Query psy695
Match_columns 214
No_of_seqs 142 out of 1186
Neff 5.9
Searched_HMMs 46136
Date Fri Aug 16 22:51:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy695.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/695hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4426|consensus 100.0 6.3E-33 1.4E-37 255.9 11.3 145 9-165 71-215 (656)
2 COG0018 ArgS Arginyl-tRNA synt 100.0 3.5E-31 7.5E-36 254.6 14.3 143 9-167 1-146 (577)
3 PLN02286 arginine-tRNA ligase 100.0 6.4E-29 1.4E-33 239.3 14.1 142 15-167 3-146 (576)
4 PRK12451 arginyl-tRNA syntheta 99.9 6.2E-26 1.3E-30 218.0 13.4 137 9-165 1-140 (562)
5 PRK01611 argS arginyl-tRNA syn 99.9 1.6E-24 3.5E-29 205.7 13.7 136 9-167 3-140 (507)
6 TIGR00456 argS arginyl-tRNA sy 99.9 2.2E-24 4.8E-29 207.3 12.4 135 13-165 3-139 (566)
7 PF03485 Arg_tRNA_synt_N: Argi 99.7 5.2E-18 1.1E-22 125.3 7.9 84 13-112 1-85 (85)
8 KOG1195|consensus 99.5 2E-14 4.2E-19 135.5 7.5 131 15-168 5-140 (567)
9 PF00750 tRNA-synt_1d: tRNA sy 99.1 1.3E-11 2.9E-16 112.9 1.9 46 120-165 1-47 (354)
10 cd00671 ArgRS_core catalytic c 98.5 3.7E-08 7.9E-13 84.0 1.5 28 139-166 1-28 (212)
11 cd00802 class_I_aaRS_core cata 95.2 0.0039 8.5E-08 49.4 -0.6 25 142-166 1-25 (143)
12 cd00818 IleRS_core catalytic c 85.5 0.34 7.4E-06 44.2 0.9 27 139-165 2-28 (338)
13 cd00668 Ile_Leu_Val_MetRS_core 85.1 0.37 8.1E-06 43.1 0.9 27 139-165 1-27 (312)
14 PRK13208 valS valyl-tRNA synth 84.9 0.94 2E-05 46.0 3.7 29 137-165 37-65 (800)
15 PTZ00419 valyl-tRNA synthetase 84.8 0.48 1E-05 49.3 1.7 30 136-165 58-87 (995)
16 PF00749 tRNA-synt_1c: tRNA sy 84.4 0.3 6.5E-06 44.3 -0.0 18 146-163 7-24 (314)
17 PRK05729 valS valyl-tRNA synth 84.3 1.1 2.4E-05 46.0 4.0 29 137-165 35-63 (874)
18 PF00133 tRNA-synt_1: tRNA syn 84.2 0.48 1E-05 46.6 1.3 30 136-165 21-50 (601)
19 PLN02381 valyl-tRNA synthetase 83.5 1.4 2.9E-05 46.5 4.3 30 136-165 126-155 (1066)
20 cd00418 GlxRS_core catalytic c 82.9 0.4 8.7E-06 42.0 0.2 20 146-165 7-26 (230)
21 cd00817 ValRS_core catalytic c 82.7 0.53 1.1E-05 43.7 0.8 27 139-165 2-28 (382)
22 PLN02943 aminoacyl-tRNA ligase 82.5 0.59 1.3E-05 48.6 1.2 30 136-165 86-115 (958)
23 cd00812 LeuRS_core catalytic c 82.3 0.66 1.4E-05 41.8 1.3 27 139-165 1-27 (314)
24 cd00807 GlnRS_core catalytic c 81.8 0.47 1E-05 41.8 0.2 21 146-166 7-27 (238)
25 TIGR00422 valS valyl-tRNA synt 81.2 2 4.3E-05 44.1 4.4 29 137-165 32-60 (861)
26 TIGR03838 queuosine_YadB gluta 80.9 0.53 1.2E-05 42.1 0.2 20 146-165 6-25 (272)
27 COG0008 GlnS Glutamyl- and glu 80.5 0.57 1.2E-05 45.1 0.3 24 140-164 10-33 (472)
28 TIGR00392 ileS isoleucyl-tRNA 80.4 0.77 1.7E-05 46.9 1.2 29 137-165 35-63 (861)
29 PLN02959 aminoacyl-tRNA ligase 80.2 0.87 1.9E-05 48.0 1.5 29 137-165 44-72 (1084)
30 TIGR00395 leuS_arch leucyl-tRN 79.5 2 4.3E-05 44.6 3.8 29 137-165 24-52 (938)
31 cd00808 GluRS_core catalytic c 78.0 0.74 1.6E-05 40.5 0.2 19 146-164 7-25 (239)
32 PRK05710 glutamyl-Q tRNA(Asp) 77.9 0.74 1.6E-05 41.8 0.1 24 140-164 6-29 (299)
33 PRK13804 ileS isoleucyl-tRNA s 77.7 1.1 2.3E-05 46.7 1.3 29 137-165 53-81 (961)
34 PLN02224 methionine-tRNA ligas 77.7 1.5 3.3E-05 43.5 2.2 32 134-165 65-96 (616)
35 PRK05743 ileS isoleucyl-tRNA s 77.4 1.1 2.4E-05 46.3 1.2 29 137-165 48-76 (912)
36 PLN03233 putative glutamate-tR 75.7 0.94 2E-05 44.2 0.2 28 138-166 10-37 (523)
37 cd09287 GluRS_non_core catalyt 75.7 1 2.2E-05 39.8 0.3 22 145-166 6-27 (240)
38 TIGR00463 gltX_arch glutamyl-t 75.5 0.96 2.1E-05 44.5 0.2 28 138-166 92-119 (560)
39 TIGR00440 glnS glutaminyl-tRNA 75.2 0.99 2.1E-05 44.0 0.2 21 146-166 6-26 (522)
40 PRK12410 glutamylglutaminyl-tR 75.1 0.99 2.1E-05 43.0 0.2 18 146-163 5-22 (433)
41 KOG1189|consensus 75.0 0.93 2E-05 46.0 -0.0 8 206-213 937-944 (960)
42 PTZ00402 glutamyl-tRNA synthet 74.7 1 2.2E-05 44.6 0.2 30 138-168 51-80 (601)
43 cd00814 MetRS_core catalytic c 74.5 1.5 3.3E-05 39.4 1.2 26 140-165 2-27 (319)
44 PLN02843 isoleucyl-tRNA synthe 74.4 1.5 3.3E-05 45.7 1.4 30 136-165 30-59 (974)
45 PRK06039 ileS isoleucyl-tRNA s 74.3 1.6 3.4E-05 45.5 1.4 29 137-165 40-68 (975)
46 TIGR00396 leuS_bact leucyl-tRN 73.8 4.5 9.8E-05 41.6 4.5 29 136-165 28-56 (842)
47 TIGR00464 gltX_bact glutamyl-t 73.7 1.1 2.5E-05 42.9 0.2 18 146-163 7-24 (470)
48 PRK05347 glutaminyl-tRNA synth 73.7 1.2 2.6E-05 43.8 0.3 29 139-168 29-57 (554)
49 PRK01406 gltX glutamyl-tRNA sy 73.2 1.2 2.6E-05 42.8 0.2 23 140-163 5-27 (476)
50 PTZ00437 glutaminyl-tRNA synth 73.2 1.2 2.6E-05 44.0 0.2 29 139-168 51-79 (574)
51 PRK12558 glutamyl-tRNA synthet 73.0 1.2 2.6E-05 42.6 0.2 18 146-163 8-25 (445)
52 PRK14900 valS valyl-tRNA synth 72.9 4.1 8.9E-05 42.9 4.0 29 137-165 47-75 (1052)
53 PRK04156 gltX glutamyl-tRNA sy 72.1 1.8 3.9E-05 42.7 1.2 31 137-168 99-129 (567)
54 PRK11893 methionyl-tRNA synthe 71.5 2 4.3E-05 40.8 1.3 28 138-165 1-28 (511)
55 PF11081 DUF2890: Protein of u 70.3 1.2 2.5E-05 38.0 -0.5 9 162-170 20-28 (187)
56 PRK12268 methionyl-tRNA synthe 70.2 2.2 4.8E-05 41.2 1.3 24 138-161 3-26 (556)
57 PRK14895 gltX glutamyl-tRNA sy 69.9 1.6 3.4E-05 42.6 0.2 25 140-165 5-29 (513)
58 PLN02907 glutamate-tRNA ligase 69.0 1.7 3.6E-05 44.1 0.2 29 138-167 212-240 (722)
59 PRK14703 glutaminyl-tRNA synth 68.0 1.8 3.9E-05 44.2 0.2 29 139-168 31-59 (771)
60 PLN02859 glutamine-tRNA ligase 66.1 2.2 4.7E-05 43.7 0.3 29 139-168 264-292 (788)
61 PLN02627 glutamyl-tRNA synthet 64.9 2.3 4.9E-05 41.7 0.2 26 137-163 43-68 (535)
62 PF07133 Merozoite_SPAM: Meroz 64.7 5.6 0.00012 33.6 2.5 14 142-155 9-22 (173)
63 PRK00133 metG methionyl-tRNA s 62.4 4 8.7E-05 40.7 1.4 28 138-165 2-29 (673)
64 COG0525 ValS Valyl-tRNA synthe 61.3 10 0.00022 39.4 4.0 28 138-165 33-60 (877)
65 PRK12267 methionyl-tRNA synthe 60.8 4.8 0.0001 39.9 1.6 28 138-165 4-31 (648)
66 PF03344 Daxx: Daxx Family; I 60.8 2.8 6.1E-05 42.5 0.0 33 47-80 294-329 (713)
67 PRK00260 cysS cysteinyl-tRNA s 60.6 4.8 0.0001 38.4 1.5 29 137-165 21-49 (463)
68 KOG1832|consensus 59.8 2.4 5.1E-05 44.2 -0.7 11 137-147 1358-1368(1516)
69 PRK00390 leuS leucyl-tRNA synt 59.7 12 0.00026 38.3 4.3 27 138-165 33-59 (805)
70 TIGR00398 metG methionyl-tRNA 59.2 4.2 9E-05 39.1 0.9 25 141-165 2-26 (530)
71 PLN02563 aminoacyl-tRNA ligase 57.9 5.6 0.00012 41.6 1.6 29 136-165 109-138 (963)
72 PTZ00427 isoleucine-tRNA ligas 56.1 14 0.0003 39.7 4.2 29 137-165 101-129 (1205)
73 COG0495 LeuS Leucyl-tRNA synth 54.3 6.6 0.00014 40.4 1.4 29 138-166 34-62 (814)
74 PLN02882 aminoacyl-tRNA ligase 53.9 6.2 0.00013 42.1 1.2 29 137-165 37-65 (1159)
75 PTZ00415 transmission-blocking 50.1 3.6 7.9E-05 45.5 -1.2 6 144-149 107-112 (2849)
76 COG5129 MAK16 Nuclear protein 48.2 2.5 5.3E-05 37.4 -2.3 28 139-170 211-238 (303)
77 KOG1832|consensus 46.7 3.5 7.5E-05 43.1 -1.9 13 138-150 1373-1385(1516)
78 COG5593 Nucleic-acid-binding p 39.1 16 0.00035 36.3 1.4 18 196-213 785-802 (821)
79 PF02724 CDC45: CDC45-like pro 38.4 4 8.7E-05 40.6 -2.9 11 137-147 76-86 (622)
80 cd00672 CysRS_core catalytic c 36.2 15 0.00032 31.6 0.6 26 140-165 21-46 (213)
81 PLN02610 probable methionyl-tR 33.8 23 0.00051 36.4 1.7 27 137-163 16-42 (801)
82 PF04147 Nop14: Nop14-like fam 31.9 5.9 0.00013 40.8 -2.9 13 70-82 271-283 (840)
83 PF11705 RNA_pol_3_Rpc31: DNA- 28.6 9.1 0.0002 33.1 -2.0 14 51-64 53-66 (233)
84 COG1942 Uncharacterized protei 27.8 1.7E+02 0.0037 20.8 4.8 40 107-148 3-50 (69)
85 KOG1147|consensus 27.2 25 0.00055 35.0 0.6 28 139-167 200-227 (712)
86 COG4746 Uncharacterized protei 27.1 2.3E+02 0.0049 21.0 5.4 73 9-82 2-77 (80)
87 KOG0435|consensus 23.4 27 0.00059 35.6 0.0 27 138-165 58-84 (876)
88 COG0143 MetG Methionyl-tRNA sy 22.3 46 0.00099 32.9 1.3 28 137-164 4-31 (558)
89 PF07133 Merozoite_SPAM: Meroz 21.3 57 0.0012 27.5 1.5 7 138-144 19-25 (173)
No 1
>KOG4426|consensus
Probab=100.00 E-value=6.3e-33 Score=255.90 Aligned_cols=145 Identities=48% Similarity=0.798 Sum_probs=136.0
Q ss_pred ccHHHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhc
Q psy695 9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELA 88 (214)
Q Consensus 9 m~i~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~ 88 (214)
-||+.+++..|..+|..++|....+++.|.+++.+ +|||||||+||.|++++|.+|+++.|++||+.|... ++
T Consensus 71 ~ni~~~L~~lF~~aik~a~Pd~~~vp~liaps~~~---kFGDYQCNnAMgl~~~lK~kg~~~~P~~va~~l~~~----lP 143 (656)
T KOG4426|consen 71 SNIFRRLQSLFDVAIKLAFPDLPDVPLLIAPSPNA---KFGDYQCNNAMGLSSKLKGKGINKRPRDVAQELQKH----LP 143 (656)
T ss_pred ccHHHHHHHHHHHHHHHhCCCCCCCCceeccCccc---ccccccccchhhHHHHHhhcCCccCcHHHHHHHHhh----CC
Confidence 58999999999999999999887778888888777 999999999999999999999999999999999999 98
Q ss_pred cCCccccccceeEEecCeEEEEEeCHHHHHHHHHHHHHcCCCCCCCCCCeeEEEeecCcccccccccccchhhhhcc
Q psy695 89 TNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 89 ~~~~~~~~i~~v~iagpGFIN~~l~~~~~~~~l~~i~~~~~~~~~~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
.+ ++|++++|+||||||++|+..|++.+|..++.+|...|.+. .++|+|||+|||++++|||||+|++|+|+
T Consensus 144 ~s----e~vEk~~iagpGFiNv~Ls~d~~~~~i~nll~~GV~~P~l~-~KrvlVDFSSPNIAKeMHVGHLRSTIIGd 215 (656)
T KOG4426|consen 144 TS----EMVEKCEIAGPGFINVFLSKDYMSKQISNLLVNGVKLPTLS-VKRVLVDFSSPNIAKEMHVGHLRSTIIGD 215 (656)
T ss_pred ch----hhhhhhcccCCceEEEEechHHHHHHHHHHHHcCCCCcccc-eeeEEEecCCCcHHHHhhhhhhhhhhHhH
Confidence 87 89999999999999999999999999999999999988874 48999999999999999999999999976
No 2
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=3.5e-31 Score=254.55 Aligned_cols=143 Identities=31% Similarity=0.502 Sum_probs=124.9
Q ss_pred ccHHHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhc
Q psy695 9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELA 88 (214)
Q Consensus 9 m~i~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~ 88 (214)
|+|.+.++..|..+|..++.......+.|+.|+++ +||||+||+||.|||.++ ++|++||++|++. |.
T Consensus 1 m~i~~~l~~~i~~~l~~~~~~~~~~~~~ve~~~~~---~~GD~a~n~a~~laK~~~-----~~P~eiA~~i~~~----l~ 68 (577)
T COG0018 1 MNIKQLLKEKIAEALSAAGLDVEEIEILVEPPKDP---EHGDFATNIAFQLAKKLG-----KNPREIAEEIAEK----LD 68 (577)
T ss_pred CCHHHHHHHHHHHHHHHhhccccccccceecCCCC---CcccccchHHHHHhhhcC-----CCHHHHHHHHHHh----cc
Confidence 78889999999999999862223446788889998 999999999999999997 8999999999999 87
Q ss_pred cCCccccccceeEEecCeEEEEEeCHHHHHHHHHHHHHc-CCCCCC--CCCCeeEEEeecCcccccccccccchhhhhcc
Q psy695 89 TNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVN-GVQPPT--LNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 89 ~~~~~~~~i~~v~iagpGFIN~~l~~~~~~~~l~~i~~~-~~~~~~--~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
.. +.|++|+++|||||||++++.++.+.+..++.. +..||. .+++++|+|||+||||+|||||||+|++++||
T Consensus 69 ~~----~~~~~veiaGpgfINf~l~~~~~~~~~~~~l~~~~~~~G~~~~~~~~kV~iE~sSaNptkplHiGHlR~aiiGD 144 (577)
T COG0018 69 TD----EIIEKVEIAGPGFINFFLSPEFLAELLLEILEKGDDRYGRSKLGKGKKVVIEYSSANPTGPLHIGHLRNAIIGD 144 (577)
T ss_pred cc----CcEeEEEEcCCCEEEEEECHHHHHHHHHHHHHhcccccCccccCCCCEEEEEEeCCCCCCCcccchhhhhHHHH
Confidence 65 589999999999999999999999999888775 455654 46789999999999999999999999999976
Q ss_pred cC
Q psy695 166 WG 167 (214)
Q Consensus 166 w~ 167 (214)
-+
T Consensus 145 sL 146 (577)
T COG0018 145 SL 146 (577)
T ss_pred HH
Confidence 43
No 3
>PLN02286 arginine-tRNA ligase
Probab=99.96 E-value=6.4e-29 Score=239.25 Aligned_cols=142 Identities=40% Similarity=0.634 Sum_probs=116.8
Q ss_pred HHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCC-CChHHHHHHHHHhhhhhhccCCcc
Q psy695 15 LSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEK-KNPFDIAQSIASVVTSELATNPSL 93 (214)
Q Consensus 15 ~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~-~~P~eiA~~i~~~~~~el~~~~~~ 93 (214)
+...+.++|..+++......+.|+.|+++ .|||||||+||.|||.++..|.+ ++|.+||+.|++. |...
T Consensus 3 ~~~~~~~~l~~~~~~~~~~~~~i~~~~~~---~~GD~a~n~a~~lak~~~~~~~~~k~P~~iA~~i~~~----l~~~--- 72 (576)
T PLN02286 3 LAKLFEASLRLTVPDEPSVEPLVAACTNP---KFGDYQCNNAMGLWSKLKGKGTSFKNPRAVAQAIVKN----LPAS--- 72 (576)
T ss_pred HHHHHHHHHHHhcCcccccCeEEecCCCC---CCCCcccchHHHHHHHhCccccccCCHHHHHHHHHHh----Cccc---
Confidence 45567777777764322224668888888 99999999999999999755444 7999999999999 7644
Q ss_pred ccccceeEEecCeEEEEEeCHHHHHHHHHHHHHcCCCCCC-CCCCeeEEEeecCcccccccccccchhhhhcccC
Q psy695 94 AKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPT-LNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGWG 167 (214)
Q Consensus 94 ~~~i~~v~iagpGFIN~~l~~~~~~~~l~~i~~~~~~~~~-~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~w~ 167 (214)
++|++|+++|||||||+|++.++.+.+..++..+..|+. ...+++|+|||+||||+|||||||+|+++||+-+
T Consensus 73 -~~i~~v~vagpGfiNf~l~~~~l~~~l~~~~~~~~~~g~~~~~~~~v~VEfsSpNp~kplHvGHlRsaiiGdsL 146 (576)
T PLN02286 73 -EMIESTSVAGPGFVNVRLSASWLAKRIERMLVDGIDTWAPTLPVKRAVVDFSSPNIAKEMHVGHLRSTIIGDTL 146 (576)
T ss_pred -cceeeEEEcCCCeEEEEECHHHHHHHHHHHHHcCcccCCCCCCCceEEEEecCCCCCCCCccccccchhhHHHH
Confidence 679999999999999999999999999888877766653 3356899999999999999999999999997633
No 4
>PRK12451 arginyl-tRNA synthetase; Reviewed
Probab=99.93 E-value=6.2e-26 Score=218.02 Aligned_cols=137 Identities=26% Similarity=0.447 Sum_probs=110.3
Q ss_pred ccHHHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhc
Q psy695 9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELA 88 (214)
Q Consensus 9 m~i~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~ 88 (214)
|+++..+.+.|..++..+... ....+.|+.|+++ .||||||| ||.|||.++ ++|.+||+.|+.. |.
T Consensus 1 ~~~~~~i~~~l~~~l~~~~~~-~~~~~~i~~~~~~---~~GD~~~~-~~~lak~~~-----~~P~~iA~~i~~~----l~ 66 (562)
T PRK12451 1 MDYKTQFAESLSNIFTNELTQ-QQILDLIETPKQD---EFGDAAFP-CFSLAKQYK-----KAPAIIAKEVAEK----LS 66 (562)
T ss_pred ChHHHHHHHHHHHHHHhhccc-cccceeeecCCCC---CCCcccch-HHHHHHHcC-----CCHHHHHHHHHHh----cc
Confidence 345667777777777655321 1113567778888 99999999 799999997 8999999999999 74
Q ss_pred cCCccccccceeEEecCeEEEEEeCHHHHHHH-HHHHHHcCCCCCCC--CCCeeEEEeecCcccccccccccchhhhhcc
Q psy695 89 TNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQ-IKDIIVNGVQPPTL--NKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 89 ~~~~~~~~i~~v~iagpGFIN~~l~~~~~~~~-l~~i~~~~~~~~~~--~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
. +.|.+++++|| ||||+|++.++... +..++..+..||.. +++++|+|||+||||+|||||||+|++++|+
T Consensus 67 ~-----~~i~~ve~~g~-fiN~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~v~vE~sSpNp~kplHvGH~R~aiiGd 140 (562)
T PRK12451 67 D-----PFFTKVEAVGP-YVNVFFNRETVSDAVLKTILAEKEEYGQNHFGCEKTVVIDYSSPNIAKPFSMGHLRSTMIGN 140 (562)
T ss_pred c-----cccceeEeeCC-EEEEEECHHHHHHHHHHHHHhhHhhcCCCccCCCCEEEEEecCCCCCCCcccchhhhHHHHH
Confidence 3 35899999995 99999999999765 56787777778753 3578999999999999999999999999965
No 5
>PRK01611 argS arginyl-tRNA synthetase; Reviewed
Probab=99.92 E-value=1.6e-24 Score=205.72 Aligned_cols=136 Identities=29% Similarity=0.469 Sum_probs=110.9
Q ss_pred ccHHHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhc
Q psy695 9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELA 88 (214)
Q Consensus 9 m~i~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~ 88 (214)
|++++.+...+..++....... ...+.|+.|+++ .+|||+||+||.+||.++ ++|.+||+.|++.
T Consensus 3 ~~~~~~i~~~~~~~~~~~~~~~-~~~~~i~~~~~~---~~gd~~~~~a~~lak~~~-----~~p~~ia~~i~~~------ 67 (507)
T PRK01611 3 MDIKELLAEALAAALEAGGLPE-LPAVLIERPKDP---EHGDYATNVAMQLAKKLK-----KNPREIAEEIVEA------ 67 (507)
T ss_pred HHHHHHHHHHHHHHHHhccccc-cccceeecCCCC---CccCeecHHHHHHHHHcC-----CCHHHHHHHHHhh------
Confidence 5667777777777665432111 112457778888 999999999999999997 8999999999764
Q ss_pred cCCccccccceeEEecCeEEEEEeCHHHHHHHHHHHHHcCCCCCC--CCCCeeEEEeecCcccccccccccchhhhhccc
Q psy695 89 TNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPT--LNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGW 166 (214)
Q Consensus 89 ~~~~~~~~i~~v~iagpGFIN~~l~~~~~~~~l~~i~~~~~~~~~--~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~w 166 (214)
|++++++|||||||+|++.++...+..++..+..||. .+++++|+|||+||||++++||||+|++++|+.
T Consensus 68 --------i~~v~~~~~gfiN~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~v~Ie~~spnp~g~lHiGH~R~~iigD~ 139 (507)
T PRK01611 68 --------IEKVEIAGPGFINFFLDPAALAELVLAILEAGERYGRSDIGKGKKVVVEYVSANPTGPLHVGHLRSAVIGDA 139 (507)
T ss_pred --------eeEEEEeCCCEEEEEECHHHHHHHHHHHHhchhhcCCCcCCCCCEEEEEecCCCCCCCCcCCchHHHHHHHH
Confidence 6789999999999999999999988888776777874 346789999999999999999999999998764
Q ss_pred C
Q psy695 167 G 167 (214)
Q Consensus 167 ~ 167 (214)
+
T Consensus 140 l 140 (507)
T PRK01611 140 L 140 (507)
T ss_pred H
Confidence 3
No 6
>TIGR00456 argS arginyl-tRNA synthetase. This model recognizes arginyl-tRNA synthetase in every completed genome to date. An interesting feature of the alignment of all arginyl-tRNA synthetases is a fairly deep split between two families. One family includes archaeal, eukaryotic and organellar, spirochete, E. coli, and Synechocystis sp. The second, sharing a deletion of about 25 residues in the central region relative to the first, includes Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and Mycobacteria, and the Gram-negative bacterium Helicobacter pylori.
Probab=99.91 E-value=2.2e-24 Score=207.29 Aligned_cols=135 Identities=33% Similarity=0.479 Sum_probs=107.5
Q ss_pred HHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhccCCc
Q psy695 13 DYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPS 92 (214)
Q Consensus 13 ~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~~~~~ 92 (214)
+.+...|..++..+... ....+.|+.|+++ .|||||||+||.+||.++ ++|.+||+.|+.. |...
T Consensus 3 ~~i~~~~~~~l~~~~~~-~~~~~~i~~~~~~---~~GD~~~~~a~~lak~~~-----~~P~~iA~~i~~~----l~~~-- 67 (566)
T TIGR00456 3 TLLKDEISAALLKAGLS-KESEILLEETPNP---EFGDYASNIAFPLAKVLK-----KNPRAIAEEIVLK----LKTG-- 67 (566)
T ss_pred HHHHHHHHHHHHhcccc-cccceeeecCCCC---CCCccccHHHHHHHHHcC-----CCHHHHHHHHHHh----CCCc--
Confidence 34555566666544211 1113567778888 999999999999999997 8999999999999 7544
Q ss_pred cccccceeEEecCeEEEEEeCHHHHHHH-HHHHHHcCCCCCCC-CCCeeEEEeecCcccccccccccchhhhhcc
Q psy695 93 LAKVIDKIEVAKPGFVNVFLSRVYAGEQ-IKDIIVNGVQPPTL-NKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 93 ~~~~i~~v~iagpGFIN~~l~~~~~~~~-l~~i~~~~~~~~~~-~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
++|++|+++|| ||||+|++.++... +..++..+..||.. ..+++|+|||+||||++|+||||+|++++|+
T Consensus 68 --~~i~~ve~~gp-fiN~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~v~ve~~spn~~~~~hiGh~r~~~~gd 139 (566)
T TIGR00456 68 --EIIEKVEAAGP-FINFFLSPQKLLERLIQKILTQKEDYGSKKLKNKKIIIEFSSANPAGPLHIGHLRNAIIGD 139 (566)
T ss_pred --CcEeEEEEeCC-EEEEEEcHHHHHHHHHHHHHhcccccCCCCCCCCeEEEEecCCCCCCCCchhhhHHHHHHH
Confidence 67999999998 99999999877765 66788777788742 1267999999999999999999999999654
No 7
>PF03485 Arg_tRNA_synt_N: Arginyl tRNA synthetase N terminal domain; InterPro: IPR005148 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain is found at the N terminus of Arginyl tRNA synthetase, also called additional domain 1 (Add-1). It is about 140 residues long and it has been suggested that this domain will be involved in tRNA recognition [].; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1F7V_A 1F7U_A 1BS2_A 2ZUE_A 2ZUF_A 1IQ0_A 3GDZ_B.
Probab=99.74 E-value=5.2e-18 Score=125.27 Aligned_cols=84 Identities=40% Similarity=0.657 Sum_probs=67.9
Q ss_pred HHHHHHHHHHHHHhCC-ccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhccCC
Q psy695 13 DYLSDVFTHAVQVAFP-ELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNP 91 (214)
Q Consensus 13 ~~~~~~i~~aI~~a~~-~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~~~~ 91 (214)
+.+++.|.++|..++. ......+.|+.|+++ .+||||||+||.+||.+| ++|.+||+.|++. |...
T Consensus 1 ~~l~~~i~~~l~~~~~~~~~~~~~~i~~~~~~---~~GD~~~n~a~~lak~~k-----~~P~~iA~~i~~~----l~~~- 67 (85)
T PF03485_consen 1 QQLKKAISEALKKAFGIDLEEIEIQIEKPPNP---KFGDYQTNIAFRLAKKLK-----KNPREIAEEIAEK----LEKS- 67 (85)
T ss_dssp -HHHHHHHHHHHHCHSTTCCCHGGGEEE-SSG---GG-SEEEEHHHHHHHHTT-----S-HHHHHHHHHHC----HCTT-
T ss_pred ChHHHHHHHHHHHHhcccccccceEEEcCCCC---CceeeeccchHHHHHHcC-----CCHHHHHHHHHHh----cCCC-
Confidence 4577788888888852 233346778888888 999999999999999998 8999999999999 8766
Q ss_pred ccccccceeEEecCeEEEEEe
Q psy695 92 SLAKVIDKIEVAKPGFVNVFL 112 (214)
Q Consensus 92 ~~~~~i~~v~iagpGFIN~~l 112 (214)
++|++++++|||||||+|
T Consensus 68 ---~~i~~vev~gpGFiN~~L 85 (85)
T PF03485_consen 68 ---PIIEKVEVAGPGFINFFL 85 (85)
T ss_dssp ---TTEEEEEEETTTEEEEEE
T ss_pred ---CCEEEEEEcCCcEEEEeC
Confidence 679999999999999997
No 8
>KOG1195|consensus
Probab=99.52 E-value=2e-14 Score=135.45 Aligned_cols=131 Identities=24% Similarity=0.302 Sum_probs=98.6
Q ss_pred HHHHHHHHHHHhCCccC--CCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhccCCc
Q psy695 15 LSDVFTHAVQVAFPELG--DKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPS 92 (214)
Q Consensus 15 ~~~~i~~aI~~a~~~~~--~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~~~~~ 92 (214)
+...|..+|..+-+ .. ..++.++.+... +-||.-.+ |.++. ..+.+.|.++++. ++.+
T Consensus 5 lr~~i~e~l~~~~~-~~~~~i~~~le~~~~~---~r~~~~~~----lp~i~------~~~~~~a~~~~e~----~~~~-- 64 (567)
T KOG1195|consen 5 LRQYISEELSKISG-VDSSLIPPALEQSNSM---DRPDLLLP----LPRIR------VQGKEDALRWAEA----LPCN-- 64 (567)
T ss_pred HHHHHHHHhhhhhC-CCHHHhHHHHHhhccC---CCCCcccc----Ccccc------cCCHHHHHHHHHh----cccc--
Confidence 34455555555543 22 123455666666 67788765 44544 3555899999988 8765
Q ss_pred cccccceeEEecCeEEEEEeCHHHHHH-HHHHHHHcCCCCCC--CCCCeeEEEeecCcccccccccccchhhhhcccCC
Q psy695 93 LAKVIDKIEVAKPGFVNVFLSRVYAGE-QIKDIIVNGVQPPT--LNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGWGK 168 (214)
Q Consensus 93 ~~~~i~~v~iagpGFIN~~l~~~~~~~-~l~~i~~~~~~~~~--~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~w~~ 168 (214)
..|.++.+.|+ |++|++++.++.. .+..|......||. ++++++|+|||+|||+++++|+||+|++++|.+++
T Consensus 65 --~~v~~~~~~~~-~~~f~ln~~~~~k~~l~~i~~~~~~~g~~~~~~~k~iVVefSSPNIAK~FHvGhLRsTiiG~fla 140 (567)
T KOG1195|consen 65 --RIVEEVGASGP-FVQFFLNRRRLIKSVLPIIEEQREKYGKNELGSGKKIVVEFSSPNIAKPFHVGHLRSTIIGNFLA 140 (567)
T ss_pred --cchHHHhcCCC-eEEEEecHHHHHHHHHHHHHHHhcccCccccccCceEEEEecCCCcccccccchhhhhhhhhHhh
Confidence 78999999997 9999999997775 56667777788875 56789999999999999999999999999988776
No 9
>PF00750 tRNA-synt_1d: tRNA synthetases class I (R); InterPro: IPR015945 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the core region of arginyl-tRNA synthetase (6.1.1.19 from EC), which has been crystallized and preliminary X-ray crystallographic analysis of yeast arginyl-tRNA synthetase-yeast tRNAArg complexes is available []. ; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 2ZUE_A 2ZUF_A 3FNR_A 1IQ0_A 1F7V_A 1F7U_A 1BS2_A 3GDZ_B.
Probab=99.14 E-value=1.3e-11 Score=112.89 Aligned_cols=46 Identities=39% Similarity=0.610 Sum_probs=35.4
Q ss_pred HHHHHHHcCCCCC-CCCCCeeEEEeecCcccccccccccchhhhhcc
Q psy695 120 QIKDIIVNGVQPP-TLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 120 ~l~~i~~~~~~~~-~~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+|+.|+..+..|+ ..+++++|+|||+||||+|||||||+||++||+
T Consensus 1 ~i~~il~~~~~y~~~~~~~~kv~VE~sSpNp~kplHvGHlR~~iiGd 47 (354)
T PF00750_consen 1 QINEILEKGEEYGSEKGKGKKVVVEFSSPNPTKPLHVGHLRNTIIGD 47 (354)
T ss_dssp -HHHHHHHGGGTT--TTTSEEEEEEE---BTTSS-BHHHHHHHHHHH
T ss_pred CHHHHHhcchhcccccCCCCEEEEEecCCCCCCCCcCCcchhhhhhH
Confidence 3677888888883 357899999999999999999999999999965
No 10
>cd00671 ArgRS_core catalytic core domain of arginyl-tRNA synthetases. Arginyl tRNA synthetase (ArgRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. There are at least three subgroups of ArgRS. One type contains both characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The second subtype lacks the KMSKS motif; however, it has a lysine N-terminal to the HIGH motif, which serves as the functional counterpart to the second lysine of the KMSKS motif. A third group, which is found primarily in archaea and a few bacteria, lacks both the KMSKS motif and the HIGH loop lysine.
Probab=98.50 E-value=3.7e-08 Score=83.97 Aligned_cols=28 Identities=36% Similarity=0.616 Sum_probs=26.0
Q ss_pred eEEEeecCcccccccccccchhhhhccc
Q psy695 139 RVLVDFSSPNIAKEMHVGHLSRSLCHGW 166 (214)
Q Consensus 139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~w 166 (214)
+|+|||+||||++++|+||+|+++++|-
T Consensus 1 ~v~ve~~spN~~~~~HiGH~R~~vigD~ 28 (212)
T cd00671 1 KILVEFVSANPTGPLHVGHLRNAIIGDS 28 (212)
T ss_pred CeEEEecCCCCCCCccccccHHHHHHHH
Confidence 5999999999999999999999999873
No 11
>cd00802 class_I_aaRS_core catalytic core domain of class I amino acyl-tRNA synthetase. Class I amino acyl-tRNA synthetase (aaRS) catalytic core domain. These enzymes are mostly monomers which aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=95.23 E-value=0.0039 Score=49.45 Aligned_cols=25 Identities=24% Similarity=0.428 Sum_probs=22.1
Q ss_pred EeecCcccccccccccchhhhhccc
Q psy695 142 VDFSSPNIAKEMHVGHLSRSLCHGW 166 (214)
Q Consensus 142 IEf~Spn~~~~~hvgh~R~~~lg~w 166 (214)
|.|++|+|++++|+||+|+.++.+.
T Consensus 1 ~~~~~p~~~~~~HlGh~~~~~~~d~ 25 (143)
T cd00802 1 TTFSGITPNGYLHIGHLRTIVTFDF 25 (143)
T ss_pred CEecCCCCCCCccHhHHHHHHHHHH
Confidence 5789999999999999999887664
No 12
>cd00818 IleRS_core catalytic core domain of isoleucyl-tRNA synthetases. Isoleucine amino-acyl tRNA synthetases (IleRS) catalytic core domain . This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. IleRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.
Probab=85.52 E-value=0.34 Score=44.16 Aligned_cols=27 Identities=15% Similarity=0.181 Sum_probs=23.5
Q ss_pred eEEEeecCcccccccccccchhhhhcc
Q psy695 139 RVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+.+|.-..|++++++|+||+|+.++.|
T Consensus 2 ~f~i~~~pP~vnG~lHiGHa~~~~~~D 28 (338)
T cd00818 2 EFVFHDGPPYANGLPHYGHALNKILKD 28 (338)
T ss_pred CeEEecCCCCCCCCchHHHHHHHHHHH
Confidence 467788899999999999999988855
No 13
>cd00668 Ile_Leu_Val_MetRS_core catalytic core domain of isoleucyl, leucyl, valyl and methioninyl tRNA synthetases. Catalytic core domain of isoleucyl, leucyl, valyl and methioninyl tRNA synthetases. These class I enzymes are all monomers. However, in some species, MetRS functions as a homodimer, as a result of an additional C-terminal domain. These enzymes aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. Enzymes in this subfamily share an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids. MetRS has a significantly shorter insertion, which lacks the editing function.
Probab=85.07 E-value=0.37 Score=43.07 Aligned_cols=27 Identities=19% Similarity=0.366 Sum_probs=22.9
Q ss_pred eEEEeecCcccccccccccchhhhhcc
Q psy695 139 RVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+.+|--..|++++++|+||+|+.++.|
T Consensus 1 ~~~i~~~pP~~~g~~HiGH~~~~i~~D 27 (312)
T cd00668 1 KFYVTTPPPYANGSLHLGHALTHIIAD 27 (312)
T ss_pred CEEEecCCCCCCCCcchhHHHHHHHHH
Confidence 367888899999999999999877644
No 14
>PRK13208 valS valyl-tRNA synthetase; Reviewed
Probab=84.86 E-value=0.94 Score=45.96 Aligned_cols=29 Identities=21% Similarity=0.370 Sum_probs=26.1
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+++.+|-...||+++.+|+||+++.++.|
T Consensus 37 ~~~f~i~~ppPy~nG~lHiGH~~~~~~~D 65 (800)
T PRK13208 37 KPVYSIDTPPPTVSGSLHIGHVFSYTHTD 65 (800)
T ss_pred CCcEEEecCcCCCCCCccHHHHHhHHHHH
Confidence 56799999999999999999999988755
No 15
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=84.83 E-value=0.48 Score=49.30 Aligned_cols=30 Identities=17% Similarity=0.403 Sum_probs=26.7
Q ss_pred CCeeEEEeecCcccccccccccchhhhhcc
Q psy695 136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
.+.+.+|....||+++.+|+||+++.++.|
T Consensus 58 ~~~~f~i~~ppP~~~G~lHiGHa~~~~~~D 87 (995)
T PTZ00419 58 SGKKFVIVLPPPNVTGYLHIGHALTGAIQD 87 (995)
T ss_pred CCCeEEEEeCCCCCCCCCcHHHHHHHHHHH
Confidence 356799999999999999999999998865
No 16
>PF00749 tRNA-synt_1c: tRNA synthetases class I (E and Q), catalytic domain; InterPro: IPR020058 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Glutamyl-tRNA synthetase (6.1.1.17 from EC) is a class Ic synthetase and shows several similarities with glutaminyl-tRNA synthetase concerning structure and catalytic properties. It is an alpha2 dimer. To date one crystal structure of a glutamyl-tRNA synthetase (Thermus thermophilus) has been solved. The molecule has the form of a bent cylinder and consists of four domains. The N-terminal half (domains 1 and 2) contains the 'Rossman fold' typical for class I synthetases and resembles the corresponding part of Escherichia coli GlnRS, whereas the C-terminal half exhibits a GluRS-specific structure []. ; GO: 0000166 nucleotide binding, 0005524 ATP binding, 0016876 ligase activity, forming aminoacyl-tRNA and related compounds, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 2HZ7_A 2CFO_A 4A91_A 1NZJ_A 1N78_A 1G59_C 2CV2_A 2CV1_A 2CV0_B 1GLN_A ....
Probab=84.40 E-value=0.3 Score=44.35 Aligned_cols=18 Identities=28% Similarity=0.562 Sum_probs=13.1
Q ss_pred Ccccccccccccchhhhh
Q psy695 146 SPNIAKEMHVGHLSRSLC 163 (214)
Q Consensus 146 Spn~~~~~hvgh~R~~~l 163 (214)
.|+|+++||+||+|++++
T Consensus 7 APsPtG~lHiG~~r~al~ 24 (314)
T PF00749_consen 7 APSPTGYLHIGHARTALL 24 (314)
T ss_dssp ---SSSS-BHHHHHHHHH
T ss_pred CCCCCCCcccchhHHHHH
Confidence 599999999999998876
No 17
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=84.33 E-value=1.1 Score=46.00 Aligned_cols=29 Identities=21% Similarity=0.390 Sum_probs=26.1
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+++.+|-...||+++.+|+||+++.++.|
T Consensus 35 ~~~f~i~~ppP~~~G~lHiGHa~~~~~~D 63 (874)
T PRK05729 35 KKPFSIVIPPPNVTGSLHMGHALNNTLQD 63 (874)
T ss_pred CCCEEEecCCCCCCCcchHHHHHHHHHHH
Confidence 45699999999999999999999999865
No 18
>PF00133 tRNA-synt_1: tRNA synthetases class I (I, L, M and V); InterPro: IPR002300 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. The class Ia aminoacyl-tRNA synthetases consist of the isoleucyl, methionyl, valyl, leucyl, cysteinyl, and arginyl-tRNA synthetases; the class Ib include the glutamyl and glutaminyl-tRNA synthetases, and the class Ic are the tyrosyl and tryptophanyl-tRNA synthetases [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 1OBC_A 2AJH_B 4ARI_A 2AJG_B 4AQ7_D 2AJI_B 4ARC_A 4AS1_A 1QU3_A 1QU2_A ....
Probab=84.19 E-value=0.48 Score=46.56 Aligned_cols=30 Identities=17% Similarity=0.367 Sum_probs=22.9
Q ss_pred CCeeEEEeecCcccccccccccchhhhhcc
Q psy695 136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
.+++.+|-...||+++.+|+||+++.++.|
T Consensus 21 ~~~~f~i~~~PPy~nG~lH~GH~~~~~~~D 50 (601)
T PF00133_consen 21 NKPKFFIHDPPPYANGDLHIGHALNKTIKD 50 (601)
T ss_dssp TSGEEEEEE---BTSSS-BHHHHHHHHHHH
T ss_pred CCCcEEEEeCCCCCCCcccHHHHHHHHHHH
Confidence 356788899999999999999999999976
No 19
>PLN02381 valyl-tRNA synthetase
Probab=83.51 E-value=1.4 Score=46.51 Aligned_cols=30 Identities=20% Similarity=0.438 Sum_probs=26.7
Q ss_pred CCeeEEEeecCcccccccccccchhhhhcc
Q psy695 136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
.+++.+|....||+++.+|+||+++.++.|
T Consensus 126 ~~~~f~i~~ppPy~nG~lHiGHa~~~ti~D 155 (1066)
T PLN02381 126 SKPPFVIVLPPPNVTGALHIGHALTAAIED 155 (1066)
T ss_pred CCCcEEEEeCCCCCCCCccHHHHHHHHHHH
Confidence 346699999999999999999999999865
No 20
>cd00418 GlxRS_core catalytic core domain of glutamyl-tRNA and glutaminyl-tRNA synthetase. Glutamyl-tRNA synthetase(GluRS)/Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Glu or Gln, respectively, to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea, cellular organelles, and some bacteria lack GlnRS. In these cases, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme. The discriminating form of GluRS differs from GlnRS and the non-discriminating form of GluRS in their C-terminal anti-codon bind
Probab=82.94 E-value=0.4 Score=41.96 Aligned_cols=20 Identities=25% Similarity=0.451 Sum_probs=17.3
Q ss_pred Ccccccccccccchhhhhcc
Q psy695 146 SPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 146 Spn~~~~~hvgh~R~~~lg~ 165 (214)
.|+|+++||+||+|++++..
T Consensus 7 APsPtG~lHlG~~r~al~n~ 26 (230)
T cd00418 7 APSPTGYLHIGHARTALFNF 26 (230)
T ss_pred CCCCCCcccHHHHHHHHHHH
Confidence 59999999999999887743
No 21
>cd00817 ValRS_core catalytic core domain of valyl-tRNA synthetases. Valine amino-acyl tRNA synthetase (ValRS) catalytic core domain. This enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. ValRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.
Probab=82.67 E-value=0.53 Score=43.67 Aligned_cols=27 Identities=22% Similarity=0.498 Sum_probs=24.0
Q ss_pred eEEEeecCcccccccccccchhhhhcc
Q psy695 139 RVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+++|....|++++.+|+||+++.++.|
T Consensus 2 ~f~i~~~pPy~nG~lHiGH~~~~~~~D 28 (382)
T cd00817 2 VFVIDTPPPNVTGSLHMGHALNNTIQD 28 (382)
T ss_pred cEEEecCCCCCCCcchHHHHHHHHHHH
Confidence 578888999999999999999988865
No 22
>PLN02943 aminoacyl-tRNA ligase
Probab=82.48 E-value=0.59 Score=48.59 Aligned_cols=30 Identities=17% Similarity=0.309 Sum_probs=26.6
Q ss_pred CCeeEEEeecCcccccccccccchhhhhcc
Q psy695 136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
.+++.+|.-..||+++.+|+||+++.++.|
T Consensus 86 ~~~~f~i~~pPP~~tG~lHiGHa~~~~~~D 115 (958)
T PLN02943 86 GGDPFVIPMPPPNVTGSLHMGHAMFVTLED 115 (958)
T ss_pred CCCCEEEecCCCCCCCchhHHHHHHHHHHH
Confidence 345699999999999999999999999865
No 23
>cd00812 LeuRS_core catalytic core domain of leucyl-tRNA synthetases. Leucyl tRNA synthetase (LeuRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. In Aquifex aeolicus, the gene encoding LeuRS is split in two, just before the KMSKS motif. Consequently, LeuRS is a heterodimer, which likely superimposes with the LeuRS monomer found in most other organisms. LeuRS has an insertion in the core domain, which is subject to both deletions and rearrangements and thus differs between prokaryotic LeuRS and archaeal/eukaryotic LeuRS. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.
Probab=82.28 E-value=0.66 Score=41.79 Aligned_cols=27 Identities=19% Similarity=0.273 Sum_probs=23.5
Q ss_pred eEEEeecCcccccccccccchhhhhcc
Q psy695 139 RVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
|++|-..-|++++++|+||+|+.++.|
T Consensus 1 k~~it~~~Py~ng~~HiGH~~~~v~~D 27 (314)
T cd00812 1 KFYILVMFPYPSGALHVGHVRTYTIGD 27 (314)
T ss_pred CeEEecCCCCCCCCccccchHHHHHHH
Confidence 467888899999999999999887765
No 24
>cd00807 GlnRS_core catalytic core domain of glutaminyl-tRNA synthetase. Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Gln to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. GlnRS contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme.
Probab=81.83 E-value=0.47 Score=41.82 Aligned_cols=21 Identities=24% Similarity=0.282 Sum_probs=17.9
Q ss_pred Ccccccccccccchhhhhccc
Q psy695 146 SPNIAKEMHVGHLSRSLCHGW 166 (214)
Q Consensus 146 Spn~~~~~hvgh~R~~~lg~w 166 (214)
.|+|+++||+||+|++++..+
T Consensus 7 APsPtG~lHlG~~~~al~~~l 27 (238)
T cd00807 7 PPEPNGYLHIGHAKAILLNFG 27 (238)
T ss_pred CCCCCCcccHHHHHHHHHHHH
Confidence 599999999999998887443
No 25
>TIGR00422 valS valyl-tRNA synthetase. The valyl-tRNA synthetase (ValS) is a class I amino acyl-tRNA ligase and is particularly closely related to the isoleucyl tRNA synthetase.
Probab=81.19 E-value=2 Score=44.05 Aligned_cols=29 Identities=24% Similarity=0.446 Sum_probs=26.1
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+++.+|-...||+++.+|+||+++.++.|
T Consensus 32 ~~~f~i~~ppPy~nG~lHiGH~~~~~~~D 60 (861)
T TIGR00422 32 KPPFCIDIPPPNVTGSLHIGHALNWSIQD 60 (861)
T ss_pred CCeEEEEeCCCCCCCCCcHHHhHHHHHHH
Confidence 46799999999999999999999998865
No 26
>TIGR03838 queuosine_YadB glutamyl-queuosine tRNA(Asp) synthetase. This protein resembles a shortened glutamyl-tRNA ligase, but its purpose is to modify tRNA(Asp) at a queuosine position in the anticodon rather than to charge a tRNA with its cognate amino acid.
Probab=80.89 E-value=0.53 Score=42.13 Aligned_cols=20 Identities=25% Similarity=0.386 Sum_probs=17.3
Q ss_pred Ccccccccccccchhhhhcc
Q psy695 146 SPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 146 Spn~~~~~hvgh~R~~~lg~ 165 (214)
.|+|++.||+||+|++++..
T Consensus 6 APSPtG~lHiG~~rtAL~n~ 25 (272)
T TIGR03838 6 APSPSGPLHFGSLVAALGSY 25 (272)
T ss_pred CCCCCCcccHHHHHHHHHHH
Confidence 59999999999999887743
No 27
>COG0008 GlnS Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=80.54 E-value=0.57 Score=45.13 Aligned_cols=24 Identities=29% Similarity=0.548 Sum_probs=19.6
Q ss_pred EEEeecCcccccccccccchhhhhc
Q psy695 140 VLVDFSSPNIAKEMHVGHLSRSLCH 164 (214)
Q Consensus 140 V~IEf~Spn~~~~~hvgh~R~~~lg 164 (214)
|+.=| .|+|++.+||||+|++++-
T Consensus 10 v~tRF-APsPtG~LHiG~artAl~N 33 (472)
T COG0008 10 VRTRF-APSPTGYLHIGHARTALLN 33 (472)
T ss_pred eEEEE-CcCCCCccchHHHHHHHHH
Confidence 55555 4999999999999988773
No 28
>TIGR00392 ileS isoleucyl-tRNA synthetase. The isoleucyl tRNA synthetase (IleS) is a class I amino acyl-tRNA ligase and is particularly closely related to the valyl tRNA synthetase. This model may recognize IleS from every species, including eukaryotic cytosolic and mitochondrial forms.
Probab=80.43 E-value=0.77 Score=46.93 Aligned_cols=29 Identities=17% Similarity=0.314 Sum_probs=25.8
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+++.+|-...|++++.+|+||+++.++.|
T Consensus 35 ~~~f~i~~~pPy~nG~lH~GH~~~~~~~D 63 (861)
T TIGR00392 35 KPEFIFHDGPPYANGSIHLGHALNKILKD 63 (861)
T ss_pred CCCeEEecCCCCCCCCccHHHHHHHHHHH
Confidence 45688889999999999999999999865
No 29
>PLN02959 aminoacyl-tRNA ligase
Probab=80.24 E-value=0.87 Score=47.98 Aligned_cols=29 Identities=17% Similarity=0.221 Sum_probs=26.3
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
..+..|.+..|++++.+|+||+++.++.|
T Consensus 44 ~~kf~i~~ppPY~NG~lHiGHa~t~t~~D 72 (1084)
T PLN02959 44 GEKFFGNFPYPYMNGLLHLGHAFSLSKLE 72 (1084)
T ss_pred CCcEEEeCCCCCCCCCcchhhHHHHHHHH
Confidence 35689999999999999999999999966
No 30
>TIGR00395 leuS_arch leucyl-tRNA synthetase, archaeal and cytosolic family. The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both archaeal and cytosolic eukaryotic leucyl-tRNA synthetases; the eubacterial and mitochondrial forms differ so substantially that some other tRNA ligases score higher by this model than does any eubacterial LeuS.
Probab=79.50 E-value=2 Score=44.64 Aligned_cols=29 Identities=17% Similarity=0.312 Sum_probs=26.4
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+++.+|-...|++++.+|+||+++.++.|
T Consensus 24 ~~kf~i~~ppPy~nG~lH~GH~~~~~~~D 52 (938)
T TIGR00395 24 REKFFLTMAYPYLNGVMHAGHCRTFTIPE 52 (938)
T ss_pred CCceEEecCCCCCCCCcccchhhhhhHHH
Confidence 56799999999999999999999998865
No 31
>cd00808 GluRS_core catalytic core domain of discriminating glutamyl-tRNA synthetase. Discriminating Glutamyl-tRNA synthetase (GluRS) catalytic core domain . The discriminating form of GluRS is only found in bacteria and cellular organelles. GluRS is a monomer that attaches Glu to the appropriate tRNA. Like other class I tRNA synthetases, GluRS aminoacylates the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=77.99 E-value=0.74 Score=40.49 Aligned_cols=19 Identities=21% Similarity=0.415 Sum_probs=16.7
Q ss_pred Ccccccccccccchhhhhc
Q psy695 146 SPNIAKEMHVGHLSRSLCH 164 (214)
Q Consensus 146 Spn~~~~~hvgh~R~~~lg 164 (214)
.|+|++.||+||+|++++.
T Consensus 7 APsPtG~LHlG~~~~al~n 25 (239)
T cd00808 7 APSPTGFLHIGGARTALFN 25 (239)
T ss_pred CCCCCCcccHHHHHHHHHH
Confidence 5999999999999987773
No 32
>PRK05710 glutamyl-Q tRNA(Asp) synthetase; Reviewed
Probab=77.88 E-value=0.74 Score=41.81 Aligned_cols=24 Identities=25% Similarity=0.448 Sum_probs=18.6
Q ss_pred EEEeecCcccccccccccchhhhhc
Q psy695 140 VLVDFSSPNIAKEMHVGHLSRSLCH 164 (214)
Q Consensus 140 V~IEf~Spn~~~~~hvgh~R~~~lg 164 (214)
|+.=| .|+|++.||+||+|++++.
T Consensus 6 v~~RF-APSPTG~LHlG~~rtAL~n 29 (299)
T PRK05710 6 YIGRF-APSPSGPLHFGSLVAALGS 29 (299)
T ss_pred eeEEe-CcCCCCcccHHHHHHHHHH
Confidence 44433 5999999999999977763
No 33
>PRK13804 ileS isoleucyl-tRNA synthetase; Provisional
Probab=77.73 E-value=1.1 Score=46.68 Aligned_cols=29 Identities=14% Similarity=0.366 Sum_probs=26.0
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+.+.+|--..|++++.+|+||+++.++.|
T Consensus 53 ~~~f~l~dgPPyanG~lHiGHaln~~lkD 81 (961)
T PRK13804 53 RPKFVLHDGPPYANGNIHIGHALNKILKD 81 (961)
T ss_pred CCcEEEeCCCCCCCCCccHHHHHHHHHHH
Confidence 45688899999999999999999999976
No 34
>PLN02224 methionine-tRNA ligase
Probab=77.66 E-value=1.5 Score=43.52 Aligned_cols=32 Identities=6% Similarity=0.108 Sum_probs=27.8
Q ss_pred CCCCeeEEEeecCcccccccccccchhhhhcc
Q psy695 134 LNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 134 ~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
.+.+++++|-=.-|++++++|+||+++.++.|
T Consensus 65 ~~~~~~~~ittp~pY~NG~~HiGHa~~~~~aD 96 (616)
T PLN02224 65 VDEADTFVLTTPLYYVNAPPHMGSAYTTIAAD 96 (616)
T ss_pred CCCCCeEEEeCCCCCCCCCCchhccHHHHHHH
Confidence 45677899999999999999999999988755
No 35
>PRK05743 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=77.38 E-value=1.1 Score=46.32 Aligned_cols=29 Identities=17% Similarity=0.403 Sum_probs=26.3
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+++.+|-...|++++.+|+||+++.++.|
T Consensus 48 ~~~f~i~~~pPyanG~lHiGHa~~~~~~D 76 (912)
T PRK05743 48 KPKFILHDGPPYANGDIHIGHALNKILKD 76 (912)
T ss_pred CCcEEEeCCCCCCCCCccHHHHHHHHHHH
Confidence 45699999999999999999999999865
No 36
>PLN03233 putative glutamate-tRNA ligase; Provisional
Probab=75.74 E-value=0.94 Score=44.21 Aligned_cols=28 Identities=21% Similarity=0.526 Sum_probs=21.7
Q ss_pred eeEEEeecCcccccccccccchhhhhccc
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRSLCHGW 166 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~w 166 (214)
.+|+.=| .|+|++.||+||+|++++...
T Consensus 10 g~v~tRF-APsPtG~LHiGharaAlln~l 37 (523)
T PLN03233 10 GQIVTRF-PPEPSGYLHIGHAKAALLNDY 37 (523)
T ss_pred CeEEEee-CCCCCCcccHHHHHHHHHHHH
Confidence 3466555 499999999999998887543
No 37
>cd09287 GluRS_non_core catalytic core domain of non-discriminating glutamyl-tRNA synthetase. Non-discriminating Glutamyl-tRNA synthetase (GluRS) cataytic core domain. These enzymes attach Glu to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme.
Probab=75.68 E-value=1 Score=39.77 Aligned_cols=22 Identities=27% Similarity=0.490 Sum_probs=18.4
Q ss_pred cCcccccccccccchhhhhccc
Q psy695 145 SSPNIAKEMHVGHLSRSLCHGW 166 (214)
Q Consensus 145 ~Spn~~~~~hvgh~R~~~lg~w 166 (214)
..|.|++.+|+||+|++++...
T Consensus 6 faPsPtG~lHiG~~rtal~~~l 27 (240)
T cd09287 6 FAPNPNGPLHLGHARAAILNGE 27 (240)
T ss_pred CCCCCCCCccHHHHHHHHHHHH
Confidence 3599999999999998887543
No 38
>TIGR00463 gltX_arch glutamyl-tRNA synthetase, archaeal and eukaryotic family. The glutamyl-tRNA synthetases of the eukaryotic cytosol and of the Archaea are more similar to glutaminyl-tRNA synthetases than to bacterial glutamyl-tRNA synthetases. This alignment models just the eukaryotic cytosolic and archaeal forms of the enzyme. In some eukaryotes, the glutamyl-tRNA synthetase is part of a longer, multifunctional aminoacyl-tRNA ligase. In many species, the charging of tRNA(gln) proceeds first through misacylation with Glu and then transamidation. For this reason, glutamyl-tRNA synthetases may act on both tRNA(gln) and tRNA(glu).
Probab=75.54 E-value=0.96 Score=44.49 Aligned_cols=28 Identities=25% Similarity=0.573 Sum_probs=22.3
Q ss_pred eeEEEeecCcccccccccccchhhhhccc
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRSLCHGW 166 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~w 166 (214)
.+|+.=| .|+|+++||+||+|++++...
T Consensus 92 ~~vvtRF-aPsPtG~LHiGharaalln~~ 119 (560)
T TIGR00463 92 GEVVMRF-APNPSGPLHIGHARAAILNQY 119 (560)
T ss_pred CeeEEEe-CCCCCCCccHHHHHHHHHHHH
Confidence 3566666 499999999999998888543
No 39
>TIGR00440 glnS glutaminyl-tRNA synthetase. This protein is a relatively rare aminoacyl-tRNA synthetase, found in the cytosolic compartment of eukaryotes, in E. coli and a number of other Gram-negative Bacteria, and in Deinococcus radiodurans. In contrast, the pathway to Gln-tRNA in mitochondria, Archaea, Gram-positive Bacteria, and a number of other lineages is by misacylation with Glu followed by transamidation to correct the aminoacylation to Gln. This enzyme is a class I tRNA synthetase (hit by the pfam model tRNA-synt_1c) and is quite closely related to glutamyl-tRNA synthetases.
Probab=75.22 E-value=0.99 Score=44.05 Aligned_cols=21 Identities=19% Similarity=0.202 Sum_probs=18.1
Q ss_pred Ccccccccccccchhhhhccc
Q psy695 146 SPNIAKEMHVGHLSRSLCHGW 166 (214)
Q Consensus 146 Spn~~~~~hvgh~R~~~lg~w 166 (214)
.|+|++.||+||+|++++-..
T Consensus 6 aPsPtG~LHiG~ar~al~n~~ 26 (522)
T TIGR00440 6 PPEPNGYLHIGHAKSICLNFG 26 (522)
T ss_pred CCCCCCcccHHHHHHHHHHHH
Confidence 599999999999998888543
No 40
>PRK12410 glutamylglutaminyl-tRNA synthetase; Provisional
Probab=75.05 E-value=0.99 Score=43.04 Aligned_cols=18 Identities=28% Similarity=0.680 Sum_probs=16.3
Q ss_pred Ccccccccccccchhhhh
Q psy695 146 SPNIAKEMHVGHLSRSLC 163 (214)
Q Consensus 146 Spn~~~~~hvgh~R~~~l 163 (214)
.|+|++.||+||+|++++
T Consensus 5 APSPTG~LHiG~artAL~ 22 (433)
T PRK12410 5 APSPTGDMHIGNLRAAIF 22 (433)
T ss_pred CCCCCCcccHHHHHHHHH
Confidence 499999999999998776
No 41
>KOG1189|consensus
Probab=75.01 E-value=0.93 Score=46.02 Aligned_cols=8 Identities=13% Similarity=0.426 Sum_probs=3.8
Q ss_pred HHHhhhcC
Q psy695 206 KKKRRKNK 213 (214)
Q Consensus 206 ~~~~~~~~ 213 (214)
+.++|++|
T Consensus 937 e~ea~~~d 944 (960)
T KOG1189|consen 937 EREARNAD 944 (960)
T ss_pred HHHHhhcc
Confidence 34555543
No 42
>PTZ00402 glutamyl-tRNA synthetase; Provisional
Probab=74.69 E-value=1 Score=44.60 Aligned_cols=30 Identities=23% Similarity=0.412 Sum_probs=22.8
Q ss_pred eeEEEeecCcccccccccccchhhhhcccCC
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRSLCHGWGK 168 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~w~~ 168 (214)
.+|+.=| .|+|++.||+||+|++++....+
T Consensus 51 ~~v~tRF-APsPtGyLHIGharaAllN~l~A 80 (601)
T PTZ00402 51 GKVVTRF-PPEASGFLHIGHAKAALINSMLA 80 (601)
T ss_pred CeeEEee-CCCCCCcccHHHHHHHHHHHHHH
Confidence 3566666 49999999999999888754333
No 43
>cd00814 MetRS_core catalytic core domain of methioninyl-tRNA synthetases. Methionine tRNA synthetase (MetRS) catalytic core domain. This class I enzyme aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. MetRS, which consists of the core domain and an anti-codon binding domain, functions as a monomer. However, in some species the anti-codon binding domain is followed by an EMAP domain. In this case, MetRS functions as a homodimer. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. As a result of a deletion event, MetRS has a significantly shorter core domain insertion than IleRS, ValRS, and LeuR. Consequently, the MetRS insertion lacks the editing function.
Probab=74.48 E-value=1.5 Score=39.43 Aligned_cols=26 Identities=27% Similarity=0.430 Sum_probs=22.0
Q ss_pred EEEeecCcccccccccccchhhhhcc
Q psy695 140 VLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 140 V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
++|=-.-|++++++|+||+|+.++.|
T Consensus 2 ~~it~~~Py~ng~~HlGH~~~~~~~D 27 (319)
T cd00814 2 VLITTALPYVNGVPHLGHLYGTVLAD 27 (319)
T ss_pred EEEEeCCCCCCCCcchhhHHHHHHHH
Confidence 56666789999999999999988765
No 44
>PLN02843 isoleucyl-tRNA synthetase
Probab=74.43 E-value=1.5 Score=45.67 Aligned_cols=30 Identities=13% Similarity=0.272 Sum_probs=26.8
Q ss_pred CCeeEEEeecCcccccccccccchhhhhcc
Q psy695 136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
++++.+|-...|++++.+|+||+++.++.|
T Consensus 30 ~~~~f~i~~~PPy~nG~lHiGHa~~~~lkD 59 (974)
T PLN02843 30 NGESFTLHDGPPYANGDLHIGHALNKILKD 59 (974)
T ss_pred CCCCEEEeCCCCCCCCCcchhHHHHHHHHH
Confidence 346699999999999999999999999966
No 45
>PRK06039 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=74.32 E-value=1.6 Score=45.52 Aligned_cols=29 Identities=17% Similarity=0.123 Sum_probs=26.0
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+++.+|-...|++++.+|+||+++.++.|
T Consensus 40 ~~~f~i~~~PPy~nG~lH~GH~l~~t~kD 68 (975)
T PRK06039 40 GPEFVFYDGPPTANGLPHYGHLLTRTIKD 68 (975)
T ss_pred CCCEEEeCCCCCCCCCccHhhhHhhHHHH
Confidence 45689999999999999999999999865
No 46
>TIGR00396 leuS_bact leucyl-tRNA synthetase, eubacterial and mitochondrial family. The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both eubacterial and mitochondrial leucyl-tRNA synthetases. It generates higher scores for some valyl-tRNA synthetases than for any archaeal or eukaryotic cytosolic leucyl-tRNA synthetase. Note that the enzyme from Aquifex aeolicus is split into alpha and beta chains; neither chain is long enough to score above the trusted cutoff, but the alpha chain scores well above the noise cutoff. The beta chain must be found by a model and search designed for partial length matches.
Probab=73.79 E-value=4.5 Score=41.57 Aligned_cols=29 Identities=21% Similarity=0.308 Sum_probs=23.7
Q ss_pred CCeeEEEeecCcccccccccccchhhhhcc
Q psy695 136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+++.++++ ..|+|++.+|+||+|+.++.|
T Consensus 28 k~k~~v~~-~pPy~nG~lHiGH~~~~~~~D 56 (842)
T TIGR00396 28 KPKYYILD-MFPYPSGALHMGHVRNYTITD 56 (842)
T ss_pred CCCEEEEc-CCCCCCCccccchhHHHHHHH
Confidence 44457777 599999999999999988865
No 47
>TIGR00464 gltX_bact glutamyl-tRNA synthetase, bacterial family. The glutamyl-tRNA synthetases of the eukaryotic cytosol and of the Archaea are more similar to glutaminyl-tRNA synthetases than to bacterial glutamyl-tRNA synthetases. This alignment models just the bacterial and mitochondrial forms of the enzyme. In many species, the charging of tRNA(gln) proceeds first through misacylation with Glu and then transamidation. For this reason, glutamyl-tRNA synthetases may act on both tRNA(gln) and tRNA(glu). This model is highly specific. Proteins with positive scores below the trusted cutoff may be fragments rather than full-length sequences.
Probab=73.72 E-value=1.1 Score=42.89 Aligned_cols=18 Identities=22% Similarity=0.438 Sum_probs=16.2
Q ss_pred Ccccccccccccchhhhh
Q psy695 146 SPNIAKEMHVGHLSRSLC 163 (214)
Q Consensus 146 Spn~~~~~hvgh~R~~~l 163 (214)
.|.|++.||+||+|++++
T Consensus 7 APsPtG~lHiG~~rtal~ 24 (470)
T TIGR00464 7 APSPTGYLHIGGARTALF 24 (470)
T ss_pred CCCCCCcccHHHHHHHHH
Confidence 499999999999997776
No 48
>PRK05347 glutaminyl-tRNA synthetase; Provisional
Probab=73.67 E-value=1.2 Score=43.82 Aligned_cols=29 Identities=24% Similarity=0.240 Sum_probs=22.4
Q ss_pred eEEEeecCcccccccccccchhhhhcccCC
Q psy695 139 RVLVDFSSPNIAKEMHVGHLSRSLCHGWGK 168 (214)
Q Consensus 139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~w~~ 168 (214)
+|+.=| .|+|++.||+||+|++++....+
T Consensus 29 ~v~tRF-aPsPtG~LHiG~ar~al~n~~~A 57 (554)
T PRK05347 29 RVHTRF-PPEPNGYLHIGHAKSICLNFGLA 57 (554)
T ss_pred ceEEEe-CCCCCCcccHHHHHHHHHHHHHH
Confidence 466655 59999999999999888854333
No 49
>PRK01406 gltX glutamyl-tRNA synthetase; Reviewed
Probab=73.24 E-value=1.2 Score=42.83 Aligned_cols=23 Identities=26% Similarity=0.457 Sum_probs=18.3
Q ss_pred EEEeecCcccccccccccchhhhh
Q psy695 140 VLVDFSSPNIAKEMHVGHLSRSLC 163 (214)
Q Consensus 140 V~IEf~Spn~~~~~hvgh~R~~~l 163 (214)
|.+=| .|.|++.||+||+|++++
T Consensus 5 v~~Rf-APSPtG~lHiG~~rtal~ 27 (476)
T PRK01406 5 VRTRF-APSPTGYLHIGGARTALF 27 (476)
T ss_pred eeEEe-CCCCCCcccHHHHHHHHH
Confidence 44444 489999999999998776
No 50
>PTZ00437 glutaminyl-tRNA synthetase; Provisional
Probab=73.23 E-value=1.2 Score=43.97 Aligned_cols=29 Identities=17% Similarity=0.209 Sum_probs=22.7
Q ss_pred eEEEeecCcccccccccccchhhhhcccCC
Q psy695 139 RVLVDFSSPNIAKEMHVGHLSRSLCHGWGK 168 (214)
Q Consensus 139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~w~~ 168 (214)
+|+.=| .|+|++.||+||+|++++....+
T Consensus 51 kv~tRF-aPsPtG~LHiGharaalln~~~A 79 (574)
T PTZ00437 51 KPYFRF-PPEPNGFLHIGHAKSMNLNFGSA 79 (574)
T ss_pred cEEEEe-CCCCCCcccHHHHHHHHHHHHHH
Confidence 466666 48999999999999888855433
No 51
>PRK12558 glutamyl-tRNA synthetase; Provisional
Probab=72.96 E-value=1.2 Score=42.59 Aligned_cols=18 Identities=28% Similarity=0.479 Sum_probs=16.1
Q ss_pred Ccccccccccccchhhhh
Q psy695 146 SPNIAKEMHVGHLSRSLC 163 (214)
Q Consensus 146 Spn~~~~~hvgh~R~~~l 163 (214)
.|+|++.||+||+|++++
T Consensus 8 APSPTG~lHiG~artAL~ 25 (445)
T PRK12558 8 APSPTGYLHVGNARTALL 25 (445)
T ss_pred CCCCCCcccHHHHHHHHH
Confidence 499999999999997776
No 52
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=72.86 E-value=4.1 Score=42.92 Aligned_cols=29 Identities=17% Similarity=0.392 Sum_probs=25.8
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+.+..|--..||+++.+|+||+++.++.|
T Consensus 47 ~~~f~i~~pPP~~nG~lHiGH~~~~~~~D 75 (1052)
T PRK14900 47 RPPFSIVLPPPNVTGSLHLGHALTATLQD 75 (1052)
T ss_pred CCCEEEecCCCCCCCcchHHHHHhhHHHH
Confidence 45689999999999999999999998855
No 53
>PRK04156 gltX glutamyl-tRNA synthetase; Provisional
Probab=72.14 E-value=1.8 Score=42.69 Aligned_cols=31 Identities=23% Similarity=0.302 Sum_probs=23.6
Q ss_pred CeeEEEeecCcccccccccccchhhhhcccCC
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHGWGK 168 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~w~~ 168 (214)
+.+|+. ...|+|++++|+||+|++++....+
T Consensus 99 ~g~V~t-RFaPsPtG~LHIGharaalln~~~A 129 (567)
T PRK04156 99 KGKVVM-RFAPNPSGPLHLGHARAAILNDEYA 129 (567)
T ss_pred CCeEEE-EeCCCCCCCccHHHHHHHHHHHHHH
Confidence 334555 4689999999999999988855433
No 54
>PRK11893 methionyl-tRNA synthetase; Reviewed
Probab=71.49 E-value=2 Score=40.81 Aligned_cols=28 Identities=14% Similarity=0.171 Sum_probs=23.8
Q ss_pred eeEEEeecCcccccccccccchhhhhcc
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
++++|--+-|++.+.+|+||+|..++.|
T Consensus 1 ~~~~i~~~~P~~~g~~HiGh~~~~~~~D 28 (511)
T PRK11893 1 KKFYITTPIYYPNGKPHIGHAYTTLAAD 28 (511)
T ss_pred CCEEEecCCCCCCCCcccchhHHHHHHH
Confidence 4678888999999999999999877644
No 55
>PF11081 DUF2890: Protein of unknown function (DUF2890); InterPro: IPR021304 This entry contains the 33kDa and 22kDa phosphoproteins from vertebrate adenoviruses.
Probab=70.30 E-value=1.2 Score=38.04 Aligned_cols=9 Identities=11% Similarity=0.246 Sum_probs=4.3
Q ss_pred hhcccCCcc
Q psy695 162 LCHGWGKLE 170 (214)
Q Consensus 162 ~lg~w~~~~ 170 (214)
....|.+..
T Consensus 20 ~eE~w~Sqa 28 (187)
T PF11081_consen 20 EEEEWDSQA 28 (187)
T ss_pred hhhhhhhcc
Confidence 344555443
No 56
>PRK12268 methionyl-tRNA synthetase; Reviewed
Probab=70.20 E-value=2.2 Score=41.24 Aligned_cols=24 Identities=33% Similarity=0.635 Sum_probs=22.1
Q ss_pred eeEEEeecCcccccccccccchhh
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRS 161 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~ 161 (214)
++++|.=..|++++.+|+||+++.
T Consensus 3 ~~~~i~~~~py~ng~~HiGH~~~~ 26 (556)
T PRK12268 3 MRILITSAWPYANGPLHLGHLAGS 26 (556)
T ss_pred CcEEEecCCCCCCCCccccccccc
Confidence 468899999999999999999998
No 57
>PRK14895 gltX glutamyl-tRNA synthetase; Provisional
Probab=69.87 E-value=1.6 Score=42.57 Aligned_cols=25 Identities=24% Similarity=0.450 Sum_probs=19.2
Q ss_pred EEEeecCcccccccccccchhhhhcc
Q psy695 140 VLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 140 V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
|.+=| .|+|++.||+||+|++++--
T Consensus 5 vrtRF-APSPTG~lHiG~artAL~n~ 29 (513)
T PRK14895 5 VITRF-APSPTGFLHIGSARTALFNY 29 (513)
T ss_pred eeEee-CCCCCCCccHHHHHHHHHHH
Confidence 44444 48999999999999877743
No 58
>PLN02907 glutamate-tRNA ligase
Probab=69.05 E-value=1.7 Score=44.06 Aligned_cols=29 Identities=24% Similarity=0.415 Sum_probs=22.4
Q ss_pred eeEEEeecCcccccccccccchhhhhcccC
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRSLCHGWG 167 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~w~ 167 (214)
.+|+.=| .|+|++.||+||+|++++....
T Consensus 212 ~~v~tRF-aPsPtG~LHiG~ar~al~n~~~ 240 (722)
T PLN02907 212 GKVCTRF-PPEPSGYLHIGHAKAALLNQYF 240 (722)
T ss_pred CceEEee-CCCCCCcccHHHHHHHHHHHHH
Confidence 3566666 4999999999999988885433
No 59
>PRK14703 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional
Probab=68.03 E-value=1.8 Score=44.19 Aligned_cols=29 Identities=28% Similarity=0.344 Sum_probs=22.5
Q ss_pred eEEEeecCcccccccccccchhhhhcccCC
Q psy695 139 RVLVDFSSPNIAKEMHVGHLSRSLCHGWGK 168 (214)
Q Consensus 139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~w~~ 168 (214)
+|+.=| .|+|++.||+||+|++++....+
T Consensus 31 ~v~tRF-aPsPtG~lHiGhar~alln~~~A 59 (771)
T PRK14703 31 RVVTRF-PPEPNGYLHIGHAKSILLNFGIA 59 (771)
T ss_pred ceEEEe-CcCCCCcccHHHHHHHHHHHHHH
Confidence 365555 59999999999999988855443
No 60
>PLN02859 glutamine-tRNA ligase
Probab=66.10 E-value=2.2 Score=43.66 Aligned_cols=29 Identities=21% Similarity=0.287 Sum_probs=22.1
Q ss_pred eEEEeecCcccccccccccchhhhhcccCC
Q psy695 139 RVLVDFSSPNIAKEMHVGHLSRSLCHGWGK 168 (214)
Q Consensus 139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~w~~ 168 (214)
+|+.=| .|+|++.||+||+|++++....+
T Consensus 264 ~V~tRF-aPsPtG~LHiGharaallN~~~A 292 (788)
T PLN02859 264 KVYTRF-PPEPNGYLHIGHAKAMFVDFGLA 292 (788)
T ss_pred ceEEEe-CCCCCCcccHHHHHHHHHHHHHH
Confidence 466555 49999999999999888854333
No 61
>PLN02627 glutamyl-tRNA synthetase
Probab=64.93 E-value=2.3 Score=41.70 Aligned_cols=26 Identities=31% Similarity=0.416 Sum_probs=21.4
Q ss_pred CeeEEEeecCcccccccccccchhhhh
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLC 163 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~l 163 (214)
..+|.+=|+ |.|++.||+||+|++++
T Consensus 43 ~~~vr~RFA-PSPTG~LHiG~aRtAL~ 68 (535)
T PLN02627 43 GGPVRVRFA-PSPTGNLHVGGARTALF 68 (535)
T ss_pred CCceEEEeC-CCCCCCccHHHHHHHHH
Confidence 345777776 69999999999997776
No 62
>PF07133 Merozoite_SPAM: Merozoite surface protein (SPAM); InterPro: IPR010784 This entry consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins, also know as merozoite surface proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element [,].
Probab=64.74 E-value=5.6 Score=33.56 Aligned_cols=14 Identities=21% Similarity=0.119 Sum_probs=8.7
Q ss_pred EeecCccccccccc
Q psy695 142 VDFSSPNIAKEMHV 155 (214)
Q Consensus 142 IEf~Spn~~~~~hv 155 (214)
.+|.|++-++..++
T Consensus 9 ~~~~~~e~~k~~~~ 22 (173)
T PF07133_consen 9 PENKSTEDKKKQNV 22 (173)
T ss_pred ccccchhhhhhhcc
Confidence 45666666666655
No 63
>PRK00133 metG methionyl-tRNA synthetase; Reviewed
Probab=62.43 E-value=4 Score=40.72 Aligned_cols=28 Identities=25% Similarity=0.439 Sum_probs=23.7
Q ss_pred eeEEEeecCcccccccccccchhhhhcc
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
++++|--.-|++++.+|+||+|+.++.|
T Consensus 2 ~~~~itt~~py~ng~~HiGH~~~~l~aD 29 (673)
T PRK00133 2 RKILVTCALPYANGPIHLGHLVEYIQAD 29 (673)
T ss_pred CCEEEeCCCCCCCCcccccchHHHHHHH
Confidence 4688888899999999999999766644
No 64
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=61.34 E-value=10 Score=39.43 Aligned_cols=28 Identities=21% Similarity=0.382 Sum_probs=24.6
Q ss_pred eeEEEeecCcccccccccccchhhhhcc
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+...|.-..||+++.||+||+=+.++-|
T Consensus 33 ~~f~I~~PPPNVTG~LHmGHAl~~tl~D 60 (877)
T COG0525 33 PPFSIDTPPPNVTGSLHMGHALNYTLQD 60 (877)
T ss_pred CCcEEeCCCCCCCCcccchhhhhHHHHH
Confidence 5599999999999999999998877743
No 65
>PRK12267 methionyl-tRNA synthetase; Reviewed
Probab=60.82 E-value=4.8 Score=39.90 Aligned_cols=28 Identities=11% Similarity=0.122 Sum_probs=23.9
Q ss_pred eeEEEeecCcccccccccccchhhhhcc
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
++++|--.-|++++++|+||+|+.++.|
T Consensus 4 ~~~~it~~~py~ng~~HiGH~~~~~~aD 31 (648)
T PRK12267 4 KTFYITTPIYYPNGKPHIGHAYTTIAAD 31 (648)
T ss_pred CCEEEeeCCCCCCCCcccccchHHHHHH
Confidence 4688888899999999999999876644
No 66
>PF03344 Daxx: Daxx Family; InterPro: IPR005012 Daxx is a ubiquitously expressed protein that functions, in part, as a transcriptional co-repressor through its interaction with a growing number of nuclear, DNA-associated proteins. Human Daxx contains four structural domains commonly found in transcriptional regulatory proteins: two predicted paired amphipathic helices, an acid-rich domain and a Ser/Pro/Thr (SPT)-rich domain. The post-translational modification status of the SPT-domain of hDaxx regulates its association with transcription factors such as Pax3 and ETS-1, effectively bringing hDaxx to sites of active transcription. Through its presence at the site of active transcription, hDaxx could then be able to associate with acetylated histones present in the nucleosomes and Dek that is associated with chromatin. Through its association with the SPT-domain of hDaxx, histone deacetylases may also be brought to the site of active transcription. As a consequence, nucleosomes in the vicinity of the site of active transcription will have the histone tails deacetylated, allowing the deactylated tail to bind to DNA, thereby leading to an inactive chromatin structure and transcriptional repression []. The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis as a component of nuclear promyelocytic leukemia protein (PML) oncogenic domains (PODS). Daxx associates with PODs through a direct interaction with PML, a critical component of PODs. The interaction is a dynamic, cell cycle regulated event and is dependent on the post-translational modification of PML by the small ubiquitin-related modifier SUMO-1. ; PDB: 2KZS_A 2KZU_A.
Probab=60.79 E-value=2.8 Score=42.46 Aligned_cols=33 Identities=18% Similarity=0.081 Sum_probs=0.0
Q ss_pred ccccchhhHHHHHHHHhcccCCCCCh---HHHHHHHH
Q psy695 47 KFGDFQCNDAMALCKIFKDKGEKKNP---FDIAQSIA 80 (214)
Q Consensus 47 ~~GDy~~n~A~~lak~lk~~~~~~~P---~eiA~~i~ 80 (214)
.|-||.=. ...+.+..+..+++++. ..||+.+.
T Consensus 294 ~fPD~~Dv-l~~v~~~n~~~~l~l~~~~~~~~a~~aF 329 (713)
T PF03344_consen 294 NFPDYHDV-LQCVEKANEKHNLGLSRKQMKRIAQDAF 329 (713)
T ss_dssp -------------------------------------
T ss_pred cccccccc-cccccccccccccccccccccccccccc
Confidence 46677644 23333333333333332 34555443
No 67
>PRK00260 cysS cysteinyl-tRNA synthetase; Validated
Probab=60.56 E-value=4.8 Score=38.42 Aligned_cols=29 Identities=17% Similarity=0.273 Sum_probs=24.7
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+.+|-+=.+.|.|.+++|+||+|+.+..|
T Consensus 21 ~~~v~~yvcgPtvy~~~HiGHar~~v~~D 49 (463)
T PRK00260 21 PGKVKMYVCGPTVYDYAHIGHARSFVVFD 49 (463)
T ss_pred CCcceEEEeCCccCCCcccccchhHHHHH
Confidence 45688888999999999999999977754
No 68
>KOG1832|consensus
Probab=59.83 E-value=2.4 Score=44.23 Aligned_cols=11 Identities=27% Similarity=0.383 Sum_probs=7.0
Q ss_pred CeeEEEeecCc
Q psy695 137 KLRVLVDFSSP 147 (214)
Q Consensus 137 ~~~V~IEf~Sp 147 (214)
.++-++|++.-
T Consensus 1358 v~R~~~Dlct~ 1368 (1516)
T KOG1832|consen 1358 VDRCLLDLCTE 1368 (1516)
T ss_pred cccchhhhhcC
Confidence 45677777653
No 69
>PRK00390 leuS leucyl-tRNA synthetase; Validated
Probab=59.70 E-value=12 Score=38.26 Aligned_cols=27 Identities=19% Similarity=0.300 Sum_probs=21.5
Q ss_pred eeEEEeecCcccccccccccchhhhhcc
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+.++++= .|+|++.+|+||+++.++.|
T Consensus 33 ~~~i~~~-pPy~nG~lHiGH~~~~~~~D 59 (805)
T PRK00390 33 KYYVLDM-FPYPSGGLHMGHVRNYTIGD 59 (805)
T ss_pred CEEEEcc-CCCCCCCcchhhhHHHHHHH
Confidence 4466554 59999999999999988855
No 70
>TIGR00398 metG methionyl-tRNA synthetase. The methionyl-tRNA synthetase (metG) is a class I amino acyl-tRNA ligase. This model appears to recognize the methionyl-tRNA synthetase of every species, including eukaryotic cytosolic and mitochondrial forms. The UPGMA difference tree calculated after search and alignment according to this model shows an unusual deep split between two families of MetG. One family contains forms from the Archaea, yeast cytosol, spirochetes, and E. coli, among others. The other family includes forms from yeast mitochondrion, Synechocystis sp., Bacillus subtilis, the Mycoplasmas, Aquifex aeolicus, and Helicobacter pylori. The E. coli enzyme is homodimeric, although monomeric forms can be prepared that are fully active. Activity of this enzyme in bacteria includes aminoacylation of fMet-tRNA with Met; subsequent formylation of the Met to fMet is catalyzed by a separate enzyme. Note that the protein from Aquifex aeolicus is split into an alpha (large) and beta (sma
Probab=59.22 E-value=4.2 Score=39.09 Aligned_cols=25 Identities=20% Similarity=0.347 Sum_probs=20.3
Q ss_pred EEeecCcccccccccccchhhhhcc
Q psy695 141 LVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 141 ~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+|--.-|++++.+|+||+|+.++.|
T Consensus 2 ~it~~~P~~ng~lHiGH~~~~~~aD 26 (530)
T TIGR00398 2 LITTALPYANGKPHLGHAYTTILAD 26 (530)
T ss_pred EEecCCCCCCCCcccchhHHHHHHH
Confidence 4556779999999999999877644
No 71
>PLN02563 aminoacyl-tRNA ligase
Probab=57.88 E-value=5.6 Score=41.65 Aligned_cols=29 Identities=24% Similarity=0.297 Sum_probs=21.4
Q ss_pred CCeeEEEeecCcccccc-cccccchhhhhcc
Q psy695 136 KKLRVLVDFSSPNIAKE-MHVGHLSRSLCHG 165 (214)
Q Consensus 136 ~~~~V~IEf~Spn~~~~-~hvgh~R~~~lg~ 165 (214)
+++.++++-- |.|++. +|+||+|+.+++|
T Consensus 109 k~k~~v~~~~-PYpnG~~lHiGH~~~y~~~D 138 (963)
T PLN02563 109 KPKFYVLDMF-PYPSGAGLHVGHPEGYTATD 138 (963)
T ss_pred CCCEEEEeCC-CCCCCcccchhhHHHHHHHH
Confidence 3444555543 899985 9999999998865
No 72
>PTZ00427 isoleucine-tRNA ligase, putative; Provisional
Probab=56.12 E-value=14 Score=39.70 Aligned_cols=29 Identities=21% Similarity=0.179 Sum_probs=25.6
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+++.++.=..|++++.+|+||+++.++.|
T Consensus 101 ~~~Fv~~~gPPyanG~lHiGHal~~tikD 129 (1205)
T PTZ00427 101 KKAYIFYDGPPFATGLPHYGHLLAGIIKD 129 (1205)
T ss_pred CCcEEEecCCCCCCCCcchhHHHHHHHHH
Confidence 45688888999999999999999999865
No 73
>COG0495 LeuS Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=54.27 E-value=6.6 Score=40.40 Aligned_cols=29 Identities=21% Similarity=0.202 Sum_probs=23.7
Q ss_pred eeEEEeecCcccccccccccchhhhhccc
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRSLCHGW 166 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~w 166 (214)
+|.-|=...|.|.+.||+||.|+-+++|-
T Consensus 34 ~Kfyvl~mfPYpSG~LHvGH~r~Yti~Dv 62 (814)
T COG0495 34 EKFYVLVMFPYPSGALHVGHVRNYTIGDV 62 (814)
T ss_pred CceEEEeCCCCCCCCcccCccccccHHHH
Confidence 36666667899989999999999988763
No 74
>PLN02882 aminoacyl-tRNA ligase
Probab=53.89 E-value=6.2 Score=42.09 Aligned_cols=29 Identities=14% Similarity=0.067 Sum_probs=25.3
Q ss_pred CeeEEEeecCcccccccccccchhhhhcc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+++.++-=..|++++.+|+||+++.++.|
T Consensus 37 ~~~f~~~dgPPyanG~~HiGH~~~~~ikD 65 (1159)
T PLN02882 37 LPEYIFYDGPPFATGLPHYGHILAGTIKD 65 (1159)
T ss_pred CCCEEEeCCCCCCCCcchhhHHHHHHHHH
Confidence 34588888999999999999999999865
No 75
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=50.14 E-value=3.6 Score=45.48 Aligned_cols=6 Identities=50% Similarity=0.634 Sum_probs=2.2
Q ss_pred ecCccc
Q psy695 144 FSSPNI 149 (214)
Q Consensus 144 f~Spn~ 149 (214)
..|-|+
T Consensus 107 ~~~~~~ 112 (2849)
T PTZ00415 107 MGSKNI 112 (2849)
T ss_pred cccccc
Confidence 333333
No 76
>COG5129 MAK16 Nuclear protein with HMG-like acidic region [General function prediction only]
Probab=48.23 E-value=2.5 Score=37.36 Aligned_cols=28 Identities=11% Similarity=0.114 Sum_probs=16.7
Q ss_pred eEEEeecCcccccccccccchhhhhcccCCcc
Q psy695 139 RVLVDFSSPNIAKEMHVGHLSRSLCHGWGKLE 170 (214)
Q Consensus 139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~w~~~~ 170 (214)
--.+||++-.--+.- .....+-.|+...
T Consensus 211 d~elE~vtdD~e~e~----~~~~dlekWl~~~ 238 (303)
T COG5129 211 DTELEAVTDDSEKEK----TKKKDLEKWLGSD 238 (303)
T ss_pred cceeEeeccccccch----hhHHHHHHHhccc
Confidence 356788876644332 2345667788775
No 77
>KOG1832|consensus
Probab=46.68 E-value=3.5 Score=43.06 Aligned_cols=13 Identities=0% Similarity=0.069 Sum_probs=6.6
Q ss_pred eeEEEeecCcccc
Q psy695 138 LRVLVDFSSPNIA 150 (214)
Q Consensus 138 ~~V~IEf~Spn~~ 150 (214)
.--|||-..|--.
T Consensus 1373 ~l~vIe~~~~~d~ 1385 (1516)
T KOG1832|consen 1373 FLGVIEMEDQEDM 1385 (1516)
T ss_pred eEEEEeccChhhh
Confidence 3456665554433
No 78
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=39.13 E-value=16 Score=36.29 Aligned_cols=18 Identities=44% Similarity=0.564 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHhhhcC
Q psy695 196 EEEEKEEEEKKKKRRKNK 213 (214)
Q Consensus 196 ~~~~~~~~~~~~~~~~~~ 213 (214)
+.-+.-+...+||+|||-
T Consensus 785 e~~e~s~~~a~kkqrk~~ 802 (821)
T COG5593 785 ENKEVSAKRAKKKQRKNM 802 (821)
T ss_pred hhhhHHHHHHHHHHHHHH
Confidence 344444556667777764
No 79
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=38.40 E-value=4 Score=40.59 Aligned_cols=11 Identities=18% Similarity=0.229 Sum_probs=7.2
Q ss_pred CeeEEEeecCc
Q psy695 137 KLRVLVDFSSP 147 (214)
Q Consensus 137 ~~~V~IEf~Sp 147 (214)
..-.|||...|
T Consensus 76 ~~iyViDshRP 86 (622)
T PF02724_consen 76 VTIYVIDSHRP 86 (622)
T ss_pred eEEEEEeCCCC
Confidence 45577777665
No 80
>cd00672 CysRS_core catalytic core domain of cysteinyl tRNA synthetase. Cysteinyl tRNA synthetase (CysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=36.22 E-value=15 Score=31.56 Aligned_cols=26 Identities=19% Similarity=0.355 Sum_probs=18.9
Q ss_pred EEEeecCcccccccccccchhhhhcc
Q psy695 140 VLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 140 V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
+-+=-+.|.|-.++|+||+|+.++.|
T Consensus 21 ~~~y~~gpt~y~~~HiGH~r~~v~~D 46 (213)
T cd00672 21 VTMYVCGPTVYDYAHIGHARTYVVFD 46 (213)
T ss_pred ceEEEeCCccCCCcccccchhHHHHH
Confidence 33333567777899999999887755
No 81
>PLN02610 probable methionyl-tRNA synthetase
Probab=33.83 E-value=23 Score=36.37 Aligned_cols=27 Identities=19% Similarity=0.362 Sum_probs=23.3
Q ss_pred CeeEEEeecCcccccccccccchhhhh
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLC 163 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~l 163 (214)
.++++|=-.-|.+++++|+||+++.++
T Consensus 16 ~~~~~ITt~~pY~Ng~~HlGH~~~~~l 42 (801)
T PLN02610 16 KRNILITSALPYVNNVPHLGNIIGCVL 42 (801)
T ss_pred CCCEEEeCCCCCCCCCcccchhhhhHH
Confidence 357999999999999999999997654
No 82
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=31.90 E-value=5.9 Score=40.76 Aligned_cols=13 Identities=23% Similarity=0.135 Sum_probs=8.8
Q ss_pred CChHHHHHHHHHh
Q psy695 70 KNPFDIAQSIASV 82 (214)
Q Consensus 70 ~~P~eiA~~i~~~ 82 (214)
+++.++|+.=.+.
T Consensus 271 KT~EE~a~ee~er 283 (840)
T PF04147_consen 271 KTEEEIAKEEKER 283 (840)
T ss_pred CCHHHHHHHHHHH
Confidence 4777887766555
No 83
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=28.62 E-value=9.1 Score=33.13 Aligned_cols=14 Identities=7% Similarity=0.050 Sum_probs=5.1
Q ss_pred chhhHHHHHHHHhc
Q psy695 51 FQCNDAMALCKIFK 64 (214)
Q Consensus 51 y~~n~A~~lak~lk 64 (214)
|.+..-+.|...++
T Consensus 53 ~~v~~~~~lr~~~~ 66 (233)
T PF11705_consen 53 YLVALKRELRERMR 66 (233)
T ss_pred HHHHHHHHHHHHHH
Confidence 43333333333343
No 84
>COG1942 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]
Probab=27.84 E-value=1.7e+02 Score=20.82 Aligned_cols=40 Identities=18% Similarity=0.311 Sum_probs=23.3
Q ss_pred EEEEEeCH--------HHHHHHHHHHHHcCCCCCCCCCCeeEEEeecCcc
Q psy695 107 FVNVFLSR--------VYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPN 148 (214)
Q Consensus 107 FIN~~l~~--------~~~~~~l~~i~~~~~~~~~~~~~~~V~IEf~Spn 148 (214)
|+|+.+-+ ..|...+.+++.. .++.....-.|+||++-|.
T Consensus 3 ~v~Ik~~~g~~~~~~K~~la~~vT~~~~~--~lg~~~~~i~Viieev~~~ 50 (69)
T COG1942 3 FVNIKLFEGRLDEEQKAELAAEVTEVTVE--TLGKDPSAIHVIIEEVPPE 50 (69)
T ss_pred EEEEEecCCCCCHHHHHHHHHHHHHHHHH--HhCCCcccEEEEEEecChh
Confidence 89998884 2344444444332 2222224567999998876
No 85
>KOG1147|consensus
Probab=27.17 E-value=25 Score=34.96 Aligned_cols=28 Identities=25% Similarity=0.521 Sum_probs=22.8
Q ss_pred eEEEeecCcccccccccccchhhhhcccC
Q psy695 139 RVLVDFSSPNIAKEMHVGHLSRSLCHGWG 167 (214)
Q Consensus 139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~w~ 167 (214)
+|++=| .|-|.+-+||||+|.+.|-..-
T Consensus 200 kVv~RF-PPEpSGyLHIGHAKAALLNqYf 227 (712)
T KOG1147|consen 200 KVVTRF-PPEPSGYLHIGHAKAALLNQYF 227 (712)
T ss_pred ceEEec-CCCCCceeehhhHHHHHHHHHH
Confidence 577776 4888999999999999986543
No 86
>COG4746 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.14 E-value=2.3e+02 Score=20.96 Aligned_cols=73 Identities=18% Similarity=0.189 Sum_probs=41.1
Q ss_pred ccHHHHHHHHHHHHHHHhCCccC-CCccccccCcc-ccccccccchhhHHHHHHHHhcccCCC-CChHHHHHHHHHh
Q psy695 9 MSVRDYLSDVFTHAVQVAFPELG-DKTASVASTNE-KYVHKFGDFQCNDAMALCKIFKDKGEK-KNPFDIAQSIASV 82 (214)
Q Consensus 9 m~i~~~~~~~i~~aI~~a~~~~~-~~~i~v~~~~~-~~~~~~GDy~~n~A~~lak~lk~~~~~-~~P~eiA~~i~~~ 82 (214)
|.+++.++..|..++..+-..+. .....-..|.. .+.-+-|+.... |+.++|.+-+..++ ++++++|..|++.
T Consensus 2 m~v~~e~~~qiv~~~k~a~fPInn~~eL~~ALP~G~dttc~~G~~e~t-A~E~~kLlT~~DFPfk~a~~vad~iv~~ 77 (80)
T COG4746 2 MTVREEIREQIVEALKGADFPINNPEELVAALPSGPDTTCESGGVEVT-AAEAGKLLTDADFPFKSAEQVADTIVNK 77 (80)
T ss_pred ccHHHHHHHHHHHHHccCCCCCCCHHHHHHhccCCCCCCccCCCeeee-HHHHHhhccccCCCCCCHHHHHHHHHHh
Confidence 56777777777777665431110 00111111111 111145666666 78888887655443 5899999999876
No 87
>KOG0435|consensus
Probab=23.39 E-value=27 Score=35.64 Aligned_cols=27 Identities=15% Similarity=0.294 Sum_probs=19.8
Q ss_pred eeEEEeecCcccccccccccchhhhhcc
Q psy695 138 LRVLVDFSSPNIAKEMHVGHLSRSLCHG 165 (214)
Q Consensus 138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~ 165 (214)
++.++. -.|.|.+.+||||.|--++.|
T Consensus 58 ~KYiLs-MFPYPSG~LHiGHvRVYTIsD 84 (876)
T KOG0435|consen 58 KKYILS-MFPYPSGALHIGHVRVYTISD 84 (876)
T ss_pred CceEEE-ecCCCCCcccccceEEEEehH
Confidence 345554 358888889999999877754
No 88
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=22.26 E-value=46 Score=32.95 Aligned_cols=28 Identities=29% Similarity=0.357 Sum_probs=22.1
Q ss_pred CeeEEEeecCcccccccccccchhhhhc
Q psy695 137 KLRVLVDFSSPNIAKEMHVGHLSRSLCH 164 (214)
Q Consensus 137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg 164 (214)
.++++|==+=|.+++++|+||+...+..
T Consensus 4 ~~~~~VTtalpY~Ng~~HlGH~~~~l~A 31 (558)
T COG0143 4 MKKILVTTALPYPNGPPHLGHLYTYLAA 31 (558)
T ss_pred CCcEEEecCCCCCCCCcchhhHHHHHHH
Confidence 3578887777899999999999955443
No 89
>PF07133 Merozoite_SPAM: Merozoite surface protein (SPAM); InterPro: IPR010784 This entry consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins, also know as merozoite surface proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element [,].
Probab=21.26 E-value=57 Score=27.53 Aligned_cols=7 Identities=0% Similarity=-0.012 Sum_probs=2.9
Q ss_pred eeEEEee
Q psy695 138 LRVLVDF 144 (214)
Q Consensus 138 ~~V~IEf 144 (214)
+..+++.
T Consensus 19 ~~~~LE~ 25 (173)
T PF07133_consen 19 KQNVLEP 25 (173)
T ss_pred hhcccce
Confidence 3344443
Done!