (22%), Positives = 47/98 (47%)
Query: 705 NQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPD 764
+Q ++ +P+ G++IGKGG I +++K +GA I++SKS + + +R + GT +
Sbjct: 4 SQYFLKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIE 63
Query: 765 AIALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNN 802
A+ I + + N+ + + +
Sbjct: 64 ALNAVHGFIAEKIREMPQNVAKTEPVSILQPQTTVNPD 101
>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain,
cell projection, cytoplasm, nucleus, phosphoprotein,
translation regulation; 2.75A {Homo sapiens}
Length = 163
Score = 150 bits (380), Expect = 4e-42
Identities = 44/162 (27%), Positives = 78/162 (48%), Gaps = 10/162 (6%)
Query: 442 MRHIMQGKEVGSIIGKSGETVKKLREESGSKIYISDSSTP---ERIVTVIGSMDSLFRAF 498
++ + + VG+IIGK G+ +K+L + + I I+ TP R+V + G ++ F+A
Sbjct: 5 VQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIITGPPEAQFKAQ 64
Query: 499 SLITKNIEEFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASV 558
I ++E ++ G E ++ + VPAS G +IGKGG + ++ + A V
Sbjct: 65 GRIYGKLKE------ENFFGPKEEVKLETHIRVPASAAGRVIGKGGKTVNELQNLTAAEV 118
Query: 559 YVASDMLPNSTERE-VNIKGVPDAVTQAIYQICLIMVDSPPK 599
V D P+ ++ V I G A A +I I+ +
Sbjct: 119 VVPRDQTPDENDQVIVKIIGHFYASQMAQRKIRDILAQVKQQ 160
Score = 149 bits (377), Expect = 1e-41
Identities = 44/158 (27%), Positives = 76/158 (48%), Gaps = 10/158 (6%)
Query: 1 MQGKEVGSIIGKSGETVKKLREESGSKIYISDSSTP---ERIVTVIGSMDSLFRAFSLIT 57
+ + VG+IIGK G+ +K+L + + I I+ TP R+V + G ++ F+A I
Sbjct: 9 IPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIITGPPEAQFKAQGRIY 68
Query: 58 KNIEEFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVAS 117
++E ++ G E ++ + VPAS G +IGKGG + ++ + A V V
Sbjct: 69 GKLKE------ENFFGPKEEVKLETHIRVPASAAGRVIGKGGKTVNELQNLTAAEVVVPR 122
Query: 118 DMLPNSTERE-VNIKGVPDAVTQAIYQICLIMVDSPPK 154
D P+ ++ V I G A A +I I+ +
Sbjct: 123 DQTPDENDQVIVKIIGHFYASQMAQRKIRDILAQVKQQ 160
Score = 77.5 bits (191), Expect = 1e-16
Identities = 24/78 (30%), Positives = 39/78 (50%)
Query: 80 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 139
+++ +PA G+IIGK G IK + + AS+ +A P+S R V I G P+A +
Sbjct: 3 EMVQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIITGPPEAQFK 62
Query: 140 AIYQICLIMVDSPPKGAT 157
A +I + + G
Sbjct: 63 AQGRIYGKLKEENFFGPK 80
Score = 77.5 bits (191), Expect = 1e-16
Identities = 24/78 (30%), Positives = 39/78 (50%)
Query: 525 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 584
+++ +PA G+IIGK G IK + + AS+ +A P+S R V I G P+A +
Sbjct: 3 EMVQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIITGPPEAQFK 62
Query: 585 AIYQICLIMVDSPPKGAT 602
A +I + + G
Sbjct: 63 AQGRIYGKLKEENFFGPK 80
Score = 71.3 bits (175), Expect = 1e-14
Identities = 16/82 (19%), Positives = 40/82 (48%), Gaps = 1/82 (1%)
Query: 252 SQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRT 311
+ +++ ++ + VP G VIGKGG + E++ ++ A + + + + ++++
Sbjct: 75 NFFGPKEEVKLETHIRVPASAAGRVIGKGGKTVNELQNLTAAEVVVPR-DQTPDENDQVI 133
Query: 312 ITMTGTPDAIALAQYLINMSVE 333
+ + G A +AQ I +
Sbjct: 134 VKIIGHFYASQMAQRKIRDILA 155
Score = 71.3 bits (175), Expect = 1e-14
Identities = 16/82 (19%), Positives = 40/82 (48%), Gaps = 1/82 (1%)
Query: 697 SQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRT 756
+ +++ ++ + VP G VIGKGG + E++ ++ A + + + + ++++
Sbjct: 75 NFFGPKEEVKLETHIRVPASAAGRVIGKGGKTVNELQNLTAAEVVVPR-DQTPDENDQVI 133
Query: 757 ITMTGTPDAIALAQYLINMSVE 778
+ + G A +AQ I +
Sbjct: 134 VKIIGHFYASQMAQRKIRDILA 155
Score = 68.6 bits (168), Expect = 1e-13
Identities = 22/68 (32%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 261 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 320
Q ++ +P + +GA+IGK G I ++ + + A I+I+ DS R + +TG P+A
Sbjct: 2 QEMVQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPE--TPDSKVRMVIITGPPEA 59
Query: 321 IALAQYLI 328
AQ I
Sbjct: 60 QFKAQGRI 67
Score = 68.6 bits (168), Expect = 1e-13
Identities = 22/68 (32%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 706 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 765
Q ++ +P + +GA+IGK G I ++ + + A I+I+ DS R + +TG P+A
Sbjct: 2 QEMVQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPE--TPDSKVRMVIITGPPEA 59
Query: 766 IALAQYLI 773
AQ I
Sbjct: 60 QFKAQGRI 67
Score = 59.0 bits (143), Expect = 2e-10
Identities = 15/68 (22%), Positives = 30/68 (44%), Gaps = 4/68 (5%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYIS----DSSTPERIVTVIGSMDSLFRAFSLITKNIE 61
G +IGK G+TV +L+ + +++ + + IV +IG + A I +
Sbjct: 96 AGRVIGKGGKTVNELQNLTAAEVVVPRDQTPDENDQVIVKIIGHFYASQMAQRKIRDILA 155
Query: 62 EFHKNQNK 69
+ + K
Sbjct: 156 QVKQQHQK 163
Score = 59.0 bits (143), Expect = 2e-10
Identities = 15/68 (22%), Positives = 30/68 (44%), Gaps = 4/68 (5%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYIS----DSSTPERIVTVIGSMDSLFRAFSLITKNIE 506
G +IGK G+TV +L+ + +++ + + IV +IG + A I +
Sbjct: 96 AGRVIGKGGKTVNELQNLTAAEVVVPRDQTPDENDQVIVKIIGHFYASQMAQRKIRDILA 155
Query: 507 EFHKNQNK 514
+ + K
Sbjct: 156 QVKQQHQK 163
>2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA
binding protein, KH domain, KSRP, posttranscriptional
regulation, mRNA decay; NMR {Homo sapiens}
Length = 164
Score = 139 bits (351), Expect = 3e-38
Identities = 34/153 (22%), Positives = 67/153 (43%), Gaps = 5/153 (3%)
Query: 445 IMQGKEVGSIIGKSGETVKKLREESGSKIYIS----DSSTPERIVTVIGSMDSLFRAFSL 500
++ + G +IGK GET+K+L+E +G K+ + ++ ++ + +IG + +A +
Sbjct: 7 MIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQACEM 66
Query: 501 ITKNIEEFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYV 560
+ + E + G + + VP G +IG+ G IK I+ +G +
Sbjct: 67 VMDILRERDQGGFGDRNEYGSRIGGGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQF 126
Query: 561 ASDMLPNSTEREVNIKGVPDAVTQAIYQICLIM 593
E+ +I G PD A I ++
Sbjct: 127 -KQDDGTGPEKIAHIMGPPDRCEHAARIINDLL 158
Score = 138 bits (350), Expect = 5e-38
Identities = 34/152 (22%), Positives = 66/152 (43%), Gaps = 5/152 (3%)
Query: 1 MQGKEVGSIIGKSGETVKKLREESGSKIYIS----DSSTPERIVTVIGSMDSLFRAFSLI 56
+ + G +IGK GET+K+L+E +G K+ + ++ ++ + +IG + +A ++
Sbjct: 8 IPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQACEMV 67
Query: 57 TKNIEEFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVA 116
+ E + G + + VP G +IG+ G IK I+ +G +
Sbjct: 68 MDILRERDQGGFGDRNEYGSRIGGGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQF- 126
Query: 117 SDMLPNSTEREVNIKGVPDAVTQAIYQICLIM 148
E+ +I G PD A I ++
Sbjct: 127 KQDDGTGPEKIAHIMGPPDRCEHAARIINDLL 158
Score = 73.3 bits (180), Expect = 3e-15
Identities = 20/94 (21%), Positives = 41/94 (43%), Gaps = 3/94 (3%)
Query: 244 NRNNRDGPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEE 303
R+ + + ++ VP +G VIG+ G I +I+ +G I+ ++
Sbjct: 73 ERDQGGFGDRNEYGSRIGGGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQF---KQD 129
Query: 304 EEDSNDRTITMTGTPDAIALAQYLINMSVELLRA 337
+ ++ + G PD A +IN ++ LR+
Sbjct: 130 DGTGPEKIAHIMGPPDRCEHAARIINDLLQSLRS 163
Score = 73.3 bits (180), Expect = 3e-15
Identities = 20/94 (21%), Positives = 41/94 (43%), Gaps = 3/94 (3%)
Query: 689 NRNNRDGPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEE 748
R+ + + ++ VP +G VIG+ G I +I+ +G I+ ++
Sbjct: 73 ERDQGGFGDRNEYGSRIGGGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQF---KQD 129
Query: 749 EEDSNDRTITMTGTPDAIALAQYLINMSVELLRA 782
+ ++ + G PD A +IN ++ LR+
Sbjct: 130 DGTGPEKIAHIMGPPDRCEHAARIINDLLQSLRS 163
Score = 69.4 bits (170), Expect = 6e-14
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 1/79 (1%)
Query: 82 LRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDM-LPNSTEREVNIKGVPDAVTQA 140
+++PA + G +IGKGG IK ++E +G + + D + ++ + I G P V QA
Sbjct: 4 QEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQA 63
Query: 141 IYQICLIMVDSPPKGATIP 159
+ I+ + G
Sbjct: 64 CEMVMDILRERDQGGFGDR 82
Score = 69.4 bits (170), Expect = 6e-14
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 1/79 (1%)
Query: 527 LRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDM-LPNSTEREVNIKGVPDAVTQA 585
+++PA + G +IGKGG IK ++E +G + + D + ++ + I G P V QA
Sbjct: 4 QEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQA 63
Query: 586 IYQICLIMVDSPPKGATIP 604
+ I+ + G
Sbjct: 64 CEMVMDILRERDQGGFGDR 82
Score = 65.2 bits (159), Expect = 2e-12
Identities = 18/100 (18%), Positives = 42/100 (42%), Gaps = 1/100 (1%)
Query: 263 TKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDAIA 322
+E+ +P G VIGKGG I ++++ +G + + + + + D+ + + G P +
Sbjct: 3 VQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDG-SQNTNVDKPLRIIGDPYKVQ 61
Query: 323 LAQYLINMSVELLRANLNGEGGGESNMDDFSSDNNLPSSA 362
A ++ + G+ + D +P +
Sbjct: 62 QACEMVMDILRERDQGGFGDRNEYGSRIGGGIDVPVPRHS 101
Score = 65.2 bits (159), Expect = 2e-12
Identities = 18/100 (18%), Positives = 42/100 (42%), Gaps = 1/100 (1%)
Query: 708 TKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDAIA 767
+E+ +P G VIGKGG I ++++ +G + + + + + D+ + + G P +
Sbjct: 3 VQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDG-SQNTNVDKPLRIIGDPYKVQ 61
Query: 768 LAQYLINMSVELLRANLNGEGGGESNMDDFSSDNNLPSSA 807
A ++ + G+ + D +P +
Sbjct: 62 QACEMVMDILRERDQGGFGDRNEYGSRIGGGIDVPVPRHS 101
Score = 60.6 bits (147), Expect = 9e-11
Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYIS--DSSTPERIVTVIGSMDSLFRAFSLITKNIEE 62
VG +IG+SGE +KK++ ++G +I D + PE+I ++G D A +I ++
Sbjct: 102 VGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDRCEHAARIINDLLQS 160
Score = 60.6 bits (147), Expect = 9e-11
Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYIS--DSSTPERIVTVIGSMDSLFRAFSLITKNIEE 507
VG +IG+SGE +KK++ ++G +I D + PE+I ++G D A +I ++
Sbjct: 102 VGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDRCEHAARIINDLLQS 160
>1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET:
DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1
Length = 174
Score = 134 bits (339), Expect = 2e-36
Identities = 44/166 (26%), Positives = 70/166 (42%), Gaps = 18/166 (10%)
Query: 442 MRHIMQGKEVGSIIGKSGETVKKLREESGSKIYISDS--STPERIVTVIGSMDSLFRAFS 499
+ + VG +IG++GE +KK++ ++G +I +TPERI + G D A
Sbjct: 5 IDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPERIAQITGPPDRAQHAAE 64
Query: 500 LITKNIEEFHKNQNKHL--------------GGNGESQLIQLRLIVPASQCGSIIGKGGS 545
+IT + L + IVP + G IIGKGG
Sbjct: 65 IITDLLRSVQAGNPGGPGPGGRGRGRGQGNWNMGPPGGLQEFNFIVPTGKTGLIIGKGGE 124
Query: 546 QIKTIRETSGASVYVASDMLPNS--TEREVNIKGVPDAVTQAIYQI 589
IK+I + SGA + + + PN+ + I+G P + A I
Sbjct: 125 TIKSISQQSGARIELQRNPPPNADPNMKLFTIRGTPQQIDYARQLI 170
Score = 133 bits (337), Expect = 3e-36
Identities = 44/159 (27%), Positives = 68/159 (42%), Gaps = 18/159 (11%)
Query: 4 KEVGSIIGKSGETVKKLREESGSKIYISDS--STPERIVTVIGSMDSLFRAFSLITKNIE 61
VG +IG++GE +KK++ ++G +I +TPERI + G D A +IT +
Sbjct: 12 FAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPERIAQITGPPDRAQHAAEIITDLLR 71
Query: 62 EFHKNQNKHL--------------GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRE 107
L + IVP + G IIGKGG IK+I +
Sbjct: 72 SVQAGNPGGPGPGGRGRGRGQGNWNMGPPGGLQEFNFIVPTGKTGLIIGKGGETIKSISQ 131
Query: 108 TSGASVYVASDMLPNS--TEREVNIKGVPDAVTQAIYQI 144
SGA + + + PN+ + I+G P + A I
Sbjct: 132 QSGARIELQRNPPPNADPNMKLFTIRGTPQQIDYARQLI 170
Score = 81.5 bits (201), Expect = 5e-18
Identities = 31/118 (26%), Positives = 43/118 (36%)
Query: 212 GGLNAAALAALASSQLKTNHMPRNQNQNQNQHNRNNRDGPSQKTNQQQNQITKEMTVPNE 271
G + A AA + L + N R + VP
Sbjct: 54 GPPDRAQHAAEIITDLLRSVQAGNPGGPGPGGRGRGRGQGNWNMGPPGGLQEFNFIVPTG 113
Query: 272 LIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDAIALAQYLIN 329
G +IGKGG I I + SGA I + ++ D N + T+ GTP I A+ LI
Sbjct: 114 KTGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKLFTIRGTPQQIDYARQLIE 171
Score = 81.5 bits (201), Expect = 5e-18
Identities = 31/118 (26%), Positives = 43/118 (36%)
Query: 657 GGLNAAALAALASSQLKTNHMPRNQNQNQNQHNRNNRDGPSQKTNQQQNQITKEMTVPNE 716
G + A AA + L + N R + VP
Sbjct: 54 GPPDRAQHAAEIITDLLRSVQAGNPGGPGPGGRGRGRGQGNWNMGPPGGLQEFNFIVPTG 113
Query: 717 LIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDAIALAQYLIN 774
G +IGKGG I I + SGA I + ++ D N + T+ GTP I A+ LI
Sbjct: 114 KTGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKLFTIRGTPQQIDYARQLIE 171
Score = 78.0 bits (192), Expect = 8e-17
Identities = 21/91 (23%), Positives = 32/91 (35%), Gaps = 1/91 (1%)
Query: 81 QLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQA 140
+ + +P G +IG+ G IK I+ +G + D + ER I G PD A
Sbjct: 4 MIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDD-GTTPERIAQITGPPDRAQHA 62
Query: 141 IYQICLIMVDSPPKGATIPYRPLPQNAGGPG 171
I ++ P G G
Sbjct: 63 AEIITDLLRSVQAGNPGGPGPGGRGRGRGQG 93
Score = 78.0 bits (192), Expect = 8e-17
Identities = 21/91 (23%), Positives = 32/91 (35%), Gaps = 1/91 (1%)
Query: 526 QLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQA 585
+ + +P G +IG+ G IK I+ +G + D + ER I G PD A
Sbjct: 4 MIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDD-GTTPERIAQITGPPDRAQHA 62
Query: 586 IYQICLIMVDSPPKGATIPYRPLPQNAGGPG 616
I ++ P G G
Sbjct: 63 AEIITDLLRSVQAGNPGGPGPGGRGRGRGQG 93
Score = 70.3 bits (172), Expect = 5e-14
Identities = 21/97 (21%), Positives = 39/97 (40%), Gaps = 3/97 (3%)
Query: 261 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 320
++ +P +G VIG+ G I +I+ +G I+ ++ + +R +TG PD
Sbjct: 2 SHMIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQF---KPDDGTTPERIAQITGPPDR 58
Query: 321 IALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNN 357
A +I + ++A G G N
Sbjct: 59 AQHAAEIITDLLRSVQAGNPGGPGPGGRGRGRGQGNW 95
Score = 70.3 bits (172), Expect = 5e-14
Identities = 21/97 (21%), Positives = 39/97 (40%), Gaps = 3/97 (3%)
Query: 706 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 765
++ +P +G VIG+ G I +I+ +G I+ ++ + +R +TG PD
Sbjct: 2 SHMIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQF---KPDDGTTPERIAQITGPPDR 58
Query: 766 IALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNN 802
A +I + ++A G G N
Sbjct: 59 AQHAAEIITDLLRSVQAGNPGGPGPGGRGRGRGQGNW 95
Score = 61.4 bits (149), Expect = 6e-11
Identities = 31/113 (27%), Positives = 53/113 (46%), Gaps = 5/113 (4%)
Query: 398 ALGGLSDLLGGGSSGGGSGNSGGFGGVPQGPNYANIQTTGVQRRMRHIMQGKEVGSIIGK 457
A ++DLL +G G G G +G N+ G + I+ + G IIGK
Sbjct: 62 AAEIITDLLRSVQAGNPGGPGPGGRGRGRGQGNWNMGPPGGLQEFNFIVPTGKTGLIIGK 121
Query: 458 SGETVKKLREESGSKIYISDSSTP-----ERIVTVIGSMDSLFRAFSLITKNI 505
GET+K + ++SG++I + + P ++ T+ G+ + A LI + I
Sbjct: 122 GGETIKSISQQSGARIELQRNPPPNADPNMKLFTIRGTPQQIDYARQLIEEKI 174
Score = 56.0 bits (135), Expect = 4e-09
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 5/60 (8%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSSTP-----ERIVTVIGSMDSLFRAFSLITKNI 60
G IIGK GET+K + ++SG++I + + P ++ T+ G+ + A LI + I
Sbjct: 115 TGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKLFTIRGTPQQIDYARQLIEEKI 174
>1dtj_A RNA-binding neurooncological ventral antigen 2; KH domain,
alpha-beta fold RNA-binding motif, immune system; 2.00A
{Homo sapiens} SCOP: d.51.1.1 PDB: 1dt4_A
Length = 76
Score = 97.0 bits (242), Expect = 1e-24
Identities = 31/73 (42%), Positives = 47/73 (64%)
Query: 261 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 320
+ EM VP L+GA++GKGG + E ++++GA I+ISK E + +R +T+TG+P A
Sbjct: 2 KELVEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAA 61
Query: 321 IALAQYLINMSVE 333
AQYLI+ V
Sbjct: 62 TQAAQYLISQRVT 74
Score = 97.0 bits (242), Expect = 1e-24
Identities = 31/73 (42%), Positives = 47/73 (64%)
Query: 706 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 765
+ EM VP L+GA++GKGG + E ++++GA I+ISK E + +R +T+TG+P A
Sbjct: 2 KELVEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAA 61
Query: 766 IALAQYLINMSVE 778
AQYLI+ V
Sbjct: 62 TQAAQYLISQRVT 74
Score = 77.3 bits (191), Expect = 1e-17
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 81 QLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVA--SDMLPNSTEREVNIKGVPDAVT 138
+ + VP + G+I+GKGG + +E +GA + ++ + LP + R V I G P A
Sbjct: 4 LVEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQ 63
Query: 139 QAIYQI 144
A Y I
Sbjct: 64 AAQYLI 69
Score = 77.3 bits (191), Expect = 1e-17
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 526 QLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVA--SDMLPNSTEREVNIKGVPDAVT 583
+ + VP + G+I+GKGG + +E +GA + ++ + LP + R V I G P A
Sbjct: 4 LVEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQ 63
Query: 584 QAIYQI 589
A Y I
Sbjct: 64 AAQYLI 69
Score = 62.7 bits (153), Expect = 2e-12
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 5/62 (8%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSS-----TPERIVTVIGSMDSLFRAFSLITKNI 60
VG+I+GK G+T+ + +E +G++I IS T R VT+ GS + A LI++ +
Sbjct: 14 VGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQAAQYLISQRV 73
Query: 61 EE 62
Sbjct: 74 TY 75
Score = 62.7 bits (153), Expect = 2e-12
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 5/62 (8%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSS-----TPERIVTVIGSMDSLFRAFSLITKNI 505
VG+I+GK G+T+ + +E +G++I IS T R VT+ GS + A LI++ +
Sbjct: 14 VGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQAAQYLISQRV 73
Query: 506 EE 507
Sbjct: 74 TY 75
>1ec6_A RNA-binding protein NOVA-2; KH domain, alpha-beta fold, RNA-binding
motif, protein/RNA structure, RNA binding protein/RNA
complex; 2.40A {Homo sapiens} SCOP: d.51.1.1
Length = 87
Score = 95.9 bits (239), Expect = 4e-24
Identities = 30/73 (41%), Positives = 47/73 (64%)
Query: 261 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 320
+ E+ VP L+GA++GKGG + E ++++GA I+ISK E + +R +T+TG+P A
Sbjct: 2 KELVEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAA 61
Query: 321 IALAQYLINMSVE 333
AQYLI+ V
Sbjct: 62 TQAAQYLISQRVT 74
Score = 95.9 bits (239), Expect = 4e-24
Identities = 30/73 (41%), Positives = 47/73 (64%)
Query: 706 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 765
+ E+ VP L+GA++GKGG + E ++++GA I+ISK E + +R +T+TG+P A
Sbjct: 2 KELVEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAA 61
Query: 766 IALAQYLINMSVE 778
AQYLI+ V
Sbjct: 62 TQAAQYLISQRVT 74
Score = 77.0 bits (190), Expect = 2e-17
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 2/81 (2%)
Query: 81 QLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVA--SDMLPNSTEREVNIKGVPDAVT 138
+ + VP + G+I+GKGG + +E +GA + ++ + LP + R V I G P A
Sbjct: 4 LVEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQ 63
Query: 139 QAIYQICLIMVDSPPKGATIP 159
A Y I + A+ P
Sbjct: 64 AAQYLISQRVTYEQGVRASNP 84
Score = 77.0 bits (190), Expect = 2e-17
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 2/81 (2%)
Query: 526 QLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVA--SDMLPNSTEREVNIKGVPDAVT 583
+ + VP + G+I+GKGG + +E +GA + ++ + LP + R V I G P A
Sbjct: 4 LVEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQ 63
Query: 584 QAIYQICLIMVDSPPKGATIP 604
A Y I + A+ P
Sbjct: 64 AAQYLISQRVTYEQGVRASNP 84
Score = 62.0 bits (151), Expect = 4e-12
Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSS-----TPERIVTVIGSMDSLFRAFSLITKNI 60
VG+I+GK G+T+ + +E +G++I IS T R VT+ GS + A LI++ +
Sbjct: 14 VGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQAAQYLISQRV 73
Query: 61 EEFHKNQNKH 70
+ +
Sbjct: 74 TYEQGVRASN 83
Score = 62.0 bits (151), Expect = 4e-12
Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSS-----TPERIVTVIGSMDSLFRAFSLITKNI 505
VG+I+GK G+T+ + +E +G++I IS T R VT+ GS + A LI++ +
Sbjct: 14 VGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQAAQYLISQRV 73
Query: 506 EEFHKNQNKH 515
+ +
Sbjct: 74 TYEQGVRASN 83
>2p2r_A Poly(RC)-binding protein 2; protein-DNA complex, RNA and DNA
binding protein/DNA complex; 1.60A {Homo sapiens}
Length = 76
Score = 92.0 bits (229), Expect = 7e-23
Identities = 35/76 (46%), Positives = 53/76 (69%), Gaps = 3/76 (3%)
Query: 258 QQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT 317
+ + E+T+PN+LIG +IG+ G KI EIR++SGA I+I + E S DR +T+TG+
Sbjct: 1 KAQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKI---ANPVEGSTDRQVTITGS 57
Query: 318 PDAIALAQYLINMSVE 333
+I+LAQYLIN+ +
Sbjct: 58 AASISLAQYLINVRLS 73
Score = 92.0 bits (229), Expect = 7e-23
Identities = 35/76 (46%), Positives = 53/76 (69%), Gaps = 3/76 (3%)
Query: 703 QQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT 762
+ + E+T+PN+LIG +IG+ G KI EIR++SGA I+I + E S DR +T+TG+
Sbjct: 1 KAQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKI---ANPVEGSTDRQVTITGS 57
Query: 763 PDAIALAQYLINMSVE 778
+I+LAQYLIN+ +
Sbjct: 58 AASISLAQYLINVRLS 73
Score = 77.0 bits (190), Expect = 2e-17
Identities = 24/69 (34%), Positives = 40/69 (57%), Gaps = 1/69 (1%)
Query: 76 ESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPD 135
++Q L +P G IIG+ G++I IR+ SGA + +A+ + ST+R+V I G
Sbjct: 1 KAQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANP-VEGSTDRQVTITGSAA 59
Query: 136 AVTQAIYQI 144
+++ A Y I
Sbjct: 60 SISLAQYLI 68
Score = 77.0 bits (190), Expect = 2e-17
Identities = 24/69 (34%), Positives = 40/69 (57%), Gaps = 1/69 (1%)
Query: 521 ESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPD 580
++Q L +P G IIG+ G++I IR+ SGA + +A+ + ST+R+V I G
Sbjct: 1 KAQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANP-VEGSTDRQVTITGSAA 59
Query: 581 AVTQAIYQI 589
+++ A Y I
Sbjct: 60 SISLAQYLI 68
Score = 62.7 bits (153), Expect = 1e-12
Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSS--TPERIVTVIGSMDSLFRAFSLITKNIEE 62
+G IIG+ G + ++R+ SG++I I++ + +R VT+ GS S+ A LI +
Sbjct: 16 IGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITGSAASISLAQYLINVRLSS 74
Score = 62.7 bits (153), Expect = 1e-12
Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSS--TPERIVTVIGSMDSLFRAFSLITKNIEE 507
+G IIG+ G + ++R+ SG++I I++ + +R VT+ GS S+ A LI +
Sbjct: 16 IGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITGSAASISLAQYLINVRLSS 74
>1j5k_A Heterogeneous nuclear ribonucleoprotein K; single-stranded DNA
binding protein, transcription factor, hnRNP K, CT
element, C-MYC oncogene; NMR {Homo sapiens} SCOP:
d.51.1.1 PDB: 1khm_A
Length = 89
Score = 91.2 bits (227), Expect = 2e-22
Identities = 37/84 (44%), Positives = 50/84 (59%), Gaps = 3/84 (3%)
Query: 250 GPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSND 309
+ IT ++T+P +L G++IGKGG +I +IR SGA I+I E E S D
Sbjct: 2 SHMSYGDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI---DEPLEGSED 58
Query: 310 RTITMTGTPDAIALAQYLINMSVE 333
R IT+TGT D I AQYL+ SV+
Sbjct: 59 RIITITGTQDQIQNAQYLLQNSVK 82
Score = 91.2 bits (227), Expect = 2e-22
Identities = 37/84 (44%), Positives = 50/84 (59%), Gaps = 3/84 (3%)
Query: 695 GPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSND 754
+ IT ++T+P +L G++IGKGG +I +IR SGA I+I E E S D
Sbjct: 2 SHMSYGDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI---DEPLEGSED 58
Query: 755 RTITMTGTPDAIALAQYLINMSVE 778
R IT+TGT D I AQYL+ SV+
Sbjct: 59 RIITITGTQDQIQNAQYLLQNSVK 82
Score = 76.6 bits (189), Expect = 3e-17
Identities = 28/82 (34%), Positives = 42/82 (51%), Gaps = 1/82 (1%)
Query: 73 GNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKG 132
G+ +I ++ +P GSIIGKGG +IK IR SGAS+ + + L S +R + I G
Sbjct: 7 GDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI-DEPLEGSEDRIITITG 65
Query: 133 VPDAVTQAIYQICLIMVDSPPK 154
D + A Y + + K
Sbjct: 66 TQDQIQNAQYLLQNSVKQYSGK 87
Score = 76.6 bits (189), Expect = 3e-17
Identities = 28/82 (34%), Positives = 42/82 (51%), Gaps = 1/82 (1%)
Query: 518 GNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKG 577
G+ +I ++ +P GSIIGKGG +IK IR SGAS+ + + L S +R + I G
Sbjct: 7 GDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI-DEPLEGSEDRIITITG 65
Query: 578 VPDAVTQAIYQICLIMVDSPPK 599
D + A Y + + K
Sbjct: 66 TQDQIQNAQYLLQNSVKQYSGK 87
Score = 62.3 bits (152), Expect = 3e-12
Identities = 21/60 (35%), Positives = 39/60 (65%), Gaps = 2/60 (3%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSS--TPERIVTVIGSMDSLFRAFSLITKNIEEF 63
GSIIGK G+ +K++R ESG+ I I + + +RI+T+ G+ D + A L+ +++++
Sbjct: 25 AGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVKQY 84
Score = 62.3 bits (152), Expect = 3e-12
Identities = 21/60 (35%), Positives = 39/60 (65%), Gaps = 2/60 (3%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSS--TPERIVTVIGSMDSLFRAFSLITKNIEEF 508
GSIIGK G+ +K++R ESG+ I I + + +RI+T+ G+ D + A L+ +++++
Sbjct: 25 AGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVKQY 84
>1zzk_A Heterogeneous nuclear ribonucleoprotein K; KH domian, alpha-beta
fold, DNA binding protein; 0.95A {Homo sapiens} SCOP:
d.51.1.1 PDB: 1zzj_A 1zzi_A
Length = 82
Score = 90.8 bits (226), Expect = 2e-22
Identities = 37/75 (49%), Positives = 49/75 (65%), Gaps = 3/75 (4%)
Query: 259 QNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTP 318
IT ++T+P +L G++IGKGG +I +IR SGA I+I E E S DR IT+TGT
Sbjct: 4 GPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI---DEPLEGSEDRIITITGTQ 60
Query: 319 DAIALAQYLINMSVE 333
D I AQYL+ SV+
Sbjct: 61 DQIQNAQYLLQNSVK 75
Score = 90.8 bits (226), Expect = 2e-22
Identities = 37/75 (49%), Positives = 49/75 (65%), Gaps = 3/75 (4%)
Query: 704 QNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTP 763
IT ++T+P +L G++IGKGG +I +IR SGA I+I E E S DR IT+TGT
Sbjct: 4 GPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI---DEPLEGSEDRIITITGTQ 60
Query: 764 DAIALAQYLINMSVE 778
D I AQYL+ SV+
Sbjct: 61 DQIQNAQYLLQNSVK 75
Score = 75.0 bits (185), Expect = 9e-17
Identities = 29/83 (34%), Positives = 41/83 (49%), Gaps = 3/83 (3%)
Query: 72 GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIK 131
G G I ++ +P GSIIGKGG +IK IR SGAS+ + + L S +R + I
Sbjct: 1 GAMGPI--ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI-DEPLEGSEDRIITIT 57
Query: 132 GVPDAVTQAIYQICLIMVDSPPK 154
G D + A Y + + K
Sbjct: 58 GTQDQIQNAQYLLQNSVKQYSGK 80
Score = 75.0 bits (185), Expect = 9e-17
Identities = 29/83 (34%), Positives = 41/83 (49%), Gaps = 3/83 (3%)
Query: 517 GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIK 576
G G I ++ +P GSIIGKGG +IK IR SGAS+ + + L S +R + I
Sbjct: 1 GAMGPI--ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI-DEPLEGSEDRIITIT 57
Query: 577 GVPDAVTQAIYQICLIMVDSPPK 599
G D + A Y + + K
Sbjct: 58 GTQDQIQNAQYLLQNSVKQYSGK 80
Score = 62.3 bits (152), Expect = 3e-12
Identities = 21/60 (35%), Positives = 39/60 (65%), Gaps = 2/60 (3%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSS--TPERIVTVIGSMDSLFRAFSLITKNIEEF 63
GSIIGK G+ +K++R ESG+ I I + + +RI+T+ G+ D + A L+ +++++
Sbjct: 18 AGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVKQY 77
Score = 62.3 bits (152), Expect = 3e-12
Identities = 21/60 (35%), Positives = 39/60 (65%), Gaps = 2/60 (3%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSS--TPERIVTVIGSMDSLFRAFSLITKNIEEF 508
GSIIGK G+ +K++R ESG+ I I + + +RI+T+ G+ D + A L+ +++++
Sbjct: 18 AGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVKQY 77
>1wvn_A Poly(RC)-binding protein 1; KH domain, RNA binding domain, RNA
binding protein; 2.10A {Homo sapiens} SCOP: d.51.1.1
Length = 82
Score = 90.4 bits (225), Expect = 3e-22
Identities = 35/73 (47%), Positives = 50/73 (68%), Gaps = 3/73 (4%)
Query: 261 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 320
Q T E+T+PN LIG +IG+ G I EIR++SGA I+I + E S+ R +T+TG+ +
Sbjct: 5 QTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKI---ANPVEGSSGRQVTITGSAAS 61
Query: 321 IALAQYLINMSVE 333
I+LAQYLIN +
Sbjct: 62 ISLAQYLINARLS 74
Score = 90.4 bits (225), Expect = 3e-22
Identities = 35/73 (47%), Positives = 50/73 (68%), Gaps = 3/73 (4%)
Query: 706 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 765
Q T E+T+PN LIG +IG+ G I EIR++SGA I+I + E S+ R +T+TG+ +
Sbjct: 5 QTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKI---ANPVEGSSGRQVTITGSAAS 61
Query: 766 IALAQYLINMSVE 778
I+LAQYLIN +
Sbjct: 62 ISLAQYLINARLS 74
Score = 72.7 bits (179), Expect = 6e-16
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 80 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 139
L +P + G IIG+ G+ I IR+ SGA + +A+ + S+ R+V I G +++
Sbjct: 6 TTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPV-EGSSGRQVTITGSAASISL 64
Query: 140 AIYQICLIMVDSPPKGAT 157
A Y I + G +
Sbjct: 65 AQYLINARLSSEKGMGCS 82
Score = 72.7 bits (179), Expect = 6e-16
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 525 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 584
L +P + G IIG+ G+ I IR+ SGA + +A+ + S+ R+V I G +++
Sbjct: 6 TTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPV-EGSSGRQVTITGSAASISL 64
Query: 585 AIYQICLIMVDSPPKGAT 602
A Y I + G +
Sbjct: 65 AQYLINARLSSEKGMGCS 82
Score = 62.3 bits (152), Expect = 3e-12
Identities = 19/59 (32%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSS--TPERIVTVIGSMDSLFRAFSLITKNIEE 62
+G IIG+ G + ++R+ SG++I I++ + R VT+ GS S+ A LI +
Sbjct: 17 IGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITGSAASISLAQYLINARLSS 75
Score = 62.3 bits (152), Expect = 3e-12
Identities = 19/59 (32%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSS--TPERIVTVIGSMDSLFRAFSLITKNIEE 507
+G IIG+ G + ++R+ SG++I I++ + R VT+ GS S+ A LI +
Sbjct: 17 IGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITGSAASISLAQYLINARLSS 75
>2axy_A Poly(RC)-binding protein 2; protein-DNA complex, DNA binding
protein-DNA complex; 1.70A {Homo sapiens} SCOP: d.51.1.1
PDB: 2pqu_A 2py9_A 1ztg_A 3vke_A*
Length = 73
Score = 89.3 bits (222), Expect = 7e-22
Identities = 37/66 (56%), Positives = 54/66 (81%)
Query: 442 MRHIMQGKEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLI 501
+R +M GKEVGSIIGK GE+VKK+REESG++I IS+ + PERI+T+ G +++F+AF++I
Sbjct: 7 IRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFKAFAMI 66
Query: 502 TKNIEE 507
+EE
Sbjct: 67 IDKLEE 72
Score = 86.9 bits (216), Expect = 4e-21
Identities = 36/62 (58%), Positives = 51/62 (82%)
Query: 1 MQGKEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNI 60
M GKEVGSIIGK GE+VKK+REESG++I IS+ + PERI+T+ G +++F+AF++I +
Sbjct: 11 MHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFKAFAMIIDKL 70
Query: 61 EE 62
EE
Sbjct: 71 EE 72
Score = 78.1 bits (193), Expect = 5e-18
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 3/75 (4%)
Query: 76 ESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPD 135
++ + +RL++ + GSIIGK G +K +RE SGA + ++ N ER + + G +
Sbjct: 1 KNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISE---GNCPERIITLAGPTN 57
Query: 136 AVTQAIYQICLIMVD 150
A+ +A I + +
Sbjct: 58 AIFKAFAMIIDKLEE 72
Score = 78.1 bits (193), Expect = 5e-18
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 3/75 (4%)
Query: 521 ESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPD 580
++ + +RL++ + GSIIGK G +K +RE SGA + ++ N ER + + G +
Sbjct: 1 KNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISE---GNCPERIITLAGPTN 57
Query: 581 AVTQAIYQICLIMVD 595
A+ +A I + +
Sbjct: 58 AIFKAFAMIIDKLEE 72
Score = 72.3 bits (178), Expect = 5e-16
Identities = 22/76 (28%), Positives = 41/76 (53%), Gaps = 5/76 (6%)
Query: 258 QQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT 317
+ +T + + + +G++IGK G + ++R+ SGA I IS+ + +R IT+ G
Sbjct: 1 KNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGN-----CPERIITLAGP 55
Query: 318 PDAIALAQYLINMSVE 333
+AI A +I +E
Sbjct: 56 TNAIFKAFAMIIDKLE 71
Score = 72.3 bits (178), Expect = 5e-16
Identities = 22/76 (28%), Positives = 41/76 (53%), Gaps = 5/76 (6%)
Query: 703 QQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT 762
+ +T + + + +G++IGK G + ++R+ SGA I IS+ + +R IT+ G
Sbjct: 1 KNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGN-----CPERIITLAGP 55
Query: 763 PDAIALAQYLINMSVE 778
+AI A +I +E
Sbjct: 56 TNAIFKAFAMIIDKLE 71
>1x4n_A FAR upstream element binding protein 1; KH domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
d.51.1.1 PDB: 2opu_A
Length = 92
Score = 84.4 bits (209), Expect = 5e-20
Identities = 29/92 (31%), Positives = 54/92 (58%), Gaps = 3/92 (3%)
Query: 250 GPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSND 309
S QQ++ +T+E VP+ ++G +IG+GG +I I++ SG I+I+ S +
Sbjct: 3 SGSSGHQQQRSVMTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDS---GGLPE 59
Query: 310 RTITMTGTPDAIALAQYLINMSVELLRANLNG 341
R+ +TGTP+++ A+ L++ VE R+ +
Sbjct: 60 RSCMLTGTPESVQSAKRLLDQIVEKGRSGPSS 91
Score = 84.4 bits (209), Expect = 5e-20
Identities = 29/92 (31%), Positives = 54/92 (58%), Gaps = 3/92 (3%)
Query: 695 GPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSND 754
S QQ++ +T+E VP+ ++G +IG+GG +I I++ SG I+I+ S +
Sbjct: 3 SGSSGHQQQRSVMTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDS---GGLPE 59
Query: 755 RTITMTGTPDAIALAQYLINMSVELLRANLNG 786
R+ +TGTP+++ A+ L++ VE R+ +
Sbjct: 60 RSCMLTGTPESVQSAKRLLDQIVEKGRSGPSS 91
Score = 65.1 bits (159), Expect = 3e-13
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 72 GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIK 131
G + ++ VP G IIG+GG QI I++ SG + +A D ER +
Sbjct: 7 GHQQQRSVMTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDS-GGLPERSCMLT 65
Query: 132 GVPDAVTQAIYQI 144
G P++V A +
Sbjct: 66 GTPESVQSAKRLL 78
Score = 65.1 bits (159), Expect = 3e-13
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 517 GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIK 576
G + ++ VP G IIG+GG QI I++ SG + +A D ER +
Sbjct: 7 GHQQQRSVMTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDS-GGLPERSCMLT 65
Query: 577 GVPDAVTQAIYQI 589
G P++V A +
Sbjct: 66 GTPESVQSAKRLL 78
Score = 57.8 bits (140), Expect = 1e-10
Identities = 22/66 (33%), Positives = 38/66 (57%), Gaps = 2/66 (3%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSS--TPERIVTVIGSMDSLFRAFSLITKNIEEF 63
VG IIG+ GE + ++++ESG KI I+ S PER + G+ +S+ A L+ + +E+
Sbjct: 26 VGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTGTPESVQSAKRLLDQIVEKG 85
Query: 64 HKNQNK 69
+
Sbjct: 86 RSGPSS 91
Score = 57.8 bits (140), Expect = 1e-10
Identities = 22/66 (33%), Positives = 38/66 (57%), Gaps = 2/66 (3%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSS--TPERIVTVIGSMDSLFRAFSLITKNIEEF 508
VG IIG+ GE + ++++ESG KI I+ S PER + G+ +S+ A L+ + +E+
Sbjct: 26 VGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTGTPESVQSAKRLLDQIVEKG 85
Query: 509 HKNQNK 514
+
Sbjct: 86 RSGPSS 91
>2opv_A KHSRP protein; KH domain, RNA binding protein, KSRP; NMR {Homo
sapiens}
Length = 85
Score = 82.4 bits (204), Expect = 2e-19
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 1/77 (1%)
Query: 253 QKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTI 312
N QN +E+ +P G VIGKGG I ++++ +G + + + + + D+ +
Sbjct: 5 DNANGGQNGTVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQ-DGSQNTNVDKPL 63
Query: 313 TMTGTPDAIALAQYLIN 329
+ G P + A ++
Sbjct: 64 RIIGDPYKVQQACEMVM 80
Score = 82.4 bits (204), Expect = 2e-19
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 1/77 (1%)
Query: 698 QKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTI 757
N QN +E+ +P G VIGKGG I ++++ +G + + + + + D+ +
Sbjct: 5 DNANGGQNGTVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQ-DGSQNTNVDKPL 63
Query: 758 TMTGTPDAIALAQYLIN 774
+ G P + A ++
Sbjct: 64 RIIGDPYKVQQACEMVM 80
Score = 75.5 bits (186), Expect = 6e-17
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 1/82 (1%)
Query: 70 HLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDM-LPNSTEREV 128
H NG +++PA + G +IGKGG IK ++E +G + + D + ++ +
Sbjct: 4 HDNANGGQNGTVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPL 63
Query: 129 NIKGVPDAVTQAIYQICLIMVD 150
I G P V QA + I+ +
Sbjct: 64 RIIGDPYKVQQACEMVMDILRE 85
Score = 75.5 bits (186), Expect = 6e-17
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 1/82 (1%)
Query: 515 HLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDM-LPNSTEREV 573
H NG +++PA + G +IGKGG IK ++E +G + + D + ++ +
Sbjct: 4 HDNANGGQNGTVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPL 63
Query: 574 NIKGVPDAVTQAIYQICLIMVD 595
I G P V QA + I+ +
Sbjct: 64 RIIGDPYKVQQACEMVMDILRE 85
Score = 57.4 bits (139), Expect = 1e-10
Identities = 16/61 (26%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSSTP----ERIVTVIGSMDSLFRAFSLITKNIE 61
G +IGK GET+K+L+E +G K+ + + ++ + +IG + +A ++ +
Sbjct: 25 AGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQACEMVMDILR 84
Query: 62 E 62
E
Sbjct: 85 E 85
Score = 57.4 bits (139), Expect = 1e-10
Identities = 16/61 (26%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSSTP----ERIVTVIGSMDSLFRAFSLITKNIE 506
G +IGK GET+K+L+E +G K+ + + ++ + +IG + +A ++ +
Sbjct: 25 AGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQACEMVMDILR 84
Query: 507 E 507
E
Sbjct: 85 E 85
>2hh2_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA
binding protein; NMR {Homo sapiens}
Length = 107
Score = 82.2 bits (203), Expect = 5e-19
Identities = 25/105 (23%), Positives = 40/105 (38%)
Query: 257 QQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTG 316
++P G VIG+GG + I + +GA + IS+ D N + + G
Sbjct: 2 AMAPGGEMTFSIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRG 61
Query: 317 TPDAIALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNNLPSS 361
+P I A+ LI +E + GG N P +
Sbjct: 62 SPQQIDHAKQLIEEKIEGPLCPVGPGPGGPGPAGPMGPFNPGPFN 106
Score = 82.2 bits (203), Expect = 5e-19
Identities = 25/105 (23%), Positives = 40/105 (38%)
Query: 702 QQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTG 761
++P G VIG+GG + I + +GA + IS+ D N + + G
Sbjct: 2 AMAPGGEMTFSIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRG 61
Query: 762 TPDAIALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNNLPSS 806
+P I A+ LI +E + GG N P +
Sbjct: 62 SPQQIDHAKQLIEEKIEGPLCPVGPGPGGPGPAGPMGPFNPGPFN 106
Score = 76.5 bits (188), Expect = 5e-17
Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 2/97 (2%)
Query: 77 SQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNS--TEREVNIKGVP 134
+ ++ +P +CG +IG+GG +K I + +GA V ++ + PN + I+G P
Sbjct: 4 APGGEMTFSIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRGSP 63
Query: 135 DAVTQAIYQICLIMVDSPPKGATIPYRPLPQNAGGPG 171
+ A I + P P P GP
Sbjct: 64 QQIDHAKQLIEEKIEGPLCPVGPGPGGPGPAGPMGPF 100
Score = 76.5 bits (188), Expect = 5e-17
Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 2/97 (2%)
Query: 522 SQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNS--TEREVNIKGVP 579
+ ++ +P +CG +IG+GG +K I + +GA V ++ + PN + I+G P
Sbjct: 4 APGGEMTFSIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRGSP 63
Query: 580 DAVTQAIYQICLIMVDSPPKGATIPYRPLPQNAGGPG 616
+ A I + P P P GP
Sbjct: 64 QQIDHAKQLIEEKIEGPLCPVGPGPGGPGPAGPMGPF 100
Score = 55.3 bits (133), Expect = 1e-09
Identities = 23/90 (25%), Positives = 39/90 (43%), Gaps = 5/90 (5%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSSTP-----ERIVTVIGSMDSLFRAFSLITKNI 60
G +IG+ GE VK + +++G+ + IS P ++ + GS + A LI + I
Sbjct: 18 CGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRGSPQQIDHAKQLIEEKI 77
Query: 61 EEFHKNQNKHLGGNGESQLIQLRLIVPASQ 90
E GG G + + P +Q
Sbjct: 78 EGPLCPVGPGPGGPGPAGPMGPFNPGPFNQ 107
Score = 55.3 bits (133), Expect = 1e-09
Identities = 23/90 (25%), Positives = 39/90 (43%), Gaps = 5/90 (5%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSSTP-----ERIVTVIGSMDSLFRAFSLITKNI 505
G +IG+ GE VK + +++G+ + IS P ++ + GS + A LI + I
Sbjct: 18 CGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRGSPQQIDHAKQLIEEKI 77
Query: 506 EEFHKNQNKHLGGNGESQLIQLRLIVPASQ 535
E GG G + + P +Q
Sbjct: 78 EGPLCPVGPGPGGPGPAGPMGPFNPGPFNQ 107
>1we8_A Tudor and KH domain containing protein; structural genomics, riken
structural genomics/proteomics initiative, RSGI, RNA
binding protein; NMR {Mus musculus} SCOP: d.51.1.1
Length = 104
Score = 79.9 bits (197), Expect = 4e-18
Identities = 27/82 (32%), Positives = 41/82 (50%), Gaps = 1/82 (1%)
Query: 252 SQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRT 311
S + + ++++VP +G +IG+GG I I K SGA I K SE R
Sbjct: 5 SSGILTENTPVFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLL-SRL 63
Query: 312 ITMTGTPDAIALAQYLINMSVE 333
I ++GT +A A++LI V
Sbjct: 64 IKISGTQKEVAAAKHLILEKVS 85
Score = 79.9 bits (197), Expect = 4e-18
Identities = 27/82 (32%), Positives = 41/82 (50%), Gaps = 1/82 (1%)
Query: 697 SQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRT 756
S + + ++++VP +G +IG+GG I I K SGA I K SE R
Sbjct: 5 SSGILTENTPVFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLL-SRL 63
Query: 757 ITMTGTPDAIALAQYLINMSVE 778
I ++GT +A A++LI V
Sbjct: 64 IKISGTQKEVAAAKHLILEKVS 85
Score = 69.9 bits (171), Expect = 1e-14
Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 1/98 (1%)
Query: 72 GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASD-MLPNSTEREVNI 130
G E+ + +L VP G IIG+GG I++I + SGA + + R + I
Sbjct: 7 GILTENTPVFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIKI 66
Query: 131 KGVPDAVTQAIYQICLIMVDSPPKGATIPYRPLPQNAG 168
G V A + I + + I + ++G
Sbjct: 67 SGTQKEVAAAKHLILEKVSEDEELRKRIAHSASGPSSG 104
Score = 69.9 bits (171), Expect = 1e-14
Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 1/98 (1%)
Query: 517 GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASD-MLPNSTEREVNI 575
G E+ + +L VP G IIG+GG I++I + SGA + + R + I
Sbjct: 7 GILTENTPVFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIKI 66
Query: 576 KGVPDAVTQAIYQICLIMVDSPPKGATIPYRPLPQNAG 613
G V A + I + + I + ++G
Sbjct: 67 SGTQKEVAAAKHLILEKVSEDEELRKRIAHSASGPSSG 104
Score = 55.2 bits (133), Expect = 1e-09
Identities = 18/68 (26%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISD----SSTPERIVTVIGSMDSLFRAFSLITKNIE 61
VG IIG+ GET++ + + SG+KI + R++ + G+ + A LI + +
Sbjct: 26 VGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIKISGTQKEVAAAKHLILEKVS 85
Query: 62 EFHKNQNK 69
E + + +
Sbjct: 86 EDEELRKR 93
Score = 55.2 bits (133), Expect = 1e-09
Identities = 18/68 (26%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISD----SSTPERIVTVIGSMDSLFRAFSLITKNIE 506
VG IIG+ GET++ + + SG+KI + R++ + G+ + A LI + +
Sbjct: 26 VGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIKISGTQKEVAAAKHLILEKVS 85
Query: 507 EFHKNQNK 514
E + + +
Sbjct: 86 EDEELRKR 93
>1x4m_A FAR upstream element binding protein 1; KH domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
d.51.1.1
Length = 94
Score = 77.1 bits (190), Expect = 2e-17
Identities = 22/96 (22%), Positives = 44/96 (45%), Gaps = 4/96 (4%)
Query: 250 GPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSND 309
S +E+ +P G VIGKGG I ++++ +G + + + + + D
Sbjct: 3 SGSSGHGDGPGNAVQEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGA-D 61
Query: 310 RTITMTGTPDAIALAQYLINMSVELLRANLNGEGGG 345
+ + +TG P + A+ ++ EL+R +G G
Sbjct: 62 KPLRITGDPYKVQQAKEMVL---ELIRDQGSGPSSG 94
Score = 77.1 bits (190), Expect = 2e-17
Identities = 22/96 (22%), Positives = 44/96 (45%), Gaps = 4/96 (4%)
Query: 695 GPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSND 754
S +E+ +P G VIGKGG I ++++ +G + + + + + D
Sbjct: 3 SGSSGHGDGPGNAVQEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGA-D 61
Query: 755 RTITMTGTPDAIALAQYLINMSVELLRANLNGEGGG 790
+ + +TG P + A+ ++ EL+R +G G
Sbjct: 62 KPLRITGDPYKVQQAKEMVL---ELIRDQGSGPSSG 94
Score = 74.4 bits (183), Expect = 2e-16
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 1/87 (1%)
Query: 72 GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASD-MLPNSTEREVNI 130
G +++PAS+ G +IGKGG IK ++E +G + + D ++ + I
Sbjct: 7 GHGDGPGNAVQEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRI 66
Query: 131 KGVPDAVTQAIYQICLIMVDSPPKGAT 157
G P V QA + ++ D ++
Sbjct: 67 TGDPYKVQQAKEMVLELIRDQGSGPSS 93
Score = 74.4 bits (183), Expect = 2e-16
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 1/87 (1%)
Query: 517 GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASD-MLPNSTEREVNI 575
G +++PAS+ G +IGKGG IK ++E +G + + D ++ + I
Sbjct: 7 GHGDGPGNAVQEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRI 66
Query: 576 KGVPDAVTQAIYQICLIMVDSPPKGAT 602
G P V QA + ++ D ++
Sbjct: 67 TGDPYKVQQAKEMVLELIRDQGSGPSS 93
Score = 53.2 bits (128), Expect = 5e-09
Identities = 15/61 (24%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSSTP----ERIVTVIGSMDSLFRAFSLITKNIE 61
G +IGK GET+K+L+E +G K+ + ++ + + G + +A ++ + I
Sbjct: 26 AGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRITGDPYKVQQAKEMVLELIR 85
Query: 62 E 62
+
Sbjct: 86 D 86
Score = 53.2 bits (128), Expect = 5e-09
Identities = 15/61 (24%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSSTP----ERIVTVIGSMDSLFRAFSLITKNIE 506
G +IGK GET+K+L+E +G K+ + ++ + + G + +A ++ + I
Sbjct: 26 AGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRITGDPYKVQQAKEMVLELIR 85
Query: 507 E 507
+
Sbjct: 86 D 86
>2hh3_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA
binding protein; NMR {Homo sapiens}
Length = 106
Score = 72.9 bits (179), Expect = 9e-16
Identities = 22/83 (26%), Positives = 40/83 (48%), Gaps = 3/83 (3%)
Query: 263 TKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDAIA 322
++ VP +G VIG+ G I +I+ +G I+ + ++ ++ + G PD
Sbjct: 12 GIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQ---DDGTGPEKIAHIMGPPDRCE 68
Query: 323 LAQYLINMSVELLRANLNGEGGG 345
A +IN ++ LR+ G GG
Sbjct: 69 HAARIINDLLQSLRSGPPGPPGG 91
Score = 72.9 bits (179), Expect = 9e-16
Identities = 22/83 (26%), Positives = 40/83 (48%), Gaps = 3/83 (3%)
Query: 708 TKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDAIA 767
++ VP +G VIG+ G I +I+ +G I+ + ++ ++ + G PD
Sbjct: 12 GIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQ---DDGTGPEKIAHIMGPPDRCE 68
Query: 768 LAQYLINMSVELLRANLNGEGGG 790
A +IN ++ LR+ G GG
Sbjct: 69 HAARIINDLLQSLRSGPPGPPGG 91
Score = 71.7 bits (176), Expect = 3e-15
Identities = 24/96 (25%), Positives = 35/96 (36%), Gaps = 2/96 (2%)
Query: 81 QLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQA 140
+ + VP G +IG+ G IK I+ +G + D E+ +I G PD A
Sbjct: 12 GIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDD-GTGPEKIAHIMGPPDRCEHA 70
Query: 141 IYQICLIMVDSPPKGATIPYRPLPQNAGGPGLIGNQ 176
I ++ P P GG G Q
Sbjct: 71 ARIINDLLQSLRSGPPGPPGGP-GMPPGGRGRGRGQ 105
Score = 71.7 bits (176), Expect = 3e-15
Identities = 24/96 (25%), Positives = 35/96 (36%), Gaps = 2/96 (2%)
Query: 526 QLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQA 585
+ + VP G +IG+ G IK I+ +G + D E+ +I G PD A
Sbjct: 12 GIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDD-GTGPEKIAHIMGPPDRCEHA 70
Query: 586 IYQICLIMVDSPPKGATIPYRPLPQNAGGPGLIGNQ 621
I ++ P P GG G Q
Sbjct: 71 ARIINDLLQSLRSGPPGPPGGP-GMPPGGRGRGRGQ 105
Score = 66.3 bits (162), Expect = 2e-13
Identities = 26/95 (27%), Positives = 43/95 (45%), Gaps = 12/95 (12%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYIS--DSSTPERIVTVIGSMDSLFRAFSLITKNIEEF 63
VG +IG+SGE +KK++ ++G +I D + PE+I ++G D A +I ++
Sbjct: 22 VGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDRCEHAARIINDLLQSL 81
Query: 64 HKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKG 98
GG G +P G G+G
Sbjct: 82 RSGPPGPPGGPG----------MPPGGRGRGRGQG 106
Score = 66.3 bits (162), Expect = 2e-13
Identities = 26/95 (27%), Positives = 43/95 (45%), Gaps = 12/95 (12%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYIS--DSSTPERIVTVIGSMDSLFRAFSLITKNIEEF 508
VG +IG+SGE +KK++ ++G +I D + PE+I ++G D A +I ++
Sbjct: 22 VGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDRCEHAARIINDLLQSL 81
Query: 509 HKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKG 543
GG G +P G G+G
Sbjct: 82 RSGPPGPPGGPG----------MPPGGRGRGRGQG 106
>2cte_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 94
Score = 66.3 bits (162), Expect = 1e-13
Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 5/78 (6%)
Query: 256 NQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMT 315
+ Q Q + + +P E VIGK G K+ ++ + I+I + D I +T
Sbjct: 11 ARLQTQASATVAIPKEHHRFVIGKNGEKLQDLELKTATKIQIPRP-----DDPSNQIKIT 65
Query: 316 GTPDAIALAQYLINMSVE 333
GT + I A++ + +
Sbjct: 66 GTKEGIEKARHEVLLISA 83
Score = 66.3 bits (162), Expect = 1e-13
Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 5/78 (6%)
Query: 701 NQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMT 760
+ Q Q + + +P E VIGK G K+ ++ + I+I + D I +T
Sbjct: 11 ARLQTQASATVAIPKEHHRFVIGKNGEKLQDLELKTATKIQIPRP-----DDPSNQIKIT 65
Query: 761 GTPDAIALAQYLINMSVE 778
GT + I A++ + +
Sbjct: 66 GTKEGIEKARHEVLLISA 83
Score = 56.3 bits (136), Expect = 5e-10
Identities = 11/69 (15%), Positives = 30/69 (43%), Gaps = 3/69 (4%)
Query: 80 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 139
+ +P +IGK G +++ + + + + P+ ++ I G + + +
Sbjct: 17 ASATVAIPKEHHRFVIGKNGEKLQDLELKTATKIQIPR---PDDPSNQIKITGTKEGIEK 73
Query: 140 AIYQICLIM 148
A +++ LI
Sbjct: 74 ARHEVLLIS 82
Score = 56.3 bits (136), Expect = 5e-10
Identities = 11/69 (15%), Positives = 30/69 (43%), Gaps = 3/69 (4%)
Query: 525 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 584
+ +P +IGK G +++ + + + + P+ ++ I G + + +
Sbjct: 17 ASATVAIPKEHHRFVIGKNGEKLQDLELKTATKIQIPR---PDDPSNQIKITGTKEGIEK 73
Query: 585 AIYQICLIM 593
A +++ LI
Sbjct: 74 ARHEVLLIS 82
Score = 55.5 bits (134), Expect = 9e-10
Identities = 14/61 (22%), Positives = 28/61 (45%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEFHK 65
+IGK+GE ++ L ++ +KI I P + + G+ + + +A + E K
Sbjct: 28 HRFVIGKNGEKLQDLELKTATKIQIPRPDDPSNQIKITGTKEGIEKARHEVLLISAEQDK 87
Query: 66 N 66
Sbjct: 88 R 88
Score = 55.5 bits (134), Expect = 9e-10
Identities = 14/61 (22%), Positives = 28/61 (45%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEFHK 510
+IGK+GE ++ L ++ +KI I P + + G+ + + +A + E K
Sbjct: 28 HRFVIGKNGEKLQDLELKTATKIQIPRPDDPSNQIKITGTKEGIEKARHEVLLISAEQDK 87
Query: 511 N 511
Sbjct: 88 R 88
>2ctk_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 104
Score = 62.9 bits (153), Expect = 3e-12
Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 5/81 (6%)
Query: 257 QQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTG 316
+ +T E+ VP +L VIG+ G+ I ++ I + + I +TG
Sbjct: 12 EALVPVTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPAP-----ELQSDIIAITG 66
Query: 317 TPDAIALAQYLINMSVELLRA 337
+ A+ + V+ L+A
Sbjct: 67 LAANLDRAKAGLLERVKELQA 87
Score = 62.9 bits (153), Expect = 3e-12
Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 5/81 (6%)
Query: 702 QQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTG 761
+ +T E+ VP +L VIG+ G+ I ++ I + + I +TG
Sbjct: 12 EALVPVTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPAP-----ELQSDIIAITG 66
Query: 762 TPDAIALAQYLINMSVELLRA 782
+ A+ + V+ L+A
Sbjct: 67 LAANLDRAKAGLLERVKELQA 87
Score = 53.6 bits (129), Expect = 6e-09
Identities = 14/74 (18%), Positives = 32/74 (43%)
Query: 4 KEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEF 63
+IG+ G ++K+ +E I++ I+ + G +L RA + + + ++E
Sbjct: 26 DLHRYVIGQKGSGIRKMMDEFEVNIHVPAPELQSDIIAITGLAANLDRAKAGLLERVKEL 85
Query: 64 HKNQNKHLGGNGES 77
Q + +S
Sbjct: 86 QAEQEDRALRSFKS 99
Score = 53.6 bits (129), Expect = 6e-09
Identities = 14/74 (18%), Positives = 32/74 (43%)
Query: 449 KEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEF 508
+IG+ G ++K+ +E I++ I+ + G +L RA + + + ++E
Sbjct: 26 DLHRYVIGQKGSGIRKMMDEFEVNIHVPAPELQSDIIAITGLAANLDRAKAGLLERVKEL 85
Query: 509 HKNQNKHLGGNGES 522
Q + +S
Sbjct: 86 QAEQEDRALRSFKS 99
Score = 51.0 bits (122), Expect = 4e-08
Identities = 12/65 (18%), Positives = 29/65 (44%), Gaps = 3/65 (4%)
Query: 80 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 139
+ + + VP +IG+ GS I+ + + +++V + P + I G+ + +
Sbjct: 17 VTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPA---PELQSDIIAITGLAANLDR 73
Query: 140 AIYQI 144
A +
Sbjct: 74 AKAGL 78
Score = 51.0 bits (122), Expect = 4e-08
Identities = 12/65 (18%), Positives = 29/65 (44%), Gaps = 3/65 (4%)
Query: 525 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 584
+ + + VP +IG+ GS I+ + + +++V + P + I G+ + +
Sbjct: 17 VTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPA---PELQSDIIAITGLAANLDR 73
Query: 585 AIYQI 589
A +
Sbjct: 74 AKAGL 78
>2qnd_A FMR1 protein; KH domain, eukaryotic KH domains, tandem KH domains,
type I domains, fragIle X mental retardation protein,
RNA BI protein; 1.90A {Homo sapiens} PDB: 2fmr_A
Length = 144
Score = 63.9 bits (155), Expect = 4e-12
Identities = 24/144 (16%), Positives = 45/144 (31%), Gaps = 27/144 (18%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEFHK 65
+G IG G +++ R+ G D + G +
Sbjct: 15 MGLAIGTHGANIQQARKVPGVTAIDLDED--TCTFHIYGEDQDAVKK------------- 59
Query: 66 NQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGAS-VYVASDMLPNST 124
+ + + VP + G +IGK G I+ I + SG V + ++ N
Sbjct: 60 -------ARSFLEFAEDVIQVPRNLVGKVIGKNGKLIQEIVDKSGVVRVRIEAENEKNVP 112
Query: 125 ER----EVNIKGVPDAVTQAIYQI 144
+ G D++ A +
Sbjct: 113 QEEGMVPFVFVGTKDSIANATVLL 136
Score = 63.9 bits (155), Expect = 4e-12
Identities = 24/144 (16%), Positives = 45/144 (31%), Gaps = 27/144 (18%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEFHK 510
+G IG G +++ R+ G D + G +
Sbjct: 15 MGLAIGTHGANIQQARKVPGVTAIDLDED--TCTFHIYGEDQDAVKK------------- 59
Query: 511 NQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGAS-VYVASDMLPNST 569
+ + + VP + G +IGK G I+ I + SG V + ++ N
Sbjct: 60 -------ARSFLEFAEDVIQVPRNLVGKVIGKNGKLIQEIVDKSGVVRVRIEAENEKNVP 112
Query: 570 ER----EVNIKGVPDAVTQAIYQI 589
+ G D++ A +
Sbjct: 113 QEEGMVPFVFVGTKDSIANATVLL 136
Score = 56.2 bits (135), Expect = 2e-09
Identities = 26/88 (29%), Positives = 39/88 (44%), Gaps = 5/88 (5%)
Query: 253 QKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDR-- 310
+K + VP L+G VIGK G I EI SG +R+ +E E++
Sbjct: 58 KKARSFLEFAEDVIQVPRNLVGKVIGKNGKLIQEIVDKSGV-VRVRIEAENEKNVPQEEG 116
Query: 311 --TITMTGTPDAIALAQYLINMSVELLR 336
GT D+IA A L++ + L+
Sbjct: 117 MVPFVFVGTKDSIANATVLLDYHLNYLK 144
Score = 56.2 bits (135), Expect = 2e-09
Identities = 26/88 (29%), Positives = 39/88 (44%), Gaps = 5/88 (5%)
Query: 698 QKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDR-- 755
+K + VP L+G VIGK G I EI SG +R+ +E E++
Sbjct: 58 KKARSFLEFAEDVIQVPRNLVGKVIGKNGKLIQEIVDKSGV-VRVRIEAENEKNVPQEEG 116
Query: 756 --TITMTGTPDAIALAQYLINMSVELLR 781
GT D+IA A L++ + L+
Sbjct: 117 MVPFVFVGTKDSIANATVLLDYHLNYLK 144
Score = 46.9 bits (111), Expect = 3e-06
Identities = 13/69 (18%), Positives = 24/69 (34%), Gaps = 7/69 (10%)
Query: 260 NQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPD 319
++ ++ V +L+G IG G I + RK+ G + D + T + G
Sbjct: 2 SRFHEQFIVREDLMGLAIGTHGANIQQARKVPGVTAI-------DLDEDTCTFHIYGEDQ 54
Query: 320 AIALAQYLI 328
Sbjct: 55 DAVKKARSF 63
Score = 46.9 bits (111), Expect = 3e-06
Identities = 13/69 (18%), Positives = 24/69 (34%), Gaps = 7/69 (10%)
Query: 705 NQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPD 764
++ ++ V +L+G IG G I + RK+ G + D + T + G
Sbjct: 2 SRFHEQFIVREDLMGLAIGTHGANIQQARKVPGVTAI-------DLDEDTCTFHIYGEDQ 54
Query: 765 AIALAQYLI 773
Sbjct: 55 DAVKKARSF 63
Score = 39.2 bits (91), Expect = 0.001
Identities = 11/63 (17%), Positives = 19/63 (30%), Gaps = 5/63 (7%)
Query: 83 RLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQAIY 142
+ IV G IG G+ I+ R+ G + + +I G +
Sbjct: 7 QFIVREDLMGLAIGTHGANIQQARKVPGVTAIDLDE-----DTCTFHIYGEDQDAVKKAR 61
Query: 143 QIC 145
Sbjct: 62 SFL 64
Score = 39.2 bits (91), Expect = 0.001
Identities = 11/63 (17%), Positives = 19/63 (30%), Gaps = 5/63 (7%)
Query: 528 RLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQAIY 587
+ IV G IG G+ I+ R+ G + + +I G +
Sbjct: 7 QFIVREDLMGLAIGTHGANIQQARKVPGVTAIDLDE-----DTCTFHIYGEDQDAVKKAR 61
Query: 588 QIC 590
Sbjct: 62 SFL 64
>2e3u_A PH-DIM2P, hypothetical protein PH1566; PRE-ribosomal RNA processing
factor, RNA binding protein; 2.30A {Pyrococcus
horikoshii} PDB: 3aev_B
Length = 219
Score = 64.7 bits (157), Expect = 9e-12
Identities = 35/158 (22%), Positives = 56/158 (35%), Gaps = 18/158 (11%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYI--SDSSTPERIVTVIGSMDSLFRAFSLITKNIEEF 63
+ +IGK G+T K++ + + +KI I ++++A ++ F
Sbjct: 45 IAVLIGKKGQTKKEIEKRTKTKITIDSETGEVWITSTKETEDPLAVWKARDIVLAIGRGF 104
Query: 64 HKNQNKHL--------GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYV 115
+ L N +I G IIG+ G + I E SGASV V
Sbjct: 105 SPERAFRLLNEGEYLEIINLTDIIIGNEKNALPRVRGRIIGRKGRTRQIIEEMSGASVSV 164
Query: 116 ASDMLPNSTEREVNIKGVPDAVTQAIYQICLIMVDSPP 153
+ V I G P + A I + SP
Sbjct: 165 Y--------GKTVAIIGNPIQIEIAKTAIEKLARGSPH 194
Score = 64.7 bits (157), Expect = 9e-12
Identities = 35/158 (22%), Positives = 56/158 (35%), Gaps = 18/158 (11%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYI--SDSSTPERIVTVIGSMDSLFRAFSLITKNIEEF 508
+ +IGK G+T K++ + + +KI I ++++A ++ F
Sbjct: 45 IAVLIGKKGQTKKEIEKRTKTKITIDSETGEVWITSTKETEDPLAVWKARDIVLAIGRGF 104
Query: 509 HKNQNKHL--------GGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYV 560
+ L N +I G IIG+ G + I E SGASV V
Sbjct: 105 SPERAFRLLNEGEYLEIINLTDIIIGNEKNALPRVRGRIIGRKGRTRQIIEEMSGASVSV 164
Query: 561 ASDMLPNSTEREVNIKGVPDAVTQAIYQICLIMVDSPP 598
+ V I G P + A I + SP
Sbjct: 165 Y--------GKTVAIIGNPIQIEIAKTAIEKLARGSPH 194
Score = 48.5 bits (115), Expect = 2e-06
Identities = 26/139 (18%), Positives = 50/139 (35%), Gaps = 16/139 (11%)
Query: 234 RNQNQNQNQ-HNRNNRDGPSQKTNQQQNQITKE---MTVPNELIGAVIGKGGTKIFEIRK 289
+ + + N+DG + + + K+ + +P + I +IGK G EI K
Sbjct: 2 GEEFEKLMKKFENVNKDGEIVEDEDEWEEFFKQEEYVKIPKDRIAVLIGKKGQTKKEIEK 61
Query: 290 ISGAMIRISKSSEEEEDSNDRTITMTGTPDAIALAQYLINM---------SVELLRANLN 340
+ I I E + + T P A+ A+ ++ + LL
Sbjct: 62 RTKTKITI---DSETGEVWITSTKETEDPLAVWKARDIVLAIGRGFSPERAFRLLNEGEY 118
Query: 341 GEGGGESNMDDFSSDNNLP 359
E +++ + N LP
Sbjct: 119 LEIINLTDIIIGNEKNALP 137
Score = 48.5 bits (115), Expect = 2e-06
Identities = 26/139 (18%), Positives = 50/139 (35%), Gaps = 16/139 (11%)
Query: 679 RNQNQNQNQ-HNRNNRDGPSQKTNQQQNQITKE---MTVPNELIGAVIGKGGTKIFEIRK 734
+ + + N+DG + + + K+ + +P + I +IGK G EI K
Sbjct: 2 GEEFEKLMKKFENVNKDGEIVEDEDEWEEFFKQEEYVKIPKDRIAVLIGKKGQTKKEIEK 61
Query: 735 ISGAMIRISKSSEEEEDSNDRTITMTGTPDAIALAQYLINM---------SVELLRANLN 785
+ I I E + + T P A+ A+ ++ + LL
Sbjct: 62 RTKTKITI---DSETGEVWITSTKETEDPLAVWKARDIVLAIGRGFSPERAFRLLNEGEY 118
Query: 786 GEGGGESNMDDFSSDNNLP 804
E +++ + N LP
Sbjct: 119 LEIINLTDIIIGNEKNALP 137
Score = 43.5 bits (102), Expect = 1e-04
Identities = 17/75 (22%), Positives = 29/75 (38%), Gaps = 10/75 (13%)
Query: 256 NQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMT 315
N I E + G +IG+ G I ++SGA + + +T+ +
Sbjct: 123 NLTDIIIGNEKNALPRVRGRIIGRKGRTRQIIEEMSGASVSVY----------GKTVAII 172
Query: 316 GTPDAIALAQYLINM 330
G P I +A+ I
Sbjct: 173 GNPIQIEIAKTAIEK 187
Score = 43.5 bits (102), Expect = 1e-04
Identities = 17/75 (22%), Positives = 29/75 (38%), Gaps = 10/75 (13%)
Query: 701 NQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMT 760
N I E + G +IG+ G I ++SGA + + +T+ +
Sbjct: 123 NLTDIIIGNEKNALPRVRGRIIGRKGRTRQIIEEMSGASVSVY----------GKTVAII 172
Query: 761 GTPDAIALAQYLINM 775
G P I +A+ I
Sbjct: 173 GNPIQIEIAKTAIEK 187
Score = 41.2 bits (96), Expect = 6e-04
Identities = 17/100 (17%), Positives = 33/100 (33%), Gaps = 6/100 (6%)
Query: 57 TKNIEEFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVA 116
K+ E + + ++ +P + +IGK G K I + + + +
Sbjct: 16 NKDGEIVEDEDEWE-EFFKQEEYVK----IPKDRIAVLIGKKGQTKKEIEKRTKTKITID 70
Query: 117 SDMLPNSTEREVNIKGVPDAVTQAIYQICLIMVDSPPKGA 156
S+ P AV +A + I P+ A
Sbjct: 71 SETGEV-WITSTKETEDPLAVWKARDIVLAIGRGFSPERA 109
Score = 41.2 bits (96), Expect = 6e-04
Identities = 17/100 (17%), Positives = 33/100 (33%), Gaps = 6/100 (6%)
Query: 502 TKNIEEFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVA 561
K+ E + + ++ +P + +IGK G K I + + + +
Sbjct: 16 NKDGEIVEDEDEWE-EFFKQEEYVK----IPKDRIAVLIGKKGQTKKEIEKRTKTKITID 70
Query: 562 SDMLPNSTEREVNIKGVPDAVTQAIYQICLIMVDSPPKGA 601
S+ P AV +A + I P+ A
Sbjct: 71 SETGEV-WITSTKETEDPLAVWKARDIVLAIGRGFSPERA 109
Score = 38.1 bits (88), Expect = 0.006
Identities = 17/75 (22%), Positives = 30/75 (40%), Gaps = 5/75 (6%)
Query: 432 NIQTTGVQRRMRHIMQGKEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSM 491
I T + + G IIG+ G T + + E SG+ + + + V +IG+
Sbjct: 121 IINLTDIIIGNEKNALPRVRGRIIGRKGRTRQIIEEMSGASVSVYG-----KTVAIIGNP 175
Query: 492 DSLFRAFSLITKNIE 506
+ A + I K
Sbjct: 176 IQIEIAKTAIEKLAR 190
>2ctl_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 97
Score = 60.2 bits (146), Expect = 2e-11
Identities = 16/82 (19%), Positives = 30/82 (36%), Gaps = 2/82 (2%)
Query: 252 SQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRT 311
++ ++ +TV + +IG+ G I +IR I+ + +
Sbjct: 7 GEQEDRALRSFKLSVTVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQ--DQ 64
Query: 312 ITMTGTPDAIALAQYLINMSVE 333
IT+TG A+ I V
Sbjct: 65 ITITGYEKNTEAARDAILRIVG 86
Score = 60.2 bits (146), Expect = 2e-11
Identities = 16/82 (19%), Positives = 30/82 (36%), Gaps = 2/82 (2%)
Query: 697 SQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRT 756
++ ++ +TV + +IG+ G I +IR I+ + +
Sbjct: 7 GEQEDRALRSFKLSVTVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQ--DQ 64
Query: 757 ITMTGTPDAIALAQYLINMSVE 778
IT+TG A+ I V
Sbjct: 65 ITITGYEKNTEAARDAILRIVG 86
Score = 51.4 bits (123), Expect = 2e-08
Identities = 15/69 (21%), Positives = 25/69 (36%)
Query: 80 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 139
+L + V IIG+ G+ I IR ++ N + ++ I G
Sbjct: 17 FKLSVTVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITGYEKNTEA 76
Query: 140 AIYQICLIM 148
A I I+
Sbjct: 77 ARDAILRIV 85
Score = 51.4 bits (123), Expect = 2e-08
Identities = 15/69 (21%), Positives = 25/69 (36%)
Query: 525 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 584
+L + V IIG+ G+ I IR ++ N + ++ I G
Sbjct: 17 FKLSVTVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITGYEKNTEA 76
Query: 585 AIYQICLIM 593
A I I+
Sbjct: 77 ARDAILRIV 85
Score = 48.3 bits (115), Expect = 4e-07
Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 3/66 (4%)
Query: 4 KEVGSIIGKSGETVKKLREESGSKIYISDS---STPERIVTVIGSMDSLFRAFSLITKNI 60
K IIG+ G + ++R E I D + P+ +T+ G + A I + +
Sbjct: 26 KYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITGYEKNTEAARDAILRIV 85
Query: 61 EEFHKN 66
E +
Sbjct: 86 GELEQM 91
Score = 48.3 bits (115), Expect = 4e-07
Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 3/66 (4%)
Query: 449 KEVGSIIGKSGETVKKLREESGSKIYISDS---STPERIVTVIGSMDSLFRAFSLITKNI 505
K IIG+ G + ++R E I D + P+ +T+ G + A I + +
Sbjct: 26 KYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITGYEKNTEAARDAILRIV 85
Query: 506 EEFHKN 511
E +
Sbjct: 86 GELEQM 91
>1tua_A Hypothetical protein APE0754; structural genomics, protein
structure initiative, MCSG, four layers alpha-beta
sandwich, PSI; 1.50A {Aeropyrum pernix} SCOP: d.51.1.1
d.51.1.1
Length = 191
Score = 62.3 bits (151), Expect = 3e-11
Identities = 29/157 (18%), Positives = 55/157 (35%), Gaps = 17/157 (10%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMD--SLFRAFSLITKNIEEF 63
+G++IG GE ++ +G+ I + ++ + + +L +A ++ F
Sbjct: 15 LGAVIGPRGEVKAEIMRRTGTVITVDTENSMVIVEPEAEGIPPVNLMKAAEVVKAISLGF 74
Query: 64 HKNQNKHLGGNG-------ESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVA 116
+ L Q++ G IIG+GG +TI E + + V
Sbjct: 75 PPEKAFRLLEEDQILVVVDLKQVVGDSQNHLKRIKGRIIGEGGRARRTIEEMTDTYINVG 134
Query: 117 SDMLPNSTEREVNIKGVPDAVTQAIYQICLIMVDSPP 153
E EV I G + A I ++
Sbjct: 135 --------EYEVAIIGDYERAMAAKQAIEMLAEGRMH 163
Score = 62.3 bits (151), Expect = 3e-11
Identities = 29/157 (18%), Positives = 55/157 (35%), Gaps = 17/157 (10%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMD--SLFRAFSLITKNIEEF 508
+G++IG GE ++ +G+ I + ++ + + +L +A ++ F
Sbjct: 15 LGAVIGPRGEVKAEIMRRTGTVITVDTENSMVIVEPEAEGIPPVNLMKAAEVVKAISLGF 74
Query: 509 HKNQNKHLGGNG-------ESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVA 561
+ L Q++ G IIG+GG +TI E + + V
Sbjct: 75 PPEKAFRLLEEDQILVVVDLKQVVGDSQNHLKRIKGRIIGEGGRARRTIEEMTDTYINVG 134
Query: 562 SDMLPNSTEREVNIKGVPDAVTQAIYQICLIMVDSPP 598
E EV I G + A I ++
Sbjct: 135 --------EYEVAIIGDYERAMAAKQAIEMLAEGRMH 163
Score = 43.1 bits (101), Expect = 1e-04
Identities = 15/70 (21%), Positives = 25/70 (35%), Gaps = 3/70 (4%)
Query: 261 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 320
+ + V E +GAVIG G EI + +G +I + E P
Sbjct: 3 KPRIYVKVKPERLGAVIGPRGEVKAEIMRRTGTVITV---DTENSMVIVEPEAEGIPPVN 59
Query: 321 IALAQYLINM 330
+ A ++
Sbjct: 60 LMKAAEVVKA 69
Score = 43.1 bits (101), Expect = 1e-04
Identities = 15/70 (21%), Positives = 25/70 (35%), Gaps = 3/70 (4%)
Query: 706 QITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDA 765
+ + V E +GAVIG G EI + +G +I + E P
Sbjct: 3 KPRIYVKVKPERLGAVIGPRGEVKAEIMRRTGTVITV---DTENSMVIVEPEAEGIPPVN 59
Query: 766 IALAQYLINM 775
+ A ++
Sbjct: 60 LMKAAEVVKA 69
Score = 39.2 bits (91), Expect = 0.003
Identities = 15/81 (18%), Positives = 32/81 (39%), Gaps = 11/81 (13%)
Query: 81 QLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGV-----PD 135
++ + V + G++IG G I +G + V ++ V ++ P
Sbjct: 5 RIYVKVKPERLGAVIGPRGEVKAEIMRRTGTVITV------DTENSMVIVEPEAEGIPPV 58
Query: 136 AVTQAIYQICLIMVDSPPKGA 156
+ +A + I + PP+ A
Sbjct: 59 NLMKAAEVVKAISLGFPPEKA 79
Score = 39.2 bits (91), Expect = 0.003
Identities = 15/81 (18%), Positives = 32/81 (39%), Gaps = 11/81 (13%)
Query: 526 QLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGV-----PD 580
++ + V + G++IG G I +G + V ++ V ++ P
Sbjct: 5 RIYVKVKPERLGAVIGPRGEVKAEIMRRTGTVITV------DTENSMVIVEPEAEGIPPV 58
Query: 581 AVTQAIYQICLIMVDSPPKGA 601
+ +A + I + PP+ A
Sbjct: 59 NLMKAAEVVKAISLGFPPEKA 79
Score = 38.8 bits (90), Expect = 0.003
Identities = 11/62 (17%), Positives = 23/62 (37%), Gaps = 10/62 (16%)
Query: 269 PNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDAIALAQYLI 328
+ G +IG+GG I +++ I + + + + G + A+ I
Sbjct: 105 LKRIKGRIIGEGGRARRTIEEMTDTYINVG----------EYEVAIIGDYERAMAAKQAI 154
Query: 329 NM 330
M
Sbjct: 155 EM 156
Score = 38.8 bits (90), Expect = 0.003
Identities = 11/62 (17%), Positives = 23/62 (37%), Gaps = 10/62 (16%)
Query: 714 PNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDAIALAQYLI 773
+ G +IG+GG I +++ I + + + + G + A+ I
Sbjct: 105 LKRIKGRIIGEGGRARRTIEEMTDTYINVG----------EYEVAIIGDYERAMAAKQAI 154
Query: 774 NM 775
M
Sbjct: 155 EM 156
>2dgr_A Ring finger and KH domain-containing protein 1; structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 83
Score = 56.5 bits (136), Expect = 3e-10
Identities = 19/83 (22%), Positives = 34/83 (40%), Gaps = 6/83 (7%)
Query: 259 QNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTP 318
Q T ++ VP ++G V+G G I I++ + I +E +TG P
Sbjct: 7 GGQTTIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTPGRDKE------PVFAVTGMP 60
Query: 319 DAIALAQYLINMSVELLRANLNG 341
+ + A+ I + L +G
Sbjct: 61 ENVDRAREEIEAHITLRSGPSSG 83
Score = 56.5 bits (136), Expect = 3e-10
Identities = 19/83 (22%), Positives = 34/83 (40%), Gaps = 6/83 (7%)
Query: 704 QNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTP 763
Q T ++ VP ++G V+G G I I++ + I +E +TG P
Sbjct: 7 GGQTTIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTPGRDKE------PVFAVTGMP 60
Query: 764 DAIALAQYLINMSVELLRANLNG 786
+ + A+ I + L +G
Sbjct: 61 ENVDRAREEIEAHITLRSGPSSG 83
Score = 48.8 bits (116), Expect = 1e-07
Identities = 14/65 (21%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 80 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 139
+++ VP G ++G G+ IK I++ + + E + G+P+ V +
Sbjct: 10 TTIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTPGR----DKEPVFAVTGMPENVDR 65
Query: 140 AIYQI 144
A +I
Sbjct: 66 AREEI 70
Score = 48.8 bits (116), Expect = 1e-07
Identities = 14/65 (21%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 525 IQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQ 584
+++ VP G ++G G+ IK I++ + + E + G+P+ V +
Sbjct: 10 TTIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTPGR----DKEPVFAVTGMPENVDR 65
Query: 585 AIYQI 589
A +I
Sbjct: 66 AREEI 70
Score = 47.3 bits (112), Expect = 6e-07
Identities = 14/60 (23%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 3 GKEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEE 62
+ VG ++G G T+K++++ + + I E + V G +++ RA I +I
Sbjct: 18 YRVVGLVVGPKGATIKRIQQRTHTYIVTPGRDK-EPVFAVTGMPENVDRAREEIEAHITL 76
Score = 47.3 bits (112), Expect = 6e-07
Identities = 14/60 (23%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 448 GKEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEE 507
+ VG ++G G T+K++++ + + I E + V G +++ RA I +I
Sbjct: 18 YRVVGLVVGPKGATIKRIQQRTHTYIVTPGRDK-EPVFAVTGMPENVDRAREEIEAHITL 76
>2ctm_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 95
Score = 55.2 bits (133), Expect = 1e-09
Identities = 16/84 (19%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 256 NQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMT 315
+ + +++++ + + + +IG G I +I IR +S + +T+T
Sbjct: 11 GELEQMVSEDVPLDHRVHARIIGARGKAIRKIMDEFKVDIRFPQS----GAPDPNCVTVT 66
Query: 316 GTPDAIALA-QYLINMSVELLRAN 338
G P+ + A +++N+ E L +
Sbjct: 67 GLPENVEEAIDHILNLEEEYLADS 90
Score = 55.2 bits (133), Expect = 1e-09
Identities = 16/84 (19%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 701 NQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMT 760
+ + +++++ + + + +IG G I +I IR +S + +T+T
Sbjct: 11 GELEQMVSEDVPLDHRVHARIIGARGKAIRKIMDEFKVDIRFPQS----GAPDPNCVTVT 66
Query: 761 GTPDAIALA-QYLINMSVELLRAN 783
G P+ + A +++N+ E L +
Sbjct: 67 GLPENVEEAIDHILNLEEEYLADS 90
Score = 46.7 bits (111), Expect = 1e-06
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 1/63 (1%)
Query: 4 KEVGSIIGKSGETVKKLREESGSKIYISDS-STPERIVTVIGSMDSLFRAFSLITKNIEE 62
+ IIG G+ ++K+ +E I S + VTV G +++ A I EE
Sbjct: 26 RVHARIIGARGKAIRKIMDEFKVDIRFPQSGAPDPNCVTVTGLPENVEEAIDHILNLEEE 85
Query: 63 FHK 65
+
Sbjct: 86 YLA 88
Score = 46.7 bits (111), Expect = 1e-06
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 1/63 (1%)
Query: 449 KEVGSIIGKSGETVKKLREESGSKIYISDS-STPERIVTVIGSMDSLFRAFSLITKNIEE 507
+ IIG G+ ++K+ +E I S + VTV G +++ A I EE
Sbjct: 26 RVHARIIGARGKAIRKIMDEFKVDIRFPQSGAPDPNCVTVTGLPENVEEAIDHILNLEEE 85
Query: 508 FHK 510
+
Sbjct: 86 YLA 88
Score = 45.2 bits (107), Expect = 4e-06
Identities = 15/68 (22%), Positives = 27/68 (39%), Gaps = 2/68 (2%)
Query: 77 SQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDA 136
Q++ + + IIG G I+ I + + P+ V + G+P+
Sbjct: 14 EQMVSEDVPLDHRVHARIIGARGKAIRKIMDEFKVDIRFPQSGAPDP--NCVTVTGLPEN 71
Query: 137 VTQAIYQI 144
V +AI I
Sbjct: 72 VEEAIDHI 79
Score = 45.2 bits (107), Expect = 4e-06
Identities = 15/68 (22%), Positives = 27/68 (39%), Gaps = 2/68 (2%)
Query: 522 SQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDA 581
Q++ + + IIG G I+ I + + P+ V + G+P+
Sbjct: 14 EQMVSEDVPLDHRVHARIIGARGKAIRKIMDEFKVDIRFPQSGAPDP--NCVTVTGLPEN 71
Query: 582 VTQAIYQI 589
V +AI I
Sbjct: 72 VEEAIDHI 79
>1vig_A Vigilin; RNA-binding protein, ribonucleoprotein; NMR {Homo sapiens}
SCOP: d.51.1.1 PDB: 1vih_A
Length = 71
Score = 53.9 bits (130), Expect = 2e-09
Identities = 15/68 (22%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 77 SQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDA 136
+++ + + + +IGK G+ I I++ SV + D + + I+G P
Sbjct: 2 NRMDYVEINIDHKFHRHLIGKSGANINRIKDQYKVSVRIPPD---SEKSNLIRIEGDPQG 58
Query: 137 VTQAIYQI 144
V QA ++
Sbjct: 59 VQQAKREL 66
Score = 53.9 bits (130), Expect = 2e-09
Identities = 15/68 (22%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 522 SQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDA 581
+++ + + + +IGK G+ I I++ SV + D + + I+G P
Sbjct: 2 NRMDYVEINIDHKFHRHLIGKSGANINRIKDQYKVSVRIPPD---SEKSNLIRIEGDPQG 58
Query: 582 VTQAIYQI 589
V QA ++
Sbjct: 59 VQQAKREL 66
Score = 52.4 bits (126), Expect = 7e-09
Identities = 15/66 (22%), Positives = 26/66 (39%), Gaps = 5/66 (7%)
Query: 263 TKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDAIA 322
E+ + ++ +IGK G I I+ +RI SE I + G P +
Sbjct: 6 YVEINIDHKFHRHLIGKSGANINRIKDQYKVSVRIPPDSE-----KSNLIRIEGDPQGVQ 60
Query: 323 LAQYLI 328
A+ +
Sbjct: 61 QAKREL 66
Score = 52.4 bits (126), Expect = 7e-09
Identities = 15/66 (22%), Positives = 26/66 (39%), Gaps = 5/66 (7%)
Query: 708 TKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGTPDAIA 767
E+ + ++ +IGK G I I+ +RI SE I + G P +
Sbjct: 6 YVEINIDHKFHRHLIGKSGANINRIKDQYKVSVRIPPDSE-----KSNLIRIEGDPQGVQ 60
Query: 768 LAQYLI 773
A+ +
Sbjct: 61 QAKREL 66
Score = 51.2 bits (123), Expect = 2e-08
Identities = 10/53 (18%), Positives = 24/53 (45%)
Query: 4 KEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLI 56
K +IGKSG + +++++ + I S ++ + G + +A +
Sbjct: 14 KFHRHLIGKSGANINRIKDQYKVSVRIPPDSEKSNLIRIEGDPQGVQQAKREL 66
Score = 51.2 bits (123), Expect = 2e-08
Identities = 10/53 (18%), Positives = 24/53 (45%)
Query: 449 KEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLI 501
K +IGKSG + +++++ + I S ++ + G + +A +
Sbjct: 14 KFHRHLIGKSGANINRIKDQYKVSVRIPPDSEKSNLIRIEGDPQGVQQAKREL 66
>3n89_A Defective in GERM LINE development protein 3, ISO; KH domains, RNA
binding, cell cycle; 2.79A {Caenorhabditis elegans}
Length = 376
Score = 52.2 bits (124), Expect = 4e-07
Identities = 32/270 (11%), Positives = 72/270 (26%), Gaps = 49/270 (18%)
Query: 80 IQLRLIVPASQCGSIIGKGGSQ--IKTIRETSGASVYVASDMLPNSTERE----VNIKGV 133
+ L + + + G + +I + + + + +T V I G
Sbjct: 30 VTLNMEFESQYYSLMTSDNGDHENVASIMAETNTLIQLPDRSVGGTTPDPFAQQVTITGY 89
Query: 134 PDAVTQA---IYQICLIMVDSPPKGATIPYRPLPQNAGGPGLIGNQFGMQNSLMGAPDMG 190
V +A + + C V +P L + I N +
Sbjct: 90 FGDVDRARMLMRRNCHFTVFMALSKMKMPLHELQAHVRQN-PIQNVEMSFVDAPEKNGIV 148
Query: 191 NNPLAGLAALGLGGNSGGGMGGGLNAAALAALASSQLKTNHMPRNQNQNQNQHNRNNRDG 250
L + AA +++
Sbjct: 149 TTYL-----------RITAREKNQHELIEAAKRLNEILF--------------------- 176
Query: 251 PSQKTNQQQNQITKEMTVPNELIGAVIGKGGTK--IFEIRKISGAMIRI-SKSSEEEEDS 307
+++ +N T T+ + V+G T + I + + +I ++ E
Sbjct: 177 --RESPAPENNFTLHFTLSTYYVDQVLGSSSTAQLMPVIERETTTIISYPCYNNRNETRG 234
Query: 308 NDRTITMTGTPDAI--ALAQYLINMSVELL 335
N I + G D + A + + + +
Sbjct: 235 NIYEIKVVGNIDNVLKARRYIMDLLPISMC 264
Score = 52.2 bits (124), Expect = 4e-07
Identities = 32/270 (11%), Positives = 72/270 (26%), Gaps = 49/270 (18%)
Query: 525 IQLRLIVPASQCGSIIGKGGSQ--IKTIRETSGASVYVASDMLPNSTERE----VNIKGV 578
+ L + + + G + +I + + + + +T V I G
Sbjct: 30 VTLNMEFESQYYSLMTSDNGDHENVASIMAETNTLIQLPDRSVGGTTPDPFAQQVTITGY 89
Query: 579 PDAVTQA---IYQICLIMVDSPPKGATIPYRPLPQNAGGPGLIGNQFGMQNSLMGAPDMG 635
V +A + + C V +P L + I N +
Sbjct: 90 FGDVDRARMLMRRNCHFTVFMALSKMKMPLHELQAHVRQN-PIQNVEMSFVDAPEKNGIV 148
Query: 636 NNPLAGLAALGLGGNSGGGMGGGLNAAALAALASSQLKTNHMPRNQNQNQNQHNRNNRDG 695
L + AA +++
Sbjct: 149 TTYL-----------RITAREKNQHELIEAAKRLNEILF--------------------- 176
Query: 696 PSQKTNQQQNQITKEMTVPNELIGAVIGKGGTK--IFEIRKISGAMIRI-SKSSEEEEDS 752
+++ +N T T+ + V+G T + I + + +I ++ E
Sbjct: 177 --RESPAPENNFTLHFTLSTYYVDQVLGSSSTAQLMPVIERETTTIISYPCYNNRNETRG 234
Query: 753 NDRTITMTGTPDAI--ALAQYLINMSVELL 780
N I + G D + A + + + +
Sbjct: 235 NIYEIKVVGNIDNVLKARRYIMDLLPISMC 264
Score = 48.0 bits (113), Expect = 9e-06
Identities = 33/371 (8%), Positives = 93/371 (25%), Gaps = 62/371 (16%)
Query: 258 QQNQITKEMTVPNELIGAVIGKGGTK--IFEIRKISGAMIRI--SKSSEEEEDSNDRTIT 313
++T M ++ + G + I + +I++ D + +T
Sbjct: 26 NPTRVTLNMEFESQYYSLMTSDNGDHENVASIMAETNTLIQLPDRSVGGTTPDPFAQQVT 85
Query: 314 MTGTPDAIALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNNLPSSAPLAGLNASNPL 373
+TG + A+ L+ + + L NP+
Sbjct: 86 ITGYFGDVDRARMLMRRNCHFTV--------------FMALSKMKMPLHELQAHVRQNPI 131
Query: 374 AAALPQLAQILTKPGALNALTSLSALGGLSDLLGGGSSGGGSGNSGGFGGVPQGPNYANI 433
K G + + + +
Sbjct: 132 QNVEMSFVDAPEKNGIVTTYLRI--------------TAREKNQHELIEAAKRLNEILFR 177
Query: 434 QTTGVQRRMRHIMQ--GKEVGSIIGK--SGETVKKLREESGSKIYISDSSTPER------ 483
++ + V ++G + + + + E+ + I +
Sbjct: 178 ESPAPENNFTLHFTLSTYYVDQVLGSSSTAQLMPVIERETTTIISYPCYNNRNETRGNIY 237
Query: 484 IVTVIGSMDSLFRAFSLITKNI---EEFHKNQNKHLGGNGESQLIQLRLIVPASQCGSII 540
+ V+G++D++ +A I + F+ + V II
Sbjct: 238 EIKVVGNIDNVLKARRYIMDLLPISMCFNIKNTDMAEPSR----------VSDRNIHMII 287
Query: 541 GKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQAIYQI--CLIMVDSPP 598
+ G +K + ++ ++ N +++ + + +Y ++
Sbjct: 288 DESGIILKMTPSVYEPADLLSGEVPLNC----ASLRSKEFNIKK-LYTAYQKVLSKKFDF 342
Query: 599 KGATIPYRPLP 609
Sbjct: 343 IAPQPNDYDNS 353
Score = 44.9 bits (105), Expect = 8e-05
Identities = 11/82 (13%), Positives = 28/82 (34%), Gaps = 4/82 (4%)
Query: 703 QQNQITKEMTVPNELIGAVIGKGGTK--IFEIRKISGAMIRI--SKSSEEEEDSNDRTIT 758
++T M ++ + G + I + +I++ D + +T
Sbjct: 26 NPTRVTLNMEFESQYYSLMTSDNGDHENVASIMAETNTLIQLPDRSVGGTTPDPFAQQVT 85
Query: 759 MTGTPDAIALAQYLINMSVELL 780
+TG + A+ L+ +
Sbjct: 86 ITGYFGDVDRARMLMRRNCHFT 107
>2ctj_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 95
Score = 47.1 bits (112), Expect = 7e-07
Identities = 17/84 (20%), Positives = 30/84 (35%), Gaps = 6/84 (7%)
Query: 256 NQQQNQITKEMTVPNELIGAVIGKGGTKIFEIR-KISGAMIRISKSSEEEEDSNDRTITM 314
N E+++P +L ++IG G I I + G I E S T+ +
Sbjct: 11 KDLANIAEVEVSIPAKLHNSLIGTKGRLIRSIMEECGGVHIHFPV-----EGSGSDTVVI 65
Query: 315 TGTPDAIALAQYLINMSVELLRAN 338
G + A+ + E +
Sbjct: 66 RGPSSDVEKAKKQLLHLAEEKQTK 89
Score = 47.1 bits (112), Expect = 7e-07
Identities = 17/84 (20%), Positives = 30/84 (35%), Gaps = 6/84 (7%)
Query: 701 NQQQNQITKEMTVPNELIGAVIGKGGTKIFEIR-KISGAMIRISKSSEEEEDSNDRTITM 759
N E+++P +L ++IG G I I + G I E S T+ +
Sbjct: 11 KDLANIAEVEVSIPAKLHNSLIGTKGRLIRSIMEECGGVHIHFPV-----EGSGSDTVVI 65
Query: 760 TGTPDAIALAQYLINMSVELLRAN 783
G + A+ + E +
Sbjct: 66 RGPSSDVEKAKKQLLHLAEEKQTK 89
Score = 43.2 bits (102), Expect = 2e-05
Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 2/71 (2%)
Query: 4 KEVGSIIGKSGETVKKLREESGS-KIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEE 62
K S+IG G ++ + EE G I+ + V + G + +A + EE
Sbjct: 26 KLHNSLIGTKGRLIRSIMEECGGVHIHFPVEGSGSDTVVIRGPSSDVEKAKKQLLHLAEE 85
Query: 63 FHKNQNKHLGG 73
+ ++ G
Sbjct: 86 K-QTKSGPSSG 95
Score = 43.2 bits (102), Expect = 2e-05
Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 2/71 (2%)
Query: 449 KEVGSIIGKSGETVKKLREESGS-KIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEE 507
K S+IG G ++ + EE G I+ + V + G + +A + EE
Sbjct: 26 KLHNSLIGTKGRLIRSIMEECGGVHIHFPVEGSGSDTVVIRGPSSDVEKAKKQLLHLAEE 85
Query: 508 FHKNQNKHLGG 518
+ ++ G
Sbjct: 86 K-QTKSGPSSG 95
Score = 40.9 bits (96), Expect = 1e-04
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 4/62 (6%)
Query: 84 LIVPASQCGSIIGKGGSQIKTIRETSGA-SVYVASDMLPNSTEREVNIKGVPDAVTQAIY 142
+ +PA S+IG G I++I E G ++ S V I+G V +A
Sbjct: 21 VSIPAKLHNSLIGTKGRLIRSIMEECGGVHIHFPV---EGSGSDTVVIRGPSSDVEKAKK 77
Query: 143 QI 144
Q+
Sbjct: 78 QL 79
Score = 40.9 bits (96), Expect = 1e-04
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 4/62 (6%)
Query: 529 LIVPASQCGSIIGKGGSQIKTIRETSGA-SVYVASDMLPNSTEREVNIKGVPDAVTQAIY 587
+ +PA S+IG G I++I E G ++ S V I+G V +A
Sbjct: 21 VSIPAKLHNSLIGTKGRLIRSIMEECGGVHIHFPV---EGSGSDTVVIRGPSSDVEKAKK 77
Query: 588 QI 589
Q+
Sbjct: 78 QL 79
>2cpq_A FragIle X mental retardation syndrome related protein 1, isoform
B'; KH domain, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: d.51.1.1
Length = 91
Score = 42.8 bits (100), Expect = 2e-05
Identities = 21/85 (24%), Positives = 36/85 (42%), Gaps = 8/85 (9%)
Query: 252 SQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRT 311
S T Q +E V +L+G IG G+ I + RK+ G + E D + T
Sbjct: 5 SSGTKQLAAAFHEEFVVREDLMGLAIGTHGSNIQQARKVPGV-------TAIELDEDTGT 57
Query: 312 ITMTG-TPDAIALAQYLINMSVELL 335
+ G + DA+ A+ + + +
Sbjct: 58 FRIYGESADAVKKARGFLEFVEDFI 82
Score = 42.8 bits (100), Expect = 2e-05
Identities = 21/85 (24%), Positives = 36/85 (42%), Gaps = 8/85 (9%)
Query: 697 SQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRT 756
S T Q +E V +L+G IG G+ I + RK+ G + E D + T
Sbjct: 5 SSGTKQLAAAFHEEFVVREDLMGLAIGTHGSNIQQARKVPGV-------TAIELDEDTGT 57
Query: 757 ITMTG-TPDAIALAQYLINMSVELL 780
+ G + DA+ A+ + + +
Sbjct: 58 FRIYGESADAVKKARGFLEFVEDFI 82
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 47.2 bits (111), Expect = 3e-05
Identities = 67/434 (15%), Positives = 120/434 (27%), Gaps = 146/434 (33%)
Query: 438 VQRRMRHIMQGKEVGSIIG-----------------KSGETVKKLREESGSKIY------ 474
VQ + I+ +E+ II K E V+K EE Y
Sbjct: 38 VQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSP 97
Query: 475 ISDSST-PERIVTV-IGSMDSLFRAFSLITK-NI---EEFHKNQNKHLGGNGESQLIQLR 528
I P + + I D L+ + K N+ + + K + L++LR
Sbjct: 98 IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA---------LLELR 148
Query: 529 LIVPASQCGSII-GKGGSQIKTIRETSGASVYVASDMLPNSTERE-------VNIKGV-- 578
PA +I G G SG + L + + +N+K
Sbjct: 149 ---PAK--NVLIDGVLG---------SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS 194
Query: 579 PDAVTQAIYQICLIMVDSPPKGATIPYR-PLPQNAGGPGLIGNQFGMQNSLMGAPDMGNN 637
P+ V + + ++ + + + L ++ L L+ + N
Sbjct: 195 PETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL--------RRLLKSKPYEN- 245
Query: 638 PLAGLAALGLGGNSGGGMGGGL------NAAALAALA-SSQ-LKTNHMPRNQNQNQNQHN 689
L L NA A A S + L T
Sbjct: 246 ------CL-------------LVLLNVQNAKAWNAFNLSCKILLT--------------- 271
Query: 690 RNNRDGPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTK-IFEIRKISGAMIRISKSSEE 748
R Q T+ T +++ + + + K + K R E
Sbjct: 272 --TRF--KQVTDFLSAATTTHISLDHHSMT--LTPDEVKSLL--LKYLD--CRPQDLPRE 321
Query: 749 EEDSNDRTITMTGT--PDAIALAQY-----------LINMSVELLRANLNGEGGGESNMD 795
+N R +++ D +A +I S+ +L D
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEY-----RKMFD 376
Query: 796 D---FSSDNNLPSS 806
F ++P+
Sbjct: 377 RLSVFPPSAHIPTI 390
Score = 39.5 bits (91), Expect = 0.006
Identities = 19/112 (16%), Positives = 43/112 (38%), Gaps = 27/112 (24%)
Query: 438 VQRRMRHIMQGKEVGSIIGKSGETVKKLREESGSKIYISDSS-TPERIVTVIGSMDSLFR 496
+++++RH + SG + L++ K YI D+ ER+V
Sbjct: 503 LEQKIRH------DSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV----------- 545
Query: 497 AFSLITKNIEEFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIK 548
I +F ++L + + L+++ L+ +I + Q++
Sbjct: 546 ------NAILDFLPKIEENLICSKYTDLLRIALMAED---EAIFEEAHKQVQ 588
Score = 36.0 bits (82), Expect = 0.064
Identities = 18/106 (16%), Positives = 39/106 (36%), Gaps = 23/106 (21%)
Query: 1 MQGK--EVGSIIGKSGETVKKLREESGSKIYISDSS-TPERIVTVIGSMDSLFRAFSLIT 57
++ K + SG + L++ K YI D+ ER+V
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV----------------- 545
Query: 58 KNIEEFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIK 103
I +F ++L + + L+++ L+ +I + Q++
Sbjct: 546 NAILDFLPKIEENLICSKYTDLLRIALMAED---EAIFEEAHKQVQ 588
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 46.2 bits (109), Expect = 6e-05
Identities = 92/630 (14%), Positives = 189/630 (30%), Gaps = 210/630 (33%)
Query: 350 DDFSSDNNLPSSAPLAGLNASNPLAAALPQLAQILTKPGALNALTSLSALGGLSDLLGGG 409
+ F+ LP P G A + + + L G +++L S +G +L
Sbjct: 35 EQFNKI--LP--EPTEGFAADDEPTTPAELVGKFL---GYVSSLVEPSKVGQFDQVL--- 84
Query: 410 SSGGGSGNSGGFGGVPQGPNYANIQTTGVQRRMRHIMQGKEVGSIIGKSGETVKKLREES 469
+ ++G ++ ++
Sbjct: 85 -------------------------NLCLTEFENCYLEGNDIHALA-------------- 105
Query: 470 GSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEFHKNQNKHLGGNGESQLIQLRL 529
+K+ + +T + +I + A + + ++ S L +
Sbjct: 106 -AKLLQENDTTLVKTKELI---KNYITARIMAKRPFDKKS-----------NSALFR--- 147
Query: 530 IVPASQCGS--II----GKGGSQ-----IKTIRETSGASVYVASDMLPNSTEREVNIKGV 578
A G+ ++ G+G + ++ + +T V D++ S E +
Sbjct: 148 ---AVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLV---GDLIKFSAETLSELIRT 201
Query: 579 PDAVTQAIYQICLIM------VDSPPKG--ATIPYRPLPQNAGGPGLIG-NQFGMQNSLM 629
+ Q I+ ++P K +IP P LIG Q + ++
Sbjct: 202 TLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI-SCP-------LIGVIQLA--HYVV 251
Query: 630 GAPDMGNNPLAGLAALGLGGNSGGGMGGGLNAAALAALASS------------------- 670
A +G P G L G +G GL A A S
Sbjct: 252 TAKLLGFTP--GELRSYLKGATG--HSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG 307
Query: 671 ---QLKTNHMPRNQNQNQNQHNRNNRDGPSQKTNQQQNQITKEM----TVPNELIGAVIG 723
+ + + NN PS M + E + +
Sbjct: 308 VRCYEAYPNTSLPPSILE-DSLENNEGVPSP------------MLSISNLTQEQVQDYVN 354
Query: 724 KGGTKIFEIRKISGAMIRISKSSEEEEDSN-DRTITMTGTPDAIALAQYLINMSVELLRA 782
K + + +++ +++ N + + ++G P +L Y +N+++ +A
Sbjct: 355 KTNSHLPAGKQVEISLV------------NGAKNLVVSGPP--QSL--YGLNLTLRKAKA 398
Query: 783 NLNGEGGGESNMDDFS------SDNNLPSSAP-----LAGLNASNPLAAALPQLAQILTK 831
G + + FS S+ LP ++P L AS+ + L + +
Sbjct: 399 ----PSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVP--ASDLINKDLVK-NNVSFN 451
Query: 832 PAGL--------NASNP--LAAAL-PQLA-QILTKPGALN--ALTSLSALGGLSDLLGGG 877
+ + S+ L+ ++ ++ I+ P + T A L D
Sbjct: 452 AKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLP--VKWETTTQFKATHIL-DF---- 504
Query: 878 SSGGGSGNSGGFGGVPQGPNYANIQTTGVQ 907
G G + G G + N TGV+
Sbjct: 505 ----GPGGASGLGVLTH----RNKDGTGVR 526
Score = 39.6 bits (92), Expect = 0.006
Identities = 92/542 (16%), Positives = 163/542 (30%), Gaps = 181/542 (33%)
Query: 115 VASDMLPNSTEREVNIKGVPDAVTQAIYQICLIMVDSPPKGATIPYRPLPQNA------- 167
+A+ +L + V K + + ++ A P+ +A
Sbjct: 104 LAAKLLQENDTTLVKTK----ELIKNYITARIM--------AKRPFDKKSNSALFRAVGE 151
Query: 168 GGPGLIGNQFGMQNSLMGAPDMGNN--PLAGLAALGLGGNSGGGMGGGL---NAAALAAL 222
G L+ FG Q GN L L + + G L +A L+ L
Sbjct: 152 GNAQLVA-IFGGQ---------GNTDDYFEELRDLY---QTYHVLVGDLIKFSAETLSEL 198
Query: 223 ASSQLKTN-HMPRNQNQNQNQHNRNNRDGPSQKTNQQQNQITKEMTVPNELIG------- 274
+ L + N + N +N P + ++ ++ P LIG
Sbjct: 199 IRTTLDAEKVFTQGLNILEWLENPSNT--PDK-----DYLLSIPISCP--LIGVIQLAHY 249
Query: 275 AVIGK-GGTKIFEIRK------------ISGAMIRISKSSEEEEDSNDRTITM---TG-- 316
V K G E+R ++ I + S E S + IT+ G
Sbjct: 250 VVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVR 309
Query: 317 ----TPDAIALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNNLPSSAPLAGLNASNP 372
P+ +L ++ S+E N EG S M S +NL +N +N
Sbjct: 310 CYEAYPN-TSLPPSILEDSLE------NNEGV-PSPM---LSISNLTQEQVQDYVNKTN- 357
Query: 373 LAAALPQLAQILTKPGAL-NALTSL------SALGGLSDLLGGGSSGGGSGNSGGFGGVP 425
+ LP Q+ +L N +L +L GL+ L P
Sbjct: 358 --SHLPAGKQVEI---SLVNGAKNLVVSGPPQSLYGLNLTLRKAK-------------AP 399
Query: 426 QGPNYANIQTTGVQRRMRHIMQGKEVGSIIGKSGETVKKLREESGSKIYISDS----STP 481
G + Q R+ S K+ S+ ++P
Sbjct: 400 SGLD---------QSRIPF------------------------SERKLKFSNRFLPVASP 426
Query: 482 ----------ERIVTVIGSMDSLFRAFSLITKNIEEFHKNQNKHL---GGNGESQLIQLR 528
+ I + + F A + I + L G+ +++
Sbjct: 427 FHSHLLVPASDLINKDLVKNNVSFNAKDI---QIPVYDTFDGSDLRVLSGSISERIVDCI 483
Query: 529 LIVP-----ASQCGS--II--GKGGSQ-----IKTIRETSGASVYVASDMLPNSTEREVN 574
+ +P +Q + I+ G GG+ ++ +G V VA + N + +
Sbjct: 484 IRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDD-DYG 542
Query: 575 IK 576
K
Sbjct: 543 FK 544
Score = 37.0 bits (85), Expect = 0.035
Identities = 59/330 (17%), Positives = 99/330 (30%), Gaps = 128/330 (38%)
Query: 44 GS------MDSLFRAFSLITKNIEEFHKNQNKHLGGN-GESQLIQLRLIV---PASQCGS 93
GS MD L++ +++ +++ + H G S + IV P +
Sbjct: 1625 GSQEQGMGMD-LYKTSKAA-QDV--WNR-ADNHFKDTYGFS----ILDIVINNPVNL--- 1672
Query: 94 IIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQAIYQICLIMVDSPP 153
I GG + K IRE A ++ ++ + E K + + T +
Sbjct: 1673 TIHFGGEKGKRIRENYSAMIF--ETIVDGKLKTEKIFKEINEHSTSYTF--------RSE 1722
Query: 154 KG---ATIPYRPLPQNAGGPGLIGNQ---FGMQNSLMGAPDM---GNNPLAGLAALG--L 202
KG AT Q Q M+ + D+ G P A G L
Sbjct: 1723 KGLLSAT-------QFT--------QPALTLMEKAAFE--DLKSKGLIPADATFA-GHSL 1764
Query: 203 GGNSGGGMGGGLNAAALAALASS--------------QLKTNHMPRNQNQNQNQHNRNNR 248
G + ALA+LA +PR ++ R+N
Sbjct: 1765 GEYA-----------ALASLADVMSIESLVEVVFYRGMTMQVAVPR------DELGRSNY 1807
Query: 249 D----GPSQ---KTNQQQ-----NQITKEMT---------VPNELIGAVIGKGGT----- 282
P + +Q+ ++ K V N+ V G
Sbjct: 1808 GMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQY--VA--AGDLRALD 1863
Query: 283 ------KIFEIRKISGAMIRISKSSEEEED 306
+++KI ++ S S EE E
Sbjct: 1864 TVTNVLNFIKLQKIDIIELQKSLSLEEVEG 1893
Score = 37.0 bits (85), Expect = 0.035
Identities = 59/330 (17%), Positives = 99/330 (30%), Gaps = 128/330 (38%)
Query: 489 GS------MDSLFRAFSLITKNIEEFHKNQNKHLGGN-GESQLIQLRLIV---PASQCGS 538
GS MD L++ +++ +++ + H G S + IV P +
Sbjct: 1625 GSQEQGMGMD-LYKTSKAA-QDV--WNR-ADNHFKDTYGFS----ILDIVINNPVNL--- 1672
Query: 539 IIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQAIYQICLIMVDSPP 598
I GG + K IRE A ++ ++ + E K + + T +
Sbjct: 1673 TIHFGGEKGKRIRENYSAMIF--ETIVDGKLKTEKIFKEINEHSTSYTF--------RSE 1722
Query: 599 KG---ATIPYRPLPQNAGGPGLIGNQ---FGMQNSLMGAPDM---GNNPLAGLAALG--L 647
KG AT Q Q M+ + D+ G P A G L
Sbjct: 1723 KGLLSAT-------QFT--------QPALTLMEKAAFE--DLKSKGLIPADATFA-GHSL 1764
Query: 648 GGNSGGGMGGGLNAAALAALASS--------------QLKTNHMPRNQNQNQNQHNRNNR 693
G + ALA+LA +PR ++ R+N
Sbjct: 1765 GEYA-----------ALASLADVMSIESLVEVVFYRGMTMQVAVPR------DELGRSNY 1807
Query: 694 D----GPSQ---KTNQQQ-----NQITKEMT---------VPNELIGAVIGKGGT----- 727
P + +Q+ ++ K V N+ V G
Sbjct: 1808 GMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQY--VA--AGDLRALD 1863
Query: 728 ------KIFEIRKISGAMIRISKSSEEEED 751
+++KI ++ S S EE E
Sbjct: 1864 TVTNVLNFIKLQKIDIIELQKSLSLEEVEG 1893
Score = 33.5 bits (76), Expect = 0.41
Identities = 82/552 (14%), Positives = 162/552 (29%), Gaps = 203/552 (36%)
Query: 1 MQGKEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNI 60
++G ++ ++ +K+ + +T + +I + A + +
Sbjct: 96 LEGNDIHALA---------------AKLLQENDTTLVKTKELI---KNYITARIMAKRPF 137
Query: 61 EEFHKNQNKHLGGNGESQLIQLRLIVPASQCGS--II----GKGGSQ-----IKTIRETS 109
++ S L + A G+ ++ G+G + ++ + +T
Sbjct: 138 DKKS-----------NSALFR------AVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTY 180
Query: 110 GASVYVASDMLPNSTEREVNIKGVPDAVTQAIYQICLIM------VDSPPKG--ATIPYR 161
V D++ S E + + Q I+ ++P K +IP
Sbjct: 181 HVLV---GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI- 236
Query: 162 PLPQNAGGPGLIG-NQFGMQNSLMGAPDMGNNPLAGLAALGLGGNSGGGMGGGLNAAALA 220
P LIG Q + ++ A +G P G L G +G GL A
Sbjct: 237 SCP-------LIGVIQLA--HYVVTAKLLGFTP--GELRSYLKGATG--HSQGLVTAVAI 283
Query: 221 ALASS----------------------QLKTNHMPRNQNQNQNQHNRNNRDGPSQKTNQQ 258
A S + + + NN PS
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE-DSLENNEGVPSP----- 337
Query: 259 QNQITKEM----TVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSN-DRTIT 313
M + E + + K + + +++ +++ N + +
Sbjct: 338 -------MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV------------NGAKNLV 378
Query: 314 MTGTPDAIALAQYLINMSVELLRANLNGEGGGESNMDDFS------SDNNLPSSAP---- 363
++G P +L Y +N+++ +A G + + FS S+ LP ++P
Sbjct: 379 VSGPP--QSL--YGLNLTLRKAKA----PSGLDQSRIPFSERKLKFSNRFLPVASPFHSH 430
Query: 364 -LAG---------------LNASN---PL-------------AAALPQLA-QILTKPGAL 390
L NA + P+ + ++ I+ P +
Sbjct: 431 LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLP--V 488
Query: 391 N--ALTSLSALGGLSDLLGGGSSGGGSGNSGGFGGVPQGPNYANIQTTGVQRRMRHIMQG 448
T A L D G G + G G + N TGV R I+ G
Sbjct: 489 KWETTTQFKATHIL-DF--------GPGGASGLGVLTH----RNKDGTGV----RVIVAG 531
Query: 449 K-------EVGS 453
+ G
Sbjct: 532 TLDINPDDDYGF 543
Score = 31.2 bits (70), Expect = 2.0
Identities = 18/116 (15%), Positives = 39/116 (33%), Gaps = 21/116 (18%)
Query: 33 SSTPERIVTVIGSMDSLFRAFSLITKNIEEFHKNQNKHL---GGNGESQLIQLRLIVP-- 87
+ I + + F A + I + L G+ +++ + +P
Sbjct: 433 VPASDLINKDLVKNNVSFNAKDI---QIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVK 489
Query: 88 ---ASQCGS--II--GKGGSQ-----IKTIRETSGASVYVASDMLPNSTEREVNIK 131
+Q + I+ G GG+ ++ +G V VA + N + + K
Sbjct: 490 WETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDD-DYGFK 544
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 43.2 bits (101), Expect = 1e-04
Identities = 13/75 (17%), Positives = 31/75 (41%), Gaps = 16/75 (21%)
Query: 15 ETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEFHKNQNKHLGGN 74
E+++K REE ++ D+++ +A K++EE+++ Q++ + N
Sbjct: 85 ESIRKWREEQRKRLQELDAASKVMEQEWRE------KA----KKDLEEWNQRQSEQVEKN 134
Query: 75 ------GESQLIQLR 83
+ Q
Sbjct: 135 KINNRIADKAFYQQP 149
Score = 43.2 bits (101), Expect = 1e-04
Identities = 13/75 (17%), Positives = 31/75 (41%), Gaps = 16/75 (21%)
Query: 460 ETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEFHKNQNKHLGGN 519
E+++K REE ++ D+++ +A K++EE+++ Q++ + N
Sbjct: 85 ESIRKWREEQRKRLQELDAASKVMEQEWRE------KA----KKDLEEWNQRQSEQVEKN 134
Query: 520 ------GESQLIQLR 528
+ Q
Sbjct: 135 KINNRIADKAFYQQP 149
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 39.9 bits (92), Expect = 0.001
Identities = 11/47 (23%), Positives = 19/47 (40%), Gaps = 19/47 (40%)
Query: 15 ETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIE 61
+ +KKL ++ K+Y DS+ P A + I +E
Sbjct: 20 QALKKL--QASLKLYADDSA-P---------------ALA-IKATME 47
Score = 39.9 bits (92), Expect = 0.001
Identities = 11/47 (23%), Positives = 19/47 (40%), Gaps = 19/47 (40%)
Query: 460 ETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIE 506
+ +KKL ++ K+Y DS+ P A + I +E
Sbjct: 20 QALKKL--QASLKLYADDSA-P---------------ALA-IKATME 47
Score = 34.5 bits (78), Expect = 0.063
Identities = 4/25 (16%), Positives = 12/25 (48%), Gaps = 5/25 (20%)
Query: 346 ESNMDDFSSDNNLPSSAPLAGLNAS 370
++++ ++ SAP + A+
Sbjct: 26 QASLKLYA-----DDSAPALAIKAT 45
Score = 34.5 bits (78), Expect = 0.063
Identities = 4/25 (16%), Positives = 12/25 (48%), Gaps = 5/25 (20%)
Query: 791 ESNMDDFSSDNNLPSSAPLAGLNAS 815
++++ ++ SAP + A+
Sbjct: 26 QASLKLYA-----DDSAPALAIKAT 45
>2ctf_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 102
Score = 38.3 bits (89), Expect = 0.001
Identities = 16/83 (19%), Positives = 35/83 (42%), Gaps = 9/83 (10%)
Query: 256 NQQQNQITKEMTVPNELIGAVIGKGGTKIFEIR-KISGAMIRISKSSEEEEDSNDRTITM 314
+ + + P+ L +IGK G + +I ++ I ++ ++ IT+
Sbjct: 21 AKANSFTVSSVAAPSWLHRFIIGKKGQNLAKITQQMPKVHIEFTEGEDK--------ITL 72
Query: 315 TGTPDAIALAQYLINMSVELLRA 337
G + +++AQ I V+ L
Sbjct: 73 EGPTEDVSVAQEQIEGMVKDLIN 95
Score = 38.3 bits (89), Expect = 0.001
Identities = 16/83 (19%), Positives = 35/83 (42%), Gaps = 9/83 (10%)
Query: 701 NQQQNQITKEMTVPNELIGAVIGKGGTKIFEIR-KISGAMIRISKSSEEEEDSNDRTITM 759
+ + + P+ L +IGK G + +I ++ I ++ ++ IT+
Sbjct: 21 AKANSFTVSSVAAPSWLHRFIIGKKGQNLAKITQQMPKVHIEFTEGEDK--------ITL 72
Query: 760 TGTPDAIALAQYLINMSVELLRA 782
G + +++AQ I V+ L
Sbjct: 73 EGPTEDVSVAQEQIEGMVKDLIN 95
Score = 33.7 bits (77), Expect = 0.056
Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 5/61 (8%)
Query: 84 LIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQAIYQ 143
+ P+ IIGK G + I + V++ E ++ ++G + V+ A Q
Sbjct: 31 VAAPSWLHRFIIGKKGQNLAKITQQMP-KVHIE----FTEGEDKITLEGPTEDVSVAQEQ 85
Query: 144 I 144
I
Sbjct: 86 I 86
Score = 33.7 bits (77), Expect = 0.056
Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 5/61 (8%)
Query: 529 LIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDMLPNSTEREVNIKGVPDAVTQAIYQ 588
+ P+ IIGK G + I + V++ E ++ ++G + V+ A Q
Sbjct: 31 VAAPSWLHRFIIGKKGQNLAKITQQMP-KVHIE----FTEGEDKITLEGPTEDVSVAQEQ 85
Query: 589 I 589
I
Sbjct: 86 I 86
Score = 31.8 bits (72), Expect = 0.20
Identities = 13/60 (21%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 4 KEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEF 63
IIGK G+ + K+ ++ K++I + + E +T+ G + + A I +++
Sbjct: 36 WLHRFIIGKKGQNLAKITQQMP-KVHI-EFTEGEDKITLEGPTEDVSVAQEQIEGMVKDL 93
Score = 31.8 bits (72), Expect = 0.20
Identities = 13/60 (21%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 449 KEVGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEF 508
IIGK G+ + K+ ++ K++I + + E +T+ G + + A I +++
Sbjct: 36 WLHRFIIGKKGQNLAKITQQMP-KVHI-EFTEGEDKITLEGPTEDVSVAQEQIEGMVKDL 93
>2cxc_A NUSA; transcription termination, RNA binding protein, archaeal NUS
domain, structural genomics, NPPSFA; 2.00A {Aeropyrum
pernix} PDB: 2cy1_A
Length = 144
Score = 37.3 bits (87), Expect = 0.005
Identities = 32/119 (26%), Positives = 46/119 (38%), Gaps = 22/119 (18%)
Query: 4 KEVGSIIGKSGETVKKLREESGSKIYISD-SSTPERIVTVIGSMDSLFRAFSLIT-KNIE 61
E G IG+ G +K LRE G I + + SS ERIV F + ++I
Sbjct: 45 GEAGRAIGRGGRLIKLLREALGKNIEVVEYSSDLERIVK---------NLFPGVKIESIN 95
Query: 62 EFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDML 120
+N K Q+ + V G+ IGKGG +K R V ++
Sbjct: 96 VRERNGVK-----------QVVIKVSEDDKGAAIGKGGKNVKRARLVLSKLFGVEKVVI 143
Score = 37.3 bits (87), Expect = 0.005
Identities = 32/119 (26%), Positives = 46/119 (38%), Gaps = 22/119 (18%)
Query: 449 KEVGSIIGKSGETVKKLREESGSKIYISD-SSTPERIVTVIGSMDSLFRAFSLIT-KNIE 506
E G IG+ G +K LRE G I + + SS ERIV F + ++I
Sbjct: 45 GEAGRAIGRGGRLIKLLREALGKNIEVVEYSSDLERIVK---------NLFPGVKIESIN 95
Query: 507 EFHKNQNKHLGGNGESQLIQLRLIVPASQCGSIIGKGGSQIKTIRETSGASVYVASDML 565
+N K Q+ + V G+ IGKGG +K R V ++
Sbjct: 96 VRERNGVK-----------QVVIKVSEDDKGAAIGKGGKNVKRARLVLSKLFGVEKVVI 143
Score = 29.2 bits (66), Expect = 3.4
Identities = 11/37 (29%), Positives = 16/37 (43%)
Query: 266 MTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSE 302
V G IG+GG I +R+ G I + + S
Sbjct: 40 FLVSEGEAGRAIGRGGRLIKLLREALGKNIEVVEYSS 76
Score = 29.2 bits (66), Expect = 3.4
Identities = 11/37 (29%), Positives = 16/37 (43%)
Query: 711 MTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSE 747
V G IG+GG I +R+ G I + + S
Sbjct: 40 FLVSEGEAGRAIGRGGRLIKLLREALGKNIEVVEYSS 76
Score = 28.1 bits (63), Expect = 8.5
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 85 IVPASQCGSIIGKGGSQIKTIRETSG 110
+V + G IG+GG IK +RE G
Sbjct: 41 LVSEGEAGRAIGRGGRLIKLLREALG 66
Score = 28.1 bits (63), Expect = 8.5
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 530 IVPASQCGSIIGKGGSQIKTIRETSG 555
+V + G IG+GG IK +RE G
Sbjct: 41 LVSEGEAGRAIGRGGRLIKLLREALG 66
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH
domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens}
Length = 630
Score = 39.0 bits (92), Expect = 0.008
Identities = 13/65 (20%), Positives = 25/65 (38%), Gaps = 10/65 (15%)
Query: 266 MTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT-PDAIALA 324
+ VP +G GG + +++ +G I D + T ++ P A+ A
Sbjct: 571 VQVPLSKRAKFVGPGGYNLKKLQAETGVTISQ-------VD--EETFSVFAPTPSAMHEA 621
Query: 325 QYLIN 329
+ I
Sbjct: 622 RDFIT 626
Score = 39.0 bits (92), Expect = 0.008
Identities = 13/65 (20%), Positives = 25/65 (38%), Gaps = 10/65 (15%)
Query: 711 MTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT-PDAIALA 769
+ VP +G GG + +++ +G I D + T ++ P A+ A
Sbjct: 571 VQVPLSKRAKFVGPGGYNLKKLQAETGVTISQ-------VD--EETFSVFAPTPSAMHEA 621
Query: 770 QYLIN 774
+ I
Sbjct: 622 RDFIT 626
Score = 37.1 bits (87), Expect = 0.026
Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 5/52 (9%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGS-MDSLFRAFSLI 56
+G G +KKL+ E+G I D T +V ++ A I
Sbjct: 578 RAKFVGPGGYNLKKLQAETGVTISQVDEET----FSVFAPTPSAMHEARDFI 625
Score = 37.1 bits (87), Expect = 0.026
Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 5/52 (9%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGS-MDSLFRAFSLI 501
+G G +KKL+ E+G I D T +V ++ A I
Sbjct: 578 RAKFVGPGGYNLKKLQAETGVTISQVDEET----FSVFAPTPSAMHEARDFI 625
Score = 31.7 bits (73), Expect = 1.2
Identities = 5/22 (22%), Positives = 12/22 (54%)
Query: 92 GSIIGKGGSQIKTIRETSGASV 113
+G GG +K ++ +G ++
Sbjct: 579 AKFVGPGGYNLKKLQAETGVTI 600
Score = 31.7 bits (73), Expect = 1.2
Identities = 5/22 (22%), Positives = 12/22 (54%)
Query: 537 GSIIGKGGSQIKTIRETSGASV 558
+G GG +K ++ +G ++
Sbjct: 579 AKFVGPGGYNLKKLQAETGVTI 600
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 39.0 bits (92), Expect = 0.008
Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 10/65 (15%)
Query: 266 MTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT-PDAIALA 324
+ +P + I VIG GG I EI +GA + I D D + ++ + I A
Sbjct: 574 INIPTDKIREVIGSGGKVIREIVATTGAKVDI-------ND--DGVVKVSASDGAKIKAA 624
Query: 325 QYLIN 329
I
Sbjct: 625 IDWIK 629
Score = 39.0 bits (92), Expect = 0.008
Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 10/65 (15%)
Query: 711 MTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT-PDAIALA 769
+ +P + I VIG GG I EI +GA + I D D + ++ + I A
Sbjct: 574 INIPTDKIREVIGSGGKVIREIVATTGAKVDI-------ND--DGVVKVSASDGAKIKAA 624
Query: 770 QYLIN 774
I
Sbjct: 625 IDWIK 629
Score = 37.5 bits (88), Expect = 0.019
Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 8/61 (13%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGS-MDSLFRAFSLI---TKNIE 61
+ +IG G+ ++++ +G+K+ I+D V V S + A I T E
Sbjct: 581 IREVIGSGGKVIREIVATTGAKVDINDDGV----VKVSASDGAKIKAAIDWIKSITDEAE 636
Query: 62 E 62
Sbjct: 637 V 637
Score = 37.5 bits (88), Expect = 0.019
Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 8/61 (13%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGS-MDSLFRAFSLI---TKNIE 506
+ +IG G+ ++++ +G+K+ I+D V V S + A I T E
Sbjct: 581 IREVIGSGGKVIREIVATTGAKVDINDDGV----VKVSASDGAKIKAAIDWIKSITDEAE 636
Query: 507 E 507
Sbjct: 637 V 637
Score = 32.9 bits (76), Expect = 0.66
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 92 GSIIGKGGSQIKTIRETSGASV 113
+IG GG I+ I T+GA V
Sbjct: 582 REVIGSGGKVIREIVATTGAKV 603
Score = 32.9 bits (76), Expect = 0.66
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 537 GSIIGKGGSQIKTIRETSGASV 558
+IG GG I+ I T+GA V
Sbjct: 582 REVIGSGGKVIREIVATTGAKV 603
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA
degradation, kinase, transferase; 2.60A {Escherichia
coli} PDB: 1sro_A
Length = 723
Score = 37.5 bits (88), Expect = 0.025
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 10/65 (15%)
Query: 266 MTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT-PDAIALA 324
+ + + I VIGKGG+ I + + +G I I ED D T+ + T + A
Sbjct: 564 IKINPDKIKDVIGKGGSVIRALTEETGTTIEI-------ED--DGTVKIAATDGEKAKHA 614
Query: 325 QYLIN 329
I
Sbjct: 615 IRRIE 619
Score = 37.5 bits (88), Expect = 0.025
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 10/65 (15%)
Query: 711 MTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT-PDAIALA 769
+ + + I VIGKGG+ I + + +G I I ED D T+ + T + A
Sbjct: 564 IKINPDKIKDVIGKGGSVIRALTEETGTTIEI-------ED--DGTVKIAATDGEKAKHA 614
Query: 770 QYLIN 774
I
Sbjct: 615 IRRIE 619
Score = 37.1 bits (87), Expect = 0.027
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 8/61 (13%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGS-MDSLFRAFSLI---TKNIE 61
+ +IGK G ++ L EE+G+ I I D T V + + + A I T IE
Sbjct: 571 IKDVIGKGGSVIRALTEETGTTIEIEDDGT----VKIAATDGEKAKHAIRRIEEITAEIE 626
Query: 62 E 62
Sbjct: 627 V 627
Score = 37.1 bits (87), Expect = 0.027
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 8/61 (13%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGS-MDSLFRAFSLI---TKNIE 506
+ +IGK G ++ L EE+G+ I I D T V + + + A I T IE
Sbjct: 571 IKDVIGKGGSVIRALTEETGTTIEIEDDGT----VKIAATDGEKAKHAIRRIEEITAEIE 626
Query: 507 E 507
Sbjct: 627 V 627
Score = 32.5 bits (75), Expect = 0.82
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 92 GSIIGKGGSQIKTIRETSGASV 113
+IGKGGS I+ + E +G ++
Sbjct: 572 KDVIGKGGSVIRALTEETGTTI 593
Score = 32.5 bits (75), Expect = 0.82
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 537 GSIIGKGGSQIKTIRETSGASV 558
+IGKGGS I+ + E +G ++
Sbjct: 572 KDVIGKGGSVIRALTEETGTTI 593
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide
transferase, ATP-GTP diphosphotransferase RNA
processing, RNA degradation; 2.5A {Streptomyces
antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4
d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A
Length = 757
Score = 36.8 bits (86), Expect = 0.041
Identities = 11/52 (21%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGS-MDSLFRAFSLI 56
+G +IG + + +++E++G++I I D T + + + + A + I
Sbjct: 609 IGEVIGPKRQMINQIQEDTGAEITIEDDGT----IYIGAADGPAAEAARATI 656
Score = 36.8 bits (86), Expect = 0.041
Identities = 11/52 (21%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYISDSSTPERIVTVIGS-MDSLFRAFSLI 501
+G +IG + + +++E++G++I I D T + + + + A + I
Sbjct: 609 IGEVIGPKRQMINQIQEDTGAEITIEDDGT----IYIGAADGPAAEAARATI 656
Score = 36.0 bits (84), Expect = 0.055
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 10/65 (15%)
Query: 266 MTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT-PDAIALA 324
+ +P + IG VIG I +I++ +GA I I ED D TI + A A
Sbjct: 602 VKIPVDKIGEVIGPKRQMINQIQEDTGAEITI-------ED--DGTIYIGAADGPAAEAA 652
Query: 325 QYLIN 329
+ IN
Sbjct: 653 RATIN 657
Score = 36.0 bits (84), Expect = 0.055
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 10/65 (15%)
Query: 711 MTVPNELIGAVIGKGGTKIFEIRKISGAMIRISKSSEEEEDSNDRTITMTGT-PDAIALA 769
+ +P + IG VIG I +I++ +GA I I ED D TI + A A
Sbjct: 602 VKIPVDKIGEVIGPKRQMINQIQEDTGAEITI-------ED--DGTIYIGAADGPAAEAA 652
Query: 770 QYLIN 774
+ IN
Sbjct: 653 RATIN 657
Score = 32.6 bits (75), Expect = 0.77
Identities = 10/40 (25%), Positives = 18/40 (45%), Gaps = 8/40 (20%)
Query: 86 VPASQCGSIIGKGGSQIKTIRETSGAS--------VYVAS 117
+P + G +IG I I+E +GA +Y+ +
Sbjct: 604 IPVDKIGEVIGPKRQMINQIQEDTGAEITIEDDGTIYIGA 643
Score = 32.6 bits (75), Expect = 0.77
Identities = 10/40 (25%), Positives = 18/40 (45%), Gaps = 8/40 (20%)
Query: 531 VPASQCGSIIGKGGSQIKTIRETSGAS--------VYVAS 562
+P + G +IG I I+E +GA +Y+ +
Sbjct: 604 IPVDKIGEVIGPKRQMINQIQEDTGAEITIEDDGTIYIGA 643
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 34.9 bits (79), Expect = 0.066
Identities = 34/171 (19%), Positives = 56/171 (32%), Gaps = 31/171 (18%)
Query: 350 DDFSSDNNLPSSAPLAGLNASNPLAAALPQ----LAQILTKPGALNALTSLSALGGLSDL 405
DDF ++ S AP A +P AA L Q +A I G S L
Sbjct: 3 DDFGFFSSSESGAPEAA--EEDPAAAFLAQQESEIAGIENDEGFGAPAGSQGGLAQPGPA 60
Query: 406 LGGGSSGGGSGNSGGFGGVPQGPNYANIQTTGVQRRMRHIMQGKEVGSIIGKSGETVKKL 465
G G + N G GP R + E+++K
Sbjct: 61 SGASEDMGATVN-GDVFQEANGPADGYAAIAQADRLT--------------QEPESIRKW 105
Query: 466 REESGSKIYISDSSTPERIVTVIGSMDSLFRAFSLITKNIEEFHKNQNKHL 516
REE ++ D+++ K++EE+++ Q++ +
Sbjct: 106 REEQRKRLQELDAASKVMEQEWREKAK----------KDLEEWNQRQSEQV 146
>1k1g_A SF1-BO isoform; splicing, branch point sequence, protein/RNA
recognition, complex E, KH domain, QUA2 homology; NMR
{Homo sapiens} SCOP: d.51.1.1
Length = 131
Score = 33.3 bits (76), Expect = 0.11
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYI 30
VG +IG G T+K + +E +KI I
Sbjct: 24 VGLLIGPRGNTLKNIEKECNAKIMI 48
Score = 33.3 bits (76), Expect = 0.11
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYI 475
VG +IG G T+K + +E +KI I
Sbjct: 24 VGLLIGPRGNTLKNIEKECNAKIMI 48
Score = 27.5 bits (61), Expect = 9.6
Identities = 8/47 (17%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 75 GESQLIQLRLIVPASQC------GSIIGKGGSQIKTIRETSGASVYV 115
+ + ++++P + G +IG G+ +K I + A + +
Sbjct: 2 AMATRVSDKVMIPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMI 48
Score = 27.5 bits (61), Expect = 9.6
Identities = 8/47 (17%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 520 GESQLIQLRLIVPASQC------GSIIGKGGSQIKTIRETSGASVYV 560
+ + ++++P + G +IG G+ +K I + A + +
Sbjct: 2 AMATRVSDKVMIPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMI 48
>2bl5_A MGC83862 protein, quaking protein; STAR proteins, GSG proteins,
RNA binding; NMR {Xenopus laevis} SCOP: d.51.1.1
Length = 140
Score = 32.6 bits (74), Expect = 0.22
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYI 30
VG I+G G T K+L E+G KI +
Sbjct: 19 VGRILGPRGLTAKQLEAETGCKIMV 43
Score = 32.6 bits (74), Expect = 0.22
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYI 475
VG I+G G T K+L E+G KI +
Sbjct: 19 VGRILGPRGLTAKQLEAETGCKIMV 43
Score = 28.4 bits (63), Expect = 6.3
Identities = 18/85 (21%), Positives = 32/85 (37%), Gaps = 10/85 (11%)
Query: 80 IQLRLIVPASQC------GSIIGKGGSQIKTIRETSGASVYVASD--MLPNSTEREVNIK 131
+Q +L VP + G I+G G K + +G + V M E + K
Sbjct: 2 LQEKLYVPVKEYPDFNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGK 61
Query: 132 GVPDAVTQAIYQICLIMVDSPPKGA 156
+ + + ++ LI V+ A
Sbjct: 62 PNWEHLNEDLH--VLITVEDAQNRA 84
Score = 28.4 bits (63), Expect = 6.3
Identities = 18/85 (21%), Positives = 32/85 (37%), Gaps = 10/85 (11%)
Query: 525 IQLRLIVPASQC------GSIIGKGGSQIKTIRETSGASVYVASD--MLPNSTEREVNIK 576
+Q +L VP + G I+G G K + +G + V M E + K
Sbjct: 2 LQEKLYVPVKEYPDFNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGK 61
Query: 577 GVPDAVTQAIYQICLIMVDSPPKGA 601
+ + + ++ LI V+ A
Sbjct: 62 PNWEHLNEDLH--VLITVEDAQNRA 84
>2yqr_A KIAA0907 protein; structure genomics, KH domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 119
Score = 29.5 bits (66), Expect = 1.7
Identities = 4/25 (16%), Positives = 14/25 (56%)
Query: 6 VGSIIGKSGETVKKLREESGSKIYI 30
+ G ++ ++ E+G+K+++
Sbjct: 30 KEKVEGPGCSYLQHIQIETGAKVFL 54
Score = 29.5 bits (66), Expect = 1.7
Identities = 4/25 (16%), Positives = 14/25 (56%)
Query: 451 VGSIIGKSGETVKKLREESGSKIYI 475
+ G ++ ++ E+G+K+++
Sbjct: 30 KEKVEGPGCSYLQHIQIETGAKVFL 54
>3iyl_A Outer capsid VP4; non-enveloped virus, membrane penetration
protein, autocleav myristol group, icosahedral virus;
HET: MYR; 3.30A {Grass carp reovirus} PDB: 3k1q_I
Length = 648
Score = 31.0 bits (69), Expect = 2.3
Identities = 32/131 (24%), Positives = 55/131 (41%), Gaps = 18/131 (13%)
Query: 762 TPDAIALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNNLPSSAPLAGLNASNPLAAA 821
T + +A A L N ++ L+ +LN + +S + +++ + A +
Sbjct: 494 TSEEVASA--LANDAIVLVSNHLNKLANVVGDAIPVASRTDDSATSAIVSRLAVQHKLSQ 551
Query: 822 L----------PQLAQILTKPAGLNASNPLAAALPQLAQILTKPGALNALTSLSALGGLS 871
+ P L + + A + SNP + AL +LT+ G L+ALTS G+
Sbjct: 552 VGQASPTPPDYPLLWRRAKRAASMFVSNP-SLALQVGIPVLTQSGMLSALTS-----GVG 605
Query: 872 DLLGGGSSGGG 882
L GS G G
Sbjct: 606 TALRTGSLGKG 616
>2ghw_B Anti-SARS SCFV antibody, 80R; S protein, neutralizing antibody,
virus/viral protein/antibiotic complex; 2.30A {Homo
sapiens} SCOP: b.1.1.1 b.1.1.1
Length = 247
Score = 29.6 bits (67), Expect = 3.6
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 407 GGGSSGGGSGNSGGFGGVPQGP 428
GGGS GGGSG G + Q P
Sbjct: 121 GGGSGGGGSGGGGSETTLTQSP 142
Score = 29.6 bits (67), Expect = 3.6
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 875 GGGSSGGGSGNSGGFGGVPQGP 896
GGGS GGGSG G + Q P
Sbjct: 121 GGGSGGGGSGGGGSETTLTQSP 142
>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote
initiative, RSGI, structural genomics, hydrolase; HET:
GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8
d.52.3.1
Length = 301
Score = 29.7 bits (68), Expect = 3.9
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 89 SQCGSIIGKGGSQIKTI 105
SQ +IG+GG +IK I
Sbjct: 240 SQKAIVIGEGGRKIKEI 256
Score = 29.7 bits (68), Expect = 3.9
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 534 SQCGSIIGKGGSQIKTI 550
SQ +IG+GG +IK I
Sbjct: 240 SQKAIVIGEGGRKIKEI 256
>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA,
30S ribosome ASSE GTP-binding, nucleotide-binding; HET:
GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*
Length = 308
Score = 29.4 bits (67), Expect = 5.1
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 89 SQCGSIIGKGGSQIKTI 105
+ IIGK G ++K I
Sbjct: 250 NLKPIIIGKKGQRLKEI 266
Score = 29.4 bits (67), Expect = 5.1
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 534 SQCGSIIGKGGSQIKTI 550
+ IIGK G ++K I
Sbjct: 250 NLKPIIIGKKGQRLKEI 266
>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like,
hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8
d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X
Length = 301
Score = 29.3 bits (67), Expect = 5.8
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 89 SQCGSIIGKGGSQIKTI 105
Q +IG G++IKTI
Sbjct: 241 GQKKMVIGNKGAKIKTI 257
Score = 29.3 bits (67), Expect = 5.8
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 534 SQCGSIIGKGGSQIKTI 550
Q +IG G++IKTI
Sbjct: 241 GQKKMVIGNKGAKIKTI 257
>3r8n_C 30S ribosomal protein S3; protein biosynthesis, RNA, tRNA, transfer
RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
coli} PDB: 2gyb_C 2gy9_C* 2ykr_C 3fih_C* 2wwl_C 3oar_C
3oaq_C 3ofb_C 3ofa_C 3ofp_C 3ofx_C 3ofy_C 3ofo_C 3r8o_C
4a2i_C
Length = 206
Score = 29.0 bits (66), Expect = 6.0
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 7 GSIIGKSGETVKKLREE----SGSKIYI 30
G +IGK GE V+KLR+ +G I
Sbjct: 73 GIVIGKKGEDVEKLRKVVADIAGVPAQI 100
Score = 29.0 bits (66), Expect = 6.0
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 452 GSIIGKSGETVKKLREE----SGSKIYI 475
G +IGK GE V+KLR+ +G I
Sbjct: 73 GIVIGKKGEDVEKLRKVVADIAGVPAQI 100
>3k1h_A HP1076, putative uncharacterized protein; FLIS interacting protein,
hypothetical protein, chaperone; 1.74A {Helicobacter
pylori}
Length = 158
Score = 28.6 bits (63), Expect = 6.2
Identities = 30/169 (17%), Positives = 62/169 (36%), Gaps = 23/169 (13%)
Query: 239 NQNQHNRNNRDGPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKIFEIRKISGAMIRIS 298
+ + H+ N + + +QQ + +++M NE +GA+ ++ +I+ +
Sbjct: 1 HHHHHHMTN----AIEKSQQIAKFSRDMKNINESVGAL---------QVLQIACKKLFNK 47
Query: 299 KSSEEEEDSNDRTITMTGTPDAIALAQYLINMSVELLRANLNGEGGGESNMDDFSSDNNL 358
E++D+ +I + + Q+ ++ L LN E N L
Sbjct: 48 SMGLEDKDALQASIIKQELREIVENCQF---LASPLFDTQLNIAINDEIF--SMIVVNPL 102
Query: 359 PSSAPLAGLNAS-----NPLAAALPQLAQILTKPGALNALTSLSALGGL 402
+ A N + L L++ L+ P A S +L L
Sbjct: 103 DLLENVGEFQAYLEEKLNEIKELLGYLSESLSNPKAFMPSFSNQSLKDL 151
>2vqe_C 30S ribosomal protein S3; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} PDB: 1gix_F* 1hnw_C* 1hnx_C*
1hnz_C* 1hr0_C 1ibk_C* 1ibl_C* 1ibm_C 1j5e_C 1jgo_F*
1jgp_F* 1jgq_F* 1ml5_F* 1n32_C* 1n33_C* 1n34_C 1n36_C
1xmo_C* 1xmq_C* 1xnq_C* ...
Length = 239
Score = 28.8 bits (65), Expect = 7.1
Identities = 10/28 (35%), Positives = 17/28 (60%), Gaps = 4/28 (14%)
Query: 7 GSIIGKSGETVKKLREE----SGSKIYI 30
G +IG+ GE ++ LREE +G + +
Sbjct: 74 GVVIGRGGERIRVLREELAKLTGKNVAL 101
Score = 28.8 bits (65), Expect = 7.1
Identities = 10/28 (35%), Positives = 17/28 (60%), Gaps = 4/28 (14%)
Query: 452 GSIIGKSGETVKKLREE----SGSKIYI 475
G +IG+ GE ++ LREE +G + +
Sbjct: 74 GVVIGRGGERIRVLREELAKLTGKNVAL 101
>3i1m_C 30S ribosomal protein S3; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1vs7_C* 3e1a_O 3e1c_O 1vs5_C 3i1o_C
3i1q_C 3i1s_C 3i1z_C 3i21_C 3izv_G* 3izw_G* 3kc4_C
3or9_C 3ora_C 3sfs_C* 3uoq_C* 2qal_C* 1p6g_C 1p87_C
2aw7_C ...
Length = 233
Score = 28.7 bits (65), Expect = 8.1
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 7 GSIIGKSGETVKKLREE----SGSKIYI 30
G +IGK GE V+KLR+ +G I
Sbjct: 74 GIVIGKKGEDVEKLRKVVADIAGVPAQI 101
Score = 28.7 bits (65), Expect = 8.1
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 452 GSIIGKSGETVKKLREE----SGSKIYI 475
G +IGK GE V+KLR+ +G I
Sbjct: 74 GIVIGKKGEDVEKLRKVVADIAGVPAQI 101
>3iz6_B 40S ribosomal protein S3 (S3P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
1s1h_C 3jyv_C*
Length = 227
Score = 28.5 bits (64), Expect = 9.2
Identities = 5/25 (20%), Positives = 16/25 (64%)
Query: 83 RLIVPASQCGSIIGKGGSQIKTIRE 107
+I+ A++ +++G+ G +I+ +
Sbjct: 47 EIIIRATRTQNVLGEKGRRIRELTS 71
Score = 28.5 bits (64), Expect = 9.2
Identities = 5/25 (20%), Positives = 16/25 (64%)
Query: 528 RLIVPASQCGSIIGKGGSQIKTIRE 552
+I+ A++ +++G+ G +I+ +
Sbjct: 47 EIIIRATRTQNVLGEKGRRIRELTS 71
>1a4e_A Catalase A; oxidoreductase, peroxidase; HET: HEM; 2.40A
{Saccharomyces cerevisiae} SCOP: e.5.1.1
Length = 488
Score = 28.7 bits (65), Expect = 9.3
Identities = 14/82 (17%), Positives = 22/82 (26%), Gaps = 5/82 (6%)
Query: 227 LKTNHM--PRNQNQNQNQHNRNNRDGPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKI 284
L N P N N RDGP ++ T N+ I +
Sbjct: 349 LGPNFHQIPVNCPYASKFFNPAIRDGPMNVNGNFGSEPTYL---ANDKSYTYIQQDRPIQ 405
Query: 285 FEIRKISGAMIRISKSSEEEED 306
+G I ++ +
Sbjct: 406 QHQEVWNGPAIPYHWATSPGDV 427
Score = 28.7 bits (65), Expect = 9.3
Identities = 14/82 (17%), Positives = 22/82 (26%), Gaps = 5/82 (6%)
Query: 672 LKTNHM--PRNQNQNQNQHNRNNRDGPSQKTNQQQNQITKEMTVPNELIGAVIGKGGTKI 729
L N P N N RDGP ++ T N+ I +
Sbjct: 349 LGPNFHQIPVNCPYASKFFNPAIRDGPMNVNGNFGSEPTYL---ANDKSYTYIQQDRPIQ 405
Query: 730 FEIRKISGAMIRISKSSEEEED 751
+G I ++ +
Sbjct: 406 QHQEVWNGPAIPYHWATSPGDV 427
>2zkq_c 40S ribosomal protein S3E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 243
Score = 28.2 bits (63), Expect = 10.0
Identities = 5/25 (20%), Positives = 16/25 (64%)
Query: 83 RLIVPASQCGSIIGKGGSQIKTIRE 107
+I+ A++ +++G+ G +I+ +
Sbjct: 47 EIIILATRTQNVLGEKGRRIRELTA 71
Score = 28.2 bits (63), Expect = 10.0
Identities = 5/25 (20%), Positives = 16/25 (64%)
Query: 528 RLIVPASQCGSIIGKGGSQIKTIRE 552
+I+ A++ +++G+ G +I+ +
Sbjct: 47 EIIILATRTQNVLGEKGRRIRELTA 71
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.310 0.130 0.361
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 13,335,486
Number of extensions: 852170
Number of successful extensions: 2209
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2036
Number of HSP's successfully gapped: 307
Length of query: 914
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 812
Effective length of database: 3,853,851
Effective search space: 3129327012
Effective search space used: 3129327012
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 62 (27.7 bits)