Query 003915
Match_columns 787
No_of_seqs 315 out of 2068
Neff 5.8
Searched_HMMs 46136
Date Thu Mar 28 14:16:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003915.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003915hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0188 Alanyl-tRNA synthetase 100.0 2E-229 5E-234 1894.6 50.2 689 58-783 2-695 (895)
2 PLN02900 alanyl-tRNA synthetas 100.0 6E-227 1E-231 2005.6 69.9 717 48-784 1-722 (936)
3 COG0013 AlaS Alanyl-tRNA synth 100.0 1E-225 3E-230 1943.7 62.0 676 58-784 6-689 (879)
4 TIGR00344 alaS alanine--tRNA l 100.0 4E-215 8E-220 1899.3 64.5 676 62-784 1-682 (851)
5 PRK00252 alaS alanyl-tRNA synt 100.0 7E-211 1E-215 1869.4 64.2 670 57-785 1-676 (865)
6 PRK01584 alanyl-tRNA synthetas 100.0 3E-192 7E-197 1629.3 52.3 571 58-785 1-580 (594)
7 TIGR03683 A-tRNA_syn_arch alan 100.0 3E-189 7E-194 1680.3 59.2 618 54-784 52-721 (902)
8 PRK13902 alaS alanyl-tRNA synt 100.0 5E-188 1E-192 1669.5 58.3 618 54-784 55-717 (900)
9 PF01411 tRNA-synt_2c: tRNA sy 100.0 5E-178 1E-182 1522.8 14.7 545 62-637 1-552 (552)
10 cd00673 AlaRS_core Alanyl-tRNA 100.0 7E-109 2E-113 840.2 19.1 230 60-306 1-232 (232)
11 PLN02961 alanine-tRNA ligase 100.0 5.5E-45 1.2E-49 377.6 23.1 199 567-785 2-212 (223)
12 COG2872 Predicted metal-depend 100.0 1.4E-44 2.9E-49 374.7 21.2 211 540-786 10-223 (241)
13 KOG2105 Predicted metal-depend 100.0 2.5E-28 5.5E-33 252.2 13.1 187 566-784 42-232 (415)
14 PLN02837 threonine-tRNA ligase 99.7 6E-17 1.3E-21 190.7 15.1 137 627-784 30-177 (614)
15 PRK12305 thrS threonyl-tRNA sy 99.7 2.3E-16 5E-21 184.8 14.2 124 642-783 8-135 (575)
16 PRK00413 thrS threonyl-tRNA sy 99.6 2.1E-15 4.5E-20 178.8 16.0 145 621-783 49-200 (638)
17 TIGR00418 thrS threonyl-tRNA s 99.6 1.8E-14 3.9E-19 168.6 12.8 125 644-785 1-131 (563)
18 PRK12444 threonyl-tRNA synthet 99.5 3E-14 6.6E-19 169.0 13.7 126 641-784 73-205 (639)
19 PLN02908 threonyl-tRNA synthet 99.3 2.7E-11 5.9E-16 144.9 17.0 126 640-784 119-252 (686)
20 COG0441 ThrS Threonyl-tRNA syn 99.0 5.2E-10 1.1E-14 130.2 7.9 124 640-784 26-150 (589)
21 PF07973 tRNA_SAD: Threonyl an 98.9 8E-10 1.7E-14 86.5 4.3 35 735-785 1-35 (44)
22 smart00863 tRNA_SAD Threonyl a 98.7 1.1E-08 2.3E-13 79.7 3.7 35 735-785 1-35 (44)
23 cd00768 class_II_aaRS-like_cor 96.0 0.019 4.2E-07 57.8 7.7 115 61-183 3-136 (211)
24 PRK09348 glyQ glycyl-tRNA synt 95.6 0.16 3.4E-06 53.9 12.4 177 56-312 2-180 (283)
25 TIGR00388 glyQ glycyl-tRNA syn 94.3 0.49 1.1E-05 50.5 11.8 175 58-312 1-177 (293)
26 PRK14908 glycyl-tRNA synthetas 94.1 0.37 8.1E-06 60.2 12.2 176 57-312 4-181 (1000)
27 cd00733 GlyRS_alpha_core Class 93.2 1 2.2E-05 47.9 11.7 173 60-312 2-176 (279)
28 PRK00488 pheS phenylalanyl-tRN 91.7 1.1 2.5E-05 49.9 10.4 39 48-86 97-136 (339)
29 cd00669 Asp_Lys_Asn_RS_core As 91.5 0.27 5.9E-06 53.1 5.4 103 61-177 5-117 (269)
30 COG0752 GlyQ Glycyl-tRNA synth 90.9 1.7 3.6E-05 46.1 10.0 177 54-312 1-181 (298)
31 PF02091 tRNA-synt_2e: Glycyl- 89.9 0.96 2.1E-05 48.4 7.4 172 61-312 2-175 (284)
32 PRK03932 asnC asparaginyl-tRNA 88.3 4.5 9.7E-05 47.0 12.2 106 60-175 136-254 (450)
33 KOG1637 Threonyl-tRNA syntheta 85.5 0.45 9.8E-06 54.4 2.0 49 642-694 68-116 (560)
34 PTZ00326 phenylalanyl-tRNA syn 85.0 9.9 0.00021 44.7 12.6 202 40-308 211-483 (494)
35 PF01411 tRNA-synt_2c: tRNA sy 83.4 0.23 5.1E-06 58.9 -1.5 115 179-321 76-201 (552)
36 PRK14799 thrS threonyl-tRNA sy 82.9 2.7 5.9E-05 50.0 7.1 26 759-784 75-101 (545)
37 PLN02853 Probable phenylalanyl 82.5 7.2 0.00016 45.7 10.0 45 40-84 203-247 (492)
38 cd00670 Gly_His_Pro_Ser_Thr_tR 81.2 8.2 0.00018 40.0 9.2 108 61-182 6-149 (235)
39 TIGR00458 aspS_arch aspartyl-t 78.9 14 0.00031 42.7 10.9 100 61-176 137-247 (428)
40 PTZ00450 macrophage migration 74.5 3.1 6.7E-05 39.3 3.3 23 169-191 79-101 (113)
41 KOG1501 Arginine N-methyltrans 70.4 3.3 7.2E-05 47.5 2.9 80 289-370 72-158 (636)
42 KOG1759 Macrophage migration i 68.3 4.9 0.00011 38.1 3.1 23 170-192 79-101 (115)
43 PTZ00397 macrophage migration 61.1 8 0.00017 36.3 3.1 29 164-192 74-102 (116)
44 PF01422 zf-NF-X1: NF-X1 type 60.5 3.8 8.2E-05 27.2 0.6 9 233-241 12-20 (20)
45 COG0016 PheS Phenylalanyl-tRNA 57.7 11 0.00023 42.2 3.9 186 48-308 100-321 (335)
46 PF01187 MIF: Macrophage migra 49.8 12 0.00027 35.0 2.4 23 170-192 78-100 (114)
47 PF01409 tRNA-synt_2d: tRNA sy 45.7 10 0.00023 40.6 1.4 32 54-85 13-44 (247)
48 cd00776 AsxRS_core Asx tRNA sy 40.8 30 0.00065 38.4 4.0 101 60-176 27-138 (322)
49 PRK14063 exodeoxyribonuclease 39.5 37 0.0008 30.0 3.6 32 437-468 6-37 (76)
50 smart00438 ZnF_NFX Repressor o 39.4 13 0.00028 26.3 0.6 11 233-243 12-22 (26)
51 PRK14066 exodeoxyribonuclease 39.1 38 0.00083 29.9 3.6 31 438-468 6-36 (75)
52 PRK14064 exodeoxyribonuclease 37.3 43 0.00093 29.6 3.6 32 437-468 7-38 (75)
53 PRK14067 exodeoxyribonuclease 37.1 42 0.0009 30.0 3.6 32 437-468 8-39 (80)
54 KOG2783 Phenylalanyl-tRNA synt 36.7 17 0.00036 41.3 1.2 35 287-324 294-328 (436)
55 cd00777 AspRS_core Asp tRNA sy 36.1 19 0.00041 39.3 1.5 105 61-177 5-117 (280)
56 TIGR01280 xseB exodeoxyribonuc 36.1 47 0.001 28.6 3.6 31 438-468 3-33 (67)
57 TIGR00470 sepS O-phosphoseryl- 35.1 39 0.00084 39.7 3.8 19 289-307 317-335 (533)
58 PRK00977 exodeoxyribonuclease 35.0 47 0.001 29.6 3.6 32 437-468 11-42 (80)
59 COG2024 Phenylalanyl-tRNA synt 34.9 35 0.00075 38.8 3.3 66 237-308 279-344 (536)
60 PTZ00401 aspartyl-tRNA synthet 33.7 50 0.0011 39.6 4.6 100 61-176 217-328 (550)
61 KOG1159 NADP-dependent flavopr 33.6 29 0.00064 40.6 2.5 83 46-160 229-312 (574)
62 PF02609 Exonuc_VII_S: Exonucl 32.0 63 0.0014 26.3 3.6 29 440-468 3-31 (53)
63 PRK14068 exodeoxyribonuclease 31.9 58 0.0013 28.8 3.6 32 437-468 7-38 (76)
64 cd00776 AsxRS_core Asx tRNA sy 31.7 25 0.00054 39.1 1.6 28 288-315 290-317 (322)
65 TIGR00462 genX lysyl-tRNA synt 31.1 26 0.00056 38.7 1.6 114 61-190 5-135 (304)
66 PRK14069 exodeoxyribonuclease 29.4 65 0.0014 29.8 3.6 32 437-468 9-40 (95)
67 TIGR00499 lysS_bact lysyl-tRNA 29.4 56 0.0012 38.7 4.0 88 60-162 175-275 (496)
68 PF00152 tRNA-synt_2: tRNA syn 29.0 30 0.00066 38.3 1.7 106 61-176 26-141 (335)
69 TIGR00443 hisZ_biosyn_reg ATP 28.3 87 0.0019 34.5 5.1 111 60-182 11-143 (314)
70 PLN02850 aspartate-tRNA ligase 26.7 32 0.00068 41.1 1.4 102 61-175 229-339 (530)
71 TIGR00457 asnS asparaginyl-tRN 26.4 34 0.00073 40.0 1.5 29 288-316 417-445 (453)
72 cd00775 LysRS_core Lys_tRNA sy 25.6 35 0.00075 38.1 1.4 23 293-315 302-324 (329)
73 PRK06462 asparagine synthetase 25.4 37 0.00079 38.0 1.5 108 60-176 33-152 (335)
74 PLN02850 aspartate-tRNA ligase 25.2 82 0.0018 37.6 4.4 29 288-316 494-522 (530)
75 PRK12444 threonyl-tRNA synthet 25.0 2.9E+02 0.0063 33.6 9.2 164 61-249 278-477 (639)
76 PF09862 DUF2089: Protein of u 24.8 1.1E+02 0.0025 29.1 4.4 57 402-465 52-111 (113)
77 PTZ00401 aspartyl-tRNA synthet 24.7 37 0.00081 40.7 1.5 29 288-316 514-542 (550)
78 PF01343 Peptidase_S49: Peptid 24.7 1E+02 0.0022 30.3 4.4 67 419-485 84-153 (154)
79 PTZ00425 asparagine-tRNA ligas 24.4 37 0.00081 40.9 1.4 29 288-316 550-578 (586)
80 TIGR00499 lysS_bact lysyl-tRNA 24.2 38 0.00083 40.0 1.5 28 289-316 463-490 (496)
81 PRK12295 hisZ ATP phosphoribos 24.0 1.2E+02 0.0026 34.5 5.3 119 54-182 1-136 (373)
82 PLN02603 asparaginyl-tRNA synt 23.9 40 0.00086 40.6 1.5 30 287-316 528-557 (565)
83 PLN02532 asparagine-tRNA synth 23.7 39 0.00086 41.0 1.4 29 288-316 597-625 (633)
84 KOG0478 DNA replication licens 23.5 1.8E+02 0.0039 35.8 6.7 37 348-389 619-655 (804)
85 PLN02221 asparaginyl-tRNA synt 23.1 41 0.00088 40.5 1.4 46 119-174 326-372 (572)
86 PF11867 DUF3387: Domain of un 22.8 5.1E+02 0.011 28.9 10.0 197 285-498 34-256 (335)
87 COG0017 AsnS Aspartyl/asparagi 22.6 52 0.0011 38.2 2.0 83 61-154 138-226 (435)
88 PRK12445 lysyl-tRNA synthetase 22.4 44 0.00095 39.6 1.5 23 293-315 476-498 (505)
89 PLN02502 lysyl-tRNA synthetase 22.4 44 0.00095 40.1 1.5 98 60-174 232-342 (553)
90 cd00773 HisRS-like_core Class 21.9 1.4E+02 0.0031 31.8 5.1 115 60-183 5-139 (261)
91 PRK05159 aspC aspartyl-tRNA sy 21.9 46 0.001 38.6 1.5 23 293-315 406-428 (437)
92 PRK09537 pylS pyrolysyl-tRNA s 21.8 3.2E+02 0.007 31.8 8.2 173 58-307 204-398 (417)
93 COG3981 Predicted acetyltransf 21.6 73 0.0016 32.6 2.6 33 362-396 102-134 (174)
94 PLN02502 lysyl-tRNA synthetase 21.4 83 0.0018 37.8 3.5 27 289-315 520-546 (553)
95 COG1190 LysU Lysyl-tRNA synthe 21.3 35 0.00075 40.1 0.3 201 2-214 121-356 (502)
96 PRK09350 poxB regulator PoxA; 21.2 56 0.0012 36.1 1.9 20 293-312 287-306 (306)
97 PRK00484 lysS lysyl-tRNA synth 21.2 46 0.001 39.3 1.3 23 293-315 462-484 (491)
98 PTZ00417 lysine-tRNA ligase; P 20.3 50 0.0011 39.9 1.4 23 293-315 556-578 (585)
99 TIGR00758 UDG_fam4 uracil-DNA 20.1 1.5E+02 0.0032 29.8 4.6 64 160-224 39-110 (173)
No 1
>KOG0188 consensus Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.5e-229 Score=1894.64 Aligned_cols=689 Identities=61% Similarity=1.008 Sum_probs=654.2
Q ss_pred CChHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccccccccCCCCCCCcccccccccccccccccCCCCCC
Q 003915 58 WPATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFLGTADPNTQLSKLTRACNTQKCIRAGGKHND 137 (787)
Q Consensus 58 ~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~flG~~~p~~~~~~~~r~~~~QkCiR~gGkhnD 137 (787)
||++|||++||+||++|.|++|+||||||.+||||||+|||||||||+|||+ +++++|++|+|||||+||||||
T Consensus 2 ~ta~evR~tFldfF~~k~H~~V~SSsViP~dDpTLLFaNAGMNQFKpifLgt------~a~lkRa~NsQKCIRAGGKHND 75 (895)
T KOG0188|consen 2 LTASEVRKTFLDFFKSKHHKIVHSSSVIPFDDPTLLFANAGMNQFKPIFLGT------MAKLKRAANSQKCIRAGGKHND 75 (895)
T ss_pred ccHHHHHHHHHHHHHhcCceEeccCCcccCCCCeeEEeccchhhcchhhhhc------hhhhHhhhhhhhHHhccCCcCC
Confidence 8999999999999999999999999999999999999999999999999998 3458999999999999999999
Q ss_pred CCCCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhc-CCCC
Q 003915 138 LDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKF-LPAS 216 (787)
Q Consensus 138 ld~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~-~~~~ 216 (787)
||+||+|.+||||||||||||||||||+|||.|||||||++||||+||||||||+||+++|||+|.||++||+++ +|++
T Consensus 76 LdDVGkD~yHhTfFEMlGNWSFGdYfK~Eac~~AwelLt~vygi~~dRLYVtYF~Gde~~Gl~~D~E~r~iW~~~Gvp~s 155 (895)
T KOG0188|consen 76 LDDVGKDFYHHTFFEMLGNWSFGDYFKEEACAWAWELLTFVYGIPTDRLYVTYFGGDEKLGLEPDLECREIWNELGVPDS 155 (895)
T ss_pred hhHhchhccccCchhhcCCCCcchHHHHHHHHHHHHHHHHhhcCCCceEEEEEecCccccCCCCCcHHHHHHHHcCCChh
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999 9999
Q ss_pred CcccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCccccCchH
Q 003915 217 RVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLGF 296 (787)
Q Consensus 217 rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDTGmGl 296 (787)
||++++.+|||||||+||||||||||||||+||++++.+||.|+|.++||||||||||||++||+|.|||+|||||||||
T Consensus 156 rILp~~~kDNFWEMGdtGPCGPCtEIHyDriG~r~a~~LVN~ddp~v~EiWNlVFiq~NRe~dGsL~pLp~khIDTGMGf 235 (895)
T KOG0188|consen 156 RILPFGMKDNFWEMGDTGPCGPCTEIHYDRIGGRDAVKLVNHDDPDVLEIWNIVFIQYNREADGSLKPLPKKHIDTGMGF 235 (895)
T ss_pred hccCCccccchhhhcCCCCCCcchhhhhhhhcCcchHHHhcCCCcCceeeeeeeeeeeccccCCccccCcccccccccCH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCCCccccccHHHHHHHHHHhCCCCCCCCCCCCCcccccchhhhhhhhhhheeeeecCCCccCCCCCchHH
Q 003915 297 ERLTSILQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADKVDMAYRVVADHIRTLSFAIADGSCPGNEGREYVL 376 (787)
Q Consensus 297 ERl~~vlqg~~snydtD~F~pli~~i~~~~~~~~y~g~~~~~~~~~~~~~~rviaDH~R~~~f~i~DGv~Psn~grgYvl 376 (787)
|||++|||+|.||||||+|+||+++|++.++++ |+| ++.+.+|+||||+|||+||+++|||||.+|+|+||||||
T Consensus 236 ERLvsVlQnk~SNYDTDlFtPif~aiq~~~~~~-YtG----~d~d~~D~AyRVvADH~RtlTvalsDG~~Pdn~GrgyvL 310 (895)
T KOG0188|consen 236 ERLVSVLQNKTSNYDTDLFTPIFEAIQEGTGAR-YTG----EDADGIDTAYRVVADHARTLTVALSDGGVPDNTGRGYVL 310 (895)
T ss_pred HHHHHHHhcccccccchhhHHHHHHHHHhcCCC-ccC----CccccchhhHHHHHHHhhhhheeeecCCCCCCCCChhHH
Confidence 999999999999999999999999999999997 997 456789999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhhCCCcchhhhHHHHHHHHhcCCChhhHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-C
Q 003915 377 RRILRRAVRYGSEVLKAQDGFFNGLVNIVVKVMGDVFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKKAAQDVQG-K 455 (787)
Q Consensus 377 RrilRRa~r~~~~~lg~~~~fl~~lv~~v~~~m~~~ypeL~~~~~~I~~ii~~EE~~F~~TL~~G~~~l~~~i~~~~~-~ 455 (787)
|||||||+||++.+||++++||..|||+|++.||++||||+++.+.|.++|.+||+.|++||++|.++|++.++.+++ +
T Consensus 311 RRILRRavrya~e~l~~~~g~~~~LVpvvv~~lgd~fPEl~~~~~~v~diineEE~~F~ktl~rg~~~f~r~~~~~~~s~ 390 (895)
T KOG0188|consen 311 RRILRRAVRYAHEKLNAPPGFFSTLVPVVVETLGDAFPELKRDPQHVIDIINEEEAQFLKTLDRGRKLFDRVARELGSSK 390 (895)
T ss_pred HHHHHHHHHHHHHHhCCCcchhhhhhHHHHHHHhhhchhhhcCHHHHHHHhcHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999998864 6
Q ss_pred CCChHHHHHhhhcCCCChhhHHHHHHHcCcccChhhHHHHHHHHHHHhHhhhhcccCCccccchHHHHHHhhcCCCCccc
Q 003915 456 VLSGQDAFILWDTYGFPLDLTQLMAEERGLLVDIEGFNNAMDEARERSRSAQNKQAGGAIVMDADATAALHKRGVLATDD 535 (787)
Q Consensus 456 ~isg~~af~LydTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~~r~~sr~~~~~~~~~~~~~~~~~~~~l~~~~~~~T~~ 535 (787)
+|||++||.||||||||+|||++||+|+|++||+++|+++.++.+++|+++.+...+ +.++. +.+| +|+|+|
T Consensus 391 tipGd~~w~LydTyGfPvdlt~lmAee~gl~iD~~~fE~ar~~A~~~Sk~~~~~~~~--i~ldv--l~el----~p~TdD 462 (895)
T KOG0188|consen 391 TIPGDVAWRLYDTYGFPVDLTELMAEEKGLKIDETGFEAARQEAQEKSKGAGGGKLS--IDLDV--LSEL----VPPTDD 462 (895)
T ss_pred cCchHHHHHHHhhcCCcHHHHHHHHHHhCCccCchhHHHHHHHHHHHHhccCCCCCc--ccHHH--HHhh----CCCCCC
Confidence 999999999999999999999999999999999999999999999999876543322 33333 4433 799999
Q ss_pred CCCcccceeecEEEEEEEeCCeeeeeecCCCeEEEEEccceeeeCCCCccCcceEEEecCc---eEEEEeEEEECCEEEE
Q 003915 536 SFKFIWFQDHKSVIKAIYTGSEFIESVVPGNEVGIVLASSSFYAEQGGQIFDEGFIEGLFG---SFYVRNVQIYGGFVIH 612 (787)
Q Consensus 536 ~~~Y~y~~~~~akVlai~~~~~~v~~~~~~~~~~VvLD~T~FYpegGGQ~~D~G~I~~~~~---~~~V~dv~k~~g~ivH 612 (787)
++||+-...++++|++++.++.+++++..|++..||||+|+||+|+|||.+|+|.|...+. .|.|..++. +|+|+|
T Consensus 463 s~KY~~~~~~~~~il~l~~e~~~v~~~~~g~~~givldktnFYaEqGGQ~~D~G~lv~~~~~~~~fnV~~~~~-gg~vvh 541 (895)
T KOG0188|consen 463 SFKYNEFGVCKTRILALYREDQFVESIPKGQECGIVLDKTNFYAEQGGQIYDTGKLVIDGDEDFVFNVKRVQV-GGYVVH 541 (895)
T ss_pred ccccccCccchhhhhhhhcCCceeeecCCCceEEEEeecceeehhcCCcccccceEEEecCccceeehhhccc-CCEEEE
Confidence 9999535679999999999999999999999999999999999999999999999986543 455555565 899999
Q ss_pred EEEeecCCCcCCCCCEEEEEEehhchhhhcccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHH
Q 003915 613 IGSLTEGAGRFSVGEEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRR 692 (787)
Q Consensus 613 ~~~~~~~~~~l~~G~~V~~~VD~erR~~~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~ 692 (787)
.+.. . +.+.+||+|.+.+|++||..+|+|||||||||+|||+++ ..+.|+||+|+||++||||++..++|.||+++
T Consensus 542 ~g~l-~--~~l~vgdqv~~~~De~rR~~im~nHTaTHlLN~aLr~~l-~~t~QkGSlV~pdklRfDf~~k~~lt~eql~~ 617 (895)
T KOG0188|consen 542 IGVL-E--GDLSVGDQVELHVDEERRQLIMRNHTATHLLNFALRQVL-KGTDQKGSLVAPDKLRFDFSTKGALTKEQLKK 617 (895)
T ss_pred Eeee-c--cccccchhHHHHhhHHHHHHHhhcchHHHHHHHHHHHhc-ccccccccccChhHeeeecccCCCCCHHHHHH
Confidence 9986 3 799999999999999999999999999999999999999 45789999999999999999998999999999
Q ss_pred HHHHHHHHHHcCCCEEEEEcCHHHHhcccCchhhcCCCCCCCEEEEEEccccccccCCcCCcccCCceeeccCCcccccc
Q 003915 693 IESIVNEQIKAELDVFSKEATLAEAKCINGLRAVFGEVYPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIM 772 (787)
Q Consensus 693 IE~~vNe~I~~n~pV~~~~~~~~EA~~~~gl~~~fgE~y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT 772 (787)
+|+.+|++|.++.+|.++++++++|++++|+++.|+|.||++||||++|. +..+++|+|||||+.||
T Consensus 618 vE~~~ne~I~~~~~V~~~e~~l~~ak~i~glr~v~~E~YPdpVRVVsvg~-------------~~~~svE~CgGTH~~~t 684 (895)
T KOG0188|consen 618 VEDKINEFIQKNAPVYAKELPLAEAKKIPGLRAVFDEVYPDPVRVVSVGA-------------GQLTSVEFCGGTHLTNT 684 (895)
T ss_pred HHHHHHHHHhcCCceEEEecCHHHHhcCCCcccccCCccCCceEEEEecc-------------ccccceeecCCcccccc
Confidence 99999999999999999999999999999999999999999999999984 34689999999999999
Q ss_pred ccCCcEEEeee
Q 003915 773 CSHSWSLALNC 783 (787)
Q Consensus 773 ~eIg~ikil~~ 783 (787)
++||.|.|++-
T Consensus 685 ~~i~~fvI~se 695 (895)
T KOG0188|consen 685 SHIGDFVIVSE 695 (895)
T ss_pred cccceEEEech
Confidence 99999999874
No 2
>PLN02900 alanyl-tRNA synthetase
Probab=100.00 E-value=5.7e-227 Score=2005.56 Aligned_cols=717 Identities=72% Similarity=1.161 Sum_probs=664.5
Q ss_pred cCCCCCCCCCCChHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccccccccCCCCCCCccccccccccccc
Q 003915 48 MPGADPQVVEWPATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFLGTADPNTQLSKLTRACNTQK 127 (787)
Q Consensus 48 ~~~~~~~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~flG~~~p~~~~~~~~r~~~~Qk 127 (787)
||-.++.+++|+++|||++||+||++|||++||||||||+||||||||||||+||||||+|.++|++++++|+|+|+|||
T Consensus 1 ~~~~~~~~~~~~~~eiR~~Fl~FF~~~gH~~v~s~slvp~~dptllftnAGm~~Fk~~f~G~~~p~~~~~~~~R~~~~Qk 80 (936)
T PLN02900 1 MPEDDAPEKEWPGDRIRRTFLSFFESKGHTFLPSSPLVPVDDPTLLFTNAGMNQFKPIFLGTADPNTPLRKLPRATNTQK 80 (936)
T ss_pred CCCCccccCCCCHHHHHHHHHHHHHhCCCEEeCCCCcCCCCCCCeeeeecchhhhhhhhcCCCCCCCCCCCCCceeeecc
Confidence 77777788889999999999999999999999999999999999999999999999999999999777778999999999
Q ss_pred ccccCCCCCCCCCCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHH
Q 003915 128 CIRAGGKHNDLDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARD 207 (787)
Q Consensus 128 CiR~gGkhnDld~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~ 207 (787)
|||+|||||||||||+|+|||||||||||||||||||+|||.|||||||++|||||+|||||||++|+++ |+|+||++
T Consensus 81 CiR~gGKHnDlenVG~t~rHhTfFEMlGnfSfgdYfK~eaI~~awe~lT~~l~i~~~~l~vTv~~~D~~~--~~d~Ea~~ 158 (936)
T PLN02900 81 CIRAGGKHNDLDDVGKDTYHHTFFEMLGNWSFGDYFKKEAIGWAWELLTKVYGLPADRLYATYFGGDEKQ--APDDEARA 158 (936)
T ss_pred cccCCCCCCCHhhccCCCCchHHHHhhhccchhhhhHHHHHHHHHHHHHHhcCCCHHHEEEEEeCCCCCc--CCCHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999874 99999999
Q ss_pred HHHhcCCCCCcccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCC
Q 003915 208 IWLKFLPASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPA 287 (787)
Q Consensus 208 iW~~~~~~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~ 287 (787)
||+++||++||+++|.+||||+||+|||||||||||||+++++++.++++.+|+|||||||||||||||++||+|+|||+
T Consensus 159 iW~~~~~~~rI~~~~~~dNfW~~G~tGpcGPcsEi~yD~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~Lp~ 238 (936)
T PLN02900 159 IWLDYLPEERVLPFGCKDNFWEMGDTGPCGPCSEIHYDRIGERDAADLVNNDDPRFIEIWNLVFIQFNREADGSLKPLPA 238 (936)
T ss_pred HHHHhCCHHHeecCCcccCCccCCCCcCCCCCeEEEEecCCccCccccCCCCCCCEEEEeeeeeeeeeecCCCceeeCCC
Confidence 99999999999999999999999999999999999999998877766677789999999999999999999999999999
Q ss_pred CccccCchHHHHHHHHhCCCCCccccccHHHHHHHHHHhCCCCCCCCCCCCCcccccchhhhhhhhhhheeeeecCCCcc
Q 003915 288 KHVDTGLGFERLTSILQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADKVDMAYRVVADHIRTLSFAIADGSCP 367 (787)
Q Consensus 288 ~~IDTGmGlERl~~vlqg~~snydtD~F~pli~~i~~~~~~~~y~g~~~~~~~~~~~~~~rviaDH~R~~~f~i~DGv~P 367 (787)
||||||||||||+|||||++||||||+|.|||++|++++|+++|+|....++.+..++||||||||+||++|||+||++|
T Consensus 239 ~~IDTGmGLERl~~vlqg~~snydtDlf~pii~~i~~~~~~~~~~~~~y~~~~~~~~~a~rviaDH~R~~~f~i~DGv~P 318 (936)
T PLN02900 239 KHVDTGMGLERLASILQNKPSNYDTDLFMPIFDAIQEATGARPYAGKVGAEDDDRVDMAYRVVADHIRTLSFAIADGVVP 318 (936)
T ss_pred CeeecCcCHHHHHHHHcCCCCcchhhhHHHHHHHHHHHhCCCccccccccccccccceeeeeehhhHHHHHHHHhcCCcc
Confidence 99999999999999999999999999999999999999998889886543332456789999999999999999999999
Q ss_pred CCCCCchHHHHHHHHHHHHHHhhhCCCcchhhhHHHHHHHHhcCCChhhHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003915 368 GNEGREYVLRRILRRAVRYGSEVLKAQDGFFNGLVNIVVKVMGDVFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKK 447 (787)
Q Consensus 368 sn~grgYvlRrilRRa~r~~~~~lg~~~~fl~~lv~~v~~~m~~~ypeL~~~~~~I~~ii~~EE~~F~~TL~~G~~~l~~ 447 (787)
||+|||||||||||||+|+++.+||++.|||++||+.|++.|++.||||.++++.|++||+.||++|.+||++|+++|++
T Consensus 319 sN~grgYvlRrilRRa~r~~~~~lg~~~~fl~~lv~~v~~~~~~~ypel~~~~~~I~~ii~~EE~~F~~tl~~G~~~l~~ 398 (936)
T PLN02900 319 SNEGRGYVLRRLLRRAVRYGRLLLGAEEGFFPALVEVVVELSGDVFPEVKKNEKRITEIIAEEELSFGKTLEKGIEKFKK 398 (936)
T ss_pred CCCCccHHHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhccCcHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999644899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhc---CCCCChHHHHHhhhcCCCChhhHHHHHHHcCcccChhhHHHHHHHHHHHhHhhhhcccCCccccchHHHHH
Q 003915 448 AAQDVQ---GKVLSGQDAFILWDTYGFPLDLTQLMAEERGLLVDIEGFNNAMDEARERSRSAQNKQAGGAIVMDADATAA 524 (787)
Q Consensus 448 ~i~~~~---~~~isg~~af~LydTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~~r~~sr~~~~~~~~~~~~~~~~~~~~ 524 (787)
++++++ ++.|||++||+||||||||+|||++||+|+|+.||+++|+++|++||++||++++.........+...+..
T Consensus 399 ~i~~~~~~~~~~l~g~~af~LydTyGfP~dlt~~ia~e~g~~vD~~~F~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~ 478 (936)
T PLN02900 399 ALAAAKANGGPVLSGKDAFLLYDTYGFPVDLTELMAEERGVTVDMEGFEAAMEEARERSRAAHLKAGGGAIELAAEATSW 478 (936)
T ss_pred HHHHHhhcCCCcCCHHHHHHHHhccCCCHHHHHHHHHHcCCeecHHHHHHHHHHHHHHHHhhhhccccccccccHHHHHH
Confidence 998765 25899999999999999999999999999999999999999999999999876532221111223233344
Q ss_pred HhhcCCCCcccCCCcccceeecEEEEEEEeCCeeeeeecCCCeEEEEEccceeeeCCCCccCcceEEEecCc-eEEEEeE
Q 003915 525 LHKRGVLATDDSFKFIWFQDHKSVIKAIYTGSEFIESVVPGNEVGIVLASSSFYAEQGGQIFDEGFIEGLFG-SFYVRNV 603 (787)
Q Consensus 525 l~~~~~~~T~~~~~Y~y~~~~~akVlai~~~~~~v~~~~~~~~~~VvLD~T~FYpegGGQ~~D~G~I~~~~~-~~~V~dv 603 (787)
+.+...+++.+|.||++..+++|+|++++.+++.|+++++++.+.|+||+|+|||||||||+|+|+|..+++ .+.|.+|
T Consensus 479 ~~~~~~~~~t~f~gY~~~~~~~~~v~~i~~~~~~v~~~~~g~~~~vvLd~T~FYpEgGGQp~D~G~I~~~~~~~~~V~dv 558 (936)
T PLN02900 479 LQKQGVAATDDFLKYDWLSDHEAVVKAILTGGGFVESVSEGDEVGIVLDKTSFYAESGGQIGDTGVLEGSGGAVVEVSDV 558 (936)
T ss_pred HHhccCCCCCcccccccCCccceEEEEEEECCceeeeccCCCeEEEEEeCCCCCCCCCCCCCCEEEEecCCCCEEEEEEE
Confidence 433223333469999954338999999999888999998888899999999999999999999999987766 7999999
Q ss_pred EEECCEEEEEEEeecCCCcCCCCCEEEEEEehhchhhhcccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCC
Q 003915 604 QIYGGFVIHIGSLTEGAGRFSVGEEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGK 683 (787)
Q Consensus 604 ~k~~g~ivH~~~~~~~~~~l~~G~~V~~~VD~erR~~~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~ 683 (787)
++.+|.++|.+.+.. +.+.+|++|.+.|||+||+.+|++|||+|||++||++++|.|++|+|++++++++||||++++
T Consensus 559 ~k~~g~i~H~~~~~~--g~l~~G~~V~~~VD~~rR~~~m~~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~r~Df~~~~ 636 (936)
T PLN02900 559 QKAGGFVLHIGTVTE--GSVSVGDAVTCKVDYDRRRRIAPNHTATHLLNSALKEVLGDHVDQKGSLVAFEKLRFDFSHGK 636 (936)
T ss_pred EEECCEEEEEEEecc--CCCCCCCEEEEEECHHHHHHHHHHHHHHHHHHHHHHHHcCCcEEeccccccCCeEEEEeeCCC
Confidence 999999999987644 678999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHHcCCCEEEEEcCHHHHhcccCchhhcCCCCCCCEEEEEEccccccccCCcCCcccCCc-eee
Q 003915 684 PVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAKCINGLRAVFGEVYPDPVRVVAIGRKVEDLLADPENKEWLSI-SAE 762 (787)
Q Consensus 684 ~lt~eeL~~IE~~vNe~I~~n~pV~~~~~~~~EA~~~~gl~~~fgE~y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~-s~e 762 (787)
++|++++++||+.||++|++|+||++.+++++||+++.|++++|+++|++.||||+|+ ++ |.+
T Consensus 637 ~lt~eel~~IE~~vNe~I~~n~pV~~~~~~~eEA~~~~g~~~~f~e~y~~~VRVV~Ig----------------~~~d~e 700 (936)
T PLN02900 637 PMTPEELREVESLVNEWIGDALPVEAKEMPLADAKRINGLRAVFGEKYPDPVRVVSVG----------------GVYSME 700 (936)
T ss_pred CCCHHHHHHHHHHHHHHHHhCCCeEEEEcCHHHHhhccChHhhcCCCCCCcEEEEEEC----------------Ccccee
Confidence 9999999999999999999999999999999999997899999999999999999998 66 999
Q ss_pred ccCCccccccccCCcEEEeeee
Q 003915 763 LCGGQYVAIMCSHSWSLALNCL 784 (787)
Q Consensus 763 lCGGTHV~nT~eIg~ikil~~~ 784 (787)
+||||||.||++||.|+|+++.
T Consensus 701 lCGGTHV~nTgeIG~fkIls~~ 722 (936)
T PLN02900 701 LCGGTHVSNTAEAEAFKLLSEE 722 (936)
T ss_pred CCCCCcCCccccCceEEEEEEe
Confidence 9999999999999999999976
No 3
>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.4e-225 Score=1943.69 Aligned_cols=676 Identities=48% Similarity=0.828 Sum_probs=629.1
Q ss_pred CChHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccccccccCCCCCCCcccccccccccccccccCCCCCC
Q 003915 58 WPATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFLGTADPNTQLSKLTRACNTQKCIRAGGKHND 137 (787)
Q Consensus 58 ~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~flG~~~p~~~~~~~~r~~~~QkCiR~gGkhnD 137 (787)
||++|||++||+||++|||++||||||||+||||||||||||+||||||+|.++||+ .|+|+||||||+ ||
T Consensus 6 ~t~~EiR~~FL~FF~~kgH~~v~s~slVP~nDptLLftnAGm~~FK~~f~g~v~p~~-----~r~~~sQkcIR~----ND 76 (879)
T COG0013 6 LTTNEIRQKFLDFFEKKGHTVVPSSPLVPRNDPTLLFTNAGMVQFKPYFTGGVTPPA-----NRAVTSQKCIRT----ND 76 (879)
T ss_pred CCHHHHHHHHHHHHHHCCCeecCCCCcCCCCCCCeEEeecccccchhhhcCCCCCCC-----CCeecccccccc----Cc
Confidence 999999999999999999999999999999999999999999999999999977764 399999999999 99
Q ss_pred CCCCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhc--CCC
Q 003915 138 LDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKF--LPA 215 (787)
Q Consensus 138 ld~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~--~~~ 215 (787)
|||||+|+|||||||||||||||||||+|||.|||||||++|||||||||||||+ .|+||+++|+++ +|+
T Consensus 77 ieNVG~T~RHhTfFEMLGNfSFGdYFKeeAI~~AwEflT~~lgl~~ekL~vtvy~--------~Ddea~~~W~~~~gip~ 148 (879)
T COG0013 77 IDNVGYTARHHTFFEMLGNFSFGDYFKEEAIEFAWEFLTKVLGLPKEKLYVTVYE--------DDDEAYNEWEKIIGIPP 148 (879)
T ss_pred hhhcCccccchhHHHhhhcCchhHHHHHHHHHHHHHHHHhhcCCCHHHEEEEEec--------CchHHHHHHHhhcCCCH
Confidence 9999999999999999999999999999999999999999999999999999997 489999999987 999
Q ss_pred CCcccCCCCCCcccCCCCCCCcCceeEEeecCCCCC--CCCCCCCCCCceEEEeeeeccccccC-CCCccccCCCCcccc
Q 003915 216 SRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRD--AASLVNNDDPTCIEIWNIVFIQFNRE-SDGSLKPLPAKHVDT 292 (787)
Q Consensus 216 ~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~--~~~~~~~~~~r~lEiwNlVFmqy~r~-~~g~l~~Lp~~~IDT 292 (787)
+||+|++.+||||+||+ ||||||||||||+|+..+ ....++.|++|||||||||||||||+ .+|+|.|||+|||||
T Consensus 149 ~rIir~~~~dNfW~~G~-GPcGPcsEI~yD~G~~~~~~~~~~~~~d~dR~lEiwNLVFmQfnr~~~~g~~~~Lp~k~IDT 227 (879)
T COG0013 149 ERIIRIGASDNFWEMGD-GPCGPCSEIFYDRGEEIGGGPPGSPDEDGDRYLEIWNLVFMQYNRDPGDGNYTPLPKKNIDT 227 (879)
T ss_pred HHeeecCcCCCCCCCCC-cCCCCceEEEEcCCcccCCCCCCCcCCCCCceEEEeeeeehhhccCCCCCCcccCCCCCccc
Confidence 99999999999999999 999999999999976433 33567899999999999999999999 799999999999999
Q ss_pred CchHHHHHHHHhCCCCCccccccHHHHHHHHHHhCCCCCCCCCCCCCcccccchhhhhhhhhhheeeeecCCCccCCCCC
Q 003915 293 GLGFERLTSILQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADKVDMAYRVVADHIRTLSFAIADGSCPGNEGR 372 (787)
Q Consensus 293 GmGlERl~~vlqg~~snydtD~F~pli~~i~~~~~~~~y~g~~~~~~~~~~~~~~rviaDH~R~~~f~i~DGv~Psn~gr 372 (787)
|||||||+|||||+|||||||+|.|||+.+++++|.. |. .+.+.++.++||||||+||++|||+|||+|||+||
T Consensus 228 GmGLERi~~vlQ~~~tnyd~dlf~~ii~~~e~~~g~~-~~-----~~~~~~~~s~rVIADH~Rs~~f~iaDGv~PSNegr 301 (879)
T COG0013 228 GMGLERIAAVLQGVPTNYDTDLFRPIIKAIEKLTGKK-YG-----EDEEDPDVSFRVIADHIRSLAFMIADGVLPSNEGR 301 (879)
T ss_pred CccHHHHHHHHcCCCcchhhhhhHHHHHHHHHHhCCc-CC-----ccccccceeEEEehhHHHHHHHHHhCCCCcCCCCc
Confidence 9999999999999999999999999999999999874 53 12233477999999999999999999999999999
Q ss_pred chHHHHHHHHHHHHHHhhhCCCcchhhhHHHHHHHHhcCCChhhHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 003915 373 EYVLRRILRRAVRYGSEVLKAQDGFFNGLVNIVVKVMGDVFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKKAAQDV 452 (787)
Q Consensus 373 gYvlRrilRRa~r~~~~~lg~~~~fl~~lv~~v~~~m~~~ypeL~~~~~~I~~ii~~EE~~F~~TL~~G~~~l~~~i~~~ 452 (787)
|||||||||||+|++ ++||++.|||++||+++++.|+++||||+++++.|+++|+.||++|.+||++|+++|+++++++
T Consensus 302 GYvlRriiRRa~R~~-~~LG~~~~fl~~LV~~~~~~m~~~ypel~~~~~~I~~vl~~EEe~F~~TL~~G~~l~~~~~~~~ 380 (879)
T COG0013 302 GYVLRRIIRRALRHG-KLLGIKEPFLYKLVDTVIDEMGDAYPELKEKEDFIKEVLKLEEERFAKTLERGLKLLEKELAKL 380 (879)
T ss_pred cHHHHHHHHHHHHHH-HHhCCCchHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 999999999999999 5799999999999999999999999999999999999999999999999999999999999988
Q ss_pred cC-CCCChHHHHHhhhcCCCChhhHHHHHHHcCcccChhhHHHHHHHHHHHhHhhhhcccCCccccchHHHHHHhhcCCC
Q 003915 453 QG-KVLSGQDAFILWDTYGFPLDLTQLMAEERGLLVDIEGFNNAMDEARERSRSAQNKQAGGAIVMDADATAALHKRGVL 531 (787)
Q Consensus 453 ~~-~~isg~~af~LydTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~~r~~sr~~~~~~~~~~~~~~~~~~~~l~~~~~~ 531 (787)
++ ++|||++||+||||||||+|||++||+|+|++||+++|+++|++||++||+++ .+.. .........+.. ..+
T Consensus 381 ~~~~~l~ge~afkLYDTyGfP~eLt~eia~e~g~~VD~~~f~~~m~~qr~~ar~~~-~~~~---~~~~~~~~~~~~-~~~ 455 (879)
T COG0013 381 KKSKTLDGEDAFKLYDTYGFPVELTEEIAEERGLKVDEPGFEYAMEAQRERARASA-GSGE---GAKESEDLELID-KLP 455 (879)
T ss_pred ccCCccChHHheeehhcCCCCHHHHHHHHHHcCCeeccccHHHHHHHHHHHhhhcc-cccc---ccchhhhhhhhc-cCC
Confidence 65 68999999999999999999999999999999999999999999999999754 1111 111111111111 235
Q ss_pred CcccCCCcccceeecEEEEEEEeCCeeeeeecCCCeEEEEEccceeeeCCCCccCcceEEEec-CceEEEEeEEEEC-CE
Q 003915 532 ATDDSFKFIWFQDHKSVIKAIYTGSEFIESVVPGNEVGIVLASSSFYAEQGGQIFDEGFIEGL-FGSFYVRNVQIYG-GF 609 (787)
Q Consensus 532 ~T~~~~~Y~y~~~~~akVlai~~~~~~v~~~~~~~~~~VvLD~T~FYpegGGQ~~D~G~I~~~-~~~~~V~dv~k~~-g~ 609 (787)
+|+ |.||+ ..+++++|++++.+++.|+++++|+.++||||+||||||||||++|+|+|..+ +..+.|.||||.+ +.
T Consensus 456 ~te-f~gY~-~~~~~~~i~~l~~~~~~v~~~~~g~~~~vVld~TpFYaEsGGQ~~D~G~i~~~~~~~~~V~dvqK~~~~~ 533 (879)
T COG0013 456 ETE-FLGYD-DLEMEFKVLVLFVDGKEVSELNEGQEVYVVLDQTPFYAESGGQVGDTGYIFGDGGGRFEVTDVQKVGNGV 533 (879)
T ss_pred Cce-eeecc-cccceEEEEEEEecCcccccccCCceEEEEEecCCccCCCCCccCceEEEEecCCcEEEEEEEEEcCCce
Confidence 564 99999 78888999999988776889999999999999999999999999999999987 4789999999997 89
Q ss_pred EEEEEEeecCCCcCCCCCEEEEEEehhchhhhcccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHH
Q 003915 610 VIHIGSLTEGAGRFSVGEEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEH 689 (787)
Q Consensus 610 ivH~~~~~~~~~~l~~G~~V~~~VD~erR~~~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~ee 689 (787)
++|.+.... |.+++|+.|.++|||+||.++|+|||||||||+|||++||.||+|+||+++++++||||+|++++|+|+
T Consensus 534 ~vH~~~~~~--G~l~~gd~V~~~vD~~rR~~~~~nHTATHLLh~ALr~VLG~hV~QaGSlv~~~~lRfDfsH~~~it~Ee 611 (879)
T COG0013 534 IVHKGKVES--GELKVGDEVTAEVDEERRRRLMRNHTATHLLHAALRKVLGDHVWQAGSLVDPEKLRFDFSHYKALTAEE 611 (879)
T ss_pred EEEEEeecc--CccCCCCEEEEEECHHHHHHHHhhChHHHHHHHHHHHHhCccceecCcccCCCeeEEeecCCCCCCHHH
Confidence 999999866 899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHcCCCEEEEEcCHHHHhcccCchhhcCCCCCCCEEEEEEccccccccCCcCCcccCCceeeccCCccc
Q 003915 690 LRRIESIVNEQIKAELDVFSKEATLAEAKCINGLRAVFGEVYPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYV 769 (787)
Q Consensus 690 L~~IE~~vNe~I~~n~pV~~~~~~~~EA~~~~gl~~~fgE~y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV 769 (787)
|++||+++|++|++|.||++.+|++++|+++ |++++|||+|++.||||+|| ++|+|+||||||
T Consensus 612 l~~IE~~vNe~I~~n~~V~~~~m~~~eAk~~-Ga~alfGekY~~~VRVV~ig----------------~~SvElCGGTHv 674 (879)
T COG0013 612 LKEIERLVNEIIRENLPVKTEEMDLDEAKAK-GAMALFGEKYGDEVRVVEIG----------------DFSVELCGGTHV 674 (879)
T ss_pred HHHHHHHHHHHHHcCCceeEEEccHHHHHHh-ChHhhcCCcCCCeEEEEEEC----------------CceeeccCCccc
Confidence 9999999999999999999999999999997 99999999999999999999 689999999999
Q ss_pred cccccCCcEEEeeee
Q 003915 770 AIMCSHSWSLALNCL 784 (787)
Q Consensus 770 ~nT~eIg~ikil~~~ 784 (787)
+||++||.|||++..
T Consensus 675 ~~Tg~IG~fkI~~e~ 689 (879)
T COG0013 675 SNTGDIGLFKIISEE 689 (879)
T ss_pred CCccceeeEEEEEec
Confidence 999999999999864
No 4
>TIGR00344 alaS alanine--tRNA ligase. The model describes alanine--tRNA ligase. This enzyme catalyzes the reaction (tRNAala + L-alanine + ATP = L-alanyl-tRNAala + pyrophosphate + AMP).
Probab=100.00 E-value=3.5e-215 Score=1899.33 Aligned_cols=676 Identities=45% Similarity=0.783 Sum_probs=626.1
Q ss_pred HHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccccccccCCCCCCCcccccccccccccccccCCCCCCCCCC
Q 003915 62 KVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFLGTADPNTQLSKLTRACNTQKCIRAGGKHNDLDDV 141 (787)
Q Consensus 62 eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~flG~~~p~~~~~~~~r~~~~QkCiR~gGkhnDld~V 141 (787)
|||++||+||++|||++||||||||+||||||||||||+||||||+|+++|+ ++|+|+||||||+ ||||||
T Consensus 1 eiR~~fl~fF~~~gH~~v~s~slvp~~dptllf~nAGm~~fk~~f~G~~~p~-----~~r~~~~QkCiR~----nDld~V 71 (851)
T TIGR00344 1 EIRQTFLDFFKEKGHQVIPSASLVPRNDPTLLLTNAGMAQFKPIFTGIVKPP-----SNRLVNAQPCIRL----NDIENV 71 (851)
T ss_pred CHHHHHHHHHHhCCCEEcCCCCcCCCCCCCeeeeccchhhhhHHhcCCCCCC-----CCCcccccccccc----cchhhh
Confidence 6999999999999999999999999999999999999999999999999886 5799999999999 999999
Q ss_pred CCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhc-CCCCCccc
Q 003915 142 GKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKF-LPASRVLP 220 (787)
Q Consensus 142 G~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~-~~~~rI~~ 220 (787)
|+|+|||||||||||||||||||+|||+|||||||++|||||+|||||||++ |+||++||+++ ||++||++
T Consensus 72 G~t~rHhTfFEMlGnfSFgdYfK~eai~~awe~lT~~~~i~~~rl~vTv~~~--------D~ea~~iW~~~g~~~~~i~~ 143 (851)
T TIGR00344 72 GRTARHHTFFEMLGNFSFGDYFKEEAIAFAWELLTSVLGLDKERLYVTVYED--------DEEAYEIWEKHGIPAERIIR 143 (851)
T ss_pred cCCCcchhhHHhhcccchhhhhHHHHHHHHHHHHhhhcCCChHHEEEEEcCC--------CHHHHHHHHhcCCCHHHccc
Confidence 9999999999999999999999999999999999999999999999999974 88999999999 99999999
Q ss_pred CCCCCCcccCCCCCCCcCceeEEeecCC---CCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCccccCchHH
Q 003915 221 FGCKDNFWEMGDTGPCGPCSEIHYDRTG---NRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLGFE 297 (787)
Q Consensus 221 ~~~~dNfW~mG~~GpCGPCsEI~yd~~~---~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDTGmGlE 297 (787)
++.+||||+||+ ||||||||||||+++ |+.+.+++|.+|+|||||||||||||||++||+|+|||+||||||||||
T Consensus 144 ~~~~dNfW~~G~-GpcGPcsEi~yD~g~~~~~~~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~Lp~~~IDTGmGLE 222 (851)
T TIGR00344 144 CGDKDNFWDMGD-GPCGPCTEIYYDRGEFVGGKPGEPEFFEENDRYVEVWNLVFMQFNRDPDGNYTPLPKKNIDTGMGLE 222 (851)
T ss_pred CCccCCcCCCCC-cCCccCeEEEEecCcccCCCCCcccccCCCCcEEEEeeeeeEeeeecCCCceeeCCCCeeecCcCHH
Confidence 999999999999 999999999999864 3345567788999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCCCccccccHHHHHHHHHHhCCCCCCCCCCCCCccc--ccchhhhhhhhhhheeeeecCCCccCCCCCchH
Q 003915 298 RLTSILQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADK--VDMAYRVVADHIRTLSFAIADGSCPGNEGREYV 375 (787)
Q Consensus 298 Rl~~vlqg~~snydtD~F~pli~~i~~~~~~~~y~g~~~~~~~~~--~~~~~rviaDH~R~~~f~i~DGv~Psn~grgYv 375 (787)
||+|||||++||||||+|.|||++|++++|+.+|.+..+..+.+. .+.||||||||+||++|||+||++|||+|||||
T Consensus 223 Rl~~vlqg~~snydtD~f~~ii~~i~~~~g~~y~~~~~~~~d~~~~~~~~~~rviaDH~R~~~f~i~DGv~PsN~grgYv 302 (851)
T TIGR00344 223 RFVAVLQGVPTNYDTDIFLPLIEKIEEITGVKYDSNNAGIMDEKRVEDLRSLRVIADHTRALAFMLADGVVPSNEGRGYV 302 (851)
T ss_pred HHHHHHcCCCCcchhhhHHHHHHHHHHHhCCCCCcCccccccccccccchheeeehhhhhhhhhhhccCcccCCCCCchh
Confidence 999999999999999999999999999999864444433333332 246999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhCCCcchhhhHHHHHHHHhcCCChhhHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 003915 376 LRRILRRAVRYGSEVLKAQDGFFNGLVNIVVKVMGDVFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKKAAQDVQGK 455 (787)
Q Consensus 376 lRrilRRa~r~~~~~lg~~~~fl~~lv~~v~~~m~~~ypeL~~~~~~I~~ii~~EE~~F~~TL~~G~~~l~~~i~~~~~~ 455 (787)
||||||||+|++ ++||++.+||++||+.|++.|++.||||.++++.|++||+.||++|.+||++|+++|++++++++++
T Consensus 303 lRrilRRa~r~~-~~lg~~~~fl~~lv~~~~~~m~~~ypel~~~~~~i~~ii~~Ee~~f~~tl~~G~~~l~~~~~~~~~~ 381 (851)
T TIGR00344 303 LRRLIRRALRHG-KKLGLKEAFLYKLVPTLIEVLGDYYPELKEKQEFVEQILELEEERFAKTLERGLRLFEKLLKKLGKK 381 (851)
T ss_pred HHHHHHHHHHHH-HHhCCCchHHHHHHHHHHHHHhhhChHhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 999999999999 5799999999999999999999999999999999999999999999999999999999999887556
Q ss_pred CCChHHHHHhhhcCCCChhhHHHHHHHcCcccChhhHHHHHHHHHHHhHhhhhcccCCccccchHHHHHHhhcCCCCccc
Q 003915 456 VLSGQDAFILWDTYGFPLDLTQLMAEERGLLVDIEGFNNAMDEARERSRSAQNKQAGGAIVMDADATAALHKRGVLATDD 535 (787)
Q Consensus 456 ~isg~~af~LydTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~~r~~sr~~~~~~~~~~~~~~~~~~~~l~~~~~~~T~~ 535 (787)
+|||++||+||||||||+|||++||+|+|++||+++|+++|++||++||++++... +..+ ...+.. ..++| +
T Consensus 382 ~i~g~~af~LydTyGfP~dlt~~~a~e~g~~vd~~~F~~~~~~~~~~sr~~~~~~~---~~~~---~~~~~~-~~~~t-~ 453 (851)
T TIGR00344 382 ELDGEDAFKLYDTYGFPVELTKEIAEERGLTVDIPGFETLMAEQRERSKAASQTIS---FELQ---EIALAN-VYPAT-E 453 (851)
T ss_pred ccCHHHHHHHHHccCCCHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhhhhhccc---cccc---HHHHhc-ccCCc-c
Confidence 89999999999999999999999999999999999999999999999998754321 1122 222222 12345 4
Q ss_pred CCCcccceeecEEEEEEEeCCeeeeeecCCCeEEEEEccceeeeCCCCccCcceEEEecCceEEEEeEEEECCEEEEEEE
Q 003915 536 SFKFIWFQDHKSVIKAIYTGSEFIESVVPGNEVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHIGS 615 (787)
Q Consensus 536 ~~~Y~y~~~~~akVlai~~~~~~v~~~~~~~~~~VvLD~T~FYpegGGQ~~D~G~I~~~~~~~~V~dv~k~~g~ivH~~~ 615 (787)
+.+|+ ..+++|+|+++..+++.++++..++..+|+||+|+|||||||||+|+|+|..++..++|.+|++.+|.++|.+.
T Consensus 454 ~l~Y~-~~~~~a~V~~i~~~~~~v~~~~~g~~~~vvLd~T~FYpEgGGQp~D~G~I~~~~~~~~V~dv~~~~g~i~H~~~ 532 (851)
T TIGR00344 454 FLGYE-DLEFEAKVIGLFEDGKPVDEAEAGQSVYVILDQTPFYAESGGQIGDTGYLIANDGKFRVVDVQKPNGVVFHFGE 532 (851)
T ss_pred cccee-cccccEEEEEEEeCCccceecccCCceEEEEeCCCCCCCCCCCCCCEEEEecCCcEEEEEEEEEECCEEEEEEE
Confidence 88999 58999999999988888988888888999999999999999999999999877778999999999999999987
Q ss_pred eecCCCcCCCCCEEEEEEehhchhhhcccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHHHHH
Q 003915 616 LTEGAGRFSVGEEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIES 695 (787)
Q Consensus 616 ~~~~~~~l~~G~~V~~~VD~erR~~~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE~ 695 (787)
+.. +.+++|++|.+.|||+||+.+|++|||+|||++||+++||.|++|+|++++++++||||++++++|++++++||+
T Consensus 533 ~~~--g~l~~G~~V~~~VD~~rR~~~m~~HTAtHLL~aAL~~vlg~~v~q~Gs~v~~d~~r~Df~~~~~lt~eel~~IE~ 610 (851)
T TIGR00344 533 VEG--GSLKVGDKVIAVIDEKRRLRIMRNHSATHLLHAALQKVLGNHVWQAGSLVSVKKLRFDFSHYRALTREELEKIED 610 (851)
T ss_pred ecc--CCCCCCCEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHhCCceEeccCcccCCcEEEEecCCCCCCHHHHHHHHH
Confidence 644 678999999999999999999999999999999999999999999999999999999999988999999999999
Q ss_pred HHHHHHHcCCCEEEEEcCHHHHhcccCchhhcCCCCCCCEEEEEEccccccccCCcCCcccCCceeeccCCccccccccC
Q 003915 696 IVNEQIKAELDVFSKEATLAEAKCINGLRAVFGEVYPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSH 775 (787)
Q Consensus 696 ~vNe~I~~n~pV~~~~~~~~EA~~~~gl~~~fgE~y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eI 775 (787)
.||++|++|+||++++++++||++. +.+++++++|++.||||+|+ ++|.++||||||.||++|
T Consensus 611 ~vNelI~~n~pV~~~~~~~eeA~~~-~~~~~~~e~y~~~VRVV~Ig----------------~~d~e~CgGTHV~nTgeI 673 (851)
T TIGR00344 611 LVNEQILANIPIKVIFMDLDEAKAK-GAFALFGEKYGEKVRVVSVG----------------DVSVELCGGTHVRNTGEI 673 (851)
T ss_pred HHHHHHHhCCceEEEEeCHHHHHhc-chhhhcCCCCCCeEEEEEEC----------------CeeccCCCCCccCChhhC
Confidence 9999999999999999999999996 66678899999999999999 689999999999999999
Q ss_pred CcEEEeeee
Q 003915 776 SWSLALNCL 784 (787)
Q Consensus 776 g~ikil~~~ 784 (787)
|.|+|++..
T Consensus 674 g~~kI~~~~ 682 (851)
T TIGR00344 674 GLFKIVKES 682 (851)
T ss_pred eEEEEEEEe
Confidence 999999976
No 5
>PRK00252 alaS alanyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=6.7e-211 Score=1869.40 Aligned_cols=670 Identities=50% Similarity=0.859 Sum_probs=625.1
Q ss_pred CCChHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccccccccCCCCCCCcccccccccccccccccCCCCC
Q 003915 57 EWPATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFLGTADPNTQLSKLTRACNTQKCIRAGGKHN 136 (787)
Q Consensus 57 ~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~flG~~~p~~~~~~~~r~~~~QkCiR~gGkhn 136 (787)
.||++|||++||+||++|||++||||||||+||||||||||||+||||||+|+++|| ++|+|+||||||+ |
T Consensus 1 ~~~~~eiR~~fl~fF~~~~H~~v~s~~lvp~~d~~llf~nAGm~~fk~~f~g~~~p~-----~~r~~~~QkCiR~----n 71 (865)
T PRK00252 1 MMTSAEIRQKFLDFFESKGHTVVPSASLVPKNDPTLLFTNAGMVQFKDYFLGQEKPP-----YPRATTSQKCIRT----N 71 (865)
T ss_pred CCCHHHHHHHHHHHHHhCCCEEecCCCcCCCCCCCeeeeccchhhhhHHhcCCCCCC-----CCCcccccccccc----c
Confidence 388999999999999999999999999999999999999999999999999999886 5799999999999 9
Q ss_pred CCCCCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhc--CC
Q 003915 137 DLDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKF--LP 214 (787)
Q Consensus 137 Dld~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~--~~ 214 (787)
||||||+|+|||||||||||||||||||+|||+|||||||++|||||+|||||||.+ |+||++||++. +|
T Consensus 72 Dld~VG~t~rHhTfFEMlGn~sfgdYfK~eai~~awe~lt~~~~i~~~~l~vt~~~~--------D~e~~~iW~~~~g~~ 143 (865)
T PRK00252 72 DLENVGYTARHHTFFEMLGNFSFGDYFKEEAIEWAWELLTSVLGLPKEKLYVTVYED--------DDEAYDIWKKEIGVP 143 (865)
T ss_pred chhhccCCCCchHHHHHhcccchhhhhHHHHHHHHHHHHHHHhCCCHHHEEEEEcCC--------CHHHHHHHHhccCCC
Confidence 999999999999999999999999999999999999999999999999999999974 89999999976 99
Q ss_pred CCCcccCCCCCCcccCCCCCCCcCceeEEeecCCCC--CCCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCcccc
Q 003915 215 ASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNR--DAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDT 292 (787)
Q Consensus 215 ~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~--~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDT 292 (787)
++||++++.+||||+||+|||||||||||||++... ++..+++.|++|||||||||||||||+++|+|.|||+|||||
T Consensus 144 ~~~i~~~~~~dNfW~~G~~GpcGPcsEi~~d~g~~~~~~~~~~~~~~~~~~lEiwNlVF~q~~~~~~g~~~~Lp~~~iDT 223 (865)
T PRK00252 144 PERIIRIGKKDNFWSMGDTGPCGPCSEIFYDRGEEYWGGPPGSPEEDGDRYIEIWNLVFMQFNRDEDGNLTPLPKKNIDT 223 (865)
T ss_pred HHHeecCCccCCccccCCCcCCCCCeEEEEecCcccCCCCCCCCcCCCCcEEEEeeeeeEeeeecCCCceeeCCCCeeec
Confidence 999999999999999999999999999999987432 334577889999999999999999999999999999999999
Q ss_pred CchHHHHHHHHhCCCCCccccccHHHHHHHHHHhCCCCCCCCCCCCCcccccchhhhhhhhhhheeeeecCCCccCCCCC
Q 003915 293 GLGFERLTSILQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADKVDMAYRVVADHIRTLSFAIADGSCPGNEGR 372 (787)
Q Consensus 293 GmGlERl~~vlqg~~snydtD~F~pli~~i~~~~~~~~y~g~~~~~~~~~~~~~~rviaDH~R~~~f~i~DGv~Psn~gr 372 (787)
|||||||+|||||++||||||+|.|||++|++++|++ |. .++||||||||+||++|||+||++|||+||
T Consensus 224 G~GlER~~~ilq~~~snydtd~f~~~i~~i~~~~~~~-y~----------~~~a~rviaDH~R~~~f~i~DG~~Psn~gr 292 (865)
T PRK00252 224 GMGLERIAAVLQGVHSNYETDLFRPLIKAIEELTGVK-YE----------DDVSFRVIADHIRAVAFLIADGVLPSNEGR 292 (865)
T ss_pred CcCHHHHHHHHcCCCCcchhhhHHHHHHHHHHHhCCC-CC----------CCceEEEEcchHHHHHHHHccCcccCCCCc
Confidence 9999999999999999999999999999999999984 63 257999999999999999999999999999
Q ss_pred chHHHHHHHHHHHHHHhhhCCCcchhhhHHHHHHHHhcCCChhhHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 003915 373 EYVLRRILRRAVRYGSEVLKAQDGFFNGLVNIVVKVMGDVFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKKAAQDV 452 (787)
Q Consensus 373 gYvlRrilRRa~r~~~~~lg~~~~fl~~lv~~v~~~m~~~ypeL~~~~~~I~~ii~~EE~~F~~TL~~G~~~l~~~i~~~ 452 (787)
|||||||||||+|++ +.||++.|||++|||.+++.|++.||||.++++.|++||+.||++|.+||++|+++|++++++.
T Consensus 293 gYvlRrilRRa~r~~-~~lg~~~~~l~~lv~~~~~~~~~~ypel~~~~~~i~~ii~~Ee~~f~~tl~~G~~~~~~~~~~~ 371 (865)
T PRK00252 293 GYVLRRILRRAVRHG-RLLGIKEPFLYKLVPVVIDEMGDAYPELKEKQDLIEKVLKAEEERFLKTLERGLKLLEEALAKL 371 (865)
T ss_pred chHHHHHHHHHHHHH-HHhCCCchHHHHHHHHHHHHHhhhChhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 999999999999999 6899999999999999999999999999999999999999999999999999999999999876
Q ss_pred cC-CCCChHHHHHhhhcCCCChhhHHHHHHHcCcccChhhHHHHHHHHHHHhHhhhhcccCCccccchHHHHHHhhcCCC
Q 003915 453 QG-KVLSGQDAFILWDTYGFPLDLTQLMAEERGLLVDIEGFNNAMDEARERSRSAQNKQAGGAIVMDADATAALHKRGVL 531 (787)
Q Consensus 453 ~~-~~isg~~af~LydTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~~r~~sr~~~~~~~~~~~~~~~~~~~~l~~~~~~ 531 (787)
++ ++|||++||+||||||||+|||++||+|+|++||+++|+++|++||++||++++.... . ..+..+.. ..
T Consensus 372 ~~~~~l~g~~~f~LydtyGfP~dlt~~~a~e~g~~vd~~~f~~~~~~~~~~s~~~~~~~~~----~--~~~~~~~~-~~- 443 (865)
T PRK00252 372 KAGKVLSGEDAFKLYDTYGFPLDLTAEIARERGLTVDEEGFEAAMEEQRERARAARKFKGD----Y--NALEELLD-DL- 443 (865)
T ss_pred cCCCccCHHHHHHHHhccCCCHHHHHHHHHHcCCCcCHHHHHHHHHHHHHHHHhhhhcccc----h--hHHHHHhh-cC-
Confidence 43 5899999999999999999999999999999999999999999999999876432210 1 11222322 22
Q ss_pred CcccCCCcccceeecEEEEEEEeCCeeeeeecCCCeEEEEEccceeeeCCCCccCcceEEEecCceEEEEeEEEE-CCEE
Q 003915 532 ATDDSFKFIWFQDHKSVIKAIYTGSEFIESVVPGNEVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIY-GGFV 610 (787)
Q Consensus 532 ~T~~~~~Y~y~~~~~akVlai~~~~~~v~~~~~~~~~~VvLD~T~FYpegGGQ~~D~G~I~~~~~~~~V~dv~k~-~g~i 610 (787)
+|+ |.||+ ..+++|+|++++.++++++++..++.++|+||+|+|||||||||+|+|+|.. +..++|.+|++. +|.+
T Consensus 444 ~t~-f~~Y~-~~~~~a~v~~i~~~~~~~~~~~~g~~~~vvLd~T~FYpegGGQ~~D~G~I~~-~~~~~V~~v~~~~~g~i 520 (865)
T PRK00252 444 ATE-FVGYD-TLEAEAKVLALFVDGESVDSAKAGEEVEVVLDKTPFYAESGGQVGDTGVIED-GGVFEVTDTQKPPNGLI 520 (865)
T ss_pred CCe-eeeee-eccccEEEEEEEeCCceeeeccCCCeEEEEEeCCCCCCCCCCCCCCEEEEee-CcEEEEEEEEEccCCEE
Confidence 454 88999 6889999999999889999998888899999999999999999999999987 678999999998 9999
Q ss_pred EEEEEeecCCCcCCCCCEEEEEEehhchhhhcccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHH
Q 003915 611 IHIGSLTEGAGRFSVGEEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHL 690 (787)
Q Consensus 611 vH~~~~~~~~~~l~~G~~V~~~VD~erR~~~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL 690 (787)
+|.+.... +.+++|++|.+.|||+||+.+|++|||+|||++||++++|.+++|+|++++++++||||++++++|++++
T Consensus 521 ~H~~~~~~--~~l~~G~~V~~~ID~~rR~~~m~~HTa~HLL~~al~~~lg~~v~q~Gs~~~~~~~r~Df~~~~~lt~eel 598 (865)
T PRK00252 521 VHRGKVEE--GELKVGDEVTAEVDEERRRAIARNHSATHLLHAALREVLGEHVTQAGSLVAPDRLRFDFSHFEALTPEEL 598 (865)
T ss_pred EEEEEecc--CCCCCCCEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHhhhheEeccCcccCCeEEEEeecCCCCCHHHH
Confidence 99987544 6789999999999999999999999999999999999999999999999999999999999889999999
Q ss_pred HHHHHHHHHHHHcCCCEEEEEcCHHHHhcccCchhhcCCCCCCCEEEEEEccccccccCCcCCcccCCceeeccCCcccc
Q 003915 691 RRIESIVNEQIKAELDVFSKEATLAEAKCINGLRAVFGEVYPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVA 770 (787)
Q Consensus 691 ~~IE~~vNe~I~~n~pV~~~~~~~~EA~~~~gl~~~fgE~y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~ 770 (787)
++||+.||++|++++||++.+++++||++. |++++++++|++.||||+|+ ++|.++||||||+
T Consensus 599 ~~IE~~vN~lI~~n~pV~~~~~~~~eA~~~-~~~~~~~~~y~~~VRVV~Ig----------------~~d~~~CgGTHV~ 661 (865)
T PRK00252 599 RKIEDLVNEKIRENLPVETEEMSIEEAKKM-GAMALFGEKYGDEVRVVSIG----------------DFSIELCGGTHVS 661 (865)
T ss_pred HHHHHHHHHHHHhCCCeEEEEeCHHHHHhC-CchhhccccCCCeEEEEEEC----------------CceeeCCCCCccC
Confidence 999999999999999999999999999985 88888999999999999998 6899999999999
Q ss_pred ccccCCcEEEeeeee
Q 003915 771 IMCSHSWSLALNCLL 785 (787)
Q Consensus 771 nT~eIg~ikil~~~~ 785 (787)
||++||.|+|++++-
T Consensus 662 nTgeIg~~kI~~~~~ 676 (865)
T PRK00252 662 NTGDIGLFKIVSESG 676 (865)
T ss_pred CcccCeEEEEEEEee
Confidence 999999999999863
No 6
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=100.00 E-value=3.3e-192 Score=1629.29 Aligned_cols=571 Identities=40% Similarity=0.702 Sum_probs=532.2
Q ss_pred CChHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccccccccCCCCCCCcccccccccccccccccCCCCCC
Q 003915 58 WPATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFLGTADPNTQLSKLTRACNTQKCIRAGGKHND 137 (787)
Q Consensus 58 ~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~flG~~~p~~~~~~~~r~~~~QkCiR~gGkhnD 137 (787)
||++|||++||+||++|||+++|||||||+||||||||||||+||||||+|.++|+ ++|+|+||||||+ ||
T Consensus 1 ~~~~eiR~~fl~FF~~kgH~~~~s~slvp~~d~tllftnAGm~~fk~~f~G~~~p~-----~~r~~~~QkCiR~----~D 71 (594)
T PRK01584 1 MTLDELRKKYIDFFKSKGHVEIAGKSLIPENDPTVLFTTAGMHPLVPYLLGEPHPS-----GTRLVDVQKCLRT----GD 71 (594)
T ss_pred CCHHHHHHHHHHHHHhCCCEEcCCCCcCCCCCCCeeeeccchhhhhHHhcCCCCCC-----CCCcccccccccc----cc
Confidence 78999999999999999999999999999999999999999999999999999875 5799999999999 79
Q ss_pred CCCCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccc--cCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhc-CC
Q 003915 138 LDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKV--YRLPADRLYATYFGGDEKAGLAPDNEARDIWLKF-LP 214 (787)
Q Consensus 138 ld~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~--lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~-~~ 214 (787)
||||| |+|||||||||||||||||||+|||+|||||||++ |||||+|||||||+||+. +++|+||++||+++ ||
T Consensus 72 le~VG-~~rHhTfFEMlGnfSfgdYfK~eai~~awe~lt~~~~l~l~~~rl~vTv~~~~~~--~~~D~Ea~~iW~~~g~~ 148 (594)
T PRK01584 72 IDEVG-DLSHLTFFEMLGNWSLGAYFKEESIKYSFEFLTSPDYLNIPKDKLYVTVFEGDEE--IPRDEETASVWESLGIP 148 (594)
T ss_pred ccccC-CCcchhHHHhhccccHhhhhHHHHHHHHHHHhccchhcCCCHHHeEEEEeCCCCC--CCCCHHHHHHHHHcCCC
Confidence 99999 89999999999999999999999999999999998 999999999999999885 89999999999999 99
Q ss_pred CCCcccCCCCCCcc-cCCCCCCCcCceeEEeecCCCCCCC--CCCCCCCCceEEEeeeeccccccCCCCccccCCCCccc
Q 003915 215 ASRVLPFGCKDNFW-EMGDTGPCGPCSEIHYDRTGNRDAA--SLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVD 291 (787)
Q Consensus 215 ~~rI~~~~~~dNfW-~mG~~GpCGPCsEI~yd~~~~~~~~--~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~ID 291 (787)
++||++++.+|||| +||++||||||||||||+++. .+. +.++++|+|||||||||||||||++||+|+|||+||||
T Consensus 149 ~~rI~~~~~~dNfW~~~G~~GPCGPcsEI~~d~g~~-~~~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~Lp~k~ID 227 (594)
T PRK01584 149 KDRIFYLSREHNWWGPVGETGPCGPDTEIFVDTGKP-KCSVNCRPTCSCGKYFEIWNNVFMQYNKDEDGNYEELKRKCVD 227 (594)
T ss_pred HHHeeeCCCCCCcccccCCCcCCCCceEEEEecCCc-ccccccCCCCCCCceEEEeeeeeeeeeecCCCccccCCCCcee
Confidence 99999999999999 799999999999999998653 221 23456889999999999999999999999999999999
Q ss_pred cCchHHHHHHHHhCCCCCccccccHHHHHHHHHHhCCCCCCCCCCCCCcccccchhhhhhhhhhheeeeecC--CCccCC
Q 003915 292 TGLGFERLTSILQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADKVDMAYRVVADHIRTLSFAIAD--GSCPGN 369 (787)
Q Consensus 292 TGmGlERl~~vlqg~~snydtD~F~pli~~i~~~~~~~~y~g~~~~~~~~~~~~~~rviaDH~R~~~f~i~D--Gv~Psn 369 (787)
||||||||+|||||++||||||+|.|||++|++++|++ |. .. +..+.|+||||||+||++|||+| |++|||
T Consensus 228 TGmGLERl~~vlqg~~s~ydtdlf~pii~~i~~~~~~~-y~----~~--~~~~~a~rvIaDH~R~~~f~i~D~~Gv~PsN 300 (594)
T PRK01584 228 TGMGIERTIAFLQGKSSVYDTEAFTPIIKRIEKISGKI-YG----QN--EEDDRSIRIIADHIRAACFILGDPFVVLPSN 300 (594)
T ss_pred CCcCHHHHHHHHcCCCCccchhhhHHHHHHHHHHhCCC-cC----CC--CCCceeEEEEecHHHHHHHHhhcccCCCCCC
Confidence 99999999999999999999999999999999999974 73 11 23468999999999999999999 999999
Q ss_pred CCCchHHHHHHHHHHHHHHhhhCCCcchhhhHHHHHHHHhcCCChhhHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003915 370 EGREYVLRRILRRAVRYGSEVLKAQDGFFNGLVNIVVKVMGDVFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKKAA 449 (787)
Q Consensus 370 ~grgYvlRrilRRa~r~~~~~lg~~~~fl~~lv~~v~~~m~~~ypeL~~~~~~I~~ii~~EE~~F~~TL~~G~~~l~~~i 449 (787)
+|||||||||||||+|+| ++||++.+||++||+.|++.|++.||||.++++.|++||+.||++|.+||++|+++|++.+
T Consensus 301 ~grGYvlRrilRRa~r~~-~~lg~~~~fl~~lv~~v~~~~~~~ypel~~~~~~I~~ii~~EE~~F~~tl~~G~~~l~~~i 379 (594)
T PRK01584 301 VGQGYVLRRLIRRSIRHA-KKLGIESHFLADLVDSVEEIYGSFYPELTEKKDFIKEELNKEEEKFFKTLRKGEQEFIKLI 379 (594)
T ss_pred CCCchHHHHHHHHHHHHH-HHhCCCchhHHHHHHHHHHHHhhhChHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999 5799999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhc-CCCCChHHHHHhhhcCCCChhhHHHHHHHcCcccChhhHHHHHHHHHHHhHhhhhcccCCccccchHHHHHHhhc
Q 003915 450 QDVQ-GKVLSGQDAFILWDTYGFPLDLTQLMAEERGLLVDIEGFNNAMDEARERSRSAQNKQAGGAIVMDADATAALHKR 528 (787)
Q Consensus 450 ~~~~-~~~isg~~af~LydTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~~r~~sr~~~~~~~~~~~~~~~~~~~~l~~~ 528 (787)
++++ +++|||++||+||||||||+|||++||+|+|++||+++|+++|++||++||++.
T Consensus 380 ~~~~~~~~~~g~~af~LydTyGfP~dlt~~~a~e~g~~vd~~~f~~~~~~~~~~~~~~~--------------------- 438 (594)
T PRK01584 380 PNLGSSKIIPGDIAFKLYDTYGFPYEITEELASEYGFTVDREGFDEHFKKHQKVSKKGA--------------------- 438 (594)
T ss_pred HHhccCCccCHHHHHhhhccCCCCHHHHHHHHHHcCCeecHHHHHHHHHHHHHHHhhcc---------------------
Confidence 8875 468999999999999999999999999999999999999999999998876420
Q ss_pred CCCCcccCCCcccceeecEEEEEEEeCCeeeeeecCCCeEEEEEccceeeeCCCCccCcceEEEecCceEEEEeEEEECC
Q 003915 529 GVLATDDSFKFIWFQDHKSVIKAIYTGSEFIESVVPGNEVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGG 608 (787)
Q Consensus 529 ~~~~T~~~~~Y~y~~~~~akVlai~~~~~~v~~~~~~~~~~VvLD~T~FYpegGGQ~~D~G~I~~~~~~~~V~dv~k~~g 608 (787)
. .+|. ||++|+|+
T Consensus 439 ~----~~f~---------------------------------------------g~~~d~g~------------------ 451 (594)
T PRK01584 439 D----KVFK---------------------------------------------GGLADHSY------------------ 451 (594)
T ss_pred c----cccc---------------------------------------------CCcCcccc------------------
Confidence 0 0010 35666654
Q ss_pred EEEEEEEeecCCCcCCCCCEEEEEEehhchhhhcccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHH
Q 003915 609 FVIHIGSLTEGAGRFSVGEEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPE 688 (787)
Q Consensus 609 ~ivH~~~~~~~~~~l~~G~~V~~~VD~erR~~~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~e 688 (787)
.+|++|||+|||++||+++||.++.|+||+++++++||||++++++|++
T Consensus 452 -------------------------------~~~r~HTAtHLL~~ALr~vlG~~v~q~Gs~v~~d~~r~DF~~~~~it~e 500 (594)
T PRK01584 452 -------------------------------ETTKLHTATHLLHKALRLVLGDHVRQKGSNITAERLRFDFSHPEKMTDD 500 (594)
T ss_pred -------------------------------cHHHHHHHHHHHHHHHHHHcCccceeecCCcCCCcEEEEEeCCCCCCHH
Confidence 3799999999999999999999999999999999999999998999999
Q ss_pred HHHHHHHHHHHHHHcCCCEEEEEcCHHHHhcccCchhhcCCCCCCCEEEEEEccccccccCCcCCcccCCceeeccCCcc
Q 003915 689 HLRRIESIVNEQIKAELDVFSKEATLAEAKCINGLRAVFGEVYPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQY 768 (787)
Q Consensus 689 eL~~IE~~vNe~I~~n~pV~~~~~~~~EA~~~~gl~~~fgE~y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTH 768 (787)
++++||+.||++|++|+||++.+++++||++. +.+++|+++|++.||||+|| ++|.++|||||
T Consensus 501 dL~~IE~~vNeiI~~n~pV~~~~~s~eEA~~~-~~~~lf~e~y~~~VRVV~Ig----------------d~d~elCGGTH 563 (594)
T PRK01584 501 EIKKVEDIVNLQIKNDLSVKKEVMSLEEAREK-GAMALFGEKYEDIVKVYEID----------------GFSKEVCGGPH 563 (594)
T ss_pred HHHHHHHHHHHHHHhCCCeEEEEcCHHHHHhc-chhhhccccCCCcEEEEEEC----------------CeeeeCCCCCC
Confidence 99999999999999999999999999999996 67888899999999999998 68999999999
Q ss_pred ccccccCCcEEEeeeee
Q 003915 769 VAIMCSHSWSLALNCLL 785 (787)
Q Consensus 769 V~nT~eIg~ikil~~~~ 785 (787)
|.||++||.|||++...
T Consensus 564 V~nTgeIG~fkI~s~~s 580 (594)
T PRK01584 564 VENTGELGTFKIQKEQS 580 (594)
T ss_pred CCCcccCceEEEEeccc
Confidence 99999999999999754
No 7
>TIGR03683 A-tRNA_syn_arch alanyl-tRNA synthetase. This family of alanyl-tRNA synthetases is limited to the archaea, and is a subset of those sequences identified by the model pfam07973 covering the second additional domain (SAD) of alanyl and threonyl tRNA synthetases.
Probab=100.00 E-value=3e-189 Score=1680.27 Aligned_cols=618 Identities=28% Similarity=0.476 Sum_probs=566.5
Q ss_pred CCCCCChHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceecccccccccccc-CCCCCCCcccccccccccccccccC
Q 003915 54 QVVEWPATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFL-GTADPNTQLSKLTRACNTQKCIRAG 132 (787)
Q Consensus 54 ~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~fl-G~~~p~~~~~~~~r~~~~QkCiR~g 132 (787)
..++||++|||++||+||++|||++||||||||+||++||||||||+||||||+ |.++|| ++|+|+||||||+
T Consensus 52 ~~~~~~~~eiR~~fl~FF~~~gH~~v~s~pvvprw~dDllft~Agm~~Fkp~f~~G~~~pp-----~~r~~~sQkCiR~- 125 (902)
T TIGR03683 52 FSKKYTLDEMREAFLSFFEKHGHTRIKRYPVVARWRDDVYLTIASIADFQPWVTSGLVPPP-----ANPLVISQPCIRL- 125 (902)
T ss_pred cCCCCCHHHHHHHHHHHHHhCCCEEeCCcCcCcCCCCCeeEeecchhhhhHhhcCCCCCCC-----CCCceeccccccc-
Confidence 345699999999999999999999999999999999999999999999999998 999886 4699999999999
Q ss_pred CCCCCCCCCCCCCCcchhhhhccccccc-----cccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHH
Q 003915 133 GKHNDLDDVGKDTYHHTFFEMLGNWSFG-----DYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARD 207 (787)
Q Consensus 133 GkhnDld~VG~t~rHhTfFEMLGnfSFg-----dYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~ 207 (787)
|||||||+|+||||||||||||||| ||||+|||+|||||| ++||||++|| |+
T Consensus 126 ---nDldnVG~t~rH~TfFEMlGn~sFg~~~~~dYfK~EaI~~a~e~l-~~lgi~~~~i--~~----------------- 182 (902)
T TIGR03683 126 ---NDIDNVGRTGRHLTCFEMMAHHAFNYPDKEIYWKDETVEYCFEFL-EELGIDPEEI--TY----------------- 182 (902)
T ss_pred ---cccccccCCCCcchhhhhccceeeCCCCcccCcHHHHHHHHHHHH-HHcCCCHHHe--ee-----------------
Confidence 8999999999999999999999999 999999999999999 9999999999 32
Q ss_pred HHHhcCCCCCcccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCC-------CC
Q 003915 208 IWLKFLPASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRES-------DG 280 (787)
Q Consensus 208 iW~~~~~~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~-------~g 280 (787)
+||||+|| ||||||||||| + | |||||||||||+|++ ||
T Consensus 183 ----------------~enfW~~G--GpcGPcsEi~~-~--g--------------lEiwnlVFmq~~~~~~~~~~~~~g 227 (902)
T TIGR03683 183 ----------------KESPWEGG--GNAGPCFEVIV-G--G--------------LELATLVFMQYEEDKEGEIEIKGG 227 (902)
T ss_pred ----------------cCCccCCC--CCCCCceeeee-C--c--------------EeeeeeeeeeeccccccccccCCC
Confidence 68999999 99999999999 2 2 999999999999998 99
Q ss_pred ccccCCCCccccCchHHHHHHHHhCCCCCccccccHHHHHHHHHHhCCC-----------CCCCCCCCCCccccc-----
Q 003915 281 SLKPLPAKHVDTGLGFERLTSILQNKMSNYDTDVFMPIFDAIQQATGAR-----------PYSGKVGADDADKVD----- 344 (787)
Q Consensus 281 ~l~~Lp~~~IDTGmGlERl~~vlqg~~snydtD~F~pli~~i~~~~~~~-----------~y~g~~~~~~~~~~~----- 344 (787)
+|+|||+||||||||||||+||+||++||||| +|.|||++|++++|++ +|+|.++.++.++++
T Consensus 228 ~~~~Lp~k~VDTG~GLER~~~v~qg~~t~ydt-~f~~ii~~i~~~~g~~y~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 306 (902)
T TIGR03683 228 RYSEMPLKIVDTGYGLERFVWASQGTPTAYDA-IFPEIVDKLKENAGVELIDEEILAENARLAGMMDIEDEEDLRELRKK 306 (902)
T ss_pred eeeeCCCCceecCCCHHHHHHHHcCCCchHHH-HHHHHHHHHHHHhCCCcccchhhhhhhhhccccCccccchhhHHhhh
Confidence 99999999999999999999999999999999 9999999999999975 467777655433211
Q ss_pred -------------------chhhhhhhhhhheeeeecCCCccCCCCCchHHHHHHHHHHHHHHhhhCCCcchhhhHHHHH
Q 003915 345 -------------------MAYRVVADHIRTLSFAIADGSCPGNEGREYVLRRILRRAVRYGSEVLKAQDGFFNGLVNIV 405 (787)
Q Consensus 345 -------------------~~~rviaDH~R~~~f~i~DGv~Psn~grgYvlRrilRRa~r~~~~~lg~~~~fl~~lv~~v 405 (787)
.++|+||||+||++|||+||++|||+|||||||||||||+|++ ++||++.| |++||+.+
T Consensus 307 ~a~~~~~~~~~~~~~~~~~~~~rvIaDH~R~~~f~i~DGv~PsN~grGYvlRrilRRa~r~~-~~lg~~~~-l~~lv~~~ 384 (902)
T TIGR03683 307 VADKIGIDVEELEKIIAPVERIYAIADHTRCLAFMLGDGIVPSNVKEGYLARLVIRRTLRLM-RELGLDIP-LSDLVEMQ 384 (902)
T ss_pred hhhhcccchhhhhhhccccceEEEEcchHHHHHHHHhcCCccCCCCcchHHHHHHHHHHHHH-HHhCCCcc-HHHHHHHH
Confidence 4679999999999999999999999999999999999999999 57999999 99999999
Q ss_pred HHHhcCCChhhHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHhhhcCCCChhhHHHHHHHcCc
Q 003915 406 VKVMGDVFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKKAAQDVQGKVLSGQDAFILWDTYGFPLDLTQLMAEERGL 485 (787)
Q Consensus 406 ~~~m~~~ypeL~~~~~~I~~ii~~EE~~F~~TL~~G~~~l~~~i~~~~~~~isg~~af~LydTyGfP~dlt~~ia~e~gl 485 (787)
++.|++.||||.++++.|++||+.||++|.+||++|+++|++++++ ++.|||++||+||||||||+|||++||+|+|+
T Consensus 385 ~~~~~~~ypel~~~~~~I~~ii~~Ee~~f~~Tl~~G~~~~~~~~~~--~~~i~g~~~f~LyDTyGfP~dl~~eia~e~g~ 462 (902)
T TIGR03683 385 LEELKKIYPELKENKDYILDILDLEEEKYRETLERGRRIVERLLKT--KKEIPLDDLIELYDSHGIPPEIVKEIAAELGA 462 (902)
T ss_pred HHHHhhhChhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCcCCHHHHHHHHHccCCCHHHHHHHHHHcCC
Confidence 9999999999999999999999999999999999999999999975 35899999999999999999999999999999
Q ss_pred ccChh-hHHHHHHHHHHHhHhhhhcccCCccccchHHHHHHhhcCCCCcccCCCcc--cceeecEEEEEEEeCCeeeeee
Q 003915 486 LVDIE-GFNNAMDEARERSRSAQNKQAGGAIVMDADATAALHKRGVLATDDSFKFI--WFQDHKSVIKAIYTGSEFIESV 562 (787)
Q Consensus 486 ~vD~~-~F~~~m~~~r~~sr~~~~~~~~~~~~~~~~~~~~l~~~~~~~T~~~~~Y~--y~~~~~akVlai~~~~~~v~~~ 562 (787)
+||++ +|+++|++||++|+++.+. ..+.. ..+ .++|+|+ +.+|+ |..+++|+|+++..
T Consensus 463 ~vd~~~~F~~~~~~~~~~~~~~~~~------~~~~~--~~~--~~~~~T~-~l~y~~~~~~e~~a~Vl~i~~-------- 523 (902)
T TIGR03683 463 EVEIPDNFYSIVAERHEKEEKEEEL------PKDYE--ERA--KDLPETR-RLFYEDPTMREFEAKVLGVFD-------- 523 (902)
T ss_pred cccCCccHHHHHHHHHHHHHhcccc------ccchh--HHH--hcCCCce-EeccccCccceEEEEEEEEEc--------
Confidence 99998 9999999999998765211 01111 111 2467786 66776 45899999999973
Q ss_pred cCCCeEEEEEccceeeeCCCCccCcceEEEecCceEEEEeEEEECCEEEEEEEeecCCCcCCCCCEEEEEEehhchhhhc
Q 003915 563 VPGNEVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHIGSLTEGAGRFSVGEEVICKVDYDRRKLIA 642 (787)
Q Consensus 563 ~~~~~~~VvLD~T~FYpegGGQ~~D~G~I~~~~~~~~V~dv~k~~g~ivH~~~~~~~~~~l~~G~~V~~~VD~erR~~~~ 642 (787)
.+|+||+|+|||||||||+|+|+|..+++.++|.+|++.+|.++|.+. . +.+++|++|.++|||+||+++|
T Consensus 524 -----~~vvLd~T~FYpEgGGQ~~D~G~I~~~~~~~~V~dv~k~~g~i~H~~~--~--~~l~~G~~V~~~VD~~rR~~~m 594 (902)
T TIGR03683 524 -----NYVVLDQTAFYPEGGGQPADTGYLITNGGKIRVVDVQKVGGVIVHKVD--G--EGIKEGDEVKGEIDWERRLRLM 594 (902)
T ss_pred -----CEEEEeCCCCCCCCCCCCCCEEEEEeCCcEEEEEEEEEECCEEEEEeC--C--CCCCCCCEEEEEECHHHHHHHH
Confidence 369999999999999999999999888778999999999999999985 2 4489999999999999999999
Q ss_pred ccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEEcCHHHHhcccC
Q 003915 643 PNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAKCING 722 (787)
Q Consensus 643 r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE~~vNe~I~~n~pV~~~~~~~~EA~~~~g 722 (787)
++|||||||++||+++||.|++|+||+++++++||||+|++++|++++++||+.||++|++|+||++.+++++||++..+
T Consensus 595 ~~HTAtHLL~~alr~vlG~~v~q~Gs~v~~d~~r~Df~~~~~lt~eel~~IE~~vN~~I~~n~pV~~~~~~~~eA~~~~~ 674 (902)
T TIGR03683 595 RHHTATHVLLAAARRVLGRHVWQAGAQKDTDKARLDITHYKRISEEEIKEIERLANRIVMENRPVSVKWMDRNEAEQKYG 674 (902)
T ss_pred HHHHHHHHHHHHHHHHhCCceeecCccccCCcEEEEEeCCCCCCHHHHHHHHHHHHHHHHhCCCeEEEEeCHHHHHhcCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999766
Q ss_pred chhhc-CCCCCCCEEEEEEccccccccCCcCCcccCCceeeccCCccccccccCCcEEEeeee
Q 003915 723 LRAVF-GEVYPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHSWSLALNCL 784 (787)
Q Consensus 723 l~~~f-gE~y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg~ikil~~~ 784 (787)
++.++ +++|++.||||+|+ ++|.++||||||.||++||.|+|++.+
T Consensus 675 ~~l~~~~~~~~~~VRVV~Ig----------------~~d~e~CgGTHV~nTgeIG~~kI~~~~ 721 (902)
T TIGR03683 675 FRLYQGGVPPGREIRVVEIE----------------DWDVQACGGTHCRNTGEIGPIKILKTE 721 (902)
T ss_pred hhhhccCCCCCCeEEEEEEC----------------CeeeeCCCCCCccchhcCceEEEEEEE
Confidence 65444 46778899999998 689999999999999999999999986
No 8
>PRK13902 alaS alanyl-tRNA synthetase; Provisional
Probab=100.00 E-value=4.9e-188 Score=1669.55 Aligned_cols=618 Identities=28% Similarity=0.495 Sum_probs=565.2
Q ss_pred CCCCCChHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceecccccccccccc-CCCCCCCcccccccccccccccccC
Q 003915 54 QVVEWPATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFL-GTADPNTQLSKLTRACNTQKCIRAG 132 (787)
Q Consensus 54 ~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~fl-G~~~p~~~~~~~~r~~~~QkCiR~g 132 (787)
..++||++|||++||+||++|||++||||||||+||++||||||||+||||||+ |.++|| ++|+|+||||||+
T Consensus 55 ~~~~~~~~eiR~~Fl~FF~~~gH~~v~s~pvvprw~dDllft~Agm~~Fkp~f~~G~~~pp-----~~~~~~sQ~CiR~- 128 (900)
T PRK13902 55 FSKKYTLKEMREKFLSFFEKHGHTRIERYPVVARWRDDVYLTIASIYDFQPWVTSGLVPPP-----ANPLVISQPCIRL- 128 (900)
T ss_pred cCCCCCHHHHHHHHHHHHHhCCCEEcCCcCcCCCCCCCeeeeecchhhhhHHhcCCCCCCC-----CCCceecccccch-
Confidence 446699999999999999999999999999999999999999999999999998 999875 4699999999999
Q ss_pred CCCCCCCCCCCCCCcchhhhhccccccc-----cccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHH
Q 003915 133 GKHNDLDDVGKDTYHHTFFEMLGNWSFG-----DYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARD 207 (787)
Q Consensus 133 GkhnDld~VG~t~rHhTfFEMLGnfSFg-----dYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~ 207 (787)
|||||||+|+||||||||||||||| ||||+|||+|||||||++|||||+|| |+
T Consensus 129 ---nDldnVG~t~rH~T~FEMlGn~sFg~~~~~~YfK~eaI~~a~e~lt~~lgi~~~~I--~~----------------- 186 (900)
T PRK13902 129 ---NDIDNVGRTGRHLTSFEMMAHHAFNYPDKEVYWKDETVEYCFEFFTKELGIDPEEI--TF----------------- 186 (900)
T ss_pred ---hhhhhccccCCchhhhhhccceeeCCCCcccccHHHHHHHHHHHHHhhcCCCHHHe--ee-----------------
Confidence 8999999999999999999999999 99999999999999999999999998 32
Q ss_pred HHHhcCCCCCcccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCC
Q 003915 208 IWLKFLPASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPA 287 (787)
Q Consensus 208 iW~~~~~~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~ 287 (787)
+||||+|| |||||||||||. | |||||||||||+|+ +|+|+|||+
T Consensus 187 ----------------~enfW~~G--GpcGPcsEi~~~---g--------------lEiwnlVFmqy~~~-~g~~~~Lp~ 230 (900)
T PRK13902 187 ----------------KESWWEGG--GNAGPCFEVLVR---G--------------LELATLVFMQYKKD-GNRYVEMPL 230 (900)
T ss_pred ----------------cccccCCC--CCCCCceeeeeC---C--------------EEeeeeeeeEEEcC-CCeeeeCCC
Confidence 68999999 999999999992 2 99999999999998 899999999
Q ss_pred CccccCchHHHHHHHHhCCCCCccccccHHHHHHHHHHhCCC-----------CCCCCCCCCCcccc-------------
Q 003915 288 KHVDTGLGFERLTSILQNKMSNYDTDVFMPIFDAIQQATGAR-----------PYSGKVGADDADKV------------- 343 (787)
Q Consensus 288 ~~IDTGmGlERl~~vlqg~~snydtD~F~pli~~i~~~~~~~-----------~y~g~~~~~~~~~~------------- 343 (787)
||||||||||||+||+||++||||| +|.|||+.|++++|++ +|+|.++.++.+++
T Consensus 231 k~VDTG~GLER~~~v~qg~~t~ydt-~f~~ii~~i~~~~g~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~ 309 (900)
T PRK13902 231 KIVDTGYGLERIAWASQGTPTAYDA-IFGELVDKLKENAGVEEPDEEILAEAARLAGLMDIEEIEDLRSLRQKVAKKLGI 309 (900)
T ss_pred CeeeCCcCHHHHHHHHcCCCchHHH-HHHHHHHHHHHHhCCCcccchhhhhhhhhcccCCcccchhHHHHHHHHHhhccc
Confidence 9999999999999999999999999 9999999999999975 36676664332211
Q ss_pred -----------cchhhhhhhhhhheeeeecCCCccCCCCCchHHHHHHHHHHHHHHhhhCCCcchhhhHHHHHHHHhcCC
Q 003915 344 -----------DMAYRVVADHIRTLSFAIADGSCPGNEGREYVLRRILRRAVRYGSEVLKAQDGFFNGLVNIVVKVMGDV 412 (787)
Q Consensus 344 -----------~~~~rviaDH~R~~~f~i~DGv~Psn~grgYvlRrilRRa~r~~~~~lg~~~~fl~~lv~~v~~~m~~~ 412 (787)
..++|+||||+||++|||+||++|||+|||||||||||||+|++ +.||++.| |++||+.+++.|++.
T Consensus 310 ~~~~~~~~~~~~~~~~vIaDH~R~~~f~i~DGv~PsN~grGYvlRrilRRa~r~~-~~lg~~~~-l~~lv~~~~~~~~~~ 387 (900)
T PRK13902 310 DVEELEELLEPLEAIYAIADHTRTLAFMLGDGIVPSNVGEGYLARLVIRRTLRLL-DELGLDVP-LSELVDMQIDELKED 387 (900)
T ss_pred chhhhhhhccccceEEEEecHHHHHHHHHhCCCcCCCCCcchHHHHHHHHHHHHH-HHhCCCcc-HHHHHHHHHHHHhhh
Confidence 15789999999999999999999999999999999999999999 57999999 999999999999999
Q ss_pred ChhhHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHhhhcCCCChhhHHHHHHHcCcccCh-hh
Q 003915 413 FPELKQREAHIREIIAAEEASFGKTLLKGIEKFKKAAQDVQGKVLSGQDAFILWDTYGFPLDLTQLMAEERGLLVDI-EG 491 (787)
Q Consensus 413 ypeL~~~~~~I~~ii~~EE~~F~~TL~~G~~~l~~~i~~~~~~~isg~~af~LydTyGfP~dlt~~ia~e~gl~vD~-~~ 491 (787)
||||.++++.|++||+.||++|.+||++|+++|+++++++ +.|||++||+||||||||+|||++||+|+|++||+ ++
T Consensus 388 ypel~~~~~~I~~ii~~Ee~~f~~tl~~G~~~~~~~~~~~--~~l~g~~~f~LYDt~G~P~dl~~eia~e~g~~vd~p~~ 465 (900)
T PRK13902 388 YPELKENRDYILDIVDLEEEKYRETLERGKRIVERLAKKK--EEIPLDDLIELYDSHGIPPEIVKEIAKKKGVEVEVPDN 465 (900)
T ss_pred ChhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCCCHHHHhhhhhcCCCCHHHHHHHHHHcCCccCchhh
Confidence 9999999999999999999999999999999999999875 57999999999999999999999999999999999 89
Q ss_pred HHHHHHHHHHHhHhhhhcccCCccccchHHHHHHhhcCCCCcccCCCcc--cceeecEEEEEEEeCCeeeeeecCCCeEE
Q 003915 492 FNNAMDEARERSRSAQNKQAGGAIVMDADATAALHKRGVLATDDSFKFI--WFQDHKSVIKAIYTGSEFIESVVPGNEVG 569 (787)
Q Consensus 492 F~~~m~~~r~~sr~~~~~~~~~~~~~~~~~~~~l~~~~~~~T~~~~~Y~--y~~~~~akVlai~~~~~~v~~~~~~~~~~ 569 (787)
|+++|++||++|+++.+. . . ... ..+ .++|+|+ +.+|+ |..+++|+|+++.. .+
T Consensus 466 F~~~~~~~~~~~~~~~~~--~----~-~~~-~~~--~~~~~T~-~l~y~~~~~~~~~a~Vl~i~~-------------~~ 521 (900)
T PRK13902 466 FYSLVAERHEKAEEEEEE--P----V-VEE-ERL--KDLPETE-KLFYEDPYMREFEAKVLGVID-------------NY 521 (900)
T ss_pred HHHHHHHHHHHHhhcccc--c----c-chh-hHh--hcCCCce-EeccccCccceEEEEEEEEEc-------------CE
Confidence 999999999998764111 0 0 000 111 2567786 66776 45889999999983 26
Q ss_pred EEEccceeeeCCCCccCcceEEEecCceEEEEeEEEECCEEEEEEEeecCCCcCCCCCEEEEEEehhchhhhcccccHHH
Q 003915 570 IVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHIGSLTEGAGRFSVGEEVICKVDYDRRKLIAPNHTCTH 649 (787)
Q Consensus 570 VvLD~T~FYpegGGQ~~D~G~I~~~~~~~~V~dv~k~~g~ivH~~~~~~~~~~l~~G~~V~~~VD~erR~~~~r~HTAtH 649 (787)
|+||+|+|||||||||+|+|+|..++..+.|.+|++.+|.++|.+. . +.+.+|++|.++|||+||+++|++|||||
T Consensus 522 vvLD~T~FYpEgGGQ~~D~G~I~~~~~~~~V~dv~k~~g~i~H~~~--~--~~~~~G~~V~~~VD~~rR~~~mr~HTAtH 597 (900)
T PRK13902 522 VVLDQTAFYPEGGGQPADTGVLIVDGKGYKVVDVQKVGGVIVHVLE--G--EPPKKGDEVRGEIDWERRYRLMRHHTATH 597 (900)
T ss_pred EEEeCCCCCCCCCCCCCCEEEEEeCCcEEEEEEEEEECCEEEEEeC--C--CCCCCCCEEEEEECHHHHHHHHHHHHHHH
Confidence 9999999999999999999999887778999999999999999984 2 44566999999999999999999999999
Q ss_pred HHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEEcCHHHHhcccCchhhc-C
Q 003915 650 MLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAKCINGLRAVF-G 728 (787)
Q Consensus 650 LL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE~~vNe~I~~n~pV~~~~~~~~EA~~~~gl~~~f-g 728 (787)
||++||+++||.|++|+|++++++++||||+|++++|++++++||+.+|++|++|+||++.+++++||++..+++.++ +
T Consensus 598 LL~~al~~vlG~~v~q~Gs~v~~d~~r~Df~~~~~lt~eel~~IE~~vN~~I~~n~pV~~~~~~~~eA~~~~~~~l~~~g 677 (900)
T PRK13902 598 IILAAARKVLGDHVWQAGAQKTVDKARLDITHYKRITREEVKEIERLANEIVMENRPVKVEWMDRNEAEQKYGFRLYQGG 677 (900)
T ss_pred HHHHHHHHHhCCceeecCccccCCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEecCHHHHHhccchhhhccC
Confidence 999999999999999999999999999999999999999999999999999999999999999999999987765554 5
Q ss_pred CCCCCCEEEEEEccccccccCCcCCcccCCceeeccCCccccccccCCcEEEeeee
Q 003915 729 EVYPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHSWSLALNCL 784 (787)
Q Consensus 729 E~y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg~ikil~~~ 784 (787)
++|++.||||+|+ ++|.++||||||.||++||.|||++..
T Consensus 678 ~~~~~~VRVV~Ig----------------~~d~e~CgGTHV~nTgeIG~~kI~~~e 717 (900)
T PRK13902 678 VPPGKTIRVVEIG----------------DWDVEACGGTHVSNTGEIGPIKILKTE 717 (900)
T ss_pred CCCCCeEEEEEEC----------------CeeeeCCCCCCcCcHhhCeeEEEEEEE
Confidence 7888999999998 689999999999999999999999985
No 9
>PF01411 tRNA-synt_2c: tRNA synthetases class II (A); InterPro: IPR018164 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. Alanyl-tRNA synthetase (6.1.1.7 from EC) is an alpha4 tetramer that belongs to class IIc. ; GO: 0000166 nucleotide binding, 0004813 alanine-tRNA ligase activity, 0005524 ATP binding, 0006419 alanyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3HY1_A 3HXZ_C 3HXY_A 3HXU_A 3HY0_B 3HXV_A 3HXX_A 3HXW_A 2E1B_A 2ZZG_B ....
Probab=100.00 E-value=5e-178 Score=1522.77 Aligned_cols=545 Identities=54% Similarity=0.928 Sum_probs=453.3
Q ss_pred HHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccccccccCCC-CCCCcccccccccccccccccCCCCCCCCC
Q 003915 62 KVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFLGTA-DPNTQLSKLTRACNTQKCIRAGGKHNDLDD 140 (787)
Q Consensus 62 eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~flG~~-~p~~~~~~~~r~~~~QkCiR~gGkhnDld~ 140 (787)
|||++||+||++|||++||||||||+||||||||||||+||||||+|.+ +|+ ++|+|+||||||+|||||||||
T Consensus 1 eiR~~fl~fF~~~gH~~v~s~~lvp~~d~~llf~~Agm~~fkp~f~g~~~~p~-----~~r~~~~Q~CiR~~GkhnDld~ 75 (552)
T PF01411_consen 1 EIREKFLDFFEKKGHTIVPSSSLVPRWDPTLLFTNAGMNQFKPYFLGGEVPPP-----ANRLVSSQKCIRTGGKHNDLDN 75 (552)
T ss_dssp HHHHHHHHHHHTTT-EEE----SS-TT-TTBSS--SGGGGGCCCCTTSSS--S-----SSCEEEEEEEE-EETTEECGGG
T ss_pred CHHHHHHHHHHHCCCEEeccCCcccCCCCCceeeHhhHHHHHHHhcCCCCCCC-----CCcccccceeeccCCCcchhhh
Confidence 7999999999999999999999999999999999999999999999998 554 5799999999999999999999
Q ss_pred CCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhc--CCCCCc
Q 003915 141 VGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKF--LPASRV 218 (787)
Q Consensus 141 VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~--~~~~rI 218 (787)
||+|+|||||||||||||||||||+|||+|||||||++|||||+|||||||.+ |+||++||+++ +|++||
T Consensus 76 VG~t~rH~T~FEMlGn~sfgdYfK~eai~~awe~lt~~l~i~~~~l~vt~~~~--------d~ea~~~w~~~~g~~~~~i 147 (552)
T PF01411_consen 76 VGRTGRHHTFFEMLGNFSFGDYFKEEAIEYAWEFLTEVLGIPPDRLYVTVFEW--------DGEAGEIWEKIVGGPEERI 147 (552)
T ss_dssp TTTSSS--SEEEEEEEEEECSS-HHHHHHHHHHHHHCTTT--GGGEEEEEECC--------ECCCCCCCCECCTTECCCE
T ss_pred cCCCceEeeehhhccccccccccHHHHHHHHHHHHHhhcCCChHhEEEEEeCC--------chhHHHHHHHhcCCCHHHe
Confidence 99999999999999999999999999999999999999999999999999987 55999999999 999999
Q ss_pred ccCCCCCCcccCCCCCCCcCceeEEeecCCCCC---CCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCccccCch
Q 003915 219 LPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRD---AASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLG 295 (787)
Q Consensus 219 ~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~---~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDTGmG 295 (787)
++++.++|||+||++||||||||||||+|..+. ..+.++++++||+||||+|||||+|++||++.|||+++||||||
T Consensus 148 ~~~~~~~nfw~~g~~gpcgpcseI~~d~G~e~~~~~~~~~~~~~~~~~~eiwn~vf~q~~~~~~g~~~~L~~~~idtGmg 227 (552)
T PF01411_consen 148 LVFGKKDNFWEMGDTGPCGPCSEIFYDRGEERGCWDSQGTPTCDDDRFLEIWNLVFMQYNRDEDGSLEPLPKKNIDTGMG 227 (552)
T ss_dssp EEE-CCEEEEESSTSEEEEEEEEEEEEEECCCHHHHHHSTSSHHHHHECCCCCCCCCEEEETTTSHCCCCCCCCCCCCEE
T ss_pred EecCCCCceEECCCCCCCCCCEEEEECCCcccCccccccccccccccHHHHHHHHHHHhccccccccccccchhhhcCCC
Confidence 999999999999999999999999999975443 34567788999999999999999999999999999999999999
Q ss_pred HHHHHHHHhCCCCCccccccHHHHHHHHHHhCCCCCCCCCCCCCcccccchhhhhhhhhhheeeeecCCCccCCCCCchH
Q 003915 296 FERLTSILQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADKVDMAYRVVADHIRTLSFAIADGSCPGNEGREYV 375 (787)
Q Consensus 296 lERl~~vlqg~~snydtD~F~pli~~i~~~~~~~~y~g~~~~~~~~~~~~~~rviaDH~R~~~f~i~DGv~Psn~grgYv 375 (787)
|||++++|||++|||+||+|.|+++.++++++. +|. +....+.|+|+||||+||++|||+||++|||+|||||
T Consensus 228 ler~~~~lq~~~s~~~tdlf~~i~~~i~~~~~~-~y~------~~~~~~~a~rvIaDH~Ra~~f~i~DGv~PsN~GrGYv 300 (552)
T PF01411_consen 228 LERLAAVLQGVRSNYDTDLFMPIIEAIEELSGV-PYK------DEEEIDVALRVIADHIRALTFAIADGVLPSNEGRGYV 300 (552)
T ss_dssp HHHHCHHHCCHCCHHHCHHTCHHHHHHHHHHC---TT------SSCCCHHHHHHHHHHHHHHHHHHHTT--SSSSHHHHH
T ss_pred cHHHHHHHhhhhhhhchhhhhhHHHHHHHHcCC-Ccc------cccccccEEEEEcchhhceeeEecCCeeecccCCcch
Confidence 999999999999999999999999999999998 572 2245688999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhCCCcchhhhHHHHHHHHhcCCChhhHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-C
Q 003915 376 LRRILRRAVRYGSEVLKAQDGFFNGLVNIVVKVMGDVFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKKAAQDVQ-G 454 (787)
Q Consensus 376 lRrilRRa~r~~~~~lg~~~~fl~~lv~~v~~~m~~~ypeL~~~~~~I~~ii~~EE~~F~~TL~~G~~~l~~~i~~~~-~ 454 (787)
||||||||+|++ ++||++.+||++||+.|++.|++.||||.++++.|++||+.||++|.+||++|+++|++++++++ +
T Consensus 301 lRriiRRa~r~~-~~lg~~~~fl~~lv~~vi~~~~~~ypel~~~~~~I~~ii~~EE~~F~~TL~~G~~~l~~~i~~~~~~ 379 (552)
T PF01411_consen 301 LRRIIRRAVRFG-RKLGIEEPFLYELVPVVIESMGDFYPELKENKDYIKDIIKEEEERFLKTLERGLKLLEKLIKKLKKK 379 (552)
T ss_dssp HHHHHHHHHHHH-HHTT-SS--HHHHHHHHHHHHTTTGTHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHH-HHhCCCccchHHHHHHHHHHhhccChhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 999999999999 68999999999999999999999999999999999999999999999999999999999999986 5
Q ss_pred CCCChHHHHHhhhcCCCChhhHHHHHHHcCcccChhhHHHHHHHHHHHhHhhhhcccCCccccchHHHHHHhhcCCCCcc
Q 003915 455 KVLSGQDAFILWDTYGFPLDLTQLMAEERGLLVDIEGFNNAMDEARERSRSAQNKQAGGAIVMDADATAALHKRGVLATD 534 (787)
Q Consensus 455 ~~isg~~af~LydTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~~r~~sr~~~~~~~~~~~~~~~~~~~~l~~~~~~~T~ 534 (787)
++|||++||+||||||||+|||++||+|+|++||+++|+++|++||++||++++.... ...+... + ..++.++
T Consensus 380 ~~lsge~aF~LYDTyGfP~Dlt~eia~e~gl~vD~~~f~~~m~~qr~~sr~~~~~~~~--~~~~~~~---~--~~l~~~t 452 (552)
T PF01411_consen 380 KELSGEDAFKLYDTYGFPLDLTEEIAEEKGLSVDEEGFEYAMEEQRERSRAAKKKKSS--IEEDVSA---L--AELPKTT 452 (552)
T ss_dssp SEE-HHHHHHHHHHH---HHHHHHHHHTTT-EE-HHCCHHHHHHHCHHHCCHH----------SSST---T--TTCHHHE
T ss_pred cCCChHHheeehhccCCCHHHHHHHHHHhceeecHHHHHHHHHHHHHHhhhccccccc--hhhhHHH---H--hhhhccc
Confidence 6999999999999999999999999999999999999999999999999887544320 1111111 1 1344455
Q ss_pred cCCCcccceeecEEEEEEEeCCeeeeeecCCCeEEEEEccceeeeCCCCccCcceEEEecCceEEEEeEEEECCEEEEEE
Q 003915 535 DSFKFIWFQDHKSVIKAIYTGSEFIESVVPGNEVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHIG 614 (787)
Q Consensus 535 ~~~~Y~y~~~~~akVlai~~~~~~v~~~~~~~~~~VvLD~T~FYpegGGQ~~D~G~I~~~~~~~~V~dv~k~~g~ivH~~ 614 (787)
+|.||+ .++++|+|++++.+++++..+..++..+||||+|||||||||||+|+|+|..++..+.|.+|++.+|.++|.+
T Consensus 453 eF~gYe-~~~~~akVlal~~~~~~~~~v~~~~~~~VVLD~T~FYpegGGQ~~D~G~I~~~~~~~~V~dv~k~~g~i~H~~ 531 (552)
T PF01411_consen 453 EFVGYE-YLECEAKVLALFKDGEFVAKVEEGEEGYVVLDKTPFYPEGGGQPGDTGTIIGDGGEFEVTDVQKVGGVILHIG 531 (552)
T ss_dssp ETCCCC-------TT---TT--EEEEEEEEEETTEEEESEE-S--SBTTB----EEECCTTEEEEEEEEEEETTEEEEEE
T ss_pred ccceee-cccccceEEEEEeCCEEEeeecCCceEEEEECCccccCCCCCCCCCeEEEeecceEEEEEEEEEECCEEEEEE
Confidence 699999 6689999999999999988888888889999999999999999999999998888999999999999999999
Q ss_pred EeecCCCcCCCCCEEEEEEehhc
Q 003915 615 SLTEGAGRFSVGEEVICKVDYDR 637 (787)
Q Consensus 615 ~~~~~~~~l~~G~~V~~~VD~er 637 (787)
.... +.+++|++|.++|||+|
T Consensus 532 ~~~~--g~l~~G~~V~~~VD~eR 552 (552)
T PF01411_consen 532 EVES--GSLKVGDEVTAEVDWER 552 (552)
T ss_dssp SSG---GG--TTSEEEEEE-HHH
T ss_pred eccC--CCCCCCCEEEEEecCCC
Confidence 8654 78999999999999987
No 10
>cd00673 AlaRS_core Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its predicted structure and the presence of three characteristic sequence motifs.
Probab=100.00 E-value=7.3e-109 Score=840.22 Aligned_cols=230 Identities=63% Similarity=1.115 Sum_probs=221.6
Q ss_pred hHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccccccccCCCCCCCcccccccccccccccccCCCCCCCC
Q 003915 60 ATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFLGTADPNTQLSKLTRACNTQKCIRAGGKHNDLD 139 (787)
Q Consensus 60 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~flG~~~p~~~~~~~~r~~~~QkCiR~gGkhnDld 139 (787)
++|||++||+||++|||+++|||||||++|||||||||||+||||||+|+++|+ ++|+|++|||||+ ||||
T Consensus 1 ~~eiR~~fl~FF~~kgH~~v~s~slvp~dDptllFtnAGM~~Fkp~f~G~~~p~-----~~r~~~~QkCiR~----~Die 71 (232)
T cd00673 1 ASEIRETFLSFFEKKGHTRVPSSPVVPRDDPTLLFTNAGMNQFKPIFLGEVPPP-----ANRLVNSQKCIRA----GDID 71 (232)
T ss_pred ChHHHHHHHHHHHhCCCEEeCCCCcCCCCCCchheeccchhhhhHHhcCCCCCC-----CCceeeeeeceec----CChh
Confidence 479999999999999999999999999999999999999999999999999875 5799999999999 7999
Q ss_pred CCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhc--CCCCC
Q 003915 140 DVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKF--LPASR 217 (787)
Q Consensus 140 ~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~--~~~~r 217 (787)
|||+|+|||||||||||||||||||+|||+|||||||++|||||+|||||||++ |+||++||.+. +|++|
T Consensus 72 nVG~t~rHhTfFEMLGNfSFgdYFK~eaI~~awe~LT~~l~l~~~rl~vTv~~~--------dde~~~~w~~~~g~~~~~ 143 (232)
T cd00673 72 NVGKTGRHHTFFEMLGNFSFGDYFKEEAIAFAWELLTEVLGLPKDRLYVSVFEG--------DDEEEAIWWWKIGLPGIR 143 (232)
T ss_pred hccccccchhhhhhhcccchhhhhHHHHHHHHHHHHHhhcCCCccceEEEEeCC--------CHHHHHHHHHhhCCCHHH
Confidence 999999999999999999999999999999999999999999999999999975 89999999887 99999
Q ss_pred cccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCccccCchHH
Q 003915 218 VLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLGFE 297 (787)
Q Consensus 218 I~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDTGmGlE 297 (787)
|++++.+||||+||++||||||||||||++++.++...++++++|||||||||||||+|+++|+|.|||+||||||||||
T Consensus 144 i~~~~~~dNfW~~G~~GPCGPcsEI~yd~g~~~~~~~~~~~~~~r~lEIWNlVFmqy~r~~~g~l~pLp~k~IDTGmGlE 223 (232)
T cd00673 144 IERIGFKDNFWEMGGNGPCGPCSEIFYDRGEERDAASLPNEDDDRYLEIWNLVFMQYNRDADGTYRPLPKKIVDTGMGLE 223 (232)
T ss_pred eeeCCccCCCCCCCCCcCCCCCEEEEEccCCCcCccccccCCCCCEEEEeeeeeeeeeccCCCCCccCCCCeeeCCcCHH
Confidence 99999999999999999999999999999877666667889999999999999999999999999999999999999999
Q ss_pred HHHHHHhCC
Q 003915 298 RLTSILQNK 306 (787)
Q Consensus 298 Rl~~vlqg~ 306 (787)
||+|||||+
T Consensus 224 Rla~vlQg~ 232 (232)
T cd00673 224 RLVWVLQGV 232 (232)
T ss_pred HHHHHHcCC
Confidence 999999996
No 11
>PLN02961 alanine-tRNA ligase
Probab=100.00 E-value=5.5e-45 Score=377.63 Aligned_cols=199 Identities=27% Similarity=0.328 Sum_probs=169.2
Q ss_pred eEEEEEccceeeeCCCCccCcceEEEecC--ceEEEEeEEEECCEEEEEEEeec----CCCcCCCCCEEEEEEehhchhh
Q 003915 567 EVGIVLASSSFYAEQGGQIFDEGFIEGLF--GSFYVRNVQIYGGFVIHIGSLTE----GAGRFSVGEEVICKVDYDRRKL 640 (787)
Q Consensus 567 ~~~VvLD~T~FYpegGGQ~~D~G~I~~~~--~~~~V~dv~k~~g~ivH~~~~~~----~~~~l~~G~~V~~~VD~erR~~ 640 (787)
.+.|+||+|+|||||||||+|+|+|...+ ..+.|.+|++.+|.++|++.+.. +.+.|++|++|.++|||+||+.
T Consensus 2 ~~~viLd~T~FYpegGGQp~D~G~i~~~~~~~~~~V~~v~~~~g~i~H~~~~~~~~~~~~~~l~~G~~V~~~ID~~rR~~ 81 (223)
T PLN02961 2 RIALVLDRTIFHPQGGGQPSDTGRIVISGGDTKFSVQDVRRKDGVVYHYGVFEGSNPESASPFEAGDEVTVTVDESRRKL 81 (223)
T ss_pred CeEEEeCCceEcCCCCCCCCcEEEEEecCCCcEEEEEEEEEECCEEEEEEEecCcccccCCCCCCCCEEEEEECHHHHhh
Confidence 36799999999999999999999998633 36999999999999999986431 0146889999999999999999
Q ss_pred hcccccHHHHHHHHHHHH-hCCcceeeeecccCCceEEEeeCCCCCCHHH----HHHHHHHHHHHHHcCCCEEEEEcCHH
Q 003915 641 IAPNHTCTHMLNFALREV-LGDHVDQKGSVVLPEKLRFDFSHGKPVDPEH----LRRIESIVNEQIKAELDVFSKEATLA 715 (787)
Q Consensus 641 ~~r~HTAtHLL~aALr~v-lG~~v~q~Gs~v~~d~~RfDFs~~~~lt~ee----L~~IE~~vNe~I~~n~pV~~~~~~~~ 715 (787)
+|++|||+|||++||+++ +|.++.|+|+++ ++..++||. ..++.++ +.+||+++|++|++++||++.+++++
T Consensus 82 ~m~~HTa~HLL~~al~~~~~~~~~~~~g~~~-~~~~~v~~~--~~i~~~~~~~~~~~iE~~~N~~I~~~~~V~~~~~~~~ 158 (223)
T PLN02961 82 HSRLHSAGHLLDVCMARVGLGPLEPGKGYHF-PDGPFVEYK--GKIPQGELDSKQDELEAEANELIAEGGKVSAAVLPYD 158 (223)
T ss_pred hhccCcHHHHHHHHHHHcCCCcccccccccc-CCccceeec--ccCCHHHHHhHHHHHHHHHHHHHHcCCceeEEEeCHH
Confidence 999999999999999998 787777899887 567888875 3577655 47999999999999999999999999
Q ss_pred HHhcccCchhhcCCC-CCCCEEEEEEccccccccCCcCCcccCCceeeccCCccccccccCCcEEEeeeee
Q 003915 716 EAKCINGLRAVFGEV-YPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHSWSLALNCLL 785 (787)
Q Consensus 716 EA~~~~gl~~~fgE~-y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg~ikil~~~~ 785 (787)
||+++++. +.+... .++.||||+|+ +++.++||||||.||++||.|+|++++.
T Consensus 159 ea~~~~~~-~~~~~~~~~~~vRiV~I~----------------~~d~~~CgGTHv~nT~eig~i~I~~~~~ 212 (223)
T PLN02961 159 EAAELCGG-SLPDYIAKDSTPRIVKIG----------------DSPGCPCGGTHVADVSEITSVKVTQIRV 212 (223)
T ss_pred HHHHhcCC-cCCCcCCCCCceEEEEEC----------------CCccCccCCcccCchhccccEEEEEEEe
Confidence 99986442 332211 14679999999 6789999999999999999999999864
No 12
>COG2872 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]
Probab=100.00 E-value=1.4e-44 Score=374.66 Aligned_cols=211 Identities=27% Similarity=0.381 Sum_probs=193.0
Q ss_pred ccceeecEEEEEEEeCCeeeeeecCCCeEEEEEccceeeeCCCCccCcceEEEecCceEEEEeEEEECCEEEEEEEeecC
Q 003915 540 IWFQDHKSVIKAIYTGSEFIESVVPGNEVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHIGSLTEG 619 (787)
Q Consensus 540 ~y~~~~~akVlai~~~~~~v~~~~~~~~~~VvLD~T~FYpegGGQ~~D~G~I~~~~~~~~V~dv~k~~g~ivH~~~~~~~ 619 (787)
.|..+++|+|+++..+ .|+||+|+|||+|||||+|+|+|.+.++...|.++.+.+..|+|++...
T Consensus 10 ~y~~e~~~~v~~v~~~-------------~i~ld~T~Fyp~~GGQp~D~G~l~~~~~~~~~~~~~~~~~~I~H~~~~~-- 74 (241)
T COG2872 10 SYLKEFEATVVDVEDN-------------EIVLDRTIFYPTGGGQPGDTGTLIWAGGEYVVEDVTKDGEEIVHVLAEH-- 74 (241)
T ss_pred cccccceEEEEEEeCC-------------eEEEEeccccCCCCCCcCCceEEEeCCceEEEEEEEecceEEEEEecCc--
Confidence 4778999999998752 6999999999999999999999999999999999999888999998632
Q ss_pred CCcCCCCCEEEEEEehhchhhhcccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHHHHHHHHH
Q 003915 620 AGRFSVGEEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNE 699 (787)
Q Consensus 620 ~~~l~~G~~V~~~VD~erR~~~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE~~vNe 699 (787)
..+++|++|.++|||+||+++||+|||+|||++++.+.++ ++..|.++.++++|+||+.+. +++.+.++++++|+
T Consensus 75 -~~~~vG~~V~~~IDW~rRy~~mr~HTa~Hlls~~~~~~~~--~~~~g~~i~~d~~~iD~~~e~--~~~~~~~v~~~~ne 149 (241)
T COG2872 75 -AKLKVGDKVKLKIDWERRYRHMRMHTALHLLSAVLYKVYG--ALTTGFEIGEDYARIDFDGED--TEDEIEEVEALANE 149 (241)
T ss_pred -ccCCCCCEEEEEECcHHHHHHHhhhHHHHHHHHHhhcccc--ceeecceeccccccccccccc--chhhHHHHHHHHHH
Confidence 5689999999999999999999999999999999999998 467999999999999998754 88999999999999
Q ss_pred HHHcCCCEEEEEcCHHHHhcccCchhhcCCCCC---CCEEEEEEccccccccCCcCCcccCCceeeccCCccccccccCC
Q 003915 700 QIKAELDVFSKEATLAEAKCINGLRAVFGEVYP---DPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHS 776 (787)
Q Consensus 700 ~I~~n~pV~~~~~~~~EA~~~~gl~~~fgE~y~---d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg 776 (787)
+|++|+||...+++++||.+.++++++....+| ..+|+|+|+ ++|.+|||||||+||+|||
T Consensus 150 ~v~~~~~v~~~~i~~EE~~~~p~~~~~~~~~~~~~~g~iRiV~I~----------------did~qpCgGtHVk~T~EIG 213 (241)
T COG2872 150 LVKENLPVIIYFIPREEAEKLPGLVKLKNKVPPDVEGKIRIVEIG----------------DIDVQPCGGTHVKNTGEIG 213 (241)
T ss_pred HHHcCCeeeeeecCHHHHhhCcChhhhcccCCccccceEEEEEEC----------------CeeccCCCCcccCCccceE
Confidence 999999999999999999999999888774444 479999999 6899999999999999999
Q ss_pred cEEEeeeeec
Q 003915 777 WSLALNCLLK 786 (787)
Q Consensus 777 ~ikil~~~~~ 786 (787)
.|+|++...|
T Consensus 214 ~Iki~k~e~k 223 (241)
T COG2872 214 EIKILKTEKK 223 (241)
T ss_pred EEEEEEEEEe
Confidence 9999998654
No 13
>KOG2105 consensus Predicted metal-dependent hydrolase, contains AlaS domain [General function prediction only]
Probab=99.95 E-value=2.5e-28 Score=252.16 Aligned_cols=187 Identities=23% Similarity=0.333 Sum_probs=149.4
Q ss_pred CeEEEEEccceeeeCCCCccCcceEEEecCceEEEEeEEEECCEEEEEEEeecCCCcCCCCCEEEEEEehhchhhhcccc
Q 003915 566 NEVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHIGSLTEGAGRFSVGEEVICKVDYDRRKLIAPNH 645 (787)
Q Consensus 566 ~~~~VvLD~T~FYpegGGQ~~D~G~I~~~~~~~~V~dv~k~~g~ivH~~~~~~~~~~l~~G~~V~~~VD~erR~~~~r~H 645 (787)
+.+.+.|..|++||+|||||+|.|++. ...|..|.+.|...-|... ..+.+|.+|.+.|||+||.++|++|
T Consensus 42 eg~~i~lqdtiLfpegggqp~d~gf~~----~v~V~~VsR~G~~A~H~~~-----~~iePGt~V~V~VD~qkR~D~MQQH 112 (415)
T KOG2105|consen 42 EGYEIELQDTILFPEGGGQPSDSGFLK----IVEVSHVSRFGLHAKHHVN-----DYIEPGTTVEVAVDEQKRMDYMQQH 112 (415)
T ss_pred ecceeeeeeeEeccCCCCCCCcccccc----ceeEEEeeccccchhhccC-----CCCCCCCeEEEEecHHHHhHHHHHh
Confidence 457899999999999999999999994 4568888887776667653 6799999999999999999999999
Q ss_pred cHHHHHHHHHHHHhCCcc--eeeeecccCCceEEEeeCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEEcCHHH--Hhccc
Q 003915 646 TCTHMLNFALREVLGDHV--DQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAE--AKCIN 721 (787)
Q Consensus 646 TAtHLL~aALr~vlG~~v--~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE~~vNe~I~~n~pV~~~~~~~~E--A~~~~ 721 (787)
|++|||.+++.+.|...+ |..|-..+ .+.... .++|.|++..||+.+|+.|+.-+||.+.+.++++ ..+..
T Consensus 113 sGQHLitAvad~~fKlkTtSWelG~~~s----a~e~~~-~~mTaeqvaaieqsvNe~I~d~~~~~v~E~sl~d~eVeqVS 187 (415)
T KOG2105|consen 113 SGQHLITAVADHLFKLKTTSWELGRFRS----AIELDT-PSMTAEQVAAIEQSVNEKIRDRLPVNVRELSLDDPEVEQVS 187 (415)
T ss_pred cchhHHHHHHHhhhccceeeeeccceee----ccccCC-CCccHHHHHHHHHHHHHHHHhccchheeecccCCcchhhcc
Confidence 999999999999885422 33332222 223333 3699999999999999999999999999887654 33333
Q ss_pred CchhhcCCCCCCCEEEEEEccccccccCCcCCcccCCceeeccCCccccccccCCcEEEeeee
Q 003915 722 GLRAVFGEVYPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHSWSLALNCL 784 (787)
Q Consensus 722 gl~~~fgE~y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg~ikil~~~ 784 (787)
| +-++ +.-.+++|+|.|+ ++|.++||||||+||++|+.|+|++-.
T Consensus 188 ~-~~~~-D~haG~iRvvnI~----------------~vDSN~CCGTHvs~~Sdl~vI~ILgte 232 (415)
T KOG2105|consen 188 G-RGLP-DDHAGPIRVVNIE----------------GVDSNMCCGTHVSNLSDLQVIKILGTE 232 (415)
T ss_pred C-CCCc-ccccCceEEEeec----------------CccCCccccccccchhhcceEEEeecc
Confidence 3 1111 1123579999999 689999999999999999999999853
No 14
>PLN02837 threonine-tRNA ligase
Probab=99.71 E-value=6e-17 Score=190.69 Aligned_cols=137 Identities=23% Similarity=0.373 Sum_probs=116.3
Q ss_pred CEEEEEEehhchhhhcccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHHHHHHHHHHHHcCCC
Q 003915 627 EEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNEQIKAELD 706 (787)
Q Consensus 627 ~~V~~~VD~erR~~~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE~~vNe~I~~n~p 706 (787)
..|.+.+|...|...+.+|||+|||++|+++++|....+.|+.+ ++++++||.. .++|++++++||+.||++|.+|+|
T Consensus 30 ~~~~~~~~~~~~~~~~~~HSa~HLL~~Av~~l~~~~~~~ig~~~-~~g~y~D~~~-~~lt~edl~~IEk~m~~iI~~n~p 107 (614)
T PLN02837 30 ERVVLPTNESSEKLLKIRHTCAHVMAMAVQKLFPDAKVTIGPWI-ENGFYYDFDM-EPLTDKDLKRIKKEMDRIISRNLP 107 (614)
T ss_pred ceEEEEeccChhhHHHHHHHHHHHHHHHHHHHcCCcEEEECCcc-CCCEEEEecC-CCCCHHHHHHHHHHHHHHHHcCCC
Confidence 58999999999999999999999999999999986434566665 5789999987 589999999999999999999999
Q ss_pred EEEEEcCHHHHhcccCchhhcCCCC---------CCCEEEEEEccccccccCCcCCcccCCceeeccCCccccccccC--
Q 003915 707 VFSKEATLAEAKCINGLRAVFGEVY---------PDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSH-- 775 (787)
Q Consensus 707 V~~~~~~~~EA~~~~gl~~~fgE~y---------~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eI-- 775 (787)
|+..+++++||.++. .. .++.| .+.||||+|| +.+.++|+||||+||++|
T Consensus 108 I~~~~v~~eEA~~~f--~~-~~~~~k~~Ll~~~~~~~Iriy~ig----------------~~~~D~c~GpHv~sTg~I~~ 168 (614)
T PLN02837 108 LVREEVSREEAQKRI--MA-INEPYKLEILEGIKEEPITIYHIG----------------EEWWDLCAGPHVERTGKINK 168 (614)
T ss_pred EEEEEecHHHHHHHH--HH-cCCchhHHHhccCCCCeEEEEEEC----------------CeEEEecCCCCccccccccc
Confidence 999999999999752 11 12222 2469999998 335788999999999999
Q ss_pred CcEEEeeee
Q 003915 776 SWSLALNCL 784 (787)
Q Consensus 776 g~ikil~~~ 784 (787)
+.|||+++-
T Consensus 169 ~~~kl~~~~ 177 (614)
T PLN02837 169 KAVELESVA 177 (614)
T ss_pred ceEEEEEee
Confidence 999998764
No 15
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=99.68 E-value=2.3e-16 Score=184.82 Aligned_cols=124 Identities=20% Similarity=0.278 Sum_probs=104.2
Q ss_pred cccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEEcCHHHHhccc
Q 003915 642 APNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAKCIN 721 (787)
Q Consensus 642 ~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE~~vNe~I~~n~pV~~~~~~~~EA~~~~ 721 (787)
+.+|||+|||++|+++++|.. ...+++..++++|+||+...++|++++.+||+.||++|++|+||....++++||.++.
T Consensus 8 ~~~hS~~hlL~~A~~~~~~~~-~~~~~~~~~~g~~~d~~~~~~it~e~l~~Ie~~m~~lI~~~~pi~~~~v~~eeA~~~f 86 (575)
T PRK12305 8 VIRHSAAHVLAQAVQELFPDA-KLGIGPPIEDGFYYDFDVPEPFTPEDLKKIEKKMKKIIKRGLPFEREEVSREEAREEF 86 (575)
T ss_pred HHHHHHHHHHHHHHHHHcCCc-eEEeCCCcCCeEEEEeeCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEEecHHHHHHhC
Confidence 578999999999999999853 4566666689999999987789999999999999999999999999999999999864
Q ss_pred Cch----hhcCCCCCCCEEEEEEccccccccCCcCCcccCCceeeccCCccccccccCCcEEEeee
Q 003915 722 GLR----AVFGEVYPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHSWSLALNC 783 (787)
Q Consensus 722 gl~----~~fgE~y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg~ikil~~ 783 (787)
.-. .++...+++.||||+|| ++ .++||||||+||++||.|+|+++
T Consensus 87 ~~~~~k~~l~~~~~~~~vri~~ig----------------~~-~d~c~Gthv~~T~~i~~f~i~~~ 135 (575)
T PRK12305 87 ANEPYKLELIDDIPEEGITIYDNG----------------DF-EDLCRGPHVPNTKFIKAFKLTSV 135 (575)
T ss_pred CcChhHHHhhhhcCCCeEEEEEEC----------------CE-EEECCCCCCCCccCCceeEEEEE
Confidence 311 12222234569999998 33 47899999999999999999987
No 16
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=99.64 E-value=2.1e-15 Score=178.76 Aligned_cols=145 Identities=20% Similarity=0.247 Sum_probs=118.4
Q ss_pred CcCCCCCEEEEEEehhchhhhcccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHHHHHHHHHH
Q 003915 621 GRFSVGEEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNEQ 700 (787)
Q Consensus 621 ~~l~~G~~V~~~VD~erR~~~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE~~vNe~ 700 (787)
..+..+..|+..-....+-..+.+|||+|||++|+++++|. ....+++..++++++||+...++|++++.+||+.||++
T Consensus 49 ~~l~~d~~Vefi~~~~~~g~~~y~hS~~hll~~A~~~~~~~-~~~~~~~~~~~g~y~d~~~~~~lt~e~l~~Ie~~m~~i 127 (638)
T PRK00413 49 TPIEEDASLEIITAKDEEGLEIIRHSAAHLLAQAVKRLYPD-AKLTIGPVIENGFYYDFDRERPFTPEDLEAIEKEMKEI 127 (638)
T ss_pred ccccCCCceeeeeccchhhHHHHhhhHHHHHHHHHHHHcCC-ceEEECCccCCeEEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence 34566777887777777777889999999999999999975 34566666689999999987889999999999999999
Q ss_pred HHcCCCEEEEEcCHHHHhcccCch------hhcCCCCC-CCEEEEEEccccccccCCcCCcccCCceeeccCCccccccc
Q 003915 701 IKAELDVFSKEATLAEAKCINGLR------AVFGEVYP-DPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMC 773 (787)
Q Consensus 701 I~~n~pV~~~~~~~~EA~~~~gl~------~~fgE~y~-d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~ 773 (787)
|.+|+||+...++++||.++..-. .++..... +.|||++++ + ..++|+||||+||+
T Consensus 128 I~~~~pi~~~~v~~~eA~~~f~~~~~~~k~~ll~~~~~~~~v~iy~~~----------------~-~~d~c~G~hv~~Tg 190 (638)
T PRK00413 128 IKENYPIEREVVSREEAIELFKDRGEPYKVELIEEIPEDEEISLYRQG----------------E-FVDLCRGPHVPSTG 190 (638)
T ss_pred HhcCCCEEEEEecHHHHHHHHHhcCCccHHHHhhcCCCCCeEEEEEEC----------------C-EEEECCCCCCCccc
Confidence 999999999999999999863211 11111112 269999998 3 35889999999999
Q ss_pred cCCcEEEeee
Q 003915 774 SHSWSLALNC 783 (787)
Q Consensus 774 eIg~ikil~~ 783 (787)
+||.|+|++.
T Consensus 191 ~i~~f~i~~~ 200 (638)
T PRK00413 191 KIKAFKLLKV 200 (638)
T ss_pred CCceeEEEEE
Confidence 9999999987
No 17
>TIGR00418 thrS threonyl-tRNA synthetase. This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..
Probab=99.55 E-value=1.8e-14 Score=168.55 Aligned_cols=125 Identities=21% Similarity=0.203 Sum_probs=105.0
Q ss_pred cccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEEcCHHHHhcccCc
Q 003915 644 NHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAKCINGL 723 (787)
Q Consensus 644 ~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE~~vNe~I~~n~pV~~~~~~~~EA~~~~gl 723 (787)
+|||+|||++|++++++....+.|+.+ ++++|+||+...++|++++.+||+.||++|.+++||....++++||.++...
T Consensus 1 ~HS~~hLl~~Al~~~~~~~~~~~~~~i-~~g~~~df~~~~~~t~eel~~Ie~~m~~lI~~~~pi~~~~~~~eeA~~~f~~ 79 (563)
T TIGR00418 1 RHSIAHLLAEALKQLYPDVKLAIGPVV-EDGFYYDFELDRSFTQEDLEKIEKDMKEIAKKNYPVAKLSVSLEEALEAFKV 79 (563)
T ss_pred CChHHHHHHHHHHHHcCCcEEEEcCCc-CCCceecccCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEEECHHHHHHHHhc
Confidence 599999999999999987656778777 5669999998888999999999999999999999999999999999985320
Q ss_pred -----hhhcCCC-CCCCEEEEEEccccccccCCcCCcccCCceeeccCCccccccccCCcEEEeeeee
Q 003915 724 -----RAVFGEV-YPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHSWSLALNCLL 785 (787)
Q Consensus 724 -----~~~fgE~-y~d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg~ikil~~~~ 785 (787)
..++.+. +.+.|||+.++ +++.++|+||||+||+.|+.|+|.++..
T Consensus 80 ~~~~k~~Ll~~~~~~~~v~vy~~g----------------~~~~d~~~G~~v~~Tg~i~~f~l~~~~~ 131 (563)
T TIGR00418 80 LEPYKLELLDEIPNGVKRTPYGWG----------------KAFVDLCKGPHLPNTSFIKAFKLEKVAG 131 (563)
T ss_pred cChhHHHHHhcCCCCCeEEEEEeC----------------CEEEEEcCCCcCCCCCCCceeEEEEecc
Confidence 0112221 33679999998 5578999999999999999999997643
No 18
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=99.54 E-value=3e-14 Score=168.98 Aligned_cols=126 Identities=17% Similarity=0.231 Sum_probs=102.5
Q ss_pred hcccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEEcCHHHHhcc
Q 003915 641 IAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAKCI 720 (787)
Q Consensus 641 ~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE~~vNe~I~~n~pV~~~~~~~~EA~~~ 720 (787)
..-+||++|||++|+++++|... ....+..++++++||+...++|++++.+||+.||++|.+++||...+++++||.++
T Consensus 73 ~iy~hS~~hlL~~A~~~~~~~~~-~~i~~~~~~g~y~d~~~~~~it~edl~~Ie~~m~eiI~~~~pI~~~~v~~eeA~~~ 151 (639)
T PRK12444 73 EIARHSAAHILAQAVKRLYGDVN-LGVGPVIENGFYYDMDLPSSVNVEDLRKIEKEMKKIINENIKIERVEVSREEAAKL 151 (639)
T ss_pred HHHHHHHHHHHHHHHHHHcCCcE-EEeCCcCCCeEEEEEeCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEEecHHHHHHH
Confidence 45689999999999999999743 33344448899999998888999999999999999999999999999999999986
Q ss_pred cCch------hhcCCCCC-CCEEEEEEccccccccCCcCCcccCCceeeccCCccccccccCCcEEEeeee
Q 003915 721 NGLR------AVFGEVYP-DPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHSWSLALNCL 784 (787)
Q Consensus 721 ~gl~------~~fgE~y~-d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg~ikil~~~ 784 (787)
+.-. .++..... +.|||++++ + ..++|+||||+||++|+.|+|+++.
T Consensus 152 F~~~~~~~K~~ll~~~~~~~~v~iy~~~----------------~-~~D~c~G~hv~sTg~ik~f~l~~~~ 205 (639)
T PRK12444 152 FQEMNDRLKLELLEAIPSGESITLYKQG----------------E-FVDLCRGPHLPSTGYLKAFQLTHVS 205 (639)
T ss_pred HhhcCCchHHHHHhcCCCCCeEEEEEEC----------------C-EEEEcCCcCCCCCCCCceeEEEEEc
Confidence 3211 11111112 459999998 3 4678999999999999999999764
No 19
>PLN02908 threonyl-tRNA synthetase
Probab=99.31 E-value=2.7e-11 Score=144.87 Aligned_cols=126 Identities=20% Similarity=0.225 Sum_probs=101.8
Q ss_pred hhcccccHHHHHHHHHHHHhCCcceeeeecccC-CceEEEeeCC-CCCCHHHHHHHHHHHHHHHHcCCCEEEEEcCHHHH
Q 003915 640 LIAPNHTCTHMLNFALREVLGDHVDQKGSVVLP-EKLRFDFSHG-KPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEA 717 (787)
Q Consensus 640 ~~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~-d~~RfDFs~~-~~lt~eeL~~IE~~vNe~I~~n~pV~~~~~~~~EA 717 (787)
.-+..||++|||.+|+++++|..+ ..|..+++ +++++||... .++|++++.+||+.||++|.+++|++...++++||
T Consensus 119 ~~~y~hS~ahlL~~A~~~~~~~~l-~ig~~i~~~~Gfy~d~~~~~~~~t~edl~~Ie~~m~~iI~~~~pi~r~~v~~eeA 197 (686)
T PLN02908 119 RDTFWHSSAHILGEALELEYGCKL-CIGPCTTRGEGFYYDAFYGDRTLNEEDFKPIEARAEKAVKEKQPFERIEVTREEA 197 (686)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCeE-EecCccccCCcEEEEeecCCCCCCHHHHHHHHHHHHHHHhcCCCeEEEEEcHHHH
Confidence 346899999999999999998654 35656654 7889999854 57999999999999999999999999999999999
Q ss_pred hcccC---ch-hhcCCCCC--CCEEEEEEccccccccCCcCCcccCCceeeccCCccccccccCCcEEEeeee
Q 003915 718 KCING---LR-AVFGEVYP--DPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHSWSLALNCL 784 (787)
Q Consensus 718 ~~~~g---l~-~~fgE~y~--d~VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg~ikil~~~ 784 (787)
.+++. .. .+.. ..+ +.|+|+++|+ ..++|.||||+||++|+.|+|+++.
T Consensus 198 ~e~F~~~~~K~~ll~-~~~~~~~v~vY~~g~-----------------~~D~c~Gphv~sTg~ik~f~l~~~~ 252 (686)
T PLN02908 198 LEMFSENKFKVEIIN-DLPEDATITVYRCGP-----------------LVDLCRGPHIPNTSFVKAFACLKAS 252 (686)
T ss_pred HHHHhhCCcHHHHHh-hCCCCCeeEEEEECC-----------------EEEecCCCCCCCCCccceeEEEEec
Confidence 97532 11 1111 123 3599999983 4677999999999999999998875
No 20
>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.00 E-value=5.2e-10 Score=130.21 Aligned_cols=124 Identities=27% Similarity=0.377 Sum_probs=98.7
Q ss_pred hhcccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEEcCHHHHhc
Q 003915 640 LIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAKC 719 (787)
Q Consensus 640 ~~~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE~~vNe~I~~n~pV~~~~~~~~EA~~ 719 (787)
.-..+||++|||..|++++++. + ..| .+.++++++||....++|++++.+||+.|+++|.+++++....+++++|++
T Consensus 26 ~~~~rhs~ah~l~~av~~l~p~-~-~~g-p~ie~gfyyd~~~~~~~~~~dl~~ie~~m~~i~~~~~~~~~~~~~~e~a~~ 102 (589)
T COG0441 26 LEIIRHSCAHVLAQAVKRLYPD-V-TIG-PVIEEGFYYDFDVKEPITPEDLLKIEKEMKEIAKENLPIEREVVSREEARA 102 (589)
T ss_pred hhhhhhHHHHHHHHHHHHhCCC-c-ccc-CcccceeEEeeccCCCCCHHHHHHHHHHHHHHHHhcCceEEEEecHHHHHH
Confidence 3457899999999999999987 3 466 666899999999988899999999999999999999999999999999998
Q ss_pred ccCchhhcCCCCCCCEEEEE-EccccccccCCcCCcccCCceeeccCCccccccccCCcEEEeeee
Q 003915 720 INGLRAVFGEVYPDPVRVVA-IGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHSWSLALNCL 784 (787)
Q Consensus 720 ~~gl~~~fgE~y~d~VRVV~-Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg~ikil~~~ 784 (787)
.++ .|. +.+|+ ++ .+.+.+..+...++|-|+||+||+.| .||++++-
T Consensus 103 ~f~-------~yK--~~~i~~~~--------~~~s~y~~~~~~dlc~gph~~~t~~i-~fkl~~~~ 150 (589)
T COG0441 103 PFG-------PYK--AELIDCKG--------HPLSEYSQGEFVDLCRGPHVPSTGKI-AFKLLKLA 150 (589)
T ss_pred Hhh-------hhH--HHHHhcCC--------CCceeEecCccccccCCCCCCccceE-EEEEEEec
Confidence 643 332 11111 11 12223333457899999999999999 99998763
No 21
>PF07973 tRNA_SAD: Threonyl and Alanyl tRNA synthetase second additional domain; InterPro: IPR012947 The catalytically active form of threonyl/alanyl tRNA synthetase is a dimer. Within the tRNA synthetase class II dimer, the bound tRNA interacts with both monomers making specific interactions with the catalytic domain, the C-terminal domain, and this SAD domain (the second additional domain). The second additional domain is comprised of a pair of perpendicularly orientated antiparallel beta sheets, of four and three strands, respectively, that surround a central alpha helix that forms the core of the domain [].; GO: 0005524 ATP binding, 0016876 ligase activity, forming aminoacyl-tRNA and related compounds, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 3KEW_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A 1NYQ_B 1NYR_A 2ZTG_A 2ZZF_A ....
Probab=98.94 E-value=8e-10 Score=86.54 Aligned_cols=35 Identities=34% Similarity=0.423 Sum_probs=28.4
Q ss_pred EEEEEEccccccccCCcCCcccCCceeeccCCccccccccCCcEEEeeeee
Q 003915 735 VRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHSWSLALNCLL 785 (787)
Q Consensus 735 VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg~ikil~~~~ 785 (787)
||||+|+ ++|.++||||||+||++||.|+|++.+.
T Consensus 1 vRvv~i~----------------~~~~~~C~GtHv~~T~~i~~~~i~~~~~ 35 (44)
T PF07973_consen 1 VRVVRIG----------------DFDVDLCGGTHVPNTGEIGHFKILKGES 35 (44)
T ss_dssp EEEEEET----------------TTEEEEESS---SBGGGG-CEEEEEEEE
T ss_pred CEEEEEC----------------CeeEECCCCcccCChhEECcEEEEEeEE
Confidence 7999998 6899999999999999999999997764
No 22
>smart00863 tRNA_SAD Threonyl and Alanyl tRNA synthetase second additional domain. The catalytically active form of threonyl/alanyl tRNA synthetase is a dimer. Within the tRNA synthetase class II dimer, the bound tRNA interacts with both monomers making specific interactions with the catalytic domain, the C-terminal domain, and this SAD domain (the second additional domain). The second additional domain is comprised of a pair of perpendicularly orientated antiparallel beta sheets, of four and three strands, respectively, that surround a central alpha helix that forms the core of the domain.
Probab=98.71 E-value=1.1e-08 Score=79.72 Aligned_cols=35 Identities=37% Similarity=0.426 Sum_probs=32.4
Q ss_pred EEEEEEccccccccCCcCCcccCCceeeccCCccccccccCCcEEEeeeee
Q 003915 735 VRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVAIMCSHSWSLALNCLL 785 (787)
Q Consensus 735 VRVV~Ig~~~~~~~~~~~~~~~~~~s~elCGGTHV~nT~eIg~ikil~~~~ 785 (787)
||+|.|+ ++|.++||||||.||++||.|+|+++..
T Consensus 1 vriv~i~----------------~~~~~~C~GtHv~~t~~I~~i~i~~~~~ 35 (44)
T smart00863 1 VRVVSIG----------------DFDVELCGGTHVPNTGEIGAFKILSVSG 35 (44)
T ss_pred CEEEEEC----------------CEEEECCCCcccCChhhCcEEEEEEEee
Confidence 5899998 6889999999999999999999999875
No 23
>cd00768 class_II_aaRS-like_core Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial ATP phosphoribosyltransferase regulatory subunit HisZ.
Probab=96.02 E-value=0.019 Score=57.81 Aligned_cols=115 Identities=17% Similarity=0.114 Sum_probs=68.6
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCccCCCCC--------cceec---ccccccccccc-CCCCC--CCcccccccccccc
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVPVNDPT--------LLFAN---AGMNQYKPIFL-GTADP--NTQLSKLTRACNTQ 126 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~--------llf~n---AGm~~fkp~fl-G~~~p--~~~~~~~~r~~~~Q 126 (787)
+.+.+.+-++|.+.|+..+-++++++..+-. +.+.| ..+..++|-.+ +.... .|-.....|+...+
T Consensus 3 ~~~~~~~r~~l~~~Gf~Ev~t~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~LR~s~~~~l~~~~~~n~~~~~~~lfeig 82 (211)
T cd00768 3 SKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLYLRPTLEPGLVRLFVSHIRKLPLRLAEIG 82 (211)
T ss_pred HHHHHHHHHHHHHcCCEEeEcceecHHHHHHHcCccHhheeeeecCCCCEEEECCCCcHHHHHHHHhhcccCCEEEEEEc
Confidence 4678888999999999999999998842110 11111 11112222111 10000 00000124778889
Q ss_pred cccccCCCCCCCCCCCCCCCcchhhhhcccccccccc-----HHHHHHHHHHHcccccCCCC
Q 003915 127 KCIRAGGKHNDLDDVGKDTYHHTFFEMLGNWSFGDYF-----KNEAIEWAWELLTKVYRLPA 183 (787)
Q Consensus 127 kCiR~gGkhnDld~VG~t~rHhTfFEMLGnfSFgdYf-----K~eAi~~awe~Lt~~lgl~~ 183 (787)
+|.|.. + ..-+ .+|..-|.|+|-..+|... -.+++..++++|. .+|++.
T Consensus 83 ~vfr~e----~-~~~~--~~~~~ef~~l~~~~~g~~~~~~~~~~~~~~~~~~~l~-~lg~~~ 136 (211)
T cd00768 83 PAFRNE----G-GRRG--LRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLR-ALGIKL 136 (211)
T ss_pred ceeecC----C-Cccc--cccceeEEEcCEEEEcCCchhHHHHHHHHHHHHHHHH-HcCCCc
Confidence 999962 1 1111 3677889999999999643 3678889999985 688743
No 24
>PRK09348 glyQ glycyl-tRNA synthetase subunit alpha; Validated
Probab=95.61 E-value=0.16 Score=53.89 Aligned_cols=177 Identities=21% Similarity=0.275 Sum_probs=105.5
Q ss_pred CCCChHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceecccccccccc-ccCCCCCCCcccccccccccccccccC-C
Q 003915 56 VEWPATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPI-FLGTADPNTQLSKLTRACNTQKCIRAG-G 133 (787)
Q Consensus 56 ~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~-flG~~~p~~~~~~~~r~~~~QkCiR~g-G 133 (787)
.+|+-.+|-.+--+|..++|..++-++.+= + |--.|-|. |+..--|. | -+++-+|+|.|.. |
T Consensus 2 ~~~~fQ~iI~~Lq~fWa~~GC~i~qPyD~E---------v--GAGT~~P~Tflr~Lgpe-p----w~vaYvqPsRRP~DG 65 (283)
T PRK09348 2 KKMTFQDIILTLQDYWADQGCVILQPYDME---------V--GAGTFHPATFLRALGPE-P----WNAAYVQPSRRPTDG 65 (283)
T ss_pred CCCcHHHHHHHHHHHHHHCCCEEECCcccc---------c--ccccCCHHHHHHhcCCC-c----cccccccCCCCCCCC
Confidence 458999999999999999999999877652 2 34467774 44333331 1 3779999999982 2
Q ss_pred CCCCCCCCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhcC
Q 003915 134 KHNDLDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKFL 213 (787)
Q Consensus 134 khnDld~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~~ 213 (787)
+.-+=+| --.||.=|..+=--|-.+ ..+.=.+-| +.+||||..=
T Consensus 66 RYGeNPN---RLq~y~QfQVilKPsP~n-----iQelYL~SL-~~lGid~~~h--------------------------- 109 (283)
T PRK09348 66 RYGENPN---RLQHYYQFQVILKPSPDN-----IQELYLGSL-EALGIDPLEH--------------------------- 109 (283)
T ss_pred CcCCCch---hhhhheeeEEEEcCCCcc-----HHHHHHHHH-HHhCCCcccc---------------------------
Confidence 2222222 234555566655555443 111112222 3567776532
Q ss_pred CCCCcccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCccccC
Q 003915 214 PASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTG 293 (787)
Q Consensus 214 ~~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDTG 293 (787)
=+||- +|| ||-=.-|--|===|+-.| | +||=-.-+ |.+ -.| .++..-.+.-=
T Consensus 110 ----DIRFV-EDn-WEsPTLGAwGlGWEVWld---G--------------MEITQFTY--FQQ-vGG--i~~~pv~~EIT 161 (283)
T PRK09348 110 ----DIRFV-EDN-WESPTLGAWGLGWEVWLD---G--------------MEVTQFTY--FQQ-VGG--IECKPVTGEIT 161 (283)
T ss_pred ----ceeEe-ecC-CCCCcccccccceEEEEC---C--------------eeeeeeee--eee-eCC--eeccccceeee
Confidence 23442 344 553222555555566543 1 66654332 222 233 33555567778
Q ss_pred chHHHHHHHHhCCCCCccc
Q 003915 294 LGFERLTSILQNKMSNYDT 312 (787)
Q Consensus 294 mGlERl~~vlqg~~snydt 312 (787)
+||||||+.|||+.|+||.
T Consensus 162 YGLERiamylQ~vd~v~dl 180 (283)
T PRK09348 162 YGLERLAMYLQGVDNVYDL 180 (283)
T ss_pred hhHHHHHHHHhCCCceeee
Confidence 9999999999999999996
No 25
>TIGR00388 glyQ glycyl-tRNA synthetase, tetrameric type, alpha subunit. This tetrameric form of glycyl-tRNA synthetase (2 alpha, 2 beta) is found in the majority of completed eubacterial genomes, with the two genes fused in a few species. A substantially different homodimeric form (not recognized by this model) replaces this form in the Archaea, animals, yeasts, and some eubacteria.
Probab=94.32 E-value=0.49 Score=50.51 Aligned_cols=175 Identities=19% Similarity=0.279 Sum_probs=101.4
Q ss_pred CChHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceecccccccccc-ccCCCCCCCcccccccccccccccccC-CCC
Q 003915 58 WPATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPI-FLGTADPNTQLSKLTRACNTQKCIRAG-GKH 135 (787)
Q Consensus 58 ~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~-flG~~~p~~~~~~~~r~~~~QkCiR~g-Gkh 135 (787)
|+-.+|-.+--+|..++|..++-++.+= + |--.|-|. |+..--|. | -+++-+|+|.|.. |+.
T Consensus 1 m~fQ~iI~~Lq~fWa~~GC~i~QPyD~E---------v--GAGT~hPaTflralgpe-p----w~vAYVqPsRRP~DGRY 64 (293)
T TIGR00388 1 QTFQGLILKLQEYWANQGCLIVQPYDME---------K--GAGTMHPMTFLRSLGPE-P----WAVAYVEPSRRPTDGRY 64 (293)
T ss_pred CCHHHHHHHHHHHHHHCCCEEEcCcccc---------c--ccccCCHHHHHHhcCCC-c----ceeccccCCCCCCCCCC
Confidence 5678888899999999999999877652 2 34467774 44333331 1 3779999999982 222
Q ss_pred CCCCCCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhcCCC
Q 003915 136 NDLDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKFLPA 215 (787)
Q Consensus 136 nDld~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~~~~ 215 (787)
-+ |-- --.||.=|..+=--|-.+ ..+.=.+-| +.+||||..
T Consensus 65 Ge--NPN-RLq~yyQfQVilKPsP~n-----iQelYL~SL-~~lGid~~~------------------------------ 105 (293)
T TIGR00388 65 GE--NPN-RLQHYYQFQVVIKPSPDN-----IQELYLDSL-RALGIDPTE------------------------------ 105 (293)
T ss_pred CC--Cch-hhhheeeeEEEECCCCcc-----HHHHHHHHH-HHhCCCccc------------------------------
Confidence 22 222 234555566655555443 111111212 246776653
Q ss_pred CCcccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCccccCch
Q 003915 216 SRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLG 295 (787)
Q Consensus 216 ~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDTGmG 295 (787)
|=+||- +|| ||-=.-|--|===|+--| | +||=-.- =|.+ -.| + ++..-.+.-=+|
T Consensus 106 -hDIRFV-EDn-WEsPTLGAwGlGWEVWld---G--------------MEITQFT--YFQQ-vGG-i-~~~pv~~EITYG 160 (293)
T TIGR00388 106 -HDIRFV-EDN-WENPTLGAWGLGWEVWLD---G--------------MEVTQFT--YFQQ-VGG-L-ECKPVSVEITYG 160 (293)
T ss_pred -cCeeEe-ecC-CCCCcccccccccEEEEC---C--------------eeeeeee--eeee-eCC-e-eccccceeeehh
Confidence 223442 444 553222555555566543 1 6665332 2222 223 2 244445677799
Q ss_pred HHHHHHHHhCCCCCccc
Q 003915 296 FERLTSILQNKMSNYDT 312 (787)
Q Consensus 296 lERl~~vlqg~~snydt 312 (787)
|||||+.|||+.|+||.
T Consensus 161 LERiaMylQ~vd~v~dl 177 (293)
T TIGR00388 161 LERLAMYIQGVENVYDL 177 (293)
T ss_pred HHHHHHHHhCCCeeeee
Confidence 99999999999999997
No 26
>PRK14908 glycyl-tRNA synthetase; Provisional
Probab=94.13 E-value=0.37 Score=60.22 Aligned_cols=176 Identities=20% Similarity=0.314 Sum_probs=106.7
Q ss_pred CCChHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceecccccccccc-ccCCCCCCCccccccccccccccccc-CCC
Q 003915 57 EWPATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPI-FLGTADPNTQLSKLTRACNTQKCIRA-GGK 134 (787)
Q Consensus 57 ~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~-flG~~~p~~~~~~~~r~~~~QkCiR~-gGk 134 (787)
.|+..+|-.+--+|..++|+.++.++.+= -|--.|-|. |+..--|. | -+++-+|+|.|. .|+
T Consensus 4 ~~~~q~~i~~l~~~w~~~gc~~~qp~~~e-----------~gagt~~p~t~~~~l~~~-~----~~~ayv~p~~rp~d~r 67 (1000)
T PRK14908 4 PLTMQDMLLALLRYWSEQGCIIHQGYDLE-----------VGAGTFNPATFLRVLGPE-P----WRVAYVEPSRRPDDGR 67 (1000)
T ss_pred cccHHHHHHHHHHHHHHCCCEEECCcccc-----------cccCcCCHHHHHhhcCCC-C----CcccccCCCCCCCCCC
Confidence 47999999999999999999999877652 234467774 44333331 1 267899999998 222
Q ss_pred CCCCCCCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhcCC
Q 003915 135 HNDLDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKFLP 214 (787)
Q Consensus 135 hnDld~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~~~ 214 (787)
.-+=+| --.||+=|..+=--|-++ ..+.=.+-| +.+|||+..=
T Consensus 68 yg~npn---rl~~~~q~qvi~kp~p~~-----~q~~yl~sl-~~~gi~~~~~---------------------------- 110 (1000)
T PRK14908 68 YGQNPN---RLQTYTQFQVILKPVPGN-----PQELYLESL-KAIGIDLRDH---------------------------- 110 (1000)
T ss_pred cCCCch---hhhhheeeEEEECCCCcc-----HHHHHHHHH-HHcCCCcccc----------------------------
Confidence 222222 235666677766666654 111111222 3577777542
Q ss_pred CCCcccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCccccCc
Q 003915 215 ASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGL 294 (787)
Q Consensus 215 ~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDTGm 294 (787)
=+|| .+|| |+-=.-|--|===|+-.| | +||=-.-|.| ...| .++..-.+.-=+
T Consensus 111 ---dirf-ved~-we~p~lga~glgwevw~~---g--------------meitqftyfq---q~gg--~~~~~~~~eity 163 (1000)
T PRK14908 111 ---DIRF-VHDD-WENPTIGAWGLGWEVWLD---G--------------MEITQFTYFQ---QAGG--KPLDPISGEITY 163 (1000)
T ss_pred ---ceeE-eecC-CCCCcccccccccEEEEC---C--------------eeeeeeeeeh---hcCC--eeccccceeeec
Confidence 2333 2444 543222555555566543 1 6665433222 2333 335555677789
Q ss_pred hHHHHHHHHhCCCCCccc
Q 003915 295 GFERLTSILQNKMSNYDT 312 (787)
Q Consensus 295 GlERl~~vlqg~~snydt 312 (787)
|||||++.|||+.+.||.
T Consensus 164 gler~~m~~q~~~~~~~~ 181 (1000)
T PRK14908 164 GIERIAMYLQKVNHFKDI 181 (1000)
T ss_pred cHHHHHHHHhCCCeeeee
Confidence 999999999999999986
No 27
>cd00733 GlyRS_alpha_core Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. This alignment contains only sequences from the GlyRS form which heterotetramerizes. The homodimer form of GlyRS is in a different family of class II aaRS. Class II assignment is based upon structure and the presence of three characteristic sequence motifs.
Probab=93.17 E-value=1 Score=47.89 Aligned_cols=173 Identities=21% Similarity=0.317 Sum_probs=99.9
Q ss_pred hHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceecccccccccc-ccCCCCCCCccccccccccccccccc-CCCCCC
Q 003915 60 ATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPI-FLGTADPNTQLSKLTRACNTQKCIRA-GGKHND 137 (787)
Q Consensus 60 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~-flG~~~p~~~~~~~~r~~~~QkCiR~-gGkhnD 137 (787)
-.+|-.+--+|..++|..++-++.+= .|--.|-|. |+..--|. | -+++-+|+|.|. .|+.-+
T Consensus 2 fQ~iI~~Lq~fW~~~GC~i~qPyD~E-----------vGAGT~hPaTflr~Lgpe-p----w~vAYVqPsrRP~DGRYGe 65 (279)
T cd00733 2 FQDLILKLQKFWASQGCLIIQPYDME-----------VGAGTFHPATFLRALGPE-P----WNVAYVEPSRRPTDGRYGE 65 (279)
T ss_pred HHHHHHHHHHHHHHCCCEEEcCcccc-----------cccccCCHHHHHHhcCCC-c----ceeccccCCCCCCCCCcCC
Confidence 35677778899999999998877652 234467774 44333331 1 377999999998 222222
Q ss_pred CCCCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhcCCCCC
Q 003915 138 LDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKFLPASR 217 (787)
Q Consensus 138 ld~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~~~~~r 217 (787)
=+| --.||.=|..+=--|-.+ ..+.=.+-| +.+||||.+ |
T Consensus 66 NPN---RLq~y~QfQViiKPsP~n-----iQelYL~SL-~~lGid~~~-------------------------------h 105 (279)
T cd00733 66 NPN---RLQHYYQFQVIIKPSPDN-----IQELYLESL-EALGINPKE-------------------------------H 105 (279)
T ss_pred Cch---hhhhheeeEEEECCCCcc-----HHHHHHHHH-HHhCCCccc-------------------------------c
Confidence 222 234555566654455433 112222222 246776653 2
Q ss_pred cccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCccccCchHH
Q 003915 218 VLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLGFE 297 (787)
Q Consensus 218 I~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDTGmGlE 297 (787)
=+||- +|| ||-=.-|--|===|+-.| | +||=-.-+ |.+ -.| .++..-.+.-=+|||
T Consensus 106 DIRFV-EDn-WEsPTLGAwGLGWEVWld---G--------------MEITQFTY--FQQ-vGG--i~~~pv~~EiTYGLE 161 (279)
T cd00733 106 DIRFV-EDN-WESPTLGAWGLGWEVWLD---G--------------MEVTQFTY--FQQ-VGG--IPCKPISVEITYGLE 161 (279)
T ss_pred CeeEe-ecC-CCCCcccccccccEEEEC---C--------------eeeeeeee--eee-eCC--eeccccceeeehhHH
Confidence 23442 344 653222555555566643 1 66654332 222 233 334555667789999
Q ss_pred HHHHHHhCCCCCccc
Q 003915 298 RLTSILQNKMSNYDT 312 (787)
Q Consensus 298 Rl~~vlqg~~snydt 312 (787)
|||+.|||+.|+||.
T Consensus 162 RiamylQ~vd~v~dl 176 (279)
T cd00733 162 RIAMYLQGVDNVYDI 176 (279)
T ss_pred HHHHHHhCCCceecc
Confidence 999999999999996
No 28
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=91.66 E-value=1.1 Score=49.91 Aligned_cols=39 Identities=13% Similarity=0.100 Sum_probs=27.9
Q ss_pred cCCC-CCCCCCCChHHHHHHHHHhhhcCCCeEecCCCCcc
Q 003915 48 MPGA-DPQVVEWPATKVRDTFFKFFEDKNHVNWKSSPVVP 86 (787)
Q Consensus 48 ~~~~-~~~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp 86 (787)
+||+ .+....-...++++.-.++|..-|...+-+..|..
T Consensus 97 ~p~~~~~~G~~HPl~~~~~~Ir~if~~mGF~ev~gpeIes 136 (339)
T PRK00488 97 LPGRRIELGSLHPITQTIEEIEDIFVGMGFEVAEGPEIET 136 (339)
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHhCCCEEEeCCcccc
Confidence 4554 44555556777888888888888999988777754
No 29
>cd00669 Asp_Lys_Asn_RS_core Asp_Lys_Asn_tRNA synthetase class II core domain. This domain is the core catalytic domain of class II aminoacyl-tRNA synthetases of the subgroup containing aspartyl, lysyl, and asparaginyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. Nearly all class II tRNA synthetases are dimers and enzymes in this subgroup are homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.
Probab=91.54 E-value=0.27 Score=53.11 Aligned_cols=103 Identities=17% Similarity=0.260 Sum_probs=57.7
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCcc-CCCC-Ccceeccccccc---cccccCCCCCCC----ccccccccccccccccc
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVP-VNDP-TLLFANAGMNQY---KPIFLGTADPNT----QLSKLTRACNTQKCIRA 131 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp-~~dp-~llf~nAGm~~f---kp~flG~~~p~~----~~~~~~r~~~~QkCiR~ 131 (787)
++|-+.+-+||.++|-..|..--+.+ ..++ .-.|.-. .| ++++|-+.+--. -.+.+.|+-...+|.|.
T Consensus 5 s~i~~~ir~~f~~~gf~ev~tP~l~~~~~~~~~~~f~~~---~~~~g~~~~L~~Spql~~~~~~~~~~~~vf~i~~~fR~ 81 (269)
T cd00669 5 SKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVK---YNALGLDYYLRISPQLFKKRLMVGGLDRVFEINRNFRN 81 (269)
T ss_pred HHHHHHHHHHHHHCCCEEEECCEEeccCCccccceEEee---ecCCCCcEEeecCHHHHHHHHHhcCCCcEEEEecceeC
Confidence 57888999999999999885444432 1111 1122110 01 223332211000 00113566777899995
Q ss_pred CCCCCCCCCCCCCCCcchhhhhcccc-ccccccHHHHHHHHHHHccc
Q 003915 132 GGKHNDLDDVGKDTYHHTFFEMLGNW-SFGDYFKNEAIEWAWELLTK 177 (787)
Q Consensus 132 gGkhnDld~VG~t~rHhTfFEMLGnf-SFgdYfK~eAi~~awe~Lt~ 177 (787)
| +.|.||+.=|-||--- +|.|| +|.+..+=+++..
T Consensus 82 -----e----~~~~~hl~EF~~le~e~~~~~~--~dvm~~~e~lv~~ 117 (269)
T cd00669 82 -----E----DLRARHQPEFTMMDLEMAFADY--EDVIELTERLVRH 117 (269)
T ss_pred -----C----CCCCCcccceeEEEEEEecCCH--HHHHHHHHHHHHH
Confidence 4 3478999999887543 66676 5666666555543
No 30
>COG0752 GlyQ Glycyl-tRNA synthetase, alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=90.94 E-value=1.7 Score=46.15 Aligned_cols=177 Identities=19% Similarity=0.281 Sum_probs=97.3
Q ss_pred CCCCCChHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceecccccccccc-ccCCCCC-CCccccccccccccccccc
Q 003915 54 QVVEWPATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPI-FLGTADP-NTQLSKLTRACNTQKCIRA 131 (787)
Q Consensus 54 ~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~-flG~~~p-~~~~~~~~r~~~~QkCiR~ 131 (787)
|.++|+...|--+--+|..++|..++-++-+= .|--.|-|+ ||..--| |+ .++-+|+|-|.
T Consensus 1 ~~~~~~fQ~~IltLq~yW~~qGC~i~QpyD~e-----------vGAGT~hPaTfLralGpePw------~aAYVqPSRRP 63 (298)
T COG0752 1 MNKKLTFQGLILTLQNYWAEQGCTILQPYDME-----------VGAGTFHPATFLRALGPEPW------NAAYVQPSRRP 63 (298)
T ss_pred CCccccHHHHHHHHHHHHHHcCCEEecccccc-----------cccCcCChHHHHHhcCCCcc------ceeeeccCCCC
Confidence 34578899999999999999999998766541 244478885 4533333 22 56889999998
Q ss_pred C-CCCCCCCCCCCCCCcchhhhhccccccccccHHHHHH-HHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHH
Q 003915 132 G-GKHNDLDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIE-WAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIW 209 (787)
Q Consensus 132 g-GkhnDld~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~-~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW 209 (787)
+ |+--+ |--+ -.||-=|..+=--|= +-|. .=.+ -.+.|||||
T Consensus 64 ~DGRYGe--nPNR-lq~yyQfQVilKPsP------~NiQeLYL~-SL~~lGid~-------------------------- 107 (298)
T COG0752 64 TDGRYGE--NPNR-LQHYYQFQVIIKPSP------DNIQELYLG-SLEALGIDP-------------------------- 107 (298)
T ss_pred CCCCCCC--Cchh-hhhheeEEEEecCCC------ccHHHHHHH-HHHHcCCCh--------------------------
Confidence 3 22111 1111 122222222111110 0110 0000 012344444
Q ss_pred HhcCCCCCcccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCc
Q 003915 210 LKFLPASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKH 289 (787)
Q Consensus 210 ~~~~~~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~ 289 (787)
.+|=+||- +|| ||-=.-|--|-==|+-.| | +||=-.-+ |.+ -.| +. +.--.
T Consensus 108 -----~~HDIRFV-EDn-WE~PTlGawGlGWEVWld---G--------------MEvTQFTY--FQQ-vGG-ie-c~pV~ 158 (298)
T COG0752 108 -----LEHDIRFV-EDN-WENPTLGAWGLGWEVWLD---G--------------MEVTQFTY--FQQ-VGG-LE-CKPVS 158 (298)
T ss_pred -----hhcceeee-ccC-CCCCcccccccceeEEEc---C--------------eeeeeeeh--hhh-hCC-ee-cccee
Confidence 33445663 444 654333666666666644 1 56543222 222 233 32 33334
Q ss_pred cccCchHHHHHHHHhCCCCCccc
Q 003915 290 VDTGLGFERLTSILQNKMSNYDT 312 (787)
Q Consensus 290 IDTGmGlERl~~vlqg~~snydt 312 (787)
+.--+||||||+.+||+.++||.
T Consensus 159 ~EITYGlERlAmYiQ~vdnVydl 181 (298)
T COG0752 159 GEITYGLERLAMYIQGVDNVYDL 181 (298)
T ss_pred eeeehhHHHHHHHHhCccceeEE
Confidence 56679999999999999999995
No 31
>PF02091 tRNA-synt_2e: Glycyl-tRNA synthetase alpha subunit; InterPro: IPR002310 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. In eubacteria, glycyl-tRNA synthetase (6.1.1.14 from EC) is an alpha2/beta2 tetramer composed of 2 different subunits [, , ]. In some eubacteria, in archaea and eukaryota, glycyl-tRNA synthetase is an alpha2 dimer (see IPR002315 from INTERPRO). It belongs to class IIc and is one of the most complex synthetases. What is most interesting is the lack of similarity between the two types: divergence at the sequence level is so great that it is impossible to infer descent from common genes. The alpha and beta subunits (see IPR002311 from INTERPRO) also lack significant sequence similarity. However, they are translated from a single mRNA [], and a single chain glycyl-tRNA synthetase from Chlamydia trachomatis has been found to have significant similarity with both domains, suggesting divergence from a single polypeptide chain []. This entry represents the alpha subunit of glycyl-tRNA synthetase.; GO: 0000166 nucleotide binding, 0004820 glycine-tRNA ligase activity, 0005524 ATP binding, 0006426 glycyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3RF1_A 3UFG_B 3RGL_B 1J5W_B.
Probab=89.89 E-value=0.96 Score=48.40 Aligned_cols=172 Identities=23% Similarity=0.337 Sum_probs=86.2
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceecccccccccc-ccCCCCCCCccccccccccccccccc-CCCCCCC
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPI-FLGTADPNTQLSKLTRACNTQKCIRA-GGKHNDL 138 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fkp~-flG~~~p~~~~~~~~r~~~~QkCiR~-gGkhnDl 138 (787)
.+|-.+--+|..++|..++.++.+= -|--.|-|. |+..--|. | -+++-+|+|.|. .|+.-+
T Consensus 2 Q~iI~~Lq~fW~~~GC~i~qPyD~e-----------vGAGT~~P~Tflr~Lgpe-p----w~vaYVqPsrRP~DGRYGe- 64 (284)
T PF02091_consen 2 QDIILTLQKFWADQGCIILQPYDIE-----------VGAGTFHPATFLRALGPE-P----WNVAYVQPSRRPTDGRYGE- 64 (284)
T ss_dssp HHHHHHHHHHHHCTT-EE----SS-------------SSGGGSHHHHTTTSSSS------EEEEEEEEEE-GGG--TTT-
T ss_pred HHHHHHHHHHHHHCCCEEECCcccc-----------cccccCCHHHHHHhcCCC-C----ccccccccCCCCCCCccCC-
Confidence 3566677789999999999877652 234467774 44444331 1 378999999998 233323
Q ss_pred CCCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHHHhcCCCCCc
Q 003915 139 DDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKFLPASRV 218 (787)
Q Consensus 139 d~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~~~~~rI 218 (787)
|--+ -.||.=|..+=--|-++ ..+.=.+-| +.+||++..= =
T Consensus 65 -NPNR-Lq~y~QfQVilKPsP~n-----iq~lYL~SL-~~lGId~~~h-------------------------------D 105 (284)
T PF02091_consen 65 -NPNR-LQHYYQFQVILKPSPDN-----IQELYLESL-EALGIDPKEH-------------------------------D 105 (284)
T ss_dssp -SSS---SEEEEEEEEEES--TT-----HHHHHHHHH-HHCT--CCCS--------------------------------
T ss_pred -CchH-hhhhheeEEEEcCCCcc-----HHHHHHHHH-HHhCCCcccc-------------------------------c
Confidence 2222 34555555554444433 112222222 3467776542 2
Q ss_pred ccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCccccCchHHH
Q 003915 219 LPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLGFER 298 (787)
Q Consensus 219 ~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDTGmGlER 298 (787)
+|| .+|| ||-=.-|--|===|+--| | +||=-.-++| + ..| .++..-.+.-=+||||
T Consensus 106 IRF-VEDn-WEsPtLGAwGlGWEVWld---G--------------MEITQfTYFQ--Q-vGG--i~~~pv~~EITYGLER 161 (284)
T PF02091_consen 106 IRF-VEDN-WESPTLGAWGLGWEVWLD---G--------------MEITQFTYFQ--Q-VGG--IDCKPVSVEITYGLER 161 (284)
T ss_dssp EEE-EEE--EEETTTTEEEEEEEEEET---T--------------CEEEEEEEEE--E-ETT--EE-SS--EEEEEEHHH
T ss_pred eeE-eecC-CCCCcccccccccEEEEC---C--------------EEEEEeeeee--e-eCC--ccccccceehhhhHHH
Confidence 333 2444 553222555544565543 1 6665433333 2 223 3355556777899999
Q ss_pred HHHHHhCCCCCccc
Q 003915 299 LTSILQNKMSNYDT 312 (787)
Q Consensus 299 l~~vlqg~~snydt 312 (787)
||+.+||+.++||.
T Consensus 162 iamylQ~vdnv~dl 175 (284)
T PF02091_consen 162 IAMYLQGVDNVYDL 175 (284)
T ss_dssp HHHHHCT-SSGGGS
T ss_pred HHHHHhCCCeeEee
Confidence 99999999999996
No 32
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=88.34 E-value=4.5 Score=47.05 Aligned_cols=106 Identities=17% Similarity=0.253 Sum_probs=57.0
Q ss_pred hHHHHHHHHHhhhcCCCeEecCCCCccC-CCCCc-ceec-ccc-----ccc-cccccCCCCC---CCccccccccccccc
Q 003915 60 ATKVRDTFFKFFEDKNHVNWKSSPVVPV-NDPTL-LFAN-AGM-----NQY-KPIFLGTADP---NTQLSKLTRACNTQK 127 (787)
Q Consensus 60 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~-~dp~l-lf~n-AGm-----~~f-kp~flG~~~p---~~~~~~~~r~~~~Qk 127 (787)
-++|-+.+-+||.++|...|..--|.+. .++.. +|.- +-+ +.| ++++|-+.+- .--.+.+.|+-...+
T Consensus 136 Rs~i~~~iR~f~~~~gf~EV~TP~L~~~~~eg~~~~F~v~~~~~~~~~~~~~~~~~L~~Spql~lq~l~~g~~rVf~i~~ 215 (450)
T PRK03932 136 RNTLAQAIHEFFNENGFVWVDTPIITASDCEGAGELFRVTTLDLDFSKDFFGKEAYLTVSGQLYAEAYAMALGKVYTFGP 215 (450)
T ss_pred HHHHHHHHHHHHHHCCCEEecCCceeccCCCCCCCceEeecccccccccccCCCcccccCHHHHHHHHHhccCCeEEeee
Confidence 4567778889999999988855444431 11111 1211 101 111 3344433210 000012467778889
Q ss_pred ccccCCCCCCCCCCCCCCCcchhhhhccc-cccccccHHHHHHHHHHHc
Q 003915 128 CIRAGGKHNDLDDVGKDTYHHTFFEMLGN-WSFGDYFKNEAIEWAWELL 175 (787)
Q Consensus 128 CiR~gGkhnDld~VG~t~rHhTfFEMLGn-fSFgdYfK~eAi~~awe~L 175 (787)
|.|.. + ..|.||..=|-||-- .+|.|| +|.+..+=+++
T Consensus 216 ~FR~E----~----~~t~rHl~EFt~lE~e~~~~~~--~~~m~~~e~li 254 (450)
T PRK03932 216 TFRAE----N----SNTRRHLAEFWMIEPEMAFADL--EDNMDLAEEML 254 (450)
T ss_pred ccccC----C----CCCccccccccccceEEeccCH--HHHHHHHHHHH
Confidence 99972 2 236799887888765 367776 55555544443
No 33
>KOG1637 consensus Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=85.54 E-value=0.45 Score=54.38 Aligned_cols=49 Identities=24% Similarity=0.403 Sum_probs=33.8
Q ss_pred cccccHHHHHHHHHHHHhCCcceeeeecccCCceEEEeeCCCCCCHHHHHHHH
Q 003915 642 APNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIE 694 (787)
Q Consensus 642 ~r~HTAtHLL~aALr~vlG~~v~q~Gs~v~~d~~RfDFs~~~~lt~eeL~~IE 694 (787)
...||++|+|..|+.+.+|.+. -.|-.+ ++++++|+ + ..++.+++..||
T Consensus 68 vfwhssahvlg~a~e~~~g~~l-c~Gpp~-~~gf~yd~-~-~~i~~~d~~~~e 116 (560)
T KOG1637|consen 68 VFWHSSAHVLGEALEQEYGAHL-CIGPPI-EEGFYYDM-L-DEISSNDFPSIE 116 (560)
T ss_pred eeeehhhhHhhHHHHHhcCeeE-eeCCCC-cCceehhh-h-cccccccccccc
Confidence 4689999999999999999875 345544 56777776 4 334444433333
No 34
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=85.03 E-value=9.9 Score=44.69 Aligned_cols=202 Identities=17% Similarity=0.200 Sum_probs=113.2
Q ss_pred cccccccccCCCCCCCCCCChHHHHHHHHHhhhcCCCeEecCCC-C-----------ccC-----CCCCcceeccc-c--
Q 003915 40 FSASAVAAMPGADPQVVEWPATKVRDTFFKFFEDKNHVNWKSSP-V-----------VPV-----NDPTLLFANAG-M-- 99 (787)
Q Consensus 40 ~~~~~~~~~~~~~~~~~~~~~~eiR~~Fl~fF~~~gH~~v~sss-l-----------vp~-----~dp~llf~nAG-m-- 99 (787)
|+.-|+.+.+-+......-...++|+.|-++|.+-|-+.++..+ | +|+ +-.+.+|++.- .
T Consensus 211 fk~yn~~~~~~~~~~g~~HPl~~~~~~i~~if~~mGF~e~~~~~~ves~f~NFDaL~~PqdHPARd~~DTFyl~~~~~~~ 290 (494)
T PTZ00326 211 FKEYNFNALGKKIGGGNLHPLLKVRREFREILLEMGFEEMPTNRYVESSFWNFDALFQPQQHPARDAQDTFFLSKPETSK 290 (494)
T ss_pred cccceecCCCCCCCCCCCChHHHHHHHHHHHHHhCCCEEecCCCCccccchhhhhhcCCCCCCCCCcCceEEEcCccccc
Confidence 66677765543355666677899999999999999999997553 3 333 33356677521 0
Q ss_pred -------------------------------------ccccccccCCC---------C-CC-Cccccccccccccccccc
Q 003915 100 -------------------------------------NQYKPIFLGTA---------D-PN-TQLSKLTRACNTQKCIRA 131 (787)
Q Consensus 100 -------------------------------------~~fkp~flG~~---------~-p~-~~~~~~~r~~~~QkCiR~ 131 (787)
+-+.+..+... . +. .+. +.-|..+..+|.|
T Consensus 291 ~~~~p~~~~~~Vk~~He~G~~gS~Gw~y~W~~e~a~~~vLRtHtTa~~aR~l~~~~~~~~~~~~~-~P~k~fsigrVfR- 368 (494)
T PTZ00326 291 VNDLDDDYVERVKKVHEVGGYGSIGWRYDWKLEEARKNILRTHTTAVSARMLYKLAQEYKKTGPF-KPKKYFSIDRVFR- 368 (494)
T ss_pred cccCcHHHHHHHHHHhccCCcCCcccccccccchhccccccCCCCHHHHHHHHhhccccccccCC-CCceEEecCCEec-
Confidence 01111111000 0 00 000 1237788888999
Q ss_pred CCCCCCCCCCCCCCCcch-hhhhccccccc-cccHHHHHHHHHHHcccccCCCCCceEEEEECCCCcCCCCCcHHHHHHH
Q 003915 132 GGKHNDLDDVGKDTYHHT-FFEMLGNWSFG-DYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIW 209 (787)
Q Consensus 132 gGkhnDld~VG~t~rHhT-fFEMLGnfSFg-dYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~~~l~~D~E~~~iW 209 (787)
||=. |+.|+- |..| +-+-+| +.=-.+-+..+-+|+.. +|+..=|+--+||.
T Consensus 369 ----~d~~----DatH~~eFhQ~-Eg~vi~~~~s~~~L~~~l~~f~~~-lG~~~~RfrP~yfP----------------- 421 (494)
T PTZ00326 369 ----NETL----DATHLAEFHQV-EGFVIDRNLTLGDLIGTIREFFRR-IGITKLRFKPAFNP----------------- 421 (494)
T ss_pred ----CCCC----CCCcCceeEEE-EEEEEeCCCCHHHHHHHHHHHHHh-cCCCceEEecCCCC-----------------
Confidence 4632 244544 4443 222222 11124677777788854 58755556555552
Q ss_pred HhcCCCCCcccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeecccccc-CCCCccccCCCC
Q 003915 210 LKFLPASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNR-ESDGSLKPLPAK 288 (787)
Q Consensus 210 ~~~~~~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r-~~~g~l~~Lp~~ 288 (787)
| | =|.-||+..+.+ +.+||||.|.=.++-+- .+-| + |=+..
T Consensus 422 -----------f-----------T---EPS~Ev~v~~~~-----------~gkWIEIgg~Gm~rpevL~~~G-i-~~~~~ 463 (494)
T PTZ00326 422 -----------Y-----------T---EPSMEIFGYHPG-----------LKKWVEVGNSGIFRPEMLRPMG-F-PEDVT 463 (494)
T ss_pred -----------C-----------C---CCeeEEEEEecC-----------CCcEEEEeCcCccCHHHHHhcC-C-CCcce
Confidence 1 2 257888854321 23599999875554221 1223 2 11223
Q ss_pred ccccCchHHHHHHHHhCCCC
Q 003915 289 HVDTGLGFERLTSILQNKMS 308 (787)
Q Consensus 289 ~IDTGmGlERl~~vlqg~~s 308 (787)
.+==||||||+|++.-|.+.
T Consensus 464 ~~A~GlGleRlaMi~ygi~D 483 (494)
T PTZ00326 464 VIAWGLSLERPTMIKYGIKN 483 (494)
T ss_pred EEEEEecHHHHHHHHhCCcH
Confidence 67779999999999988653
No 35
>PF01411 tRNA-synt_2c: tRNA synthetases class II (A); InterPro: IPR018164 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. Alanyl-tRNA synthetase (6.1.1.7 from EC) is an alpha4 tetramer that belongs to class IIc. ; GO: 0000166 nucleotide binding, 0004813 alanine-tRNA ligase activity, 0005524 ATP binding, 0006419 alanyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3HY1_A 3HXZ_C 3HXY_A 3HXU_A 3HY0_B 3HXV_A 3HXX_A 3HXW_A 2E1B_A 2ZZG_B ....
Probab=83.44 E-value=0.23 Score=58.89 Aligned_cols=115 Identities=23% Similarity=0.226 Sum_probs=74.5
Q ss_pred cCCCCCceEEEEEC--CCCcCCCCCcHHHHH-HHH---hc--CCCCCcccCCCCCCcccCCCCCCCcCceeEEeecCCCC
Q 003915 179 YRLPADRLYATYFG--GDEKAGLAPDNEARD-IWL---KF--LPASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNR 250 (787)
Q Consensus 179 lgl~~~rL~vT~~~--~d~~~~l~~D~E~~~-iW~---~~--~~~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~ 250 (787)
.|.+.-.+ |+|+ |.-+-|----+||.+ .|. +. +|++||.-. ...|. |.||+|=|.++ |+
T Consensus 76 VG~t~rH~--T~FEMlGn~sfgdYfK~eai~~awe~lt~~l~i~~~~l~vt---~~~~d----~ea~~~w~~~~---g~- 142 (552)
T PF01411_consen 76 VGRTGRHH--TFFEMLGNFSFGDYFKEEAIEYAWEFLTEVLGIPPDRLYVT---VFEWD----GEAGEIWEKIV---GG- 142 (552)
T ss_dssp TTTSSS----SEEEEEEEEEECSS-HHHHHHHHHHHHHCTTT--GGGEEEE---EECCE----CCCCCCCCECC---TT-
T ss_pred cCCCceEe--eehhhccccccccccHHHHHHHHHHHHHhhcCCChHhEEEE---EeCCc----hhHHHHHHHhc---CC-
Confidence 45555444 6653 222222223355554 443 22 899888753 33342 48999998873 33
Q ss_pred CCCCCCCCCCCceEEEeeeec---cccccCCCCccccCCCCccccCchHHHHHHHHhCCCCCccccccHHHHHH
Q 003915 251 DAASLVNNDDPTCIEIWNIVF---IQFNRESDGSLKPLPAKHVDTGLGFERLTSILQNKMSNYDTDVFMPIFDA 321 (787)
Q Consensus 251 ~~~~~~~~~~~r~lEiwNlVF---mqy~r~~~g~l~~Lp~~~IDTGmGlERl~~vlqg~~snydtD~F~pli~~ 321 (787)
.|.-+++| |+|....++ ....|..-||+|+|+||..|..++.++.|+. .|..|.+.
T Consensus 143 -------------~~~~i~~~~~~~nfw~~g~~-gpcgpcseI~~d~G~e~~~~~~~~~~~~~~~-~~~eiwn~ 201 (552)
T PF01411_consen 143 -------------PEERILVFGKKDNFWEMGDT-GPCGPCSEIFYDRGEERGCWDSQGTPTCDDD-RFLEIWNL 201 (552)
T ss_dssp -------------ECCCEEEE-CCEEEEESSTS-EEEEEEEEEEEEEECCCHHHHHHSTSSHHHH-HECCCCCC
T ss_pred -------------CHHHeEecCCCCceEECCCC-CCCCCCEEEEECCCcccCccccccccccccc-cHHHHHHH
Confidence 67788999 999976654 6889999999999999999999999998765 55555443
No 36
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=82.91 E-value=2.7 Score=49.97 Aligned_cols=26 Identities=8% Similarity=-0.032 Sum_probs=23.8
Q ss_pred ceeeccCC-ccccccccCCcEEEeeee
Q 003915 759 ISAELCGG-QYVAIMCSHSWSLALNCL 784 (787)
Q Consensus 759 ~s~elCGG-THV~nT~eIg~ikil~~~ 784 (787)
--+.+|+| +||+||+.|+.|||+++.
T Consensus 75 ~~~~~~~~~ph~~~t~~~~~fkl~~~~ 101 (545)
T PRK14799 75 NKVSIIEDKVSISTNLNPKYFEILNIS 101 (545)
T ss_pred CceeecCCCCCCCCCCCcceEEEEEec
Confidence 35899999 999999999999999985
No 37
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=82.46 E-value=7.2 Score=45.70 Aligned_cols=45 Identities=20% Similarity=0.197 Sum_probs=37.0
Q ss_pred cccccccccCCCCCCCCCCChHHHHHHHHHhhhcCCCeEecCCCC
Q 003915 40 FSASAVAAMPGADPQVVEWPATKVRDTFFKFFEDKNHVNWKSSPV 84 (787)
Q Consensus 40 ~~~~~~~~~~~~~~~~~~~~~~eiR~~Fl~fF~~~gH~~v~sssl 84 (787)
|+.-|+.|.|.+......-...++|+.+-++|.+-|.+.++..|.
T Consensus 203 fk~Yn~~a~g~~~~~G~~HPl~~~~~ei~~if~~mGF~e~~~g~~ 247 (492)
T PLN02853 203 FKEYNFNALGAPPEGGHLHPLLKVRQQFRKIFLQMGFEEMPTNNF 247 (492)
T ss_pred CCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhCCCEEecCCCC
Confidence 777788777776777777789999999999999999999964443
No 38
>cd00670 Gly_His_Pro_Ser_Thr_tRS_core Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. These enzymes belong to class II aminoacyl-tRNA synthetases (aaRS) based upon their structure and the presence of three characteristic sequence motifs in the core domain. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ and the accessory subunit of mitochondrial polymerase gamma (Pol gamma b) . Most class II tRNA synthetases are dimers, with this subgroup consisting of mostly homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.
Probab=81.21 E-value=8.2 Score=39.97 Aligned_cols=108 Identities=20% Similarity=0.211 Sum_probs=65.4
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccc--------cccc----------------------cccccCCC
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAG--------MNQY----------------------KPIFLGTA 110 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAG--------m~~f----------------------kp~flG~~ 110 (787)
..|.+.+.+.|++.|...|....+.|.. +|...| |..| -.++....
T Consensus 6 ~~l~~~~~~~~~~~G~~ei~~P~l~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LrP~~~~~i~~~~~~~~ 81 (235)
T cd00670 6 RALERFLDDRMAEYGYQEILFPFLAPTV----LFFKGGHLDGYRKEMYTFEDKGRELRDTDLVLRPAACEPIYQIFSGEI 81 (235)
T ss_pred HHHHHHHHHHHHHcCCEEEECCeEcCHH----HHhhcCCcccchhhcCeeccCcccccCCeEEEecCCCHHHHHHHhccC
Confidence 4678888899999999888777777632 111111 2222 11222221
Q ss_pred CCCCcccccccccccccccccCCCCCCCCCC-CCCCCcchhhhhcccccccc-----ccHHHHHHHHHHHcccccCCC
Q 003915 111 DPNTQLSKLTRACNTQKCIRAGGKHNDLDDV-GKDTYHHTFFEMLGNWSFGD-----YFKNEAIEWAWELLTKVYRLP 182 (787)
Q Consensus 111 ~p~~~~~~~~r~~~~QkCiR~gGkhnDld~V-G~t~rHhTfFEMLGnfSFgd-----YfK~eAi~~awe~Lt~~lgl~ 182 (787)
.+..++ .-|++...+|.|. ....- |.. |-+- |.|.|-..||+ ..-.|.++.++++|. .||++
T Consensus 82 ~~~~~l--P~r~~~~g~~fR~-----E~~~~~gl~-R~re-F~q~e~~~~~~~~~~~~~~~e~~~~~~~~l~-~lgl~ 149 (235)
T cd00670 82 LSYRAL--PLRLDQIGPCFRH-----EPSGRRGLM-RVRE-FRQVEYVVFGEPEEAEEERREWLELAEEIAR-ELGLP 149 (235)
T ss_pred ccchhc--CeeeeeecccccC-----CCCCCCCCh-hhee-eeeceEEEEcCHHHHHHHHHHHHHHHHHHHH-HcCCc
Confidence 110111 1378889999995 43332 222 4334 89999999984 345688999999995 57885
No 39
>TIGR00458 aspS_arch aspartyl-tRNA synthetase, archaeal type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn).
Probab=78.91 E-value=14 Score=42.70 Aligned_cols=100 Identities=15% Similarity=0.245 Sum_probs=57.5
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccc------cccccCCCCCCC----cccccccccccccccc
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQY------KPIFLGTADPNT----QLSKLTRACNTQKCIR 130 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~f------kp~flG~~~p~~----~~~~~~r~~~~QkCiR 130 (787)
+.|-+.+-+||.++|-..|..--|++. ++ -.|-..| ++.+|-+.+--. -.+.+.|+-...+|.|
T Consensus 137 s~i~~~iR~ff~~~gf~EV~TP~L~~~-~~-----eg~~~~f~v~~~~~~~yL~~Spql~~q~li~~g~~rVf~i~~~FR 210 (428)
T TIGR00458 137 SGVLESVREFLAEEGFIEVHTPKLVAS-AT-----EGGTELFPITYFEREAFLGQSPQLYKQQLMAAGFERVYEIGPIFR 210 (428)
T ss_pred HHHHHHHHHHHHHCCCEEEeCCceecC-CC-----CCCcceeeeEecCCcEEECcCHHHHHHHHHhcccCcEEEEecccc
Confidence 355667789999999988864445431 10 0112122 333443331100 0012467778889999
Q ss_pred cCCCCCCCCCCCCCCCcchhhhhcccc-ccccccHHHHHHHHHHHcc
Q 003915 131 AGGKHNDLDDVGKDTYHHTFFEMLGNW-SFGDYFKNEAIEWAWELLT 176 (787)
Q Consensus 131 ~gGkhnDld~VG~t~rHhTfFEMLGnf-SFgdYfK~eAi~~awe~Lt 176 (787)
.. +. .|.||.+=|-||--. +|.|| ++.++.+=+++.
T Consensus 211 ~E-------~~-~t~rHl~EFt~lE~e~a~~~~--~dlm~~~e~li~ 247 (428)
T TIGR00458 211 AE-------EH-NTHRHLNEATSIDIEMAFEDH--HDVMDILEELVV 247 (428)
T ss_pred cC-------CC-CCccchheeeEeeeeeccCCH--HHHHHHHHHHHH
Confidence 72 22 356999888888554 77787 666666655543
No 40
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=74.55 E-value=3.1 Score=39.35 Aligned_cols=23 Identities=30% Similarity=0.567 Sum_probs=20.2
Q ss_pred HHHHHHcccccCCCCCceEEEEE
Q 003915 169 EWAWELLTKVYRLPADRLYATYF 191 (787)
Q Consensus 169 ~~awe~Lt~~lgl~~~rL~vT~~ 191 (787)
.---++|+++||||+||+|+.|+
T Consensus 79 ~~i~~~l~~~LgIp~dRiYI~f~ 101 (113)
T PTZ00450 79 PRITAAITKECGIPAERIYVFYY 101 (113)
T ss_pred HHHHHHHHHHcCCCcccEEEEEE
Confidence 44568899999999999999997
No 41
>KOG1501 consensus Arginine N-methyltransferase [General function prediction only]
Probab=70.43 E-value=3.3 Score=47.46 Aligned_cols=80 Identities=21% Similarity=0.265 Sum_probs=55.3
Q ss_pred ccccCchHHHHHHHHhCCCCCccccccHHHHHHHHHHhCCCCCCCCCCCCCcccccchhhhh----hhhhhhee---eee
Q 003915 289 HVDTGLGFERLTSILQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADKVDMAYRVV----ADHIRTLS---FAI 361 (787)
Q Consensus 289 ~IDTGmGlERl~~vlqg~~snydtD~F~pli~~i~~~~~~~~y~g~~~~~~~~~~~~~~rvi----aDH~R~~~---f~i 361 (787)
.|+||-||=-+-++-.|..+.|-..+|+|+.+...++....+.+.++..- ++..+-..++ ||=+-+.. =+|
T Consensus 72 digtGTGLLSmMAvragaD~vtA~EvfkPM~d~arkI~~kng~SdkI~vI--nkrStev~vg~~~RadI~v~e~fdtEli 149 (636)
T KOG1501|consen 72 DIGTGTGLLSMMAVRAGADSVTACEVFKPMVDLARKIMHKNGMSDKINVI--NKRSTEVKVGGSSRADIAVREDFDTELI 149 (636)
T ss_pred EccCCccHHHHHHHHhcCCeEEeehhhchHHHHHHHHHhcCCCccceeee--ccccceeeecCcchhhhhhHhhhhhhhh
Confidence 58899999999999999999999999999999999987655554433211 1111112233 33333333 378
Q ss_pred cCCCccCCC
Q 003915 362 ADGSCPGNE 370 (787)
Q Consensus 362 ~DGv~Psn~ 370 (787)
..|++||=+
T Consensus 150 geGalps~q 158 (636)
T KOG1501|consen 150 GEGALPSLQ 158 (636)
T ss_pred ccccchhHH
Confidence 899999854
No 42
>KOG1759 consensus Macrophage migration inhibitory factor [Defense mechanisms]
Probab=68.28 E-value=4.9 Score=38.08 Aligned_cols=23 Identities=30% Similarity=0.512 Sum_probs=20.3
Q ss_pred HHHHHcccccCCCCCceEEEEEC
Q 003915 170 WAWELLTKVYRLPADRLYATYFG 192 (787)
Q Consensus 170 ~awe~Lt~~lgl~~~rL~vT~~~ 192 (787)
--.|+|.++|+|||+|+|++||.
T Consensus 79 ~l~~il~~~L~l~~~rv~I~f~d 101 (115)
T KOG1759|consen 79 ALTEILEKELSLDPDRVYIKFYD 101 (115)
T ss_pred HHHHHHHHHhCCCCCeEEEEEec
Confidence 34588999999999999999984
No 43
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=61.06 E-value=8 Score=36.25 Aligned_cols=29 Identities=10% Similarity=0.256 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHcccccCCCCCceEEEEEC
Q 003915 164 KNEAIEWAWELLTKVYRLPADRLYATYFG 192 (787)
Q Consensus 164 K~eAi~~awe~Lt~~lgl~~~rL~vT~~~ 192 (787)
|++-.+---++|.+.||+||+|+||.+++
T Consensus 74 k~~l~~~i~~~l~~~lgi~~~rv~I~f~~ 102 (116)
T PTZ00397 74 NSSIAAAITKILASHLKVKSERVYIEFKD 102 (116)
T ss_pred HHHHHHHHHHHHHHHhCcCcccEEEEEEE
Confidence 45556666788999999999999999875
No 44
>PF01422 zf-NF-X1: NF-X1 type zinc finger; InterPro: IPR000967 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a domain presumed to be a zinc binding domain. The following pattern describes the zinc finger: C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C where X can be any amino acid, and numbers in brackets indicate the number of residues. The two position can be either His or Cys. This domain is found in the human transcriptional repressor NK-X1, a repressor of HLA-DRA transcription; the Drosophila shuttle craft protein, which plays an essential role during the late stages of embryonic neurogenesis; and a yeast hypothetical protein YNL023C. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=60.47 E-value=3.8 Score=27.19 Aligned_cols=9 Identities=56% Similarity=1.678 Sum_probs=7.6
Q ss_pred CCCCcCcee
Q 003915 233 TGPCGPCSE 241 (787)
Q Consensus 233 ~GpCGPCsE 241 (787)
.|||+||++
T Consensus 12 ~G~C~pC~~ 20 (20)
T PF01422_consen 12 PGPCPPCPQ 20 (20)
T ss_pred CCcCCCCCC
Confidence 599999974
No 45
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=57.75 E-value=11 Score=42.24 Aligned_cols=186 Identities=21% Similarity=0.261 Sum_probs=99.0
Q ss_pred cCCC-CCCCCCCChHHHHHHHHHhhhcCCCeEecCCCCc-----------c-----CCCCCcceeccccccccccccCC-
Q 003915 48 MPGA-DPQVVEWPATKVRDTFFKFFEDKNHVNWKSSPVV-----------P-----VNDPTLLFANAGMNQYKPIFLGT- 109 (787)
Q Consensus 48 ~~~~-~~~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslv-----------p-----~~dp~llf~nAGm~~fkp~flG~- 109 (787)
+||+ .+....-...++.+...++|.+-|-+.+...-+- | |+-.+.++.+..-. | ..|-+
T Consensus 100 lp~~~~~~G~~Hpl~~~~e~i~~iF~~mGF~~~~gp~IE~d~~NFDaLn~P~dHPARdmqDTFy~~~~~~--~-~lLRTH 176 (335)
T COG0016 100 LPGRRIYPGSLHPLTQTIEEIEDIFLGMGFTEVEGPEIETDFYNFDALNIPQDHPARDMQDTFYLKDDRE--K-LLLRTH 176 (335)
T ss_pred CCCccCCCCCcChHHHHHHHHHHHHHHcCceeccCCcccccccchhhhcCCCCCCcccccceEEEcCCCC--c-eeeccc
Confidence 4554 3345555678888888899999999888755332 2 33334444444321 0 11110
Q ss_pred -----------CCCCCcccccccccccccccccCCCCCCCCCCCCCCCc-chhhhhcc-----ccccccccHHHHHHHHH
Q 003915 110 -----------ADPNTQLSKLTRACNTQKCIRAGGKHNDLDDVGKDTYH-HTFFEMLG-----NWSFGDYFKNEAIEWAW 172 (787)
Q Consensus 110 -----------~~p~~~~~~~~r~~~~QkCiR~gGkhnDld~VG~t~rH-hTfFEMLG-----nfSFgdYfK~eAi~~aw 172 (787)
..| .| -|+.+..+|.| ||-.+ +.| +-|..+=| |.||.| -.-.--
T Consensus 177 Ts~vq~R~l~~~~~-~P----~k~~~~grvyR-----~D~~D----aTHs~~FhQiEGlvvd~~~s~~~-----Lkg~L~ 237 (335)
T COG0016 177 TSPVQARTLAENAK-IP----IKIFSPGRVYR-----NDTVD----ATHSPEFHQIEGLVVDKNISFAD-----LKGTLE 237 (335)
T ss_pred CcHhhHHHHHhCCC-CC----ceEecccceec-----CCCCC----cccchheeeeEEEEEeCCccHHH-----HHHHHH
Confidence 011 13 48899999999 58432 455 44555544 555543 222223
Q ss_pred HHcccccCCC-CCceEEEEECCCCcCCCCCcHHHHHHHHhcCCCCCcccCCCCCCcccCCCCCCCcCceeEEeecCCCCC
Q 003915 173 ELLTKVYRLP-ADRLYATYFGGDEKAGLAPDNEARDIWLKFLPASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRD 251 (787)
Q Consensus 173 e~Lt~~lgl~-~~rL~vT~~~~d~~~~l~~D~E~~~iW~~~~~~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~ 251 (787)
+|+.+-+|.+ +=|.--+||. | | =|+-|+.....+
T Consensus 238 ~f~~~~fg~~~~vRfrpsyFP-----------------------------------F----T---EPS~Evdv~~~~--- 272 (335)
T COG0016 238 EFAKKFFGEDVKVRFRPSYFP-----------------------------------F----T---EPSAEVDVYCPG--- 272 (335)
T ss_pred HHHHHhcCCCcceEeecCCCC-----------------------------------C----C---CCeEEEEEEEcC---
Confidence 4555445555 4444445542 2 2 257787754321
Q ss_pred CCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCccccCchHHHHHHHHhCCCC
Q 003915 252 AASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLGFERLTSILQNKMS 308 (787)
Q Consensus 252 ~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDTGmGlERl~~vlqg~~s 308 (787)
|..||||.+.=-..-|-....-+.|-+....==|||+||||++.-|.+.
T Consensus 273 --------~~~WlEi~G~Gmv~P~VL~~~G~~~~~~~GfAfGlGlERlAMLkygI~D 321 (335)
T COG0016 273 --------CGGWLEILGCGMVHPNVLEAVGIDPEEYSGFAFGLGLERLAMLKYGIPD 321 (335)
T ss_pred --------CCCEEEEecccccCHHHHHhcCCCCCcceEEEEeecHHHHHHHHhCCcH
Confidence 2468998864211111111111222222222569999999999988753
No 46
>PF01187 MIF: Macrophage migration inhibitory factor (MIF); InterPro: IPR001398 Macrophage migration inhibitory factor (MIF) is a key regulatory cytokine within innate and adaptive immune responses, capable of promoting and modulating the magnitude of the response []. MIF is released from T-cells and macrophages, and acts within the neuroendocrine system. MIF is capable of tautomerase activity, although its biological function has not been fully characterised. It is induced by glucocorticoid and is capable of overriding the anti-inflammatory actions of glucocorticoid []. MIF regulates cytokine secretion and the expression of receptors involved in the immune response. It can be taken up into target cells in order to interact with intracellular signalling molecules, inhibiting p53 function, and/or activating components of the mitogen-activated protein kinase and Jun-activation domain-binding protein-1 (Jab-1) []. MIF has been linked to various inflammatory diseases, such as rheumatoid arthritis and atherosclerosis []. The MIF homologue D-dopachrome tautomerase (4.1.1.84 from EC) is involved in detoxification through the conversion of dopaminechrome (and possibly norepinephrinechrome), the toxic quinine product of the neurotransmitter dopamine (and norepinephrine), to an indole derivative that can serve as a precursor to neuromelanin [, ].; PDB: 1UIZ_C 3FWT_A 1HFO_F 2WKB_D 3RF4_B 2OS5_A 3RF5_A 2XCZ_A 3FWU_A 3B64_A ....
Probab=49.82 E-value=12 Score=34.97 Aligned_cols=23 Identities=26% Similarity=0.514 Sum_probs=17.7
Q ss_pred HHHHHcccccCCCCCceEEEEEC
Q 003915 170 WAWELLTKVYRLPADRLYATYFG 192 (787)
Q Consensus 170 ~awe~Lt~~lgl~~~rL~vT~~~ 192 (787)
---+||.+.||||++|+|+.++.
T Consensus 78 ~i~~~l~~~LgIp~~Riyi~f~d 100 (114)
T PF01187_consen 78 AITEFLEEELGIPPDRIYINFHD 100 (114)
T ss_dssp HHHHHHHHHHT--GGGEEEEEEE
T ss_pred HHHHHHHHHhCCCcCceEEEEEE
Confidence 34578999999999999999874
No 47
>PF01409 tRNA-synt_2d: tRNA synthetases class II core domain (F); InterPro: IPR002319 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. Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (nomenclature adopted in InterPro). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta (see IPR004531 from INTERPRO and IPR004532 from INTERPRO). In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases [].; GO: 0000049 tRNA binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 3TUP_A 3HFV_A 3CMQ_A 3TEG_A 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B ....
Probab=45.71 E-value=10 Score=40.59 Aligned_cols=32 Identities=16% Similarity=0.043 Sum_probs=25.1
Q ss_pred CCCCCChHHHHHHHHHhhhcCCCeEecCCCCc
Q 003915 54 QVVEWPATKVRDTFFKFFEDKNHVNWKSSPVV 85 (787)
Q Consensus 54 ~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslv 85 (787)
....-...++++.-.++|..-|...+..+++.
T Consensus 13 ~G~~hp~~~~~~~i~~~~~~~Gf~e~~~~~v~ 44 (247)
T PF01409_consen 13 PGRLHPITKFIREIRDIFVGMGFQEVEGPEVE 44 (247)
T ss_dssp CSBTSHHHHHHHHHHHHHHCTTSEEESTTSEE
T ss_pred CCCCCHHHHHHHHHHHHHHHCCCeEeeCCeEE
Confidence 34444577888888889999999999977773
No 48
>cd00776 AsxRS_core Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS. AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA. While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.
Probab=40.76 E-value=30 Score=38.45 Aligned_cols=101 Identities=23% Similarity=0.380 Sum_probs=61.7
Q ss_pred hHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccc------cccccCCCCCC---Ccccccccccccccccc
Q 003915 60 ATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQY------KPIFLGTADPN---TQLSKLTRACNTQKCIR 130 (787)
Q Consensus 60 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~f------kp~flG~~~p~---~~~~~~~r~~~~QkCiR 130 (787)
-+.|.+.+-+||.++|...|..-.+.+. +. .++..+| +|.+|-+.+-- --+..+.|+-...+|.|
T Consensus 27 rs~i~~~ir~~f~~~gf~eV~TP~l~~~-~~-----e~~~~~f~~~~~~~~~yL~~Spql~lk~l~~~~~~vf~i~~~FR 100 (322)
T cd00776 27 RSEVLRAFREFLRENGFTEVHTPKITST-DT-----EGGAELFKVSYFGKPAYLAQSPQLYKEMLIAALERVYEIGPVFR 100 (322)
T ss_pred HHHHHHHHHHHHHHCCCEEeeCCceecC-CC-----CccCCccccccCCCcceecCCHHHHHHHHHHhhhhhEEeccccc
Confidence 5678889999999999998876556552 11 1344445 44455433210 00011467778889999
Q ss_pred cCCCCCCCCCCCCCCCcchhhhhcccc-ccc-cccHHHHHHHHHHHcc
Q 003915 131 AGGKHNDLDDVGKDTYHHTFFEMLGNW-SFG-DYFKNEAIEWAWELLT 176 (787)
Q Consensus 131 ~gGkhnDld~VG~t~rHhTfFEMLGnf-SFg-dYfK~eAi~~awe~Lt 176 (787)
.. + ..|.||+.=|-||.-. +|. || +|.++.+=++|.
T Consensus 101 ~E----~----~~~~rHl~EFtmlE~e~~~~~~~--~dlm~~~e~ll~ 138 (322)
T cd00776 101 AE----K----SNTRRHLSEFWMLEAEMAFIEDY--NEVMDLIEELIK 138 (322)
T ss_pred cC----C----CCcCCCcceeeccceeeeccCCH--HHHHHHHHHHHH
Confidence 72 1 2357999988888654 444 55 556655555544
No 49
>PRK14063 exodeoxyribonuclease VII small subunit; Provisional
Probab=39.53 E-value=37 Score=29.99 Aligned_cols=32 Identities=6% Similarity=0.187 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHhcCCCCChHHHHHhhhc
Q 003915 437 TLLKGIEKFKKAAQDVQGKVLSGQDAFILWDT 468 (787)
Q Consensus 437 TL~~G~~~l~~~i~~~~~~~isg~~af~LydT 468 (787)
|.+.+++.|+.+++++.++.+|-++++.||..
T Consensus 6 sfEeal~~LE~Iv~~LE~~~l~Leesl~lyee 37 (76)
T PRK14063 6 SFEEAISQLEHLVSKLEQGDVPLEEAISYFKE 37 (76)
T ss_pred CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence 45677888999999998899999999999864
No 50
>smart00438 ZnF_NFX Repressor of transcription.
Probab=39.37 E-value=13 Score=26.32 Aligned_cols=11 Identities=45% Similarity=1.304 Sum_probs=8.9
Q ss_pred CCCCcCceeEE
Q 003915 233 TGPCGPCSEIH 243 (787)
Q Consensus 233 ~GpCGPCsEI~ 243 (787)
.|||+||.+..
T Consensus 12 ~G~C~pC~~~~ 22 (26)
T smart00438 12 PGPCPPCKQXX 22 (26)
T ss_pred CCcCcCccccc
Confidence 49999999654
No 51
>PRK14066 exodeoxyribonuclease VII small subunit; Provisional
Probab=39.09 E-value=38 Score=29.88 Aligned_cols=31 Identities=16% Similarity=0.368 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHhcCCCCChHHHHHhhhc
Q 003915 438 LLKGIEKFKKAAQDVQGKVLSGQDAFILWDT 468 (787)
Q Consensus 438 L~~G~~~l~~~i~~~~~~~isg~~af~LydT 468 (787)
.+.+++.|+++++++.++.+|-+++++||..
T Consensus 6 fEeal~~LE~IV~~LE~g~l~Leesl~lyee 36 (75)
T PRK14066 6 FETALKKLEEVVKKLEGGELSLDDSLKAFEE 36 (75)
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence 4567788899999998899999999999865
No 52
>PRK14064 exodeoxyribonuclease VII small subunit; Provisional
Probab=37.27 E-value=43 Score=29.56 Aligned_cols=32 Identities=13% Similarity=0.258 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHhcCCCCChHHHHHhhhc
Q 003915 437 TLLKGIEKFKKAAQDVQGKVLSGQDAFILWDT 468 (787)
Q Consensus 437 TL~~G~~~l~~~i~~~~~~~isg~~af~LydT 468 (787)
|.+.++..|+.+++++.++.+|-++++++|..
T Consensus 7 sfEe~l~~LE~IV~~LE~~~l~Leesl~~ye~ 38 (75)
T PRK14064 7 TFEEAIAELETIVEALENGSASLEDSLDMYQK 38 (75)
T ss_pred CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence 56778889999999998899999999999865
No 53
>PRK14067 exodeoxyribonuclease VII small subunit; Provisional
Probab=37.09 E-value=42 Score=30.03 Aligned_cols=32 Identities=9% Similarity=0.306 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHhcCCCCChHHHHHhhhc
Q 003915 437 TLLKGIEKFKKAAQDVQGKVLSGQDAFILWDT 468 (787)
Q Consensus 437 TL~~G~~~l~~~i~~~~~~~isg~~af~LydT 468 (787)
|.+.+++.|+++++++.++.+|-+++++||.-
T Consensus 8 sfEeal~~LEeIV~~LE~~~l~Lees~~lyee 39 (80)
T PRK14067 8 DFEQQLARLQEIVDALEGGDLPLEESVALYKE 39 (80)
T ss_pred CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence 56778889999999998889999999999864
No 54
>KOG2783 consensus Phenylalanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=36.74 E-value=17 Score=41.29 Aligned_cols=35 Identities=23% Similarity=0.279 Sum_probs=23.1
Q ss_pred CCccccCchHHHHHHHHhCCCCCccccccHHHHHHHHH
Q 003915 287 AKHVDTGLGFERLTSILQNKMSNYDTDVFMPIFDAIQQ 324 (787)
Q Consensus 287 ~~~IDTGmGlERl~~vlqg~~snydtD~F~pli~~i~~ 324 (787)
+--.=-||||||||++|=+-|. .-+|...=+..-+
T Consensus 294 ~igwafglgLerLAMll~~IpD---iRlfWs~DeRFlk 328 (436)
T KOG2783|consen 294 YIGWAFGLGLERLAMLLFDIPD---IRLFWSFDERFLK 328 (436)
T ss_pred eeeeeeeccHHHHHHHHhcCcc---hheeeccchHHHH
Confidence 3345569999999999988763 3455554443333
No 55
>cd00777 AspRS_core Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. AspRS in this family differ from those found in the AsxRS family by a GAD insert in the core domain.
Probab=36.10 E-value=19 Score=39.27 Aligned_cols=105 Identities=14% Similarity=0.185 Sum_probs=56.0
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCccCCCCCc--ceeccccccccc-cccCCCCCCC----cccccccccccccccccCC
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTL--LFANAGMNQYKP-IFLGTADPNT----QLSKLTRACNTQKCIRAGG 133 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~l--lf~nAGm~~fkp-~flG~~~p~~----~~~~~~r~~~~QkCiR~gG 133 (787)
++|-+.+-+||.++|-..|..=-|++...+.. ..+..=- ..+. +.|-+.+--. -.+.+.|+-...+|.|..
T Consensus 5 s~i~~~iR~f~~~~gfiEV~TP~L~~~~~~g~~~f~~~~~~-~~~~~~~L~~Spql~lk~ll~~g~~~v~~i~~~fR~e- 82 (280)
T cd00777 5 SRVIKAIRNFLDEQGFVEIETPILTKSTPEGARDFLVPSRL-HPGKFYALPQSPQLFKQLLMVSGFDRYFQIARCFRDE- 82 (280)
T ss_pred HHHHHHHHHHHHHCCCEEEeCCeeecCCCCCCCCceecccc-CCCceeecccCHHHHHHHHHhcCcCcEEEeccceeCC-
Confidence 46778888999999998885444443222221 2221100 0011 1132221000 001245777888999962
Q ss_pred CCCCCCCCCCCCCcchhhhhcccc-ccccccHHHHHHHHHHHccc
Q 003915 134 KHNDLDDVGKDTYHHTFFEMLGNW-SFGDYFKNEAIEWAWELLTK 177 (787)
Q Consensus 134 khnDld~VG~t~rHhTfFEMLGnf-SFgdYfK~eAi~~awe~Lt~ 177 (787)
+.+ ++||. =|.|++-- +|.|| ++.++..=+++..
T Consensus 83 ------~~~-~~r~~-Ef~~~e~e~~~~~~--~dlm~~~e~li~~ 117 (280)
T cd00777 83 ------DLR-ADRQP-EFTQIDIEMSFVDQ--EDIMSLIEGLLKY 117 (280)
T ss_pred ------CCC-CCccc-eeEEeEeeeccCCH--HHHHHHHHHHHHH
Confidence 333 55665 77787644 67776 5666666655543
No 56
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit. This protein is the small subunit for exodeoxyribonuclease VII. Exodeoxyribonuclease VII is made of a complex of four small subunits to one large subunit. The complex degrades single-stranded DNA into large acid-insoluble oligonucleotides. These nucleotides are then degraded further into acid-soluble oligonucleotides.
Probab=36.06 E-value=47 Score=28.59 Aligned_cols=31 Identities=13% Similarity=0.313 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHhcCCCCChHHHHHhhhc
Q 003915 438 LLKGIEKFKKAAQDVQGKVLSGQDAFILWDT 468 (787)
Q Consensus 438 L~~G~~~l~~~i~~~~~~~isg~~af~LydT 468 (787)
.+.+++.|+.+++++.++.+|-++++.+|.-
T Consensus 3 fEe~l~~Le~Iv~~LE~~~l~Leesl~lyee 33 (67)
T TIGR01280 3 FEEALSELEQIVQKLESGDLALEEALNLFER 33 (67)
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence 4567888999999998889999999999854
No 57
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains. Recently, it was shown to act in a proposed pathway of tRNA(Cys) indirect aminoacylation, resulting in Cys biosynthesis from O-phosphoserine, in certain archaea. It charges tRNA(Cys) with O-phosphoserine. The pscS gene product converts the phosphoserine to Cys.
Probab=35.10 E-value=39 Score=39.67 Aligned_cols=19 Identities=42% Similarity=0.560 Sum_probs=16.1
Q ss_pred ccccCchHHHHHHHHhCCC
Q 003915 289 HVDTGLGFERLTSILQNKM 307 (787)
Q Consensus 289 ~IDTGmGlERl~~vlqg~~ 307 (787)
++==|||+||||++.-|.+
T Consensus 317 V~AFGIGVERlAMi~ygi~ 335 (533)
T TIGR00470 317 VMNLGLGVERLAMILYGYE 335 (533)
T ss_pred eEEEEecHHHHHHHHhCCc
Confidence 3667999999999998864
No 58
>PRK00977 exodeoxyribonuclease VII small subunit; Provisional
Probab=34.96 E-value=47 Score=29.59 Aligned_cols=32 Identities=3% Similarity=0.224 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHhcCCCCChHHHHHhhhc
Q 003915 437 TLLKGIEKFKKAAQDVQGKVLSGQDAFILWDT 468 (787)
Q Consensus 437 TL~~G~~~l~~~i~~~~~~~isg~~af~LydT 468 (787)
+.+.+++.|+.+++++.++.+|-++++.||.-
T Consensus 11 sfEea~~~LEeIv~~LE~~~l~Lees~~lyee 42 (80)
T PRK00977 11 SFEEALAELEEIVTRLESGDLPLEESLAAFER 42 (80)
T ss_pred CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence 45667788899999998889999999999854
No 59
>COG2024 Phenylalanyl-tRNA synthetase alpha subunit (archaeal type) [Translation, ribosomal structure and biogenesis]
Probab=34.86 E-value=35 Score=38.76 Aligned_cols=66 Identities=20% Similarity=0.205 Sum_probs=37.5
Q ss_pred cCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccCCCCccccCCCCccccCchHHHHHHHHhCCCC
Q 003915 237 GPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLGFERLTSILQNKMS 308 (787)
Q Consensus 237 GPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~~~g~l~~Lp~~~IDTGmGlERl~~vlqg~~s 308 (787)
|.-||+|=-|. ...++ ...-++-|+||..- -=|.-.+=-.| -.|.++.--|.|.||||+||.|.+.
T Consensus 279 ~TQTEVyAyHP-kL~gs--~~kysdgWiEiATF--GlYSP~ALaeY-~Id~pVMNLGlGVERlaMIl~g~~D 344 (536)
T COG2024 279 GTQTEVYAYHP-KLVGS--IEKYSDGWIEIATF--GLYSPIALAEY-GIDYPVMNLGLGVERLAMILHGADD 344 (536)
T ss_pred CccceEEEecc-ccccc--ccccCCCcEEEEee--cccChHHHHHc-CCCCceeecchhHHHHHHHHhCchH
Confidence 44789983331 10001 12334679999963 22221110001 1566777789999999999999643
No 60
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=33.73 E-value=50 Score=39.56 Aligned_cols=100 Identities=19% Similarity=0.302 Sum_probs=60.2
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccc------cccccCCCCCC---Ccc-cccccccccccccc
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQY------KPIFLGTADPN---TQL-SKLTRACNTQKCIR 130 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~f------kp~flG~~~p~---~~~-~~~~r~~~~QkCiR 130 (787)
++|-+.|-+||.++|...|..-.|+... +..|-..| ++++|-+.+-- --. +.+.|+-...+|.|
T Consensus 217 s~i~~~~R~fl~~~gFiEV~TP~L~~~~------~egga~~F~v~yf~~~~~L~qSpql~kq~li~~g~~rVfeI~p~FR 290 (550)
T PTZ00401 217 SRVCQYFRQFLIDSDFCEIHSPKIINAP------SEGGANVFKLEYFNRFAYLAQSPQLYKQMVLQGDVPRVFEVGPVFR 290 (550)
T ss_pred HHHHHHHHHHHHHCCCEEEeCCccccCC------CCccccccccccCCCCeecCCCHHHHHHHHHhcCCCCEEEEeCeEe
Confidence 4677888999999999988654444311 11233333 33444433210 000 12567778889999
Q ss_pred cCCCCCCCCCCCCCCCcchhhhhccc-cccc-cccHHHHHHHHHHHcc
Q 003915 131 AGGKHNDLDDVGKDTYHHTFFEMLGN-WSFG-DYFKNEAIEWAWELLT 176 (787)
Q Consensus 131 ~gGkhnDld~VG~t~rHhTfFEMLGn-fSFg-dYfK~eAi~~awe~Lt 176 (787)
+. +. .|.||++=|-||-- .+|+ +| +|.++.+=+++.
T Consensus 291 aE-------~s-~T~RHl~EFt~Le~E~~~~~~y--~evm~~~e~l~~ 328 (550)
T PTZ00401 291 SE-------NS-NTHRHLTEFVGLDVEMRINEHY--YEVLDLAESLFN 328 (550)
T ss_pred CC-------CC-CCCCCccchhhhhhhhHhcCCH--HHHHHHHHHHHH
Confidence 72 33 37899999999877 7886 56 345555544443
No 61
>KOG1159 consensus NADP-dependent flavoprotein reductase [Energy production and conversion]
Probab=33.61 E-value=29 Score=40.60 Aligned_cols=83 Identities=19% Similarity=0.271 Sum_probs=56.1
Q ss_pred cccCCCCCCCCCCChHHHHHHHHHhhhcCCCeEecCCCCccC-CCCCcceeccccccccccccCCCCCCCcccccccccc
Q 003915 46 AAMPGADPQVVEWPATKVRDTFFKFFEDKNHVNWKSSPVVPV-NDPTLLFANAGMNQYKPIFLGTADPNTQLSKLTRACN 124 (787)
Q Consensus 46 ~~~~~~~~~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~-~dp~llf~nAGm~~fkp~flG~~~p~~~~~~~~r~~~ 124 (787)
.--||-+-+-.|.+.+|--+.|+++- |-......+|.|+ +|++ .++| + +.+-++
T Consensus 229 ~~epGDvl~l~P~N~de~V~~Fie~~---gl~~~~~~~l~~~s~~~~---------~~~~---~----------~~~p~s 283 (574)
T KOG1159|consen 229 EFEPGDVLSLLPSNSDETVQRFIEYL---GLDEDQLKPLKISSNDRS---------SPLP---L----------LPNPLS 283 (574)
T ss_pred cccCCCEEEEecCCchHHHHHHHHHc---CCChhhccccccccCccc---------cccc---c----------cCCchh
Confidence 34578888888899999999999876 6666666666663 3332 2333 1 112244
Q ss_pred cccccccCCCCCCCCCCCCCCCcchhhhhccccccc
Q 003915 125 TQKCIRAGGKHNDLDDVGKDTYHHTFFEMLGNWSFG 160 (787)
Q Consensus 125 ~QkCiR~gGkhnDld~VG~t~rHhTfFEMLGnfSFg 160 (787)
.--|+-- |-|+..|- |.+|||||+.||-.
T Consensus 284 l~~~lk~---~~D~~SvP----rrsFFe~l~~~s~~ 312 (574)
T KOG1159|consen 284 LLNLLKY---VLDFNSVP----RRSFFEMLAHFSTD 312 (574)
T ss_pred HHHHHHH---hcccccCc----chHHHHHHHHHccC
Confidence 4445554 57888865 57999999999987
No 62
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=31.98 E-value=63 Score=26.27 Aligned_cols=29 Identities=14% Similarity=0.397 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHhcCCCCChHHHHHhhhc
Q 003915 440 KGIEKFKKAAQDVQGKVLSGQDAFILWDT 468 (787)
Q Consensus 440 ~G~~~l~~~i~~~~~~~isg~~af~LydT 468 (787)
.++..++.+++++.++.+|-+++++||..
T Consensus 3 e~~~~Le~Iv~~Le~~~~sLdes~~lyee 31 (53)
T PF02609_consen 3 EAMERLEEIVEKLESGELSLDESLKLYEE 31 (53)
T ss_dssp HHHHHHHHHHHHHHTT-S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence 45677888888888889999999999864
No 63
>PRK14068 exodeoxyribonuclease VII small subunit; Provisional
Probab=31.90 E-value=58 Score=28.84 Aligned_cols=32 Identities=9% Similarity=0.287 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHhcCCCCChHHHHHhhhc
Q 003915 437 TLLKGIEKFKKAAQDVQGKVLSGQDAFILWDT 468 (787)
Q Consensus 437 TL~~G~~~l~~~i~~~~~~~isg~~af~LydT 468 (787)
+.+.+++.|+++++++.++.+|-++++.||..
T Consensus 7 sfEeal~~Le~IV~~LE~gdl~Leesl~lyee 38 (76)
T PRK14068 7 SFEEMMQELEQIVQKLDNETVSLEESLDLYQR 38 (76)
T ss_pred CHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence 45667788999999998899999999999865
No 64
>cd00776 AsxRS_core Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS. AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA. While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.
Probab=31.67 E-value=25 Score=39.10 Aligned_cols=28 Identities=32% Similarity=0.366 Sum_probs=24.0
Q ss_pred CccccCchHHHHHHHHhCCCCCcccccc
Q 003915 288 KHVDTGLGFERLTSILQNKMSNYDTDVF 315 (787)
Q Consensus 288 ~~IDTGmGlERl~~vlqg~~snydtD~F 315 (787)
++=--|||+|||++++-|.++.=|+-+|
T Consensus 290 p~~G~giGidRL~m~~~g~~~Irdv~~F 317 (322)
T cd00776 290 PHGGFGLGLERLVMWLLGLDNIREAILF 317 (322)
T ss_pred CCceeeEhHHHHHHHHcCCCchheEeec
Confidence 5778899999999999999988777554
No 65
>TIGR00462 genX lysyl-tRNA synthetase-like protein GenX. Many Gram-negative bacteria have a protein closely homologous to the C-terminal region of lysyl-tRNA synthetase (LysS). Multiple sequence alignment of these proteins with the homologous regions of collected LysS proteins shows that these proteins form a distinct set rather than just similar truncations of LysS. The protein is termed GenX after its designation in E. coli. Interestingly, genX often is located near a homolog of lysine-2,3-aminomutase. Its function is unknown.
Probab=31.08 E-value=26 Score=38.66 Aligned_cols=114 Identities=17% Similarity=0.266 Sum_probs=66.9
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccc-----------cccccCCCCCC----Cccccccccccc
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQY-----------KPIFLGTADPN----TQLSKLTRACNT 125 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~f-----------kp~flG~~~p~----~~~~~~~r~~~~ 125 (787)
+.|-+++-+||.++|-..|..--+.+.. -+.+|..+| ++.+|-+.+-- --.+.+.|+-..
T Consensus 5 s~i~~~ir~~f~~~gF~EV~TP~l~~~~-----~~e~~~~~F~~~y~~~~~~~~~~yL~~Spql~lk~ll~~g~~rVfei 79 (304)
T TIGR00462 5 ARLLAAIRAFFAERGVLEVETPLLSPAP-----VTDPHLDAFATEFLGPDGEGRPLYLQTSPEYAMKRLLAAGSGPIFQI 79 (304)
T ss_pred HHHHHHHHHHHHHCCCEEEECCeEecCC-----CCCcCCcceeeeccCCCCCCcceeeecCHHHHHHHHHhccCCCEEEE
Confidence 4677888999999999988665555421 111233333 34444433210 000125677778
Q ss_pred ccccccCCCCCCCCCCCCCCCcchhhhhcccc-ccccccHHHHHHHHHHHcccccC-CCCCceEEEE
Q 003915 126 QKCIRAGGKHNDLDDVGKDTYHHTFFEMLGNW-SFGDYFKNEAIEWAWELLTKVYR-LPADRLYATY 190 (787)
Q Consensus 126 QkCiR~gGkhnDld~VG~t~rHhTfFEMLGnf-SFgdYfK~eAi~~awe~Lt~~lg-l~~~rL~vT~ 190 (787)
-||.|+. .+ +.||.+=|-||=-. +|.|| ++.++..=+++..++. +.+.--.+||
T Consensus 80 gp~FRaE-------~~--~~rHl~EFtmLE~e~~~~d~--~d~m~~~e~li~~i~~~~~~~~~~it~ 135 (304)
T TIGR00462 80 CKVFRNG-------ER--GRRHNPEFTMLEWYRPGFDY--HDLMDEVEALLQELLGDPFAPWERLSY 135 (304)
T ss_pred cCceeCC-------CC--CCCcccHHHhHHHHHHcCCH--HHHHHHHHHHHHHHHHhcCCCcEEEEH
Confidence 8999973 33 36999988887432 55576 6677777777765554 2222223476
No 66
>PRK14069 exodeoxyribonuclease VII small subunit; Provisional
Probab=29.43 E-value=65 Score=29.81 Aligned_cols=32 Identities=6% Similarity=0.276 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHhcCCCCChHHHHHhhhc
Q 003915 437 TLLKGIEKFKKAAQDVQGKVLSGQDAFILWDT 468 (787)
Q Consensus 437 TL~~G~~~l~~~i~~~~~~~isg~~af~LydT 468 (787)
+.+.+++.|+++++++.++.+|-++++.||..
T Consensus 9 sFEeal~~LEeIV~~LEsgdl~LEesl~lyee 40 (95)
T PRK14069 9 SFEDALRELEQIAEKLERQDFSLEESLKAYER 40 (95)
T ss_pred CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence 45667788999999998889999999999865
No 67
>TIGR00499 lysS_bact lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial. This model represents the lysyl-tRNA synthetases that are class II amino-acyl tRNA synthetases. It includes all eukaryotic and most bacterial examples of the enzyme, but not archaeal or spirochete forms.
Probab=29.40 E-value=56 Score=38.66 Aligned_cols=88 Identities=18% Similarity=0.369 Sum_probs=51.4
Q ss_pred hHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccccc--------cccccCCCCCCC---c-cccccccccccc
Q 003915 60 ATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQY--------KPIFLGTADPNT---Q-LSKLTRACNTQK 127 (787)
Q Consensus 60 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~f--------kp~flG~~~p~~---~-~~~~~r~~~~Qk 127 (787)
-+.|-+.+-+||.++|-..|..--|.+. + ..|..-+| ++.||-.++--. - .+.+.|+-..-|
T Consensus 175 Rs~i~~~iR~fl~~~gF~EVeTP~L~~~--~----gga~a~pF~t~~~~~~~~~yLriSpELylKrlivgG~~rVfeIg~ 248 (496)
T TIGR00499 175 RSKIIKAIRRFLDDRGFIEVETPMLQVI--P----GGANARPFITHHNALDMDLYLRIAPELYLKRLIVGGFEKVYEIGR 248 (496)
T ss_pred HHHHHHHHHHHHHHCcCEEEeCCeeecC--C----CCccceeEEeecccCCCceEEecCHHHHHHHHHhCCCCceEEEec
Confidence 3466677889999999988855444432 1 11222222 333444332100 0 012456677789
Q ss_pred ccccCCCCCCCCCCCCCCCcchhhhhccc-cccccc
Q 003915 128 CIRAGGKHNDLDDVGKDTYHHTFFEMLGN-WSFGDY 162 (787)
Q Consensus 128 CiR~gGkhnDld~VG~t~rHhTfFEMLGn-fSFgdY 162 (787)
|.|.. .+ +.||..=|-||-- ++|.||
T Consensus 249 ~FRnE-------~~--~~rH~pEFTmlE~y~a~~d~ 275 (496)
T TIGR00499 249 NFRNE-------GV--DTTHNPEFTMIEFYQAYADY 275 (496)
T ss_pred ceecC-------CC--CCcccchhheeehhhhcCCH
Confidence 99962 23 4599999999876 477787
No 68
>PF00152 tRNA-synt_2: tRNA synthetases class II (D, K and N) ; InterPro: IPR004364 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 includes the asparagine, aspartic acid and lysine tRNA synthetases.; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 1N9W_B 1BBU_A 1BBW_A 4EX5_B 3E9I_A 3E9H_C 3A74_C 1NNH_A 3M4P_C 3M4Q_B ....
Probab=29.01 E-value=30 Score=38.33 Aligned_cols=106 Identities=18% Similarity=0.307 Sum_probs=53.9
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCccCCCCC--cceeccc--cccc-cccccCCCCCCC---cc-ccccccccccccccc
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVPVNDPT--LLFANAG--MNQY-KPIFLGTADPNT---QL-SKLTRACNTQKCIRA 131 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~--llf~nAG--m~~f-kp~flG~~~p~~---~~-~~~~r~~~~QkCiR~ 131 (787)
+.|-+.+-+||.++|...|..--+++...+. =.|.--. ..-| +|+||-+.+--. -+ +.+.|+-...+|.|.
T Consensus 26 s~i~~~ir~ff~~~~f~Ev~tP~l~~~~~~~~~~~F~v~~~~~~~~~~~~~L~~Spql~~k~ll~~g~~~vf~i~~~FR~ 105 (335)
T PF00152_consen 26 SAILQAIREFFDKRGFIEVDTPILTSSTCEGGAEPFSVDSEPGKYFGEPAYLTQSPQLYLKRLLAAGLERVFEIGPCFRN 105 (335)
T ss_dssp HHHHHHHHHHHHHTT-EEE---SEESSSSSSSSCSEEEEESTTEETTEEEEE-SSSHHHHHHHHHTTHSEEEEEEEEE-B
T ss_pred HHHHHHHHHHHHhCCceEEcCceeeccccCccccccccccchhhhcccceecCcChHHHHhhhccccchhhhheecceec
Confidence 4677888899999999888665565533222 2333220 0011 345554432100 00 014556666999997
Q ss_pred CCCCCCCCCCCCCCCcchhhhhccc-cccccccHHHHHHHHHHHcc
Q 003915 132 GGKHNDLDDVGKDTYHHTFFEMLGN-WSFGDYFKNEAIEWAWELLT 176 (787)
Q Consensus 132 gGkhnDld~VG~t~rHhTfFEMLGn-fSFgdYfK~eAi~~awe~Lt 176 (787)
. +. .|.||..=|-||== .+|.||.. .++.+-+++.
T Consensus 106 E-------~~-~~~rHl~EFtmLE~e~a~~~~~~--lm~~~e~li~ 141 (335)
T PF00152_consen 106 E-------ES-RTRRHLPEFTMLEWEMAFADYDD--LMDLIEELIK 141 (335)
T ss_dssp S-------SS-CBTTBSSEEEEEEEEEETSSHHH--HHHHHHHHHH
T ss_pred c-------Cc-ccccchhhhhhhhhccccCcHHH--hHHHHHHHHH
Confidence 3 11 48999977777643 34666643 4444444433
No 69
>TIGR00443 hisZ_biosyn_reg ATP phosphoribosyltransferase, regulatory subunit. Apparant second copies of histidyl-tRNA synthetase, found in Bacillus subtilis, Synechocystis sp., Aquifex aeolicus, and others, are in fact a regulatory subunit of ATP phosphoribosyltransferase, and usually encoded by a gene adjacent to that encoding the catalytic subunit.
Probab=28.31 E-value=87 Score=34.48 Aligned_cols=111 Identities=14% Similarity=0.195 Sum_probs=69.2
Q ss_pred hHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcc-----eeccccccccccccCCC---CCC-----------C--cccc
Q 003915 60 ATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLL-----FANAGMNQYKPIFLGTA---DPN-----------T--QLSK 118 (787)
Q Consensus 60 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~ll-----f~nAGm~~fkp~flG~~---~p~-----------~--~~~~ 118 (787)
-.+|++.+.+.|+++|...|.+..+-|. +++ ..+..|..|..-= |.. .|. + ....
T Consensus 11 ~~~i~~~l~~~~~~~Gy~~i~tP~le~~---~~~~~~~~~~~~~~~~~~d~~-g~~l~LRpD~T~~iaR~~~~~~~~~~~ 86 (314)
T TIGR00443 11 KEEIERQLQDVFRSWGYQEIITPTLEYL---DTLSAGGGILNEDLFKLFDSL-GRVLGLRPDMTTPIARAVSTRLRDRPL 86 (314)
T ss_pred HHHHHHHHHHHHHHcCCeeccCcchhhH---HHhcccCCcchhceEEEECCC-CCEEeecCcCcHHHHHHHHHhcccCCC
Confidence 5789999999999999999966555442 111 1233455554320 221 010 0 0111
Q ss_pred cccccccccccccCCCCCCCCCCCCC-CCcchhhhhccccccccccHHHHHHHHHHHcccccCCC
Q 003915 119 LTRACNTQKCIRAGGKHNDLDDVGKD-TYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLP 182 (787)
Q Consensus 119 ~~r~~~~QkCiR~gGkhnDld~VG~t-~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~ 182 (787)
..|.+-+.+|.|.. =..-|+. ..+.+-||.+|.=|.- =-.|.|..|++.|.+ +|+.
T Consensus 87 p~r~~y~g~VfR~~-----~~~~gr~re~~Q~g~Eiig~~~~~--adaEvi~l~~~~l~~-lg~~ 143 (314)
T TIGR00443 87 PLRLCYAGNVFRTN-----ESGAGRSREFTQAGVELIGAGGPA--ADAEVIALLIEALKA-LGLK 143 (314)
T ss_pred CeEEEEeceEeecC-----CCcCCCcccccccceEEeCCCCch--hHHHHHHHHHHHHHH-cCCC
Confidence 24778888999962 2223332 4557889999977763 347999999999975 7875
No 70
>PLN02850 aspartate-tRNA ligase
Probab=26.67 E-value=32 Score=41.06 Aligned_cols=102 Identities=19% Similarity=0.219 Sum_probs=58.6
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCccCC-CCC-cceeccccccc-cccccCCCCCC---C-cccccccccccccccccCC
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVPVN-DPT-LLFANAGMNQY-KPIFLGTADPN---T-QLSKLTRACNTQKCIRAGG 133 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp~~-dp~-llf~nAGm~~f-kp~flG~~~p~---~-~~~~~~r~~~~QkCiR~gG 133 (787)
+.|-+.|-+||.++|...|..--|++.. ++. -.|.- ..| ++++|-+.+-- - -.+.+.|+-..-+|.|+.
T Consensus 229 s~i~~~~R~fl~~~gF~EV~TP~L~~~~~egga~~F~v---~yf~~~~~L~qSpql~kq~li~~g~~rVfeIgp~FRaE- 304 (530)
T PLN02850 229 SQVCNLFREFLLSKGFVEIHTPKLIAGASEGGSAVFRL---DYKGQPACLAQSPQLHKQMAICGDFRRVFEIGPVFRAE- 304 (530)
T ss_pred HHHHHHHHHHHHHCCcEEEeCCccccCCCccccceeee---ccCCcceecCCCHHHHHHHHHHhcCCceEEEecccccC-
Confidence 4667788899999999888654443321 111 12221 011 44555443210 0 001256778888999973
Q ss_pred CCCCCCCCCCCCCcchhhhhcccc-ccc-cccHHHHHHHHHHHc
Q 003915 134 KHNDLDDVGKDTYHHTFFEMLGNW-SFG-DYFKNEAIEWAWELL 175 (787)
Q Consensus 134 khnDld~VG~t~rHhTfFEMLGnf-SFg-dYfK~eAi~~awe~L 175 (787)
+ ..|.||.+=|-||--. +|+ +| +|.++.+=+++
T Consensus 305 ------~-s~t~RHl~EFt~Le~Em~~~~~y--~evm~~~E~ll 339 (530)
T PLN02850 305 ------D-SFTHRHLCEFTGLDLEMEIKEHY--SEVLDVVDELF 339 (530)
T ss_pred ------C-CCCCccchhhccchhhhhhhcCH--HHHHHHHHHHH
Confidence 2 2578999999998655 776 35 44544444444
No 71
>TIGR00457 asnS asparaginyl-tRNA synthetase. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, asnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn.
Probab=26.35 E-value=34 Score=39.98 Aligned_cols=29 Identities=34% Similarity=0.433 Sum_probs=23.5
Q ss_pred CccccCchHHHHHHHHhCCCCCccccccH
Q 003915 288 KHVDTGLGFERLTSILQNKMSNYDTDVFM 316 (787)
Q Consensus 288 ~~IDTGmGlERl~~vlqg~~snydtD~F~ 316 (787)
++=--|||+|||++.+-|.++.=|+-+|.
T Consensus 417 PhgG~GiGieRlvm~l~g~~~Irdv~~FP 445 (453)
T TIGR00457 417 PHSGFGLGFERLLAYITGLENIRDAIPFP 445 (453)
T ss_pred CCCcEeehHHHHHHHHhCCCcHhhhccCc
Confidence 56667999999999999998877765553
No 72
>cd00775 LysRS_core Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three characteristic sequence motifs in the core domain. It is found in eukaryotes as well as some prokaryotes and archaea. However, LysRS belongs to class I aaRS's in some prokaryotes and archaea. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.
Probab=25.56 E-value=35 Score=38.08 Aligned_cols=23 Identities=35% Similarity=0.598 Sum_probs=0.0
Q ss_pred CchHHHHHHHHhCCCCCcccccc
Q 003915 293 GLGFERLTSILQNKMSNYDTDVF 315 (787)
Q Consensus 293 GmGlERl~~vlqg~~snydtD~F 315 (787)
|+|||||++++-|.++.=|+-.|
T Consensus 302 glGleRL~m~~~g~~~Irdv~~F 324 (329)
T cd00775 302 GIGIDRLVMLLTDSNSIRDVILF 324 (329)
T ss_pred EecHHHHHHHHcCCCcHHhcccC
No 73
>PRK06462 asparagine synthetase A; Reviewed
Probab=25.36 E-value=37 Score=38.03 Aligned_cols=108 Identities=17% Similarity=0.176 Sum_probs=55.0
Q ss_pred hHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcce-eccccccc------cccccCCCCCC---Cccccccccccccccc
Q 003915 60 ATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLF-ANAGMNQY------KPIFLGTADPN---TQLSKLTRACNTQKCI 129 (787)
Q Consensus 60 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf-~nAGm~~f------kp~flG~~~p~---~~~~~~~r~~~~QkCi 129 (787)
-++|-+.+-+||.++|-..|..=-+.+..++-+-- .+-|...| ++++|-+.+-- --.+.+.|+-...+|.
T Consensus 33 Rs~i~~~iR~ff~~~~f~EV~TP~l~~~~~~~~~~g~~~~~~~~~~~~~~~~~yL~~Spql~k~ll~~g~~rVfeI~p~F 112 (335)
T PRK06462 33 QSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGSDLPVKQISIDFYGVEYYLADSMILHKQLALRMLGKIFYLSPNF 112 (335)
T ss_pred HHHHHHHHHHHHHHCCCEEEeCCeEecCCCCCCCccccCCccccccccCCCceeeccCHHHHHHHHHhhcCcEEEEeccc
Confidence 34677888899999998877433333322221100 00001111 22333221100 0001146777888999
Q ss_pred ccCCCCCCCCCCCC-CCCcchhhhhcccc-ccccccHHHHHHHHHHHcc
Q 003915 130 RAGGKHNDLDDVGK-DTYHHTFFEMLGNW-SFGDYFKNEAIEWAWELLT 176 (787)
Q Consensus 130 R~gGkhnDld~VG~-t~rHhTfFEMLGnf-SFgdYfK~eAi~~awe~Lt 176 (787)
|.. .++. +.||..=|-||-=. .|.|| +|.++.+=+++.
T Consensus 113 R~E-------~~~~~~~rHl~EFtmlE~e~~~~d~--~dlm~~~e~lv~ 152 (335)
T PRK06462 113 RLE-------PVDKDTGRHLYEFTQLDIEIEGADL--DEVMDLIEDLIK 152 (335)
T ss_pred cCC-------CCCCCCCCCCCchheeeehhhcCCH--HHHHHHHHHHHH
Confidence 973 3442 26999888887654 44465 455555554443
No 74
>PLN02850 aspartate-tRNA ligase
Probab=25.20 E-value=82 Score=37.64 Aligned_cols=29 Identities=24% Similarity=0.351 Sum_probs=24.0
Q ss_pred CccccCchHHHHHHHHhCCCCCccccccH
Q 003915 288 KHVDTGLGFERLTSILQNKMSNYDTDVFM 316 (787)
Q Consensus 288 ~~IDTGmGlERl~~vlqg~~snydtD~F~ 316 (787)
+|=--|+|||||++++-|.++.=|+-+|.
T Consensus 494 PhgG~GiGlERLvM~l~g~~nIr~v~~FP 522 (530)
T PLN02850 494 PHGGFGVGLERVVMLFCGLNNIRKTSLFP 522 (530)
T ss_pred CCceEEEcHHHHHHHHcCCCchheEeecC
Confidence 35677999999999999999888876664
No 75
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=25.02 E-value=2.9e+02 Score=33.64 Aligned_cols=164 Identities=14% Similarity=0.126 Sum_probs=86.4
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceeccccc-ccc-----------ccccCCC-----------CCCC--c
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMN-QYK-----------PIFLGTA-----------DPNT--Q 115 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~-~fk-----------p~flG~~-----------~p~~--~ 115 (787)
.+|-+.+.+.+.+.|+..|-.-.+++. + ||.-+|-. .|+ .+.|-.. ...+ .
T Consensus 278 ~~i~~~~~~~~~~~G~~~v~tP~l~~~---~-l~~~sG~~~~~~~emy~~d~~~~~~~LrP~~~~~~~~~~~~~~~sy~~ 353 (639)
T PRK12444 278 NELEAFLREIQKEYNYQEVRTPFMMNQ---E-LWERSGHWDHYKDNMYFSEVDNKSFALKPMNCPGHMLMFKNKLHSYRE 353 (639)
T ss_pred HHHHHHHHHHHHHcCCEEEECCccCCH---H-HHhhcCChhhhhhhcCeecCCCcEEEEccCCCHHHHHHHhCcccChhh
Confidence 457777777888889999977777663 1 33333321 011 1111100 0000 1
Q ss_pred ccccccccccccccccCCCCCCCCCC--CCCCCcchhhhhccccccccc--cHH---HHHHHHHHHcccccCCCCCceEE
Q 003915 116 LSKLTRACNTQKCIRAGGKHNDLDDV--GKDTYHHTFFEMLGNWSFGDY--FKN---EAIEWAWELLTKVYRLPADRLYA 188 (787)
Q Consensus 116 ~~~~~r~~~~QkCiR~gGkhnDld~V--G~t~rHhTfFEMLGnfSFgdY--fK~---eAi~~awe~Lt~~lgl~~~rL~v 188 (787)
+ .-|.....+|.|- ....- |....| - |.|.+-++||.= -.+ +.+.++++++ +.|||| =++
T Consensus 354 L--P~r~~~~g~~fR~-----E~~~~~~Gl~R~r-e-F~q~d~~~f~~~~~~~~e~~~~~~~~~~i~-~~lgl~-~~~-- 420 (639)
T PRK12444 354 L--PIRMCEFGQVHRH-----EFSGALNGLLRVR-T-FCQDDAHLFVTPDQIEDEIKSVMAQIDYVY-KTFGFE-YEV-- 420 (639)
T ss_pred C--CceeEEeccccCC-----CCCcCCcCcceee-e-eEEccEEEECCHHHHHHHHHHHHHHHHHHH-HHcCCc-EEE--
Confidence 1 1367777889994 43322 433333 3 789999999841 122 4788999998 579995 222
Q ss_pred EEECCCCcCCCCCcHHHHHHHHhc----CCCCCcccCCCCCCcccCCCCCCCcCceeEEeecCCC
Q 003915 189 TYFGGDEKAGLAPDNEARDIWLKF----LPASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGN 249 (787)
Q Consensus 189 T~~~~d~~~~l~~D~E~~~iW~~~----~~~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~ 249 (787)
.+-.. +...+ .++|+++.|.+. +....| ....|-+++. -=||+.|+.....++
T Consensus 421 ~~~~r-~~~~~-G~~e~~~~~~~~l~~~l~~~~~---~y~~~~~~ga---~Y~~~~e~~~~~~~~ 477 (639)
T PRK12444 421 ELSTR-PEDSM-GDDELWEQAEASLENVLQSLNY---KYRLNEGDGA---FYGPKIDFHIKDALN 477 (639)
T ss_pred EEECC-ccccC-CCHHHHHHHHHHHHHHHHHcCC---CceeccCCcc---cccceEEEEeecCCC
Confidence 32111 11111 257777777633 322221 1233333222 348899988765444
No 76
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=24.84 E-value=1.1e+02 Score=29.10 Aligned_cols=57 Identities=19% Similarity=0.263 Sum_probs=37.2
Q ss_pred HHHHHHHhcCCChhhHhcHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHh
Q 003915 402 VNIVVKVMGDVFPELKQREAHIREIIAA---EEASFGKTLLKGIEKFKKAAQDVQGKVLSGQDAFIL 465 (787)
Q Consensus 402 v~~v~~~m~~~ypeL~~~~~~I~~ii~~---EE~~F~~TL~~G~~~l~~~i~~~~~~~isg~~af~L 465 (787)
+..+...|+-.||-++.+.+.|.+-|.. +++.-.. --.++++.+.++.||.++|-++
T Consensus 52 lKe~e~~lgiSYPTvR~rLd~ii~~lg~~~~~~~~~~~-------~~~~IL~~L~~GeIs~eeA~~~ 111 (113)
T PF09862_consen 52 LKEMEKELGISYPTVRNRLDKIIEKLGYEEDEEEEEED-------ERKEILDKLEKGEISVEEALEI 111 (113)
T ss_pred HHHHHHHHCCCcHHHHHHHHHHHHHhCCCCCcccccch-------hHHHHHHHHHcCCCCHHHHHHH
Confidence 4566788888999999988888888877 1111111 1122333444689999999765
No 77
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=24.72 E-value=37 Score=40.65 Aligned_cols=29 Identities=21% Similarity=0.280 Sum_probs=24.1
Q ss_pred CccccCchHHHHHHHHhCCCCCccccccH
Q 003915 288 KHVDTGLGFERLTSILQNKMSNYDTDVFM 316 (787)
Q Consensus 288 ~~IDTGmGlERl~~vlqg~~snydtD~F~ 316 (787)
+|=--|+|||||++++-|..+.=++-+|.
T Consensus 514 PhgG~GiGlERLvM~~lg~~nIR~v~lFP 542 (550)
T PTZ00401 514 PHGGFGVGLERVVMLYLGLSNVRLASLFP 542 (550)
T ss_pred CCceEEEhHHHHHHHHhCCCcHheeecCC
Confidence 35567999999999999999887776664
No 78
>PF01343 Peptidase_S49: Peptidase family S49 peptidase classification.; InterPro: IPR002142 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S49 (protease IV family, clan S-). The predicted active site serine for members of this family occurs in a transmembrane domain. The domain defines sequences in viruses, archaea, bacteria and plants. These sequences are variously annotated in the different taxonomic groups, examples are: Viruses: capsid protein Archaea: proteinase IV homolog Bacteria: proteinase IV, sohB, SppA, pfaP, putative protease Plants: SppA, protease IV This group also contains proteins classified as non-peptidase homologues that either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity of peptidases. Related proteins, non-peptidase homologs and unclassified S49 members are also to be found in IPR002810 from INTERPRO.; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 3RST_B 3BEZ_D 3BF0_A.
Probab=24.67 E-value=1e+02 Score=30.30 Aligned_cols=67 Identities=18% Similarity=0.267 Sum_probs=48.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCCCCChHHHHHh--hhcCCCChhhHHHHHHHcCc
Q 003915 419 REAHIREIIAAEEASFGKTLLKGIEKFKKAAQDV-QGKVLSGQDAFIL--WDTYGFPLDLTQLMAEERGL 485 (787)
Q Consensus 419 ~~~~I~~ii~~EE~~F~~TL~~G~~~l~~~i~~~-~~~~isg~~af~L--ydTyGfP~dlt~~ia~e~gl 485 (787)
.++.+++.+..-.+.|...+.+++.+=.+.+++. ..+.+++++|.++ -|.-|..-|++..++++.|+
T Consensus 84 ~r~~~~~~l~~~~~~f~~~Va~~R~~~~~~v~~~~~~~~~~~~~A~~~GLiD~i~~~~~~~~~l~~~~~v 153 (154)
T PF01343_consen 84 ERENLQELLDELYDQFVNDVAEGRGLSPDDVEEIADGGVFTAQQALELGLIDEIGTFDEAIARLAKLAGV 153 (154)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTS-HHHHHCHHCCHEEEHHHHHHTTSSSEETSHHHHHHHHHHHCHS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHhhccccHHHHHHcCchhhcCCHHHHHHHHHHHcCC
Confidence 4578999999999999999999986444444433 3347888887664 67777777777777776654
No 79
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=24.42 E-value=37 Score=40.89 Aligned_cols=29 Identities=38% Similarity=0.465 Sum_probs=25.0
Q ss_pred CccccCchHHHHHHHHhCCCCCccccccH
Q 003915 288 KHVDTGLGFERLTSILQNKMSNYDTDVFM 316 (787)
Q Consensus 288 ~~IDTGmGlERl~~vlqg~~snydtD~F~ 316 (787)
+|---|||||||++.+-|.++.=|+-+|.
T Consensus 550 PhgGfGLGiERLvm~ltGl~nIRDvi~FP 578 (586)
T PTZ00425 550 PHAGFGLGFERLIMLVTGVDNIKDTIPFP 578 (586)
T ss_pred CCceEEEcHHHHHHHHcCCCchheEEECc
Confidence 67778999999999999999988885554
No 80
>TIGR00499 lysS_bact lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial. This model represents the lysyl-tRNA synthetases that are class II amino-acyl tRNA synthetases. It includes all eukaryotic and most bacterial examples of the enzyme, but not archaeal or spirochete forms.
Probab=24.23 E-value=38 Score=39.99 Aligned_cols=28 Identities=29% Similarity=0.415 Sum_probs=23.0
Q ss_pred ccccCchHHHHHHHHhCCCCCccccccH
Q 003915 289 HVDTGLGFERLTSILQNKMSNYDTDVFM 316 (787)
Q Consensus 289 ~IDTGmGlERl~~vlqg~~snydtD~F~ 316 (787)
+=--|+|+|||++++-|.+|.=|+=+|.
T Consensus 463 ~gG~GiGiDRLvMlltg~~~Irdvi~FP 490 (496)
T TIGR00499 463 TGGLGIGIDRLVMLLTDSKSIRDVILFP 490 (496)
T ss_pred CceEEEhHHHHHHHHhCCCcHheeccCC
Confidence 4446999999999999999988875554
No 81
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=24.04 E-value=1.2e+02 Score=34.51 Aligned_cols=119 Identities=13% Similarity=0.057 Sum_probs=71.1
Q ss_pred CCCCCChHHHHHHHHHhhhcCCCeEecCCCCccCC---CCCcceeccccccccccccCCC---CC-----------CCcc
Q 003915 54 QVVEWPATKVRDTFFKFFEDKNHVNWKSSPVVPVN---DPTLLFANAGMNQYKPIFLGTA---DP-----------NTQL 116 (787)
Q Consensus 54 ~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~---dp~llf~nAGm~~fkp~flG~~---~p-----------~~~~ 116 (787)
||+-+...+|++++.+-|+++|...|....+-+.+ +.+--.+..-|..|.+- .|.. .| .+..
T Consensus 1 ~~~~~~~~~i~~~i~~~f~~~Gy~~I~tP~lE~~e~~~~~~g~~~~~~~~~f~D~-~G~~l~LRpD~T~piaR~~~~~~~ 79 (373)
T PRK12295 1 MMPLSASAAAAEALLASFEAAGAVRVDPPILQPAEPFLDLSGEDIRRRIFVTSDE-NGEELCLRPDFTIPVCRRHIATAG 79 (373)
T ss_pred CCcchhHHHHHHHHHHHHHHcCCEEeeCCccccHHHhhhccCchhhcceEEEECC-CCCEEeeCCCCcHHHHHHHHHcCC
Confidence 55667788999999999999999999665554521 00000011223344221 1110 00 0001
Q ss_pred cccccccccccccccCCCCCCCCCCCCCCCcchhhhhccccccccccHHHHHHHHHHHcccccCCC
Q 003915 117 SKLTRACNTQKCIRAGGKHNDLDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLP 182 (787)
Q Consensus 117 ~~~~r~~~~QkCiR~gGkhnDld~VG~t~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~ 182 (787)
....|..-+++|.|. + .-...-.|+.-||.+|.-+-= +--.|.|..|++.|. .+|+.
T Consensus 80 ~~p~R~~Y~g~VfR~-----~--~gr~rEf~Q~GvEiiG~~~~~-~aDaEvi~l~~~~L~-~lgl~ 136 (373)
T PRK12295 80 GEPARYAYLGEVFRQ-----R--RDRASEFLQAGIESFGRADPA-AADAEVLALALEALA-ALGPG 136 (373)
T ss_pred CCCeEEEEEccEEEC-----C--CCCCCcceEeeEEeeCCCCCc-cchHHHHHHHHHHHH-HcCCC
Confidence 113477888999996 3 222335568889999965411 225899999999885 58886
No 82
>PLN02603 asparaginyl-tRNA synthetase
Probab=23.89 E-value=40 Score=40.56 Aligned_cols=30 Identities=33% Similarity=0.400 Sum_probs=25.0
Q ss_pred CCccccCchHHHHHHHHhCCCCCccccccH
Q 003915 287 AKHVDTGLGFERLTSILQNKMSNYDTDVFM 316 (787)
Q Consensus 287 ~~~IDTGmGlERl~~vlqg~~snydtD~F~ 316 (787)
.++---|||+|||++.+-|..|.=|+-+|.
T Consensus 528 pPhgGfGlG~ERLvm~ltg~~nIRdvi~FP 557 (565)
T PLN02603 528 VPHAGFGLGFERLVQFATGIDNIRDAIPFP 557 (565)
T ss_pred CCCceeEEcHHHHHHHHhCCCchhheeecc
Confidence 357778999999999999999988775553
No 83
>PLN02532 asparagine-tRNA synthetase
Probab=23.71 E-value=39 Score=41.03 Aligned_cols=29 Identities=28% Similarity=0.262 Sum_probs=24.6
Q ss_pred CccccCchHHHHHHHHhCCCCCccccccH
Q 003915 288 KHVDTGLGFERLTSILQNKMSNYDTDVFM 316 (787)
Q Consensus 288 ~~IDTGmGlERl~~vlqg~~snydtD~F~ 316 (787)
+|=--|||||||++.+-|.++.=|+-+|.
T Consensus 597 PHgGfGLG~ERLvm~ltGl~nIRDvi~FP 625 (633)
T PLN02532 597 KHSGFSLGFELMVLFATGLPDVRDAIPFP 625 (633)
T ss_pred CCeEEEEhHHHHHHHHhCCCchheEeecC
Confidence 57778999999999999999988875554
No 84
>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]
Probab=23.50 E-value=1.8e+02 Score=35.82 Aligned_cols=37 Identities=35% Similarity=0.522 Sum_probs=27.8
Q ss_pred hhhhhhhhheeeeecCCCccCCCCCchHHHHHHHHHHHHHHh
Q 003915 348 RVVADHIRTLSFAIADGSCPGNEGREYVLRRILRRAVRYGSE 389 (787)
Q Consensus 348 rviaDH~R~~~f~i~DGv~Psn~grgYvlRrilRRa~r~~~~ 389 (787)
|.+|||++++-+-- | -..+.-++-+.+||-.++|+++
T Consensus 619 r~La~HivsLy~e~--~---~~~~~~~~d~~~lr~yi~yArk 655 (804)
T KOG0478|consen 619 RRLADHIVALYPET--G---EKQGSEAIDMNLLRDYIRYARK 655 (804)
T ss_pred HHHHHHHHHhcccc--c---ccchhHHHhHHHHHHHHHHHhc
Confidence 56999999976542 2 4455667777889999999953
No 85
>PLN02221 asparaginyl-tRNA synthetase
Probab=23.09 E-value=41 Score=40.50 Aligned_cols=46 Identities=20% Similarity=0.202 Sum_probs=33.7
Q ss_pred cccccccccccccCCCCCCCCCCCCCCCcchhhhhcccc-ccccccHHHHHHHHHHH
Q 003915 119 LTRACNTQKCIRAGGKHNDLDDVGKDTYHHTFFEMLGNW-SFGDYFKNEAIEWAWEL 174 (787)
Q Consensus 119 ~~r~~~~QkCiR~gGkhnDld~VG~t~rHhTfFEMLGnf-SFgdYfK~eAi~~awe~ 174 (787)
+.|+-...+|.|+- -..|.||++=|-||--- +|.|| ++.+..+=++
T Consensus 326 l~rVfeIgP~FRAE--------~s~T~RHL~EFtmlE~Emaf~d~--~dvm~l~E~l 372 (572)
T PLN02221 326 LSSVYTFGPTFRAE--------NSHTSRHLAEFWMVEPEIAFADL--EDDMNCAEAY 372 (572)
T ss_pred cCCeEEEccceecC--------CCCCCcccccccceeeeeecCCH--HHHHHHHHHH
Confidence 67888899999982 23588999999998553 77887 5666555444
No 86
>PF11867 DUF3387: Domain of unknown function (DUF3387); InterPro: IPR021810 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is typically between 255 to 340 amino acids in length. This domain is found associated with PF04851 from PFAM, PF04313 from PFAM.
Probab=22.84 E-value=5.1e+02 Score=28.87 Aligned_cols=197 Identities=15% Similarity=0.157 Sum_probs=107.9
Q ss_pred CCCCccccCchHHHHHHHHhCCCCCccc------cccHHHHHHHHHHhCCCCCCCCCCCCCcccccchhh---hhhhhhh
Q 003915 285 LPAKHVDTGLGFERLTSILQNKMSNYDT------DVFMPIFDAIQQATGARPYSGKVGADDADKVDMAYR---VVADHIR 355 (787)
Q Consensus 285 Lp~~~IDTGmGlERl~~vlqg~~snydt------D~F~pli~~i~~~~~~~~y~g~~~~~~~~~~~~~~r---viaDH~R 355 (787)
.+-..+-++-+++|+..+.......+.. .-|......+.+..... .. .+ . ...|| ..-..+|
T Consensus 34 ~d~~~~~~~~~~~~l~~l~~a~~~il~~~~~~~r~~F~~~~~~l~~~~~l~-----~p-~~-~--a~~~~~d~~~f~~ir 104 (335)
T PF11867_consen 34 FDYSKFFEASPFERLELLDDAVDHILSLEDEERRKRFLKLVKELSKAYALC-----LP-DP-E--AEEYRDDIAFFQAIR 104 (335)
T ss_pred CChHHhcCCChHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHH-----CC-CH-H--HHHHHHHHHHHHHHH
Confidence 4444566777899998888777666642 23444444444432210 00 10 0 11222 1234556
Q ss_pred heeeeecCCCc-cCCCCCchHHHHHHHHHHHHHH-----hhhCCCcchhhhHHHHHHHHhcC-CChhhHhcHHHHHHHHH
Q 003915 356 TLSFAIADGSC-PGNEGREYVLRRILRRAVRYGS-----EVLKAQDGFFNGLVNIVVKVMGD-VFPELKQREAHIREIIA 428 (787)
Q Consensus 356 ~~~f~i~DGv~-Psn~grgYvlRrilRRa~r~~~-----~~lg~~~~fl~~lv~~v~~~m~~-~ypeL~~~~~~I~~ii~ 428 (787)
+...-+..+-- |+....+.=+|.||-.++..-. ...|.+.|=++-|-+...+.+.. -+|.++. +.|+..|+
T Consensus 105 ~~i~k~~~~~~~~~~~~~~~~i~~Lid~~I~s~~v~~i~~~~~~~~~disild~eFl~~v~~~~~k~~~~--e~L~~~l~ 182 (335)
T PF11867_consen 105 AAIRKLYSDDDGPDIKEVEEKIRQLIDESIASEGVVDIFEAAGLKKPDISILDDEFLEEVKKMKSKNLKA--ELLEKLLR 182 (335)
T ss_pred HHHHHhccCCCCCCHHHHHHHHHHHHHHHHhcccchhHHhhcCCCCCChhhcCHHHHHHHHhccCchHHH--HHHHHHHH
Confidence 65554444444 8888888999999999997531 01244444344444555555543 2776654 56777777
Q ss_pred HHHHHHHHH-H---HHHHHHHHHHHHHhcCCCCChHHHHHhhhcCCCChhhHHHHHHH------cCcccChhhHHHHHHH
Q 003915 429 AEEASFGKT-L---LKGIEKFKKAAQDVQGKVLSGQDAFILWDTYGFPLDLTQLMAEE------RGLLVDIEGFNNAMDE 498 (787)
Q Consensus 429 ~EE~~F~~T-L---~~G~~~l~~~i~~~~~~~isg~~af~LydTyGfP~dlt~~ia~e------~gl~vD~~~F~~~m~~ 498 (787)
.+-....+. . .+=.++|+++|++.+++.++-++.+.-. ++|.++|.++ .|++-++-.|+.++.+
T Consensus 183 ~~I~~~~~~N~~~~~~fsErLe~iI~~Y~~~~i~~~e~~~eL------i~la~el~~~~~r~~~~gLseeE~AFyd~L~~ 256 (335)
T PF11867_consen 183 DEIKVRMKENPVRYKKFSERLEEIIEKYNNRSISSEEVIEEL------IKLAKELREEEERAEELGLSEEELAFYDALAK 256 (335)
T ss_pred HHHHHHHhcCHHHHHHHHHHHHHHHHHHHcccchHHHHHHHH------HHHHHHHHHHHhcccccCCCHHHHHHHHHHHc
Confidence 776554432 1 1223466777777766778777766542 2344554433 3454444456666543
No 87
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=22.55 E-value=52 Score=38.24 Aligned_cols=83 Identities=16% Similarity=0.259 Sum_probs=53.7
Q ss_pred HHHHHHHHHhhhcCCCeEecCCCCccCCCC--Ccceecccccccc-ccccCCCCC---CCcccccccccccccccccCCC
Q 003915 61 TKVRDTFFKFFEDKNHVNWKSSPVVPVNDP--TLLFANAGMNQYK-PIFLGTADP---NTQLSKLTRACNTQKCIRAGGK 134 (787)
Q Consensus 61 ~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp--~llf~nAGm~~fk-p~flG~~~p---~~~~~~~~r~~~~QkCiR~gGk 134 (787)
+.|.++|-+||.++|-..|.+-=+++...+ +-||- +..|. +.||.+..- .--...+.|+-+..+++|+
T Consensus 138 s~i~~a~~eff~~~gF~eV~tP~i~~~~~EGg~elF~---v~yf~~~a~LtqS~QLyke~~~~al~rVf~igP~FRA--- 211 (435)
T COG0017 138 SSILRAIREFFYENGFTEVHTPIITASATEGGGELFK---VDYFDKEAYLTQSPQLYKEALAAALERVFTIGPTFRA--- 211 (435)
T ss_pred HHHHHHHHHHHHhCCcEEecCceEeccCCCCCceeEE---EeecCcceEEecCHHHHHHHHHHHhCceEEecCceec---
Confidence 567789999999999999987777764333 23443 22332 255554321 0001126799999999999
Q ss_pred CCCCCCCCCCCCcchhhhhc
Q 003915 135 HNDLDDVGKDTYHHTFFEML 154 (787)
Q Consensus 135 hnDld~VG~t~rHhTfFEML 154 (787)
.=-.|.||++=|-|+
T Consensus 212 -----E~s~T~RHL~EF~~l 226 (435)
T COG0017 212 -----EKSNTRRHLSEFWML 226 (435)
T ss_pred -----CCCCCcchhhhHhee
Confidence 233489999977664
No 88
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=22.42 E-value=44 Score=39.64 Aligned_cols=23 Identities=26% Similarity=0.569 Sum_probs=0.0
Q ss_pred CchHHHHHHHHhCCCCCcccccc
Q 003915 293 GLGFERLTSILQNKMSNYDTDVF 315 (787)
Q Consensus 293 GmGlERl~~vlqg~~snydtD~F 315 (787)
|+|+|||++++-|.+|.=|+=+|
T Consensus 476 GiGiDRLvMlltg~~sIrdvi~F 498 (505)
T PRK12445 476 GIGIDRMIMLFTNSHTIRDVILF 498 (505)
T ss_pred EEhHHHHHHHHcCCCchheEecC
No 89
>PLN02502 lysyl-tRNA synthetase
Probab=22.36 E-value=44 Score=40.09 Aligned_cols=98 Identities=16% Similarity=0.297 Sum_probs=54.3
Q ss_pred hHHHHHHHHHhhhcCCCeEecCCCCccCCCCCcceecccccccc--------ccccCCCCCCC----ccccccccccccc
Q 003915 60 ATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYK--------PIFLGTADPNT----QLSKLTRACNTQK 127 (787)
Q Consensus 60 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~~dp~llf~nAGm~~fk--------p~flG~~~p~~----~~~~~~r~~~~Qk 127 (787)
-+.|-+.+-+||.++|-..|..=-|.+. . ..|+--+|+ +.||-..+--. -.+.+.|+-..-+
T Consensus 232 Rs~i~~~iR~fl~~~gF~EVeTPiL~~~-~-----gGA~a~pF~t~~n~~~~~~yL~~Spel~lK~L~v~g~~rVfeIg~ 305 (553)
T PLN02502 232 RAKIISYIRRFLDDRGFLEVETPMLNMI-A-----GGAAARPFVTHHNDLNMDLYLRIATELHLKRLVVGGFERVYEIGR 305 (553)
T ss_pred HHHHHHHHHHHHHHCCCEEEECCeeecc-C-----CCccccceeeecccCCcceeeecCHHHHHHHHHHhccCCEEEEcC
Confidence 3456678889999999887744333221 1 122222332 23333221100 0012456777789
Q ss_pred ccccCCCCCCCCCCCCCCCcchhhhhccc-cccccccHHHHHHHHHHH
Q 003915 128 CIRAGGKHNDLDDVGKDTYHHTFFEMLGN-WSFGDYFKNEAIEWAWEL 174 (787)
Q Consensus 128 CiR~gGkhnDld~VG~t~rHhTfFEMLGn-fSFgdYfK~eAi~~awe~ 174 (787)
|.|.. .++ .||..=|-||-- ++|.|| ++.++.+=++
T Consensus 306 ~FRnE-------~~~--~rH~pEFtmlE~y~a~~d~--~dlm~~~E~l 342 (553)
T PLN02502 306 QFRNE-------GIS--TRHNPEFTTCEFYQAYADY--NDMMELTEEM 342 (553)
T ss_pred eeeCC-------CCC--CccccceeehhhhhhcCCH--HHHHHHHHHH
Confidence 99962 333 499999999876 588887 4444444333
No 90
>cd00773 HisRS-like_core Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ. HisZ along with HisG catalyze the first reaction in histidine biosynthesis. HisZ is found only in a subset of bacteria and differs from HisRS in lacking a C-terminal anti-codon binding domain.
Probab=21.93 E-value=1.4e+02 Score=31.75 Aligned_cols=115 Identities=17% Similarity=0.126 Sum_probs=66.1
Q ss_pred hHHHHHHHHHhhhcCCCeEecCCCCccCC--C--------C-Ccceecc-c-cccccccccCC-C-----CCCCcccccc
Q 003915 60 ATKVRDTFFKFFEDKNHVNWKSSPVVPVN--D--------P-TLLFANA-G-MNQYKPIFLGT-A-----DPNTQLSKLT 120 (787)
Q Consensus 60 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~~--d--------p-~llf~nA-G-m~~fkp~flG~-~-----~p~~~~~~~~ 120 (787)
-+.|++.+.+.|+++|...|....+.|.+ - . ..-|++- | ...+.|-++=. . .+.+ .....
T Consensus 5 ~~~l~~~l~~~f~~~Gy~~v~tP~le~~~~~~~~~~~~~~~~~~~~~d~~g~~l~LRpd~T~~iaR~~a~~~~~-~~~p~ 83 (261)
T cd00773 5 RRYIEDTLREVFERYGYEEIDTPVFEYTELFLRKSGDEVSKEMYRFKDKGGRDLALRPDLTAPVARAVAENLLS-LPLPL 83 (261)
T ss_pred HHHHHHHHHHHHHHcCCEEeeccceeeHHHhcccccccccceEEEEECCCCCEEEeCCCCcHHHHHHHHhcCcc-CCCCe
Confidence 46789999999999999999777777631 0 0 0111110 1 12222211100 0 0000 01124
Q ss_pred cccccccccccCCCCCCCCCCCCC-CCcchhhhhccccccccccHHHHHHHHHHHcccccCCCC
Q 003915 121 RACNTQKCIRAGGKHNDLDDVGKD-TYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPA 183 (787)
Q Consensus 121 r~~~~QkCiR~gGkhnDld~VG~t-~rHhTfFEMLGnfSFgdYfK~eAi~~awe~Lt~~lgl~~ 183 (787)
|...+++|.|.. . ..-|+. ..+..-||++|.-|.- --.|.|..|++.|. .+|++.
T Consensus 84 k~~y~g~vfR~e----~-~~~g~~re~~Q~g~Eiig~~~~~--~daE~i~l~~~~l~-~lg~~~ 139 (261)
T cd00773 84 KLYYIGPVFRYE----R-PQKGRYREFYQVGVEIIGSDSPL--ADAEVIALAVEILE-ALGLKD 139 (261)
T ss_pred EEEEEcCEEecC----C-CCCCCccceEEeceeeeCCCChH--HHHHHHHHHHHHHH-HcCCCc
Confidence 788999999962 1 112322 3456778999986552 13689999999985 678654
No 91
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=21.89 E-value=46 Score=38.62 Aligned_cols=23 Identities=39% Similarity=0.504 Sum_probs=0.0
Q ss_pred CchHHHHHHHHhCCCCCcccccc
Q 003915 293 GLGFERLTSILQNKMSNYDTDVF 315 (787)
Q Consensus 293 GmGlERl~~vlqg~~snydtD~F 315 (787)
|||+|||++++-|.++.=|+-+|
T Consensus 406 giGidRl~m~~~g~~~Irdv~~F 428 (437)
T PRK05159 406 GLGLERLTMKLLGLENIREAVLF 428 (437)
T ss_pred eEhHHHHHHHHcCCCchhEEeec
No 92
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=21.82 E-value=3.2e+02 Score=31.77 Aligned_cols=173 Identities=18% Similarity=0.250 Sum_probs=100.2
Q ss_pred CChHHHHHHHHHhhhcCCCeEecCCCCccCCC---------C---Ccceecccccccccccc-CC--------CCCCCcc
Q 003915 58 WPATKVRDTFFKFFEDKNHVNWKSSPVVPVND---------P---TLLFANAGMNQYKPIFL-GT--------ADPNTQL 116 (787)
Q Consensus 58 ~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~~d---------p---~llf~nAGm~~fkp~fl-G~--------~~p~~~~ 116 (787)
-..++|.++..+||...|...|-...|++... . ..+|..-.-..++|..+ +. ..-+-|
T Consensus 204 ~~~s~Le~aIR~~f~~~GF~EV~TPtLt~ee~~e~~g~~~g~~i~~~my~ideel~LRpsLtPsLlr~la~n~k~~~~P- 282 (417)
T PRK09537 204 DYLGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFRVDKNFCLRPMLAPGLYNYLRKLDRILPDP- 282 (417)
T ss_pred CHHHHHHHHHHHHHHHCCCEEEECCeeecHHHHHHhCCCCcccchhhheeeCCceEehhhhHHHHHHHHHhhhhcccCC-
Confidence 34688999999999999999999999976320 0 01111111111121111 10 000111
Q ss_pred cccccccccccccccCCCCCCCCCCCCCCCcchhhhhcccccccc-ccHHHHHHHHHHHcccccCCCCCceEEEEECCCC
Q 003915 117 SKLTRACNTQKCIRAGGKHNDLDDVGKDTYHHTFFEMLGNWSFGD-YFKNEAIEWAWELLTKVYRLPADRLYATYFGGDE 195 (787)
Q Consensus 117 ~~~~r~~~~QkCiR~gGkhnDld~VG~t~rHhTfFEMLGnfSFgd-YfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~ 195 (787)
-|+....+|.|. | ..| ..|..=|+|+|=-.+|+ -.-.|+...+-++|. .|||+ | ++-.+
T Consensus 283 ---~RIFEIG~VFR~-----E--~~g--~~hlrEf~Ql~~~iiGs~~~f~dL~~lleeLL~-~LGI~----f-~i~s~-- 342 (417)
T PRK09537 283 ---IKIFEIGPCYRK-----E--SDG--KEHLEEFTMVNFCQMGSGCTRENLENIIDDFLK-HLGID----Y-EIIGD-- 342 (417)
T ss_pred ---eeEEEEeceEec-----C--CCC--CCCcceEEEEEEEEeCCchHHHHHHHHHHHHHH-HCCCC----c-EEecC--
Confidence 367788899995 4 223 45777778887777774 223568888888886 68986 2 33111
Q ss_pred cCCCCCcHHHHHHHHhcCCCCCcccCCCCCCcccCCCCCCCcCceeEEeecCCCCCCCCCCCCCCCceEEEeeeeccccc
Q 003915 196 KAGLAPDNEARDIWLKFLPASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFN 275 (787)
Q Consensus 196 ~~~l~~D~E~~~iW~~~~~~~rI~~~~~~dNfW~mG~~GpCGPCsEI~yd~~~~~~~~~~~~~~~~r~lEiwNlVFmqy~ 275 (787)
+ + +. . |+|-+|.++ + .||++-+|=+-+
T Consensus 343 ------------------------------~-~-fi-~---GR~adI~~g---~--------------~el~~G~fGEi~ 369 (417)
T PRK09537 343 ------------------------------N-C-MV-Y---GDTIDIMHG---D--------------LELSSAVVGPIP 369 (417)
T ss_pred ------------------------------C-c-ce-e---cCeEEEEeC---C--------------EEEeeEEEEEEe
Confidence 1 1 11 1 467788742 1 455444554442
Q ss_pred cCCCCccccCCCCccccCchHHHHHHHHhCCC
Q 003915 276 RESDGSLKPLPAKHVDTGLGFERLTSILQNKM 307 (787)
Q Consensus 276 r~~~g~l~~Lp~~~IDTGmGlERl~~vlqg~~ 307 (787)
-.. ---++.+++=-|+|||||+++..|..
T Consensus 370 VLe---~fGI~~PVva~EIdLerL~~~~~g~~ 398 (417)
T PRK09537 370 LDR---EWGIDKPWIGAGFGLERLLKVKHGYK 398 (417)
T ss_pred hhh---hcCCCCceEEEEEeHHHHHHHHhCcH
Confidence 110 12266778999999999999999963
No 93
>COG3981 Predicted acetyltransferase [General function prediction only]
Probab=21.64 E-value=73 Score=32.55 Aligned_cols=33 Identities=15% Similarity=0.245 Sum_probs=28.4
Q ss_pred cCCCccCCCCCchHHHHHHHHHHHHHHhhhCCCcc
Q 003915 362 ADGSCPGNEGREYVLRRILRRAVRYGSEVLKAQDG 396 (787)
Q Consensus 362 ~DGv~Psn~grgYvlRrilRRa~r~~~~~lg~~~~ 396 (787)
.=||.||-.|+|| .+-+||=|+..+ +.||++.-
T Consensus 102 GY~VrPseR~KGY-A~emLkl~L~~a-r~lgi~~V 134 (174)
T COG3981 102 GYSVRPSERRKGY-AKEMLKLALEKA-RELGIKKV 134 (174)
T ss_pred cceeChhhhccCH-HHHHHHHHHHHH-HHcCCCeE
Confidence 4578999999999 789999999999 57999863
No 94
>PLN02502 lysyl-tRNA synthetase
Probab=21.42 E-value=83 Score=37.81 Aligned_cols=27 Identities=33% Similarity=0.436 Sum_probs=20.7
Q ss_pred ccccCchHHHHHHHHhCCCCCcccccc
Q 003915 289 HVDTGLGFERLTSILQNKMSNYDTDVF 315 (787)
Q Consensus 289 ~IDTGmGlERl~~vlqg~~snydtD~F 315 (787)
+=--|||+|||+++|-|.+|.=|+=+|
T Consensus 520 ~gG~GiGiDRLvMlltg~~sIrdVi~F 546 (553)
T PLN02502 520 TGGWGLGIDRLVMLLTDSASIRDVIAF 546 (553)
T ss_pred CceEEehHHHHHHHHcCCcchheeecC
Confidence 455688889999988888887776444
No 95
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=21.33 E-value=35 Score=40.15 Aligned_cols=201 Identities=20% Similarity=0.227 Sum_probs=100.3
Q ss_pred Cccccccc--eeeEEEeeeEEeCCCcceeecccccch---hhhcccccccccCCCCCCCCCCChHHHHHHHHHhhhcCCC
Q 003915 2 TGLLRKTE--TASFVATARVLLNPSLTLAVTNHHHSL---ISRFSASAVAAMPGADPQVVEWPATKVRDTFFKFFEDKNH 76 (787)
Q Consensus 2 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~eiR~~Fl~fF~~~gH 76 (787)
+|-+-+|. .-|++++-=.+|.++|-- .-..||.| -.|.|-|-|.-+-.+.+-..-+.-+.|.+..-+|+.++|-
T Consensus 121 ~G~~~~T~~GelSv~v~~~~lLsKsL~p-LPeK~hgL~D~E~RyR~RylDLi~N~e~r~~f~~Rs~ii~~iR~fl~~~gF 199 (502)
T COG1190 121 EGPLFKTKTGELSVSVEELRLLSKSLRP-LPEKFHGLTDKEIRYRQRYLDLIVNPESRQTFIKRSKIIRAIREFLDDRGF 199 (502)
T ss_pred eeeeeecCCCceEEEEEEEeeecccCCC-CChhhcCCccHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence 34455554 457888888888888764 34567766 3455555443332222211223345566666789999999
Q ss_pred eEecC--CCCccCCCCCcceeccccccccc-cccCCCCCCCcc-----cccccccccccccccCCCCCCCCCCCCCCCcc
Q 003915 77 VNWKS--SPVVPVNDPTLLFANAGMNQYKP-IFLGTADPNTQL-----SKLTRACNTQKCIRAGGKHNDLDDVGKDTYHH 148 (787)
Q Consensus 77 ~~v~s--sslvp~~dp~llf~nAGm~~fkp-~flG~~~p~~~~-----~~~~r~~~~QkCiR~gGkhnDld~VG~t~rHh 148 (787)
..|.- -..||-+..---|++- +|.+.- .+|-.++-- -| ..+-|+--.-++.| |=|.+.+|-
T Consensus 200 lEVETP~lq~i~GGA~ArPF~Th-hNald~dlyLRIApEL-yLKRliVGG~erVfEIgr~FR---------NEGid~tHN 268 (502)
T COG1190 200 LEVETPMLQPIPGGAAARPFITH-HNALDMDLYLRIAPEL-YLKRLIVGGFERVFEIGRNFR---------NEGIDTTHN 268 (502)
T ss_pred eEeccccccccCCCcccccceee-ecccCCceEEeeccHH-HHHHHHhcCchhheeeccccc---------cCCCccccC
Confidence 88843 3334433322233322 222221 222221100 00 00112222334444 668899998
Q ss_pred hhhhhccc-ccccccc-----HHHHHHHHHHHccc---------ccCCCCCceEEEEECCC-CcC-----CCCCcHHHHH
Q 003915 149 TFFEMLGN-WSFGDYF-----KNEAIEWAWELLTK---------VYRLPADRLYATYFGGD-EKA-----GLAPDNEARD 207 (787)
Q Consensus 149 TfFEMLGn-fSFgdYf-----K~eAi~~awe~Lt~---------~lgl~~~rL~vT~~~~d-~~~-----~l~~D~E~~~ 207 (787)
-=|.||-. |...||- -++-|+.+-.-+.. .+.+.+.-.-+|+++-= +.+ -+..|+|+++
T Consensus 269 PEFTmlE~Y~AYaDy~D~m~ltE~Li~~~a~~v~gt~~v~y~~~~id~~~pf~ri~m~dal~e~~g~~~~~~~~~e~~~~ 348 (502)
T COG1190 269 PEFTMLEFYQAYADYEDLMDLTEELIKELAKEVNGTTKVTYGGQEIDFSKPFKRITMVDALKEYLGVDFDDLFDDEEAKE 348 (502)
T ss_pred cchhhHHHHHHHhHHHHHHHHHHHHHHHHHHHhcCCeEEEECCEeEecCCCeeeeehHHHHHHHhCccccccCCHHHHHH
Confidence 88888765 4556662 23444333332321 12333333334544211 011 2457889999
Q ss_pred HHHhc-CC
Q 003915 208 IWLKF-LP 214 (787)
Q Consensus 208 iW~~~-~~ 214 (787)
+-+++ ++
T Consensus 349 ~ak~~~i~ 356 (502)
T COG1190 349 LAKKHGIE 356 (502)
T ss_pred HHHHhCCC
Confidence 98877 44
No 96
>PRK09350 poxB regulator PoxA; Provisional
Probab=21.20 E-value=56 Score=36.10 Aligned_cols=20 Identities=25% Similarity=0.315 Sum_probs=0.0
Q ss_pred CchHHHHHHHHhCCCCCccc
Q 003915 293 GLGFERLTSILQNKMSNYDT 312 (787)
Q Consensus 293 GmGlERl~~vlqg~~snydt 312 (787)
|+|+|||++++-|.++.=|+
T Consensus 287 giGidRL~m~~~g~~~Irdv 306 (306)
T PRK09350 287 ALGVDRLIMLALGAESISEV 306 (306)
T ss_pred EecHHHHHHHHcCCCCcccC
No 97
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=21.15 E-value=46 Score=39.28 Aligned_cols=23 Identities=35% Similarity=0.595 Sum_probs=0.0
Q ss_pred CchHHHHHHHHhCCCCCcccccc
Q 003915 293 GLGFERLTSILQNKMSNYDTDVF 315 (787)
Q Consensus 293 GmGlERl~~vlqg~~snydtD~F 315 (787)
|||+|||++++-|.+|.=|+=+|
T Consensus 462 GiGiDRLvm~ltg~~~Irdvi~F 484 (491)
T PRK00484 462 GIGIDRLVMLLTDSPSIRDVILF 484 (491)
T ss_pred EEeHHHHHHHHhCCCcHHhcccC
No 98
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=20.26 E-value=50 Score=39.85 Aligned_cols=23 Identities=43% Similarity=0.641 Sum_probs=0.0
Q ss_pred CchHHHHHHHHhCCCCCcccccc
Q 003915 293 GLGFERLTSILQNKMSNYDTDVF 315 (787)
Q Consensus 293 GmGlERl~~vlqg~~snydtD~F 315 (787)
|+|+|||++++-|.+|.=|+=+|
T Consensus 556 GiGIDRLvMlltg~~sIrdVi~F 578 (585)
T PTZ00417 556 GLGIDRITMFLTNKNCIKDVILF 578 (585)
T ss_pred EEcHHHHHHHHcCCcchheeecC
No 99
>TIGR00758 UDG_fam4 uracil-DNA glycosylase, family 4. This well-conserved family of proteins is about 200 residues in length and homologous to the N-terminus of the DNA polymerase of phage SPO1 of Bacillus subtilis. The member from Thermus thermophilus HB8 is known to act as uracil-DNA glycosylase, an enzyme of DNA base excision repair. Its appearance as a domain of phage DNA polymerases could be consistent with uracil-DNA glycosylase activity.
Probab=20.10 E-value=1.5e+02 Score=29.84 Aligned_cols=64 Identities=19% Similarity=0.206 Sum_probs=40.4
Q ss_pred ccccHHHHHHHHHHHcccccCCCCCceEEEEECCCCc-CCCCCc-HH---HHHHHHhc---CCCCCcccCCCC
Q 003915 160 GDYFKNEAIEWAWELLTKVYRLPADRLYATYFGGDEK-AGLAPD-NE---ARDIWLKF---LPASRVLPFGCK 224 (787)
Q Consensus 160 gdYfK~eAi~~awe~Lt~~lgl~~~rL~vT~~~~d~~-~~l~~D-~E---~~~iW~~~---~~~~rI~~~~~~ 224 (787)
|..|-..+=.+-+++|. .+||+++.+|+|.----.+ .+-+++ .| |...|.+. +.+.-|+.+|..
T Consensus 39 g~pf~g~sG~~L~~~l~-~~gl~~~~vy~t~~~kc~P~~~r~P~~~Ei~~c~~~l~~eI~~v~P~~Iv~lG~~ 110 (173)
T TIGR00758 39 GRPFVGRAGKLLDEMLA-AIGLSRENVYITNVVKCRPPNNRDPTPEEVEACAPYLVKQIELIRPKVIICLGRT 110 (173)
T ss_pred CCCCcChHHHHHHHHHH-HcCCCcccEEEeccccccCCCCCCcCHHHHHHHHHHHHHHHHhcCCCEEEEECHH
Confidence 44444556666677774 7999999999986422111 122233 33 66666655 888899988754
Done!