Query 004997
Match_columns 720
No_of_seqs 320 out of 1905
Neff 5.7
Searched_HMMs 46136
Date Thu Mar 28 16:22:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004997.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004997hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0013 AlaS Alanyl-tRNA synth 100.0 1E-223 3E-228 1909.3 64.1 650 46-718 4-660 (879)
2 TIGR00344 alaS alanine--tRNA l 100.0 3E-211 7E-216 1845.5 64.3 641 52-718 1-653 (851)
3 PLN02900 alanyl-tRNA synthetas 100.0 3E-210 6E-215 1842.6 67.3 658 40-718 3-692 (936)
4 PRK00252 alaS alanyl-tRNA synt 100.0 4E-208 9E-213 1825.6 65.9 643 47-718 1-646 (865)
5 KOG0188 Alanyl-tRNA synthetase 100.0 3E-208 6E-213 1711.0 44.9 646 48-719 2-665 (895)
6 TIGR03683 A-tRNA_syn_arch alan 100.0 7E-187 2E-191 1642.5 62.3 615 6-718 17-692 (902)
7 PRK13902 alaS alanyl-tRNA synt 100.0 2E-186 5E-191 1637.6 61.9 611 6-718 20-688 (900)
8 PRK01584 alanyl-tRNA synthetas 100.0 5E-186 1E-190 1563.0 52.8 536 48-718 1-550 (594)
9 PF01411 tRNA-synt_2c: tRNA sy 100.0 6E-178 1E-182 1505.6 14.5 543 52-617 1-552 (552)
10 cd00673 AlaRS_core Alanyl-tRNA 100.0 4E-112 9E-117 856.1 19.2 231 50-280 1-232 (232)
11 PLN02961 alanine-tRNA ligase 100.0 9.6E-36 2.1E-40 305.2 21.0 167 543-718 3-182 (223)
12 COG2872 Predicted metal-depend 100.0 5.9E-35 1.3E-39 300.0 19.4 185 509-718 1-192 (241)
13 KOG2105 Predicted metal-depend 99.8 7.8E-20 1.7E-24 188.1 11.4 159 542-718 43-203 (415)
14 PLN02837 threonine-tRNA ligase 99.1 6.4E-10 1.4E-14 130.1 12.2 93 606-700 29-121 (614)
15 PRK12305 thrS threonyl-tRNA sy 99.0 2.3E-09 5.1E-14 124.5 10.9 97 621-718 7-108 (575)
16 TIGR00418 thrS threonyl-tRNA s 98.8 7.8E-09 1.7E-13 119.9 9.8 94 624-718 1-101 (563)
17 PRK00413 thrS threonyl-tRNA sy 98.8 1.8E-08 3.9E-13 118.5 12.9 98 602-700 50-147 (638)
18 PRK12444 threonyl-tRNA synthet 98.6 1.6E-07 3.5E-12 110.7 10.3 79 621-700 73-151 (639)
19 PLN02908 threonyl-tRNA synthet 97.9 7.2E-05 1.6E-09 89.2 11.5 80 620-700 119-200 (686)
20 COG0441 ThrS Threonyl-tRNA syn 97.4 0.0004 8.6E-09 81.0 8.5 78 620-700 26-103 (589)
21 PRK09348 glyQ glycyl-tRNA synt 96.8 0.016 3.4E-07 60.6 12.8 175 46-286 2-180 (283)
22 TIGR00388 glyQ glycyl-tRNA syn 96.3 0.046 1E-06 57.5 12.1 173 48-286 1-177 (293)
23 cd00768 class_II_aaRS-like_cor 96.0 0.025 5.4E-07 56.2 8.4 175 51-273 3-211 (211)
24 cd00733 GlyRS_alpha_core Class 95.9 0.11 2.3E-06 54.5 12.2 171 50-286 2-176 (279)
25 PRK14908 glycyl-tRNA synthetas 95.8 0.081 1.8E-06 65.2 12.6 175 46-286 3-181 (1000)
26 PF01411 tRNA-synt_2c: tRNA sy 94.5 0.009 1.9E-07 69.8 -0.5 92 178-295 107-201 (552)
27 PF02091 tRNA-synt_2e: Glycyl- 93.5 0.14 3.1E-06 53.9 6.1 170 51-286 2-175 (284)
28 COG0752 GlyQ Glycyl-tRNA synth 92.5 1.4 3.1E-05 46.2 11.5 175 45-286 2-181 (298)
29 cd00776 AsxRS_core Asx tRNA sy 91.5 1.2 2.6E-05 48.9 10.3 94 51-155 28-137 (322)
30 TIGR00458 aspS_arch aspartyl-t 91.0 2.7 5.8E-05 48.0 12.8 97 51-156 137-247 (428)
31 PRK09350 poxB regulator PoxA; 88.5 2.9 6.2E-05 45.6 10.2 108 51-170 9-138 (306)
32 cd00669 Asp_Lys_Asn_RS_core As 88.1 1.1 2.5E-05 47.8 6.6 96 51-155 5-115 (269)
33 cd00775 LysRS_core Lys_tRNA sy 84.9 11 0.00024 41.5 12.4 99 51-156 12-123 (329)
34 TIGR00499 lysS_bact lysyl-tRNA 84.1 6.8 0.00015 45.6 10.8 98 52-155 177-293 (496)
35 PRK00488 pheS phenylalanyl-tRN 82.8 1.5 3.3E-05 48.5 4.5 27 50-76 110-136 (339)
36 PLN02502 lysyl-tRNA synthetase 75.9 17 0.00036 43.1 10.5 81 52-142 234-332 (553)
37 PTZ00450 macrophage migration 71.1 4.5 9.6E-05 37.9 3.5 24 148-171 78-101 (113)
38 KOG1501 Arginine N-methyltrans 68.6 7.2 0.00016 44.5 5.0 84 253-339 65-159 (636)
39 COG0016 PheS Phenylalanyl-tRNA 64.7 6.9 0.00015 43.3 3.9 60 212-282 262-321 (335)
40 PF03002 Somatostatin: Somatos 63.5 3.4 7.3E-05 26.3 0.7 12 9-20 5-16 (18)
41 KOG1759 Macrophage migration i 61.1 8.9 0.00019 36.0 3.3 26 148-173 77-102 (115)
42 PTZ00397 macrophage migration 59.5 10 0.00022 35.1 3.5 30 143-172 73-102 (116)
43 TIGR00443 hisZ_biosyn_reg ATP 57.4 43 0.00092 36.4 8.4 107 50-162 11-143 (314)
44 PF01422 zf-NF-X1: NF-X1 type 55.1 5.2 0.00011 26.3 0.5 9 207-215 12-20 (20)
45 PTZ00326 phenylalanyl-tRNA syn 53.0 12 0.00027 43.5 3.5 59 212-283 425-484 (494)
46 PRK12295 hisZ ATP phosphoribos 51.4 57 0.0012 36.7 8.4 110 46-162 3-136 (373)
47 cd00670 Gly_His_Pro_Ser_Thr_tR 51.1 22 0.00048 36.2 4.8 106 51-162 6-149 (235)
48 PF01409 tRNA-synt_2d: tRNA sy 47.2 10 0.00022 40.2 1.5 27 50-76 19-45 (247)
49 PF01187 MIF: Macrophage migra 46.1 17 0.00037 33.6 2.7 23 149-171 77-99 (114)
50 PTZ00401 aspartyl-tRNA synthet 45.2 36 0.00078 40.3 5.8 94 51-155 217-327 (550)
51 cd00773 HisRS-like_core Class 40.5 42 0.0009 35.3 4.9 109 50-163 5-139 (261)
52 PLN02853 Probable phenylalanyl 39.4 28 0.00061 40.5 3.6 58 211-283 409-469 (492)
53 cd00830 KAS_III Ketoacyl-acyl 39.2 9.1 0.0002 40.9 -0.3 81 127-218 206-287 (320)
54 cd00777 AspRS_core Asp tRNA sy 38.7 17 0.00038 39.1 1.7 98 51-156 5-116 (280)
55 COG3981 Predicted acetyltransf 38.1 25 0.00055 35.4 2.6 34 329-363 101-134 (174)
56 PRK12292 hisZ ATP phosphoribos 37.4 1.2E+02 0.0026 34.1 8.2 107 50-162 20-154 (391)
57 KOG2783 Phenylalanyl-tRNA synt 36.9 16 0.00035 41.0 1.2 22 261-282 294-315 (436)
58 PLN02850 aspartate-tRNA ligase 36.7 59 0.0013 38.4 5.8 83 51-140 229-325 (530)
59 KOG1637 Threonyl-tRNA syntheta 35.7 15 0.00034 42.1 0.8 50 622-675 68-117 (560)
60 smart00438 ZnF_NFX Repressor o 35.4 17 0.00036 25.6 0.6 11 207-217 12-22 (26)
61 PRK12420 histidyl-tRNA synthet 35.2 1.4E+02 0.0031 33.8 8.4 105 50-161 21-154 (423)
62 PLN02530 histidine-tRNA ligase 34.9 1.6E+02 0.0035 34.2 9.0 113 51-170 88-228 (487)
63 TIGR00462 genX lysyl-tRNA synt 33.1 23 0.00051 38.5 1.7 99 51-160 5-124 (304)
64 PF00152 tRNA-synt_2: tRNA syn 31.2 28 0.00061 38.1 1.9 99 51-155 26-140 (335)
65 PRK12293 hisZ ATP phosphoribos 31.2 1.1E+02 0.0024 33.0 6.4 100 50-162 22-142 (281)
66 TIGR00747 fabH 3-oxoacyl-(acyl 30.8 19 0.00041 38.7 0.4 55 156-219 229-284 (318)
67 PRK06129 3-hydroxyacyl-CoA deh 30.6 89 0.0019 33.8 5.6 69 325-403 231-305 (308)
68 COG2024 Phenylalanyl-tRNA synt 29.6 57 0.0012 36.8 3.8 67 211-283 279-345 (536)
69 PF11867 DUF3387: Domain of un 29.3 5.5E+02 0.012 28.3 11.5 197 258-481 33-256 (335)
70 COG4014 Uncharacterized protei 28.4 72 0.0016 28.9 3.5 34 513-554 15-48 (97)
71 PLN02850 aspartate-tRNA ligase 28.3 30 0.00065 40.8 1.6 29 262-290 494-522 (530)
72 TIGR00457 asnS asparaginyl-tRN 28.1 31 0.00068 39.7 1.7 29 262-290 417-445 (453)
73 PRK06462 asparagine synthetase 27.0 34 0.00075 37.8 1.7 101 51-155 34-151 (335)
74 PRK03932 asnC asparaginyl-tRNA 26.8 34 0.00074 39.4 1.7 23 267-289 419-441 (450)
75 PTZ00401 aspartyl-tRNA synthet 26.3 35 0.00077 40.4 1.7 29 262-290 514-542 (550)
76 COG1190 LysU Lysyl-tRNA synthe 26.3 24 0.00052 41.0 0.3 30 263-293 469-498 (502)
77 PTZ00425 asparagine-tRNA ligas 25.8 36 0.00078 40.6 1.6 29 262-290 550-578 (586)
78 PF02092 tRNA_synt_2f: Glycyl- 25.4 4.5E+02 0.0097 31.4 10.4 64 314-386 445-508 (548)
79 COG0751 GlyS Glycyl-tRNA synth 25.3 5.7E+02 0.012 31.4 11.3 64 314-386 451-514 (691)
80 PLN02532 asparagine-tRNA synth 25.3 38 0.00083 40.7 1.7 29 262-290 597-625 (633)
81 COG0017 AsnS Aspartyl/asparagi 24.9 43 0.00094 38.4 2.0 78 51-135 138-227 (435)
82 PLN02221 asparaginyl-tRNA synt 24.8 38 0.00082 40.3 1.5 46 103-154 326-372 (572)
83 PLN02603 asparaginyl-tRNA synt 24.7 39 0.00084 40.2 1.6 29 262-290 529-557 (565)
84 TIGR00462 genX lysyl-tRNA synt 24.6 88 0.0019 34.1 4.2 25 262-286 277-301 (304)
85 PRK12445 lysyl-tRNA synthetase 24.3 41 0.00088 39.4 1.7 85 52-142 189-287 (505)
86 PRK08561 rps15p 30S ribosomal 23.8 2.4E+02 0.0053 28.0 6.6 44 440-483 46-96 (151)
87 PRK05159 aspC aspartyl-tRNA sy 23.1 44 0.00096 38.3 1.7 84 52-142 141-239 (437)
88 PRK00484 lysS lysyl-tRNA synth 22.5 43 0.00094 39.0 1.5 85 52-142 177-275 (491)
89 TIGR00013 taut 4-oxalocrotonat 22.5 1.1E+02 0.0023 24.8 3.4 30 143-172 16-45 (63)
90 PTZ00417 lysine-tRNA ligase; P 21.8 47 0.001 39.7 1.5 82 52-142 258-356 (585)
91 TIGR00442 hisS histidyl-tRNA s 20.7 1.7E+02 0.0037 32.6 5.7 106 50-162 17-153 (397)
92 PTZ00385 lysyl-tRNA synthetase 20.5 45 0.00098 40.3 1.1 86 51-142 237-336 (659)
93 PF00152 tRNA-synt_2: tRNA syn 20.1 83 0.0018 34.5 2.9 15 439-453 166-180 (335)
No 1
>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-223 Score=1909.28 Aligned_cols=650 Identities=52% Similarity=0.903 Sum_probs=617.7
Q ss_pred CCCChHHHHHHHHHHHhhCCCeeecCccCcC-CCCccceecccccCcccccccCCCCCCCCcccccCcccCCCccccCCC
Q 004997 46 FPSSGDSIRKRFLDFYASRGHKVLPSASLVP-EDPTVLLTIAGMLQFKPIFLGKVPRQVPRAATSQRCIRTNDVENVGRT 124 (720)
Q Consensus 46 ~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp-~DptllFtnAGM~qFkp~flG~~~p~~~r~~~~QkCiR~nDld~VG~t 124 (720)
.+||++|||++||+||++|||+++||||||| +|||||||||||+||||||+|.++||++|+||||||||+|||||||+|
T Consensus 4 ~~~t~~EiR~~FL~FF~~kgH~~v~s~slVP~nDptLLftnAGm~~FK~~f~g~v~p~~~r~~~sQkcIR~NDieNVG~T 83 (879)
T COG0013 4 MKLTTNEIRQKFLDFFEKKGHTVVPSSPLVPRNDPTLLFTNAGMVQFKPYFTGGVTPPANRAVTSQKCIRTNDIDNVGYT 83 (879)
T ss_pred ccCCHHHHHHHHHHHHHHCCCeecCCCCcCCCCCCCeEEeecccccchhhhcCCCCCCCCCeeccccccccCchhhcCcc
Confidence 3599999999999999999999999999999 799999999999999999999999999999999999999999999999
Q ss_pred CCcccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccCC
Q 004997 125 SRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNS 204 (720)
Q Consensus 125 ~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~~ 204 (720)
+|||||||||||||||||||+|||+|||||||++|||||+|||||||++|+||+++|++.+|||++||++++.+||||+|
T Consensus 84 ~RHhTfFEMLGNfSFGdYFKeeAI~~AwEflT~~lgl~~ekL~vtvy~~Ddea~~~W~~~~gip~~rIir~~~~dNfW~~ 163 (879)
T COG0013 84 ARHHTFFEMLGNFSFGDYFKEEAIEFAWEFLTKVLGLPKEKLYVTVYEDDDEAYNEWEKIIGIPPERIIRIGASDNFWEM 163 (879)
T ss_pred ccchhHHHhhhcCchhHHHHHHHHHHHHHHHHhhcCCCHHHEEEEEecCchHHHHHHHhhcCCCHHHeeecCcCCCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCceEEEeecCCCCCCCCCCC--CCCCceEEEeeeeccccccc-CCCccccCccCcccccchHHHHHHHHhcCC
Q 004997 205 GATGPCGPCSEIYYDFHPDRGCSDVDL--GDDTRFIEFYNLVFMQYNKK-DDGSLEPLKQKNIDTGLGLERIARILQKVP 281 (720)
Q Consensus 205 G~~GpcGPcsEI~yd~g~~~~~~~~~~--~~~~r~lEiwNlVFmq~~r~-~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~ 281 (720)
|+ ||||||||||||+|+.++++.+.. .+++|||||||||||||||+ .+|+|.|||+||||||||||||+|||||+|
T Consensus 164 G~-GPcGPcsEI~yD~G~~~~~~~~~~~~~d~dR~lEiwNLVFmQfnr~~~~g~~~~Lp~k~IDTGmGLERi~~vlQ~~~ 242 (879)
T COG0013 164 GD-GPCGPCSEIFYDRGEEIGGGPPGSPDEDGDRYLEIWNLVFMQYNRDPGDGNYTPLPKKNIDTGMGLERIAAVLQGVP 242 (879)
T ss_pred CC-cCCCCceEEEEcCCcccCCCCCCCcCCCCCceEEEeeeeehhhccCCCCCCcccCCCCCcccCccHHHHHHHHcCCC
Confidence 99 999999999999999999877743 88999999999999999999 799999999999999999999999999999
Q ss_pred CcccccccHHHHHHHHHHhCCCccCCccccccceEEeehhhhhHHHhhhCCCccCCCCCchHHHHHHHHHHHHHHHhCCC
Q 004997 282 NNYETDLIFPIIKKASELANVSYAQSNDRTNLNLKIIGDHLRAIVYLLSDGVFPSNIGRGYVVRRLIRRAVRTGRLLGIK 361 (720)
Q Consensus 282 s~ydtD~F~p~i~~i~~~~g~~y~~~~~~~~~~~rviaDH~R~~~~~i~DGv~Psn~grGYvlRrilRRA~r~~~~lg~~ 361 (720)
||||||+|.|||+.+++++|..|..+....++++||||||+||++|||+|||+|||+|||||||||||||+|++++||++
T Consensus 243 tnyd~dlf~~ii~~~e~~~g~~~~~~~~~~~~s~rVIADH~Rs~~f~iaDGv~PSNegrGYvlRriiRRa~R~~~~LG~~ 322 (879)
T COG0013 243 TNYDTDLFRPIIKAIEKLTGKKYGEDEEDPDVSFRVIADHIRSLAFMIADGVLPSNEGRGYVLRRIIRRALRHGKLLGIK 322 (879)
T ss_pred cchhhhhhHHHHHHHHHHhCCcCCccccccceeEEEehhHHHHHHHHHhCCCCcCCCCccHHHHHHHHHHHHHHHHhCCC
Confidence 99999999999999999999999776533488999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCccccchHHHHHHHHHHhccCChhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCC
Q 004997 362 GDGRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQMLADALSRTRESGSVPRLS 441 (720)
Q Consensus 362 ~~~~~~~~~~fl~~Lv~~vi~~m~~~YPeL~~~~~~I~~vi~~EE~~F~~tL~~G~~~l~~~i~~~~~~~~~~g~~~~l~ 441 (720)
.| ||++|||.+++.|+++||||+++++.|+++|+.||++|.+||++|+++|+++++ ++++ + ++||
T Consensus 323 ~~--------fl~~LV~~~~~~m~~~ypel~~~~~~I~~vl~~EEe~F~~TL~~G~~l~~~~~~----~~~~-~--~~l~ 387 (879)
T COG0013 323 EP--------FLYKLVDTVIDEMGDAYPELKEKEDFIKEVLKLEEERFAKTLERGLKLLEKELA----KLKK-S--KTLD 387 (879)
T ss_pred ch--------HHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----hhcc-C--CccC
Confidence 99 999999999999999999999999999999999999999999999999999998 6654 3 5899
Q ss_pred hHHHHHHHhhcCCChhhHHHHHHHcCCccChhhHHHHHHHHHHHHHHhhcccccccCCh--hHHhhhCCCCccccccccc
Q 004997 442 GQDAFLLYDTFGFPVEITKEVAEEHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVDDS--ADLAEKIPDTEFLGYDTLS 519 (720)
Q Consensus 442 g~~af~LyDTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~qk~~sr~~~~~~~~~~~~~--~~l~~~~~~T~f~gY~~~~ 519 (720)
|++||+||||||||+|||++||+|+|++||+++|+.+|++||++||+++ .+....... ..+.+..++|+|+||++++
T Consensus 388 ge~afkLYDTyGfP~eLt~eia~e~g~~VD~~~f~~~m~~qr~~ar~~~-~~~~~~~~~~~~~~~~~~~~tef~gY~~~~ 466 (879)
T COG0013 388 GEDAFKLYDTYGFPVELTEEIAEERGLKVDEPGFEYAMEAQRERARASA-GSGEGAKESEDLELIDKLPETEFLGYDDLE 466 (879)
T ss_pred hHHheeehhcCCCCHHHHHHHHHHcCCeeccccHHHHHHHHHHHhhhcc-ccccccchhhhhhhhccCCCceeeeccccc
Confidence 9999999999999999999999999999999999999999999999765 222111111 1223346789999999999
Q ss_pred cceEEEEEEeCCeeeeeecCCCeEEEEecCcceecCCCCCCCCeEEEEeCC-CcccccceEEEEEEEEecCCEEEEEEEe
Q 004997 520 AKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQ-GTNQQTAVVEVKDVKKSLGSVFVHKGTI 598 (720)
Q Consensus 520 ~~akVl~i~~~~~~v~~~~~g~~~~VvLD~T~FYpEgGGQ~~D~G~I~~~~-~~~~~~~~~~V~dV~k~~~g~ivH~~~~ 598 (720)
++++|+.++.+++.|+++++|++++||||+||||||||||++|+|+|..++ . .+.|.||||.+++.++|.+..
T Consensus 467 ~~~~i~~l~~~~~~v~~~~~g~~~~vVld~TpFYaEsGGQ~~D~G~i~~~~~~------~~~V~dvqK~~~~~~vH~~~~ 540 (879)
T COG0013 467 MEFKVLVLFVDGKEVSELNEGQEVYVVLDQTPFYAESGGQVGDTGYIFGDGGG------RFEVTDVQKVGNGVIVHKGKV 540 (879)
T ss_pred ceEEEEEEEecCcccccccCCceEEEEEecCCccCCCCCccCceEEEEecCCc------EEEEEEEEEcCCceEEEEEee
Confidence 999999999888769999999999999999999999999999999999874 5 899999999955999999998
Q ss_pred eccccCCCCEEEEEEchhhhhhHhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHHHHHHH
Q 004997 599 REGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLIN 678 (720)
Q Consensus 599 ~~g~l~~Gd~V~~~VD~~rR~~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~IE~~vN 678 (720)
..|.+++|+.|.++|||+||+.+|+|||||||||+|||++||.|++|+||+++++++||||+|++++|+|||++||++||
T Consensus 541 ~~G~l~~gd~V~~~vD~~rR~~~~~nHTATHLLh~ALr~VLG~hV~QaGSlv~~~~lRfDfsH~~~it~Eel~~IE~~vN 620 (879)
T COG0013 541 ESGELKVGDEVTAEVDEERRRRLMRNHTATHLLHAALRKVLGDHVWQAGSLVDPEKLRFDFSHYKALTAEELKEIERLVN 620 (879)
T ss_pred ccCccCCCCEEEEEECHHHHHHHHhhChHHHHHHHHHHHHhCccceecCcccCCCeeEEeecCCCCCCHHHHHHHHHHHH
Confidence 88899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCCEEEEEcCHHHHHhcCcccccCCcCCCceEEEe
Q 004997 679 GWIGDANLLQTKVMALDDAKRAGAIAMFGEKYGEQVKISS 718 (720)
Q Consensus 679 e~I~~~~pV~~~~~~~eeA~~~g~~alf~eky~d~VRVV~ 718 (720)
++|++|+||++.+|++++|++.|++++|||+||+.||||+
T Consensus 621 e~I~~n~~V~~~~m~~~eAk~~Ga~alfGekY~~~VRVV~ 660 (879)
T COG0013 621 EIIRENLPVKTEEMDLDEAKAKGAMALFGEKYGDEVRVVE 660 (879)
T ss_pred HHHHcCCceeEEEccHHHHHHhChHhhcCCcCCCeEEEEE
Confidence 9999999999999999999999999999999999999997
No 2
>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=3.3e-211 Score=1845.45 Aligned_cols=641 Identities=51% Similarity=0.879 Sum_probs=601.3
Q ss_pred HHHHHHHHHHhhCCCeeecCccCcC-CCCccceecccccCcccccccCCCCCCCCcccccCcccCCCccccCCCCCcccc
Q 004997 52 SIRKRFLDFYASRGHKVLPSASLVP-EDPTVLLTIAGMLQFKPIFLGKVPRQVPRAATSQRCIRTNDVENVGRTSRHHTF 130 (720)
Q Consensus 52 eiR~~Fl~fF~~~gH~~v~ssslvp-~DptllFtnAGM~qFkp~flG~~~p~~~r~~~~QkCiR~nDld~VG~t~rHhTf 130 (720)
|||++||+||++|||+++||||||| +||||||||||||||||||+|+++||++|+||||||||+|||||||+|+|||||
T Consensus 1 eiR~~fl~fF~~~gH~~v~s~slvp~~dptllf~nAGm~~fk~~f~G~~~p~~~r~~~~QkCiR~nDld~VG~t~rHhTf 80 (851)
T TIGR00344 1 EIRQTFLDFFKEKGHQVIPSASLVPRNDPTLLLTNAGMAQFKPIFTGIVKPPSNRLVNAQPCIRLNDIENVGRTARHHTF 80 (851)
T ss_pred CHHHHHHHHHHhCCCEEcCCCCcCCCCCCCeeeeccchhhhhHHhcCCCCCCCCCcccccccccccchhhhcCCCcchhh
Confidence 6999999999999999999999999 799999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccCCCCCCCC
Q 004997 131 FEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSGATGPC 210 (720)
Q Consensus 131 FEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~~G~~Gpc 210 (720)
||||||||||||||+|||+|||||||++|||||+|||||||++|+||++||++ +|||++||++++.+||||+||+ |||
T Consensus 81 FEMlGnfSFgdYfK~eai~~awe~lT~~~~i~~~rl~vTv~~~D~ea~~iW~~-~g~~~~~i~~~~~~dNfW~~G~-Gpc 158 (851)
T TIGR00344 81 FEMLGNFSFGDYFKEEAIAFAWELLTSVLGLDKERLYVTVYEDDEEAYEIWEK-HGIPAERIIRCGDKDNFWDMGD-GPC 158 (851)
T ss_pred HHhhcccchhhhhHHHHHHHHHHHHhhhcCCChHHEEEEEcCCCHHHHHHHHh-cCCCHHHcccCCccCCcCCCCC-cCC
Confidence 99999999999999999999999999999999999999999999999999999 9999999999999999999999 999
Q ss_pred CCceEEEeecCCCCCCC-CCCC--CCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcCCCccccc
Q 004997 211 GPCSEIYYDFHPDRGCS-DVDL--GDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNNYETD 287 (720)
Q Consensus 211 GPcsEI~yd~g~~~~~~-~~~~--~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s~ydtD 287 (720)
|||||||||+|+.+++. +..+ .+|+|||||||||||||+|++||+|+|||+||||||||||||+|||||++||||||
T Consensus 159 GPcsEi~yD~g~~~~~~~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~Lp~~~IDTGmGLERl~~vlqg~~snydtD 238 (851)
T TIGR00344 159 GPCTEIYYDRGEFVGGKPGEPEFFEENDRYVEVWNLVFMQFNRDPDGNYTPLPKKNIDTGMGLERFVAVLQGVPTNYDTD 238 (851)
T ss_pred ccCeEEEEecCcccCCCCCcccccCCCCcEEEEeeeeeEeeeecCCCceeeCCCCeeecCcCHHHHHHHHcCCCCcchhh
Confidence 99999999999887652 2122 58899999999999999999999999999999999999999999999999999999
Q ss_pred ccHHHHHHHHHHhCCCccCCc------c--ccccceEEeehhhhhHHHhhhCCCccCCCCCchHHHHHHHHHHHHHHHhC
Q 004997 288 LIFPIIKKASELANVSYAQSN------D--RTNLNLKIIGDHLRAIVYLLSDGVFPSNIGRGYVVRRLIRRAVRTGRLLG 359 (720)
Q Consensus 288 ~F~p~i~~i~~~~g~~y~~~~------~--~~~~~~rviaDH~R~~~~~i~DGv~Psn~grGYvlRrilRRA~r~~~~lg 359 (720)
+|.|||++|++++|++|..+. + ..++++||||||+||++|||+||++|||+|||||||||||||+|++++||
T Consensus 239 ~f~~ii~~i~~~~g~~y~~~~~~~~d~~~~~~~~~~rviaDH~R~~~f~i~DGv~PsN~grgYvlRrilRRa~r~~~~lg 318 (851)
T TIGR00344 239 IFLPLIEKIEEITGVKYDSNNAGIMDEKRVEDLRSLRVIADHTRALAFMLADGVVPSNEGRGYVLRRLIRRALRHGKKLG 318 (851)
T ss_pred hHHHHHHHHHHHhCCCCCcCccccccccccccchheeeehhhhhhhhhhhccCcccCCCCCchhHHHHHHHHHHHHHHhC
Confidence 999999999999999985322 0 23579999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCccccchHHHHHHHHHHhccCChhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCC
Q 004997 360 IKGDGRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQMLADALSRTRESGSVPR 439 (720)
Q Consensus 360 ~~~~~~~~~~~~fl~~Lv~~vi~~m~~~YPeL~~~~~~I~~vi~~EE~~F~~tL~~G~~~l~~~i~~~~~~~~~~g~~~~ 439 (720)
++.| ||++||+.|++.|++.||||.++++.|++||+.||++|.+||++|+++|+++++ +++ + ++
T Consensus 319 ~~~~--------fl~~lv~~~~~~m~~~ypel~~~~~~i~~ii~~Ee~~f~~tl~~G~~~l~~~~~----~~~--~--~~ 382 (851)
T TIGR00344 319 LKEA--------FLYKLVPTLIEVLGDYYPELKEKQEFVEQILELEEERFAKTLERGLRLFEKLLK----KLG--K--KE 382 (851)
T ss_pred CCch--------HHHHHHHHHHHHHhhhChHhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----Hhc--C--Cc
Confidence 9999 999999999999999999999999999999999999999999999999999998 442 2 47
Q ss_pred CChHHHHHHHhhcCCChhhHHHHHHHcCCccChhhHHHHHHHHHHHHHHhhcccccccCChhHHhhhCCCCccccccccc
Q 004997 440 LSGQDAFLLYDTFGFPVEITKEVAEEHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVDDSADLAEKIPDTEFLGYDTLS 519 (720)
Q Consensus 440 l~g~~af~LyDTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~qk~~sr~~~~~~~~~~~~~~~l~~~~~~T~f~gY~~~~ 519 (720)
|||++||+||||||||+|||++||+|+|++||+++|+++|++||++||++++...... +...+.+..++|+|+||++.+
T Consensus 383 i~g~~af~LydTyGfP~dlt~~~a~e~g~~vd~~~F~~~~~~~~~~sr~~~~~~~~~~-~~~~~~~~~~~t~~l~Y~~~~ 461 (851)
T TIGR00344 383 LDGEDAFKLYDTYGFPVELTKEIAEERGLTVDIPGFETLMAEQRERSKAASQTISFEL-QEIALANVYPATEFLGYEDLE 461 (851)
T ss_pred cCHHHHHHHHHccCCCHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhhhhhcccccc-cHHHHhcccCCccccceeccc
Confidence 9999999999999999999999999999999999999999999999998764322111 122332224679999999999
Q ss_pred cceEEEEEEeCCeeeeeecCCCeEEEEecCcceecCCCCCCCCeEEEEeCCCcccccceEEEEEEEEecCCEEEEEEEee
Q 004997 520 AKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLGSVFVHKGTIR 599 (720)
Q Consensus 520 ~~akVl~i~~~~~~v~~~~~g~~~~VvLD~T~FYpEgGGQ~~D~G~I~~~~~~~~~~~~~~V~dV~k~~~g~ivH~~~~~ 599 (720)
++|+|+++..+++.|+++.+|+.++|+||+|||||||||||+|+|+|..++. .++|.+|++. +|.++|++...
T Consensus 462 ~~a~V~~i~~~~~~v~~~~~g~~~~vvLd~T~FYpEgGGQp~D~G~I~~~~~------~~~V~dv~~~-~g~i~H~~~~~ 534 (851)
T TIGR00344 462 FEAKVIGLFEDGKPVDEAEAGQSVYVILDQTPFYAESGGQIGDTGYLIANDG------KFRVVDVQKP-NGVVFHFGEVE 534 (851)
T ss_pred ccEEEEEEEeCCccceecccCCceEEEEeCCCCCCCCCCCCCCEEEEecCCc------EEEEEEEEEE-CCEEEEEEEec
Confidence 9999999998888899999999999999999999999999999999986655 7999999998 89999998765
Q ss_pred ccccCCCCEEEEEEchhhhhhHhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHHHHHHHH
Q 004997 600 EGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLING 679 (720)
Q Consensus 600 ~g~l~~Gd~V~~~VD~~rR~~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~IE~~vNe 679 (720)
.+.+++|++|.+.|||+||+.+|++|||+|||++||+++||.|++|+||+++++++||||++++++|++++++||+.||+
T Consensus 535 ~g~l~~G~~V~~~VD~~rR~~~m~~HTAtHLL~aAL~~vlg~~v~q~Gs~v~~d~~r~Df~~~~~lt~eel~~IE~~vNe 614 (851)
T TIGR00344 535 GGSLKVGDKVIAVIDEKRRLRIMRNHSATHLLHAALQKVLGNHVWQAGSLVSVKKLRFDFSHYRALTREELEKIEDLVNE 614 (851)
T ss_pred cCCCCCCCEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHhCCceEeccCcccCCcEEEEecCCCCCCHHHHHHHHHHHHH
Confidence 56899999999999999999999999999999999999999999999999999999999999889999999999999999
Q ss_pred HHhcCCCEEEEEcCHHHHHhcCcccccCCcCCCceEEEe
Q 004997 680 WIGDANLLQTKVMALDDAKRAGAIAMFGEKYGEQVKISS 718 (720)
Q Consensus 680 ~I~~~~pV~~~~~~~eeA~~~g~~alf~eky~d~VRVV~ 718 (720)
+|++++||++++++++||++.+++++|+++|++.||||+
T Consensus 615 lI~~n~pV~~~~~~~eeA~~~~~~~~~~e~y~~~VRVV~ 653 (851)
T TIGR00344 615 QILANIPIKVIFMDLDEAKAKGAFALFGEKYGEKVRVVS 653 (851)
T ss_pred HHHhCCceEEEEeCHHHHHhcchhhhcCCCCCCeEEEEE
Confidence 999999999999999999999999999999999999996
No 3
>PLN02900 alanyl-tRNA synthetase
Probab=100.00 E-value=2.7e-210 Score=1842.59 Aligned_cols=658 Identities=51% Similarity=0.885 Sum_probs=611.7
Q ss_pred cccCCCCCCChHHHHHHHHHHHhhCCCeeecCccCcC-CCCccceecccccCcccccccCCCC-----CCCCcccccCcc
Q 004997 40 EDKSQDFPSSGDSIRKRFLDFYASRGHKVLPSASLVP-EDPTVLLTIAGMLQFKPIFLGKVPR-----QVPRAATSQRCI 113 (720)
Q Consensus 40 ~~~~~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp-~DptllFtnAGM~qFkp~flG~~~p-----~~~r~~~~QkCi 113 (720)
+|++..++|+++|||++||+||+++||+++||||||| +|||||||||||+||||||+|.++| |++|+|||||||
T Consensus 3 ~~~~~~~~~~~~eiR~~Fl~FF~~~gH~~v~s~slvp~~dptllftnAGm~~Fk~~f~G~~~p~~~~~~~~R~~~~QkCi 82 (936)
T PLN02900 3 EDDAPEKEWPGDRIRRTFLSFFESKGHTFLPSSPLVPVDDPTLLFTNAGMNQFKPIFLGTADPNTPLRKLPRATNTQKCI 82 (936)
T ss_pred CCccccCCCCHHHHHHHHHHHHHhCCCEEeCCCCcCCCCCCCeeeeecchhhhhhhhcCCCCCCCCCCCCCceeeecccc
Confidence 5778888999999999999999999999999999999 7999999999999999999999999 788999999999
Q ss_pred cC----CCccccCCCCCcccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChH------HHHHHHHH
Q 004997 114 RT----NDVENVGRTSRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDD------EAFEIWNK 183 (720)
Q Consensus 114 R~----nDld~VG~t~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~------e~~~iW~~ 183 (720)
|+ |||||||+|+|||||||||||||||||||+|||+|||||||++|||||+|||||||++|+ ||++||++
T Consensus 83 R~gGKHnDlenVG~t~rHhTfFEMlGnfSfgdYfK~eaI~~awe~lT~~l~i~~~~l~vTv~~~D~~~~~d~Ea~~iW~~ 162 (936)
T PLN02900 83 RAGGKHNDLDDVGKDTYHHTFFEMLGNWSFGDYFKKEAIGWAWELLTKVYGLPADRLYATYFGGDEKQAPDDEARAIWLD 162 (936)
T ss_pred cCCCCCCCHhhccCCCCchHHHHhhhccchhhhhHHHHHHHHHHHHHHhcCCCHHHEEEEEeCCCCCcCCCHHHHHHHHH
Confidence 99 999999999999999999999999999999999999999999999999999999999999 99999999
Q ss_pred hcCCCCCceeccCCCCCccCCCCCCCCCCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccccCCCccccCccCc
Q 004997 184 EVGVPVEHIKRMGADDNFWNSGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKN 263 (720)
Q Consensus 184 ~~g~~~~rI~~~~~~dNfW~~G~~GpcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~ 263 (720)
. ||++||++++.+||||+||+|||||||||||||+|+++++......+|+|||||||||||||+|++||+|+|||+||
T Consensus 163 ~--~~~~rI~~~~~~dNfW~~G~tGpcGPcsEi~yD~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~Lp~~~ 240 (936)
T PLN02900 163 Y--LPEERVLPFGCKDNFWEMGDTGPCGPCSEIHYDRIGERDAADLVNNDDPRFIEIWNLVFIQFNREADGSLKPLPAKH 240 (936)
T ss_pred h--CCHHHeecCCcccCCccCCCCcCCCCCeEEEEecCCccCccccCCCCCCCEEEEeeeeeeeeeecCCCceeeCCCCe
Confidence 7 99999999999999999999999999999999999998864333357899999999999999999999999999999
Q ss_pred ccccchHHHHHHHHhcCCCcccccccHHHHHHHHHHhC------CCccCCccccccceEEeehhhhhHHHhhhCCCccCC
Q 004997 264 IDTGLGLERIARILQKVPNNYETDLIFPIIKKASELAN------VSYAQSNDRTNLNLKIIGDHLRAIVYLLSDGVFPSN 337 (720)
Q Consensus 264 IDTGmGLERl~~vlqg~~s~ydtD~F~p~i~~i~~~~g------~~y~~~~~~~~~~~rviaDH~R~~~~~i~DGv~Psn 337 (720)
||||||||||+|||||++||||||+|.|||++|++++| +.|+.+....++|+||||||+||++|||+||++|||
T Consensus 241 IDTGmGLERl~~vlqg~~snydtDlf~pii~~i~~~~~~~~~~~~~y~~~~~~~~~a~rviaDH~R~~~f~i~DGv~PsN 320 (936)
T PLN02900 241 VDTGMGLERLASILQNKPSNYDTDLFMPIFDAIQEATGARPYAGKVGAEDDDRVDMAYRVVADHIRTLSFAIADGVVPSN 320 (936)
T ss_pred eecCcCHHHHHHHHcCCCCcchhhhHHHHHHHHHHHhCCCccccccccccccccceeeeeehhhHHHHHHHHhcCCccCC
Confidence 99999999999999999999999999999999999999 566543225678999999999999999999999999
Q ss_pred CCCchHHHHHHHHHHHHHHH-hCCCCCCCCCccccchHHHHHHHHHHhccCChhhHHhHHHHHHHHHHHHHHHHHHHHHH
Q 004997 338 IGRGYVVRRLIRRAVRTGRL-LGIKGDGRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKREELRFVQTLERG 416 (720)
Q Consensus 338 ~grGYvlRrilRRA~r~~~~-lg~~~~~~~~~~~~fl~~Lv~~vi~~m~~~YPeL~~~~~~I~~vi~~EE~~F~~tL~~G 416 (720)
+|||||||||||||+|++++ ||++.| ||++||+.|++.|++.||||.++++.|++||+.||++|.+||++|
T Consensus 321 ~grgYvlRrilRRa~r~~~~~lg~~~~--------fl~~lv~~v~~~~~~~ypel~~~~~~I~~ii~~EE~~F~~tl~~G 392 (936)
T PLN02900 321 EGRGYVLRRLLRRAVRYGRLLLGAEEG--------FFPALVEVVVELSGDVFPEVKKNEKRITEIIAEEELSFGKTLEKG 392 (936)
T ss_pred CCccHHHHHHHHHHHHHHHHhcCCCcc--------hHHHHHHHHHHHHhccCcHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999 899999 999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhhhcCCCCCCCChHHHHHHHhhcCCChhhHHHHHHHcCCccChhhHHHHHHHHHHHHHHhhcccc--
Q 004997 417 EKLLDQMLADALSRTRESGSVPRLSGQDAFLLYDTFGFPVEITKEVAEEHGVSVDMKGFDIEMENQRRQSQAAHNAVK-- 494 (720)
Q Consensus 417 ~~~l~~~i~~~~~~~~~~g~~~~l~g~~af~LyDTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~qk~~sr~~~~~~~-- 494 (720)
+++|+++|+ ++++.|. ++|||++||+||||||||+|||++||+|+|++||+++|+++|++||++||++++...
T Consensus 393 ~~~l~~~i~----~~~~~~~-~~l~g~~af~LydTyGfP~dlt~~ia~e~g~~vD~~~F~~~~~~~~~~s~~~~~~~~~~ 467 (936)
T PLN02900 393 IEKFKKALA----AAKANGG-PVLSGKDAFLLYDTYGFPVDLTELMAEERGVTVDMEGFEAAMEEARERSRAAHLKAGGG 467 (936)
T ss_pred HHHHHHHHH----HHhhcCC-CcCCHHHHHHHHhccCCCHHHHHHHHHHcCCeecHHHHHHHHHHHHHHHHhhhhccccc
Confidence 999999998 5543332 579999999999999999999999999999999999999999999999997654222
Q ss_pred -cccC--ChhHHhhhC--CCCccccccccc-cceEEEEEEeCCeeeeeecCCCeEEEEecCcceecCCCCCCCCeEEEEe
Q 004997 495 -LSVD--DSADLAEKI--PDTEFLGYDTLS-AKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYV 568 (720)
Q Consensus 495 -~~~~--~~~~l~~~~--~~T~f~gY~~~~-~~akVl~i~~~~~~v~~~~~g~~~~VvLD~T~FYpEgGGQ~~D~G~I~~ 568 (720)
.... ....+.+.. ++|+|+||+.++ ++|+|++++.+++.|+++++|+.++|+||+|+|||||||||+|+|+|..
T Consensus 468 ~~~~~~~~~~~~~~~~~~~~t~f~gY~~~~~~~~~v~~i~~~~~~v~~~~~g~~~~vvLd~T~FYpEgGGQp~D~G~I~~ 547 (936)
T PLN02900 468 AIELAAEATSWLQKQGVAATDDFLKYDWLSDHEAVVKAILTGGGFVESVSEGDEVGIVLDKTSFYAESGGQIGDTGVLEG 547 (936)
T ss_pred cccccHHHHHHHHhccCCCCCcccccccCCccceEEEEEEECCceeeeccCCCeEEEEEeCCCCCCCCCCCCCCEEEEec
Confidence 1111 012232221 578999999998 9999999999888999999999999999999999999999999999986
Q ss_pred CCCcccccceEEEEEEEEecCCEEEEEEEeeccccCCCCEEEEEEchhhhhhHhhhCcHHHHHHHHHHhHhCCceeeeee
Q 004997 569 TQGTNQQTAVVEVKDVKKSLGSVFVHKGTIREGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGS 648 (720)
Q Consensus 569 ~~~~~~~~~~~~V~dV~k~~~g~ivH~~~~~~g~l~~Gd~V~~~VD~~rR~~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs 648 (720)
+++ ..+.|.+|++. +|.++|.+....+.+.+|++|.++|||+||+.+|++|||||||++||+++||.|++|+||
T Consensus 548 ~~~-----~~~~V~dv~k~-~g~i~H~~~~~~g~l~~G~~V~~~VD~~rR~~~m~~HTAtHLL~aALr~vlG~~v~q~Gs 621 (936)
T PLN02900 548 SGG-----AVVEVSDVQKA-GGFVLHIGTVTEGSVSVGDAVTCKVDYDRRRRIAPNHTATHLLNSALKEVLGDHVDQKGS 621 (936)
T ss_pred CCC-----CEEEEEEEEEE-CCEEEEEEEeccCCCCCCCEEEEEECHHHHHHHHHHHHHHHHHHHHHHHHcCCcEEeccc
Confidence 542 15899999997 899999987655789999999999999999999999999999999999999999999999
Q ss_pred eccCCceEEEEecCCCCCHHHHHHHHHHHHHHHhcCCCEEEEEcCHHHHHh-cCcccccCCcCCCceEEEe
Q 004997 649 LVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKR-AGAIAMFGEKYGEQVKISS 718 (720)
Q Consensus 649 ~v~~d~~R~DF~~~~~lt~eel~~IE~~vNe~I~~~~pV~~~~~~~eeA~~-~g~~alf~eky~d~VRVV~ 718 (720)
+++++++||||++++++|++++.+||+.||++|++|+||++.+++++||++ .|++++|+|+|++.||||+
T Consensus 622 ~v~~d~~r~Df~~~~~lt~eel~~IE~~vNe~I~~n~pV~~~~~~~eEA~~~~g~~~~f~e~y~~~VRVV~ 692 (936)
T PLN02900 622 LVAFEKLRFDFSHGKPMTPEELREVESLVNEWIGDALPVEAKEMPLADAKRINGLRAVFGEKYPDPVRVVS 692 (936)
T ss_pred cccCCeEEEEeeCCCCCCHHHHHHHHHHHHHHHHhCCCeEEEEcCHHHHhhccChHhhcCCCCCCcEEEEE
Confidence 999999999999999999999999999999999999999999999999999 6999999999999999996
No 4
>PRK00252 alaS alanyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=3.9e-208 Score=1825.62 Aligned_cols=643 Identities=53% Similarity=0.910 Sum_probs=605.4
Q ss_pred CCChHHHHHHHHHHHhhCCCeeecCccCcC-CCCccceecccccCcccccccCCCCCCCCcccccCcccCCCccccCCCC
Q 004997 47 PSSGDSIRKRFLDFYASRGHKVLPSASLVP-EDPTVLLTIAGMLQFKPIFLGKVPRQVPRAATSQRCIRTNDVENVGRTS 125 (720)
Q Consensus 47 ~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp-~DptllFtnAGM~qFkp~flG~~~p~~~r~~~~QkCiR~nDld~VG~t~ 125 (720)
+||++|||++||+||++|||+++||||||| +||||||||||||||||||+|+++||++|+||||||||+|||||||+|+
T Consensus 1 ~~~~~eiR~~fl~fF~~~~H~~v~s~~lvp~~d~~llf~nAGm~~fk~~f~g~~~p~~~r~~~~QkCiR~nDld~VG~t~ 80 (865)
T PRK00252 1 MMTSAEIRQKFLDFFESKGHTVVPSASLVPKNDPTLLFTNAGMVQFKDYFLGQEKPPYPRATTSQKCIRTNDLENVGYTA 80 (865)
T ss_pred CCCHHHHHHHHHHHHHhCCCEEecCCCcCCCCCCCeeeeccchhhhhHHhcCCCCCCCCCcccccccccccchhhccCCC
Confidence 489999999999999999999999999999 8999999999999999999999999999999999999999999999999
Q ss_pred CcccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccCCC
Q 004997 126 RHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSG 205 (720)
Q Consensus 126 rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~~G 205 (720)
|||||||||||||||||||+|||+|||||||++|||||+|||||||.+|+||++||++.+|||++||++++.+||||+||
T Consensus 81 rHhTfFEMlGn~sfgdYfK~eai~~awe~lt~~~~i~~~~l~vt~~~~D~e~~~iW~~~~g~~~~~i~~~~~~dNfW~~G 160 (865)
T PRK00252 81 RHHTFFEMLGNFSFGDYFKEEAIEWAWELLTSVLGLPKEKLYVTVYEDDDEAYDIWKKEIGVPPERIIRIGKKDNFWSMG 160 (865)
T ss_pred CchHHHHHhcccchhhhhHHHHHHHHHHHHHHHhCCCHHHEEEEEcCCCHHHHHHHHhccCCCHHHeecCCccCCccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCceEEEeecCCCCCCCCCC--CCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcCCCc
Q 004997 206 ATGPCGPCSEIYYDFHPDRGCSDVD--LGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNN 283 (720)
Q Consensus 206 ~~GpcGPcsEI~yd~g~~~~~~~~~--~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s~ 283 (720)
+|||||||||||||+|+.++++.+. ..+++|||||||||||||||+++|+|.|||+||||||||||||+|||||++||
T Consensus 161 ~~GpcGPcsEi~~d~g~~~~~~~~~~~~~~~~~~lEiwNlVF~q~~~~~~g~~~~Lp~~~iDTG~GlER~~~ilq~~~sn 240 (865)
T PRK00252 161 DTGPCGPCSEIFYDRGEEYWGGPPGSPEEDGDRYIEIWNLVFMQFNRDEDGNLTPLPKKNIDTGMGLERIAAVLQGVHSN 240 (865)
T ss_pred CCcCCCCCeEEEEecCcccCCCCCCCCcCCCCcEEEEeeeeeEeeeecCCCceeeCCCCeeecCcCHHHHHHHHcCCCCc
Confidence 9999999999999999887553332 36889999999999999999999999999999999999999999999999999
Q ss_pred ccccccHHHHHHHHHHhCCCccCCccccccceEEeehhhhhHHHhhhCCCccCCCCCchHHHHHHHHHHHHHHHhCCCCC
Q 004997 284 YETDLIFPIIKKASELANVSYAQSNDRTNLNLKIIGDHLRAIVYLLSDGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGD 363 (720)
Q Consensus 284 ydtD~F~p~i~~i~~~~g~~y~~~~~~~~~~~rviaDH~R~~~~~i~DGv~Psn~grGYvlRrilRRA~r~~~~lg~~~~ 363 (720)
||||+|.|||++|++++|++|+ .++||||||||+||++|||+||++|||+|||||||||||||+|+++.||++.|
T Consensus 241 ydtd~f~~~i~~i~~~~~~~y~-----~~~a~rviaDH~R~~~f~i~DG~~Psn~grgYvlRrilRRa~r~~~~lg~~~~ 315 (865)
T PRK00252 241 YETDLFRPLIKAIEELTGVKYE-----DDVSFRVIADHIRAVAFLIADGVLPSNEGRGYVLRRILRRAVRHGRLLGIKEP 315 (865)
T ss_pred chhhhHHHHHHHHHHHhCCCCC-----CCceEEEEcchHHHHHHHHccCcccCCCCcchHHHHHHHHHHHHHHHhCCCch
Confidence 9999999999999999999985 36799999999999999999999999999999999999999999999999999
Q ss_pred CCCCccccchHHHHHHHHHHhccCChhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCChH
Q 004997 364 GRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQMLADALSRTRESGSVPRLSGQ 443 (720)
Q Consensus 364 ~~~~~~~~fl~~Lv~~vi~~m~~~YPeL~~~~~~I~~vi~~EE~~F~~tL~~G~~~l~~~i~~~~~~~~~~g~~~~l~g~ 443 (720)
||++|||.|++.|++.||||.++++.|++||+.||++|.+||++|+++|+++++ +.++ + ++|||+
T Consensus 316 --------~l~~lv~~~~~~~~~~ypel~~~~~~i~~ii~~Ee~~f~~tl~~G~~~~~~~~~----~~~~-~--~~l~g~ 380 (865)
T PRK00252 316 --------FLYKLVPVVIDEMGDAYPELKEKQDLIEKVLKAEEERFLKTLERGLKLLEEALA----KLKA-G--KVLSGE 380 (865)
T ss_pred --------HHHHHHHHHHHHHhhhChhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----hccC-C--CccCHH
Confidence 999999999999999999999999999999999999999999999999999998 4322 2 479999
Q ss_pred HHHHHHhhcCCChhhHHHHHHHcCCccChhhHHHHHHHHHHHHHHhhcccccccCChhHHhhhCCCCccccccccccceE
Q 004997 444 DAFLLYDTFGFPVEITKEVAEEHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVDDSADLAEKIPDTEFLGYDTLSAKAI 523 (720)
Q Consensus 444 ~af~LyDTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~qk~~sr~~~~~~~~~~~~~~~l~~~~~~T~f~gY~~~~~~ak 523 (720)
+||+||||||||+|||++||+|+|++||+++|+++|++||++||++++.... ......+.... +|+|+||+..+++|+
T Consensus 381 ~~f~LydtyGfP~dlt~~~a~e~g~~vd~~~f~~~~~~~~~~s~~~~~~~~~-~~~~~~~~~~~-~t~f~~Y~~~~~~a~ 458 (865)
T PRK00252 381 DAFKLYDTYGFPLDLTAEIARERGLTVDEEGFEAAMEEQRERARAARKFKGD-YNALEELLDDL-ATEFVGYDTLEAEAK 458 (865)
T ss_pred HHHHHHhccCCCHHHHHHHHHHcCCCcCHHHHHHHHHHHHHHHHhhhhcccc-hhHHHHHhhcC-CCeeeeeeeccccEE
Confidence 9999999999999999999999999999999999999999999876543210 11112232222 699999999999999
Q ss_pred EEEEEeCCeeeeeecCCCeEEEEecCcceecCCCCCCCCeEEEEeCCCcccccceEEEEEEEEecCCEEEEEEEeecccc
Q 004997 524 VESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLGSVFVHKGTIREGVL 603 (720)
Q Consensus 524 Vl~i~~~~~~v~~~~~g~~~~VvLD~T~FYpEgGGQ~~D~G~I~~~~~~~~~~~~~~V~dV~k~~~g~ivH~~~~~~g~l 603 (720)
|++++.+++.|+++.+|+.++|+||+|+|||||||||+|+|+|.. +. .+.|.+|++..+|.++|++....+.+
T Consensus 459 v~~i~~~~~~~~~~~~g~~~~vvLd~T~FYpegGGQ~~D~G~I~~-~~------~~~V~~v~~~~~g~i~H~~~~~~~~l 531 (865)
T PRK00252 459 VLALFVDGESVDSAKAGEEVEVVLDKTPFYAESGGQVGDTGVIED-GG------VFEVTDTQKPPNGLIVHRGKVEEGEL 531 (865)
T ss_pred EEEEEeCCceeeeccCCCeEEEEEeCCCCCCCCCCCCCCEEEEee-Cc------EEEEEEEEEccCCEEEEEEEeccCCC
Confidence 999998888999999999999999999999999999999999987 55 79999999864799999997655779
Q ss_pred CCCCEEEEEEchhhhhhHhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHHHHHHHHHHhc
Q 004997 604 EVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGD 683 (720)
Q Consensus 604 ~~Gd~V~~~VD~~rR~~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~IE~~vNe~I~~ 683 (720)
++|++|.++|||+||+.+|++|||+|||++||++++|.|++|+||+++++++||||++++++|++++.+||+.||++|++
T Consensus 532 ~~G~~V~~~ID~~rR~~~m~~HTa~HLL~~al~~~lg~~v~q~Gs~~~~~~~r~Df~~~~~lt~eel~~IE~~vN~lI~~ 611 (865)
T PRK00252 532 KVGDEVTAEVDEERRRAIARNHSATHLLHAALREVLGEHVTQAGSLVAPDRLRFDFSHFEALTPEELRKIEDLVNEKIRE 611 (865)
T ss_pred CCCCEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHhhhheEeccCcccCCeEEEEeecCCCCCHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999998899999999999999999999
Q ss_pred CCCEEEEEcCHHHHHhcCcccccCCcCCCceEEEe
Q 004997 684 ANLLQTKVMALDDAKRAGAIAMFGEKYGEQVKISS 718 (720)
Q Consensus 684 ~~pV~~~~~~~eeA~~~g~~alf~eky~d~VRVV~ 718 (720)
++||++.+++++||++.|++++|+++|++.||||+
T Consensus 612 n~pV~~~~~~~~eA~~~~~~~~~~~~y~~~VRVV~ 646 (865)
T PRK00252 612 NLPVETEEMSIEEAKKMGAMALFGEKYGDEVRVVS 646 (865)
T ss_pred CCCeEEEEeCHHHHHhCCchhhccccCCCeEEEEE
Confidence 99999999999999999999999999999999997
No 5
>KOG0188 consensus Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.8e-208 Score=1711.00 Aligned_cols=646 Identities=42% Similarity=0.726 Sum_probs=604.2
Q ss_pred CChHHHHHHHHHHHhhCCCeeecCccCcC-CCCccceecccccCcccccccCCCCCCCCcccccCcccC----CCccccC
Q 004997 48 SSGDSIRKRFLDFYASRGHKVLPSASLVP-EDPTVLLTIAGMLQFKPIFLGKVPRQVPRAATSQRCIRT----NDVENVG 122 (720)
Q Consensus 48 ~~~~eiR~~Fl~fF~~~gH~~v~ssslvp-~DptllFtnAGM~qFkp~flG~~~p~~~r~~~~QkCiR~----nDld~VG 122 (720)
+|++|||++||+||+++.|++|+|||||| +||||||+|||||||||+|||+ -.+++|++|+|||||+ ||||+||
T Consensus 2 ~ta~evR~tFldfF~~k~H~~V~SSsViP~dDpTLLFaNAGMNQFKpifLgt-~a~lkRa~NsQKCIRAGGKHNDLdDVG 80 (895)
T KOG0188|consen 2 LTASEVRKTFLDFFKSKHHKIVHSSSVIPFDDPTLLFANAGMNQFKPIFLGT-MAKLKRAANSQKCIRAGGKHNDLDDVG 80 (895)
T ss_pred ccHHHHHHHHHHHHHhcCceEeccCCcccCCCCeeEEeccchhhcchhhhhc-hhhhHhhhhhhhHHhccCCcCChhHhc
Confidence 79999999999999999999999999999 9999999999999999999998 5688999999999999 9999999
Q ss_pred CCCCcccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCC--------hHHHHHHHHHhcCCCCCceec
Q 004997 123 RTSRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYED--------DDEAFEIWNKEVGVPVEHIKR 194 (720)
Q Consensus 123 ~t~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~--------D~e~~~iW~~~~g~~~~rI~~ 194 (720)
+|.|||||||||||||||||||+|||.|||||||++||||++|||||||+| |.||++||++ +|+|++||++
T Consensus 81 kD~yHhTfFEMlGNWSFGdYfK~Eac~~AwelLt~vygi~~dRLYVtYF~Gde~~Gl~~D~E~r~iW~~-~Gvp~srILp 159 (895)
T KOG0188|consen 81 KDFYHHTFFEMLGNWSFGDYFKEEACAWAWELLTFVYGIPTDRLYVTYFGGDEKLGLEPDLECREIWNE-LGVPDSRILP 159 (895)
T ss_pred hhccccCchhhcCCCCcchHHHHHHHHHHHHHHHHhhcCCCceEEEEEecCccccCCCCCcHHHHHHHH-cCCChhhccC
Confidence 999999999999999999999999999999999999999999999999996 7899999998 7999999999
Q ss_pred cCCCCCccCCCCCCCCCCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHH
Q 004997 195 MGADDNFWNSGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIA 274 (720)
Q Consensus 195 ~~~~dNfW~~G~~GpcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~ 274 (720)
++++|||||||+||||||||||||||.++++.....+.|++.++||||||||||||++||+|.|||+||||||||||||+
T Consensus 160 ~~~kDNFWEMGdtGPCGPCtEIHyDriG~r~a~~LVN~ddp~v~EiWNlVFiq~NRe~dGsL~pLp~khIDTGMGfERLv 239 (895)
T KOG0188|consen 160 FGMKDNFWEMGDTGPCGPCTEIHYDRIGGRDAVKLVNHDDPDVLEIWNIVFIQYNREADGSLKPLPKKHIDTGMGFERLV 239 (895)
T ss_pred CccccchhhhcCCCCCCcchhhhhhhhcCcchHHHhcCCCcCceeeeeeeeeeeccccCCccccCcccccccccCHHHHH
Confidence 99999999999999999999999999999887777778999999999999999999999999999999999999999999
Q ss_pred HHHhcCCCcccccccHHHHHHHHHHhCCCcc-CCccccccceEEeehhhhhHHHhhhCCCccCCCCCchHHHHHHHHHHH
Q 004997 275 RILQKVPNNYETDLIFPIIKKASELANVSYA-QSNDRTNLNLKIIGDHLRAIVYLLSDGVFPSNIGRGYVVRRLIRRAVR 353 (720)
Q Consensus 275 ~vlqg~~s~ydtD~F~p~i~~i~~~~g~~y~-~~~~~~~~~~rviaDH~R~~~~~i~DGv~Psn~grGYvlRrilRRA~r 353 (720)
+|||++.||||||+|+||+++|++.++.+|. ++.+.+|+||||+|||+||+++||+||.+|+|+|||||||||||||+|
T Consensus 240 sVlQnk~SNYDTDlFtPif~aiq~~~~~~YtG~d~d~~D~AyRVvADH~RtlTvalsDG~~Pdn~GrgyvLRRILRRavr 319 (895)
T KOG0188|consen 240 SVLQNKTSNYDTDLFTPIFEAIQEGTGARYTGEDADGIDTAYRVVADHARTLTVALSDGGVPDNTGRGYVLRRILRRAVR 319 (895)
T ss_pred HHHhcccccccchhhHHHHHHHHHhcCCCccCCccccchhhHHHHHHHhhhhheeeecCCCCCCCCChhHHHHHHHHHHH
Confidence 9999999999999999999999999999996 455589999999999999999999999999999999999999999999
Q ss_pred HHHH-hCCCCCCCCCccccchHHHHHHHHHHhccCChhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 004997 354 TGRL-LGIKGDGRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQMLADALSRTR 432 (720)
Q Consensus 354 ~~~~-lg~~~~~~~~~~~~fl~~Lv~~vi~~m~~~YPeL~~~~~~I~~vi~~EE~~F~~tL~~G~~~l~~~i~~~~~~~~ 432 (720)
|++. ||++.+ ||.+|||+|++.||++||||+.+++.|.++|.+||+.|++||++|.++|++.+. +++
T Consensus 320 ya~e~l~~~~g--------~~~~LVpvvv~~lgd~fPEl~~~~~~v~diineEE~~F~ktl~rg~~~f~r~~~----~~~ 387 (895)
T KOG0188|consen 320 YAHEKLNAPPG--------FFSTLVPVVVETLGDAFPELKRDPQHVIDIINEEEAQFLKTLDRGRKLFDRVAR----ELG 387 (895)
T ss_pred HHHHHhCCCcc--------hhhhhhHHHHHHHhhhchhhhcCHHHHHHHhcHHHHHHHHHHHHHHHHHHHHHH----hcC
Confidence 9986 999988 999999999999999999999999999999999999999999999999999998 654
Q ss_pred cCCCCCCCChHHHHHHHhhcCCChhhHHHHHHHcCCccChhhHHHHHHHHHHHHHHhhcccccccCChhHHhhhCCCCc-
Q 004997 433 ESGSVPRLSGQDAFLLYDTFGFPVEITKEVAEEHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVDDSADLAEKIPDTE- 511 (720)
Q Consensus 433 ~~g~~~~l~g~~af~LyDTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~qk~~sr~~~~~~~~~~~~~~~l~~~~~~T~- 511 (720)
++ ++|||++||+||||||||+|||++||+|+|+.||+++|+++.++.+++|+++...... . ..+.+.+.+|+|.
T Consensus 388 ~s---~tipGd~~w~LydTyGfPvdlt~lmAee~gl~iD~~~fE~ar~~A~~~Sk~~~~~~~~-i-~ldvl~el~p~TdD 462 (895)
T KOG0188|consen 388 SS---KTIPGDVAWRLYDTYGFPVDLTELMAEEKGLKIDETGFEAARQEAQEKSKGAGGGKLS-I-DLDVLSELVPPTDD 462 (895)
T ss_pred CC---CcCchHHHHHHHhhcCCcHHHHHHHHHHhCCccCchhHHHHHHHHHHHHhccCCCCCc-c-cHHHHHhhCCCCCC
Confidence 42 6899999999999999999999999999999999999999999999999876543211 1 1222434358874
Q ss_pred cccc-cccccceEEEEEEeCCeeeeeecCCCeEEEEecCcceecCCCCCCCCeEEEEeCCCcccccceEEEEEEEEecCC
Q 004997 512 FLGY-DTLSAKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLGS 590 (720)
Q Consensus 512 f~gY-~~~~~~akVl~i~~~~~~v~~~~~g~~~~VvLD~T~FYpEgGGQ~~D~G~I~~~~~~~~~~~~~~V~dV~k~~~g 590 (720)
...| ....++++|+++..++..|++++.|++..||||+|+||+|+|||.+|+|.|...+. +.-.+.|..++. +|
T Consensus 463 s~KY~~~~~~~~~il~l~~e~~~v~~~~~g~~~givldktnFYaEqGGQ~~D~G~lv~~~~---~~~~fnV~~~~~--gg 537 (895)
T KOG0188|consen 463 SFKYNEFGVCKTRILALYREDQFVESIPKGQECGIVLDKTNFYAEQGGQIYDTGKLVIDGD---EDFVFNVKRVQV--GG 537 (895)
T ss_pred ccccccCccchhhhhhhhcCCceeeecCCCceEEEEeecceeehhcCCcccccceEEEecC---ccceeehhhccc--CC
Confidence 4467 66789999999999999999999999999999999999999999999999998765 112566666665 69
Q ss_pred EEEEEEEeeccccCCCCEEEEEEchhhhhhHhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHH
Q 004997 591 VFVHKGTIREGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTEL 670 (720)
Q Consensus 591 ~ivH~~~~~~g~l~~Gd~V~~~VD~~rR~~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel 670 (720)
+|+|.+.. .+.+++|++|.+.+|.+||+.+|+||||||||++|||+++ ..+.|+||+|.||++||||++.++||.||+
T Consensus 538 ~vvh~g~l-~~~l~vgdqv~~~~De~rR~~im~nHTaTHlLN~aLr~~l-~~t~QkGSlV~pdklRfDf~~k~~lt~eql 615 (895)
T KOG0188|consen 538 YVVHIGVL-EGDLSVGDQVELHVDEERRQLIMRNHTATHLLNFALRQVL-KGTDQKGSLVAPDKLRFDFSTKGALTKEQL 615 (895)
T ss_pred EEEEEeee-ccccccchhHHHHhhHHHHHHHhhcchHHHHHHHHHHHhc-ccccccccccChhHeeeecccCCCCCHHHH
Confidence 99999987 4899999999999999999999999999999999999999 458999999999999999999989999999
Q ss_pred HHHHHHHHHHHhcCCCEEEEEcCHHHHHhc-CcccccCCcCCCceEEEec
Q 004997 671 EEIERLINGWIGDANLLQTKVMALDDAKRA-GAIAMFGEKYGEQVKISSK 719 (720)
Q Consensus 671 ~~IE~~vNe~I~~~~pV~~~~~~~eeA~~~-g~~alf~eky~d~VRVV~~ 719 (720)
+++|+.+|++|.++.+|.+..+|+++|++. |++++|+|.|||+||||+.
T Consensus 616 ~~vE~~~ne~I~~~~~V~~~e~~l~~ak~i~glr~v~~E~YPdpVRVVsv 665 (895)
T KOG0188|consen 616 KKVEDKINEFIQKNAPVYAKELPLAEAKKIPGLRAVFDEVYPDPVRVVSV 665 (895)
T ss_pred HHHHHHHHHHHhcCCceEEEecCHHHHhcCCCcccccCCccCCceEEEEe
Confidence 999999999999999999999999999998 8999999999999999974
No 6
>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=7.1e-187 Score=1642.46 Aligned_cols=615 Identities=31% Similarity=0.521 Sum_probs=562.1
Q ss_pred CCcccccceeeeccCCcccccCcccccCCCchhhcccCCCCCCChHHHHHHHHHHHhhCCCeeecCccCcC-CCCcccee
Q 004997 6 PSILPCGHFLFKGATGVPSARSTSASVQPLTEEVEDKSQDFPSSGDSIRKRFLDFYASRGHKVLPSASLVP-EDPTVLLT 84 (720)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp-~DptllFt 84 (720)
+.|-.||.+|||.+.-++.|.+.+-+.= .=--.+...++||++|||++||+||+++||++|||||||| .|++||||
T Consensus 17 ~~c~~c~~~fwt~~~~r~~cgd~~c~~y---~fi~~~~~~~~~~~~eiR~~fl~FF~~~gH~~v~s~pvvprw~dDllft 93 (902)
T TIGR03683 17 KQCQVCGSYFWTLDPERETCGDAPCDEY---SFIGNPIFSKKYTLDEMREAFLSFFEKHGHTRIKRYPVVARWRDDVYLT 93 (902)
T ss_pred eECcccCCccccCCCCcCCCCCCCCccc---eecCCCCcCCCCCHHHHHHHHHHHHHhCCCEEeCCcCcCcCCCCCeeEe
Confidence 5799999999999999999998665541 0011122345799999999999999999999999999999 36679999
Q ss_pred cccccCcccccc-cCCCCCCCCcccccCcccCCCccccCCCCCcccccccccCCccC-----cccHHHHHHHHHHHhhcc
Q 004997 85 IAGMLQFKPIFL-GKVPRQVPRAATSQRCIRTNDVENVGRTSRHHTFFEMLGNFSFG-----DYFKKEAIQWAWEFSTVE 158 (720)
Q Consensus 85 nAGM~qFkp~fl-G~~~p~~~r~~~~QkCiR~nDld~VG~t~rHhTfFEMLGn~SFg-----dYfK~eai~~awe~Lt~~ 158 (720)
||||+||||||+ |.++||++|+|+||||||+|||||||+|+||||||||||||||| ||||+|||+|||||| ++
T Consensus 94 ~Agm~~Fkp~f~~G~~~pp~~r~~~sQkCiR~nDldnVG~t~rH~TfFEMlGn~sFg~~~~~dYfK~EaI~~a~e~l-~~ 172 (902)
T TIGR03683 94 IASIADFQPWVTSGLVPPPANPLVISQPCIRLNDIDNVGRTGRHLTCFEMMAHHAFNYPDKEIYWKDETVEYCFEFL-EE 172 (902)
T ss_pred ecchhhhhHhhcCCCCCCCCCCceeccccccccccccccCCCCcchhhhhccceeeCCCCcccCcHHHHHHHHHHHH-HH
Confidence 999999999998 99999999999999999999999999999999999999999999 999999999999999 99
Q ss_pred cCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccCCCCCCCCCCceEEEeecCCCCCCCCCCCCCCCceE
Q 004997 159 FGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFI 238 (720)
Q Consensus 159 l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~~G~~GpcGPcsEI~yd~g~~~~~~~~~~~~~~r~l 238 (720)
||||++||. .+||||+|| ||||||||||| +| |
T Consensus 173 lgi~~~~i~-----------------------------~~enfW~~G--GpcGPcsEi~~-~g----------------l 204 (902)
T TIGR03683 173 LGIDPEEIT-----------------------------YKESPWEGG--GNAGPCFEVIV-GG----------------L 204 (902)
T ss_pred cCCCHHHee-----------------------------ecCCccCCC--CCCCCceeeee-Cc----------------E
Confidence 999888863 168999999 99999999999 32 9
Q ss_pred EEeeeecccccccC-------CCccccCccCcccccchHHHHHHHHhcCCCcccccccHHHHHHHHHHhCCCccCCc---
Q 004997 239 EFYNLVFMQYNKKD-------DGSLEPLKQKNIDTGLGLERIARILQKVPNNYETDLIFPIIKKASELANVSYAQSN--- 308 (720)
Q Consensus 239 EiwNlVFmq~~r~~-------dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s~ydtD~F~p~i~~i~~~~g~~y~~~~--- 308 (720)
||||||||||+|++ ||+|+|||+||||||||||||+||+||+|||||| +|.|||++|++++|++|..+.
T Consensus 205 EiwnlVFmq~~~~~~~~~~~~~g~~~~Lp~k~VDTG~GLER~~~v~qg~~t~ydt-~f~~ii~~i~~~~g~~y~~~~~~~ 283 (902)
T TIGR03683 205 ELATLVFMQYEEDKEGEIEIKGGRYSEMPLKIVDTGYGLERFVWASQGTPTAYDA-IFPEIVDKLKENAGVELIDEEILA 283 (902)
T ss_pred eeeeeeeeeeccccccccccCCCeeeeCCCCceecCCCHHHHHHHHcCCCchHHH-HHHHHHHHHHHHhCCCcccchhhh
Confidence 99999999999998 9999999999999999999999999999999999 999999999999999875320
Q ss_pred ------------cc--------------------------cccceEEeehhhhhHHHhhhCCCccCCCCCchHHHHHHHH
Q 004997 309 ------------DR--------------------------TNLNLKIIGDHLRAIVYLLSDGVFPSNIGRGYVVRRLIRR 350 (720)
Q Consensus 309 ------------~~--------------------------~~~~~rviaDH~R~~~~~i~DGv~Psn~grGYvlRrilRR 350 (720)
+. +..++||||||+||++|||+||++|||+||||||||||||
T Consensus 284 ~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~rvIaDH~R~~~f~i~DGv~PsN~grGYvlRrilRR 363 (902)
T TIGR03683 284 ENARLAGMMDIEDEEDLRELRKKVADKIGIDVEELEKIIAPVERIYAIADHTRCLAFMLGDGIVPSNVKEGYLARLVIRR 363 (902)
T ss_pred hhhhhccccCccccchhhHHhhhhhhhcccchhhhhhhccccceEEEEcchHHHHHHHHhcCCccCCCCcchHHHHHHHH
Confidence 00 1258999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCCCCCCCccccchHHHHHHHHHHhccCChhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 004997 351 AVRTGRLLGIKGDGRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQMLADALSR 430 (720)
Q Consensus 351 A~r~~~~lg~~~~~~~~~~~~fl~~Lv~~vi~~m~~~YPeL~~~~~~I~~vi~~EE~~F~~tL~~G~~~l~~~i~~~~~~ 430 (720)
|+|++++||++.| |++||+.|++.|++.||||.++++.|++||+.||++|.+||++|+++|+++++ +
T Consensus 364 a~r~~~~lg~~~~---------l~~lv~~~~~~~~~~ypel~~~~~~I~~ii~~Ee~~f~~Tl~~G~~~~~~~~~----~ 430 (902)
T TIGR03683 364 TLRLMRELGLDIP---------LSDLVEMQLEELKKIYPELKENKDYILDILDLEEEKYRETLERGRRIVERLLK----T 430 (902)
T ss_pred HHHHHHHhCCCcc---------HHHHHHHHHHHHhhhChhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----c
Confidence 9999999999988 99999999999999999999999999999999999999999999999999997 2
Q ss_pred hhcCCCCCCCChHHHHHHHhhcCCChhhHHHHHHHcCCccChh-hHHHHHHHHHHHHHHhhcccccccCChhHHhhhCCC
Q 004997 431 TRESGSVPRLSGQDAFLLYDTFGFPVEITKEVAEEHGVSVDMK-GFDIEMENQRRQSQAAHNAVKLSVDDSADLAEKIPD 509 (720)
Q Consensus 431 ~~~~g~~~~l~g~~af~LyDTyGfP~dlt~~ia~e~gl~vD~~-~F~~~m~~qk~~sr~~~~~~~~~~~~~~~l~~~~~~ 509 (720)
+ ++|||++||+||||||||+|||++||+|+|++||++ +|+++|++||++|+++... ... .......+++
T Consensus 431 ----~--~~i~g~~~f~LyDTyGfP~dl~~eia~e~g~~vd~~~~F~~~~~~~~~~~~~~~~~-~~~---~~~~~~~~~~ 500 (902)
T TIGR03683 431 ----K--KEIPLDDLIELYDSHGIPPEIVKEIAAELGAEVEIPDNFYSIVAERHEKEEKEEEL-PKD---YEERAKDLPE 500 (902)
T ss_pred ----C--CcCCHHHHHHHHHccCCCHHHHHHHHHHcCCcccCCccHHHHHHHHHHHHHhcccc-ccc---hhHHHhcCCC
Confidence 2 479999999999999999999999999999999998 9999999999999875321 111 1122234688
Q ss_pred Cccccccc---cccceEEEEEEeCCeeeeeecCCCeEEEEecCcceecCCCCCCCCeEEEEeCCCcccccceEEEEEEEE
Q 004997 510 TEFLGYDT---LSAKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKK 586 (720)
Q Consensus 510 T~f~gY~~---~~~~akVl~i~~~~~~v~~~~~g~~~~VvLD~T~FYpEgGGQ~~D~G~I~~~~~~~~~~~~~~V~dV~k 586 (720)
|+++||++ .+++|+|+++.. .+|+||+|+|||||||||+|+|+|..+++ .++|.+|++
T Consensus 501 T~~l~y~~~~~~e~~a~Vl~i~~-------------~~vvLd~T~FYpEgGGQ~~D~G~I~~~~~------~~~V~dv~k 561 (902)
T TIGR03683 501 TRRLFYEDPTMREFEAKVLGVFD-------------NYVVLDQTAFYPEGGGQPADTGYLITNGG------KIRVVDVQK 561 (902)
T ss_pred ceEeccccCccceEEEEEEEEEc-------------CEEEEeCCCCCCCCCCCCCCEEEEEeCCc------EEEEEEEEE
Confidence 99999999 688999999973 27999999999999999999999987776 799999999
Q ss_pred ecCCEEEEEEEeeccccCCCCEEEEEEchhhhhhHhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCC
Q 004997 587 SLGSVFVHKGTIREGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLL 666 (720)
Q Consensus 587 ~~~g~ivH~~~~~~g~l~~Gd~V~~~VD~~rR~~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt 666 (720)
. +|.++|+++ .+.+++|++|.++|||+||+.+|+||||||||++||+++||.|++|+||+++++++||||+|++++|
T Consensus 562 ~-~g~i~H~~~--~~~l~~G~~V~~~VD~~rR~~~m~~HTAtHLL~~alr~vlG~~v~q~Gs~v~~d~~r~Df~~~~~lt 638 (902)
T TIGR03683 562 V-GGVIVHKVD--GEGIKEGDEVKGEIDWERRLRLMRHHTATHVLLAAARRVLGRHVWQAGAQKDTDKARLDITHYKRIS 638 (902)
T ss_pred E-CCEEEEEeC--CCCCCCCCEEEEEECHHHHHHHHHHHHHHHHHHHHHHHHhCCceeecCccccCCcEEEEEeCCCCCC
Confidence 7 899999996 2448999999999999999999999999999999999999999999999999999999999998999
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEEEcCHHHHHhcCccccc--CCcCCCceEEEe
Q 004997 667 DTELEEIERLINGWIGDANLLQTKVMALDDAKRAGAIAMF--GEKYGEQVKISS 718 (720)
Q Consensus 667 ~eel~~IE~~vNe~I~~~~pV~~~~~~~eeA~~~g~~alf--~eky~d~VRVV~ 718 (720)
++++++||+.||++|++|+||++.+++++||++.+++++| +++|++.||||+
T Consensus 639 ~eel~~IE~~vN~~I~~n~pV~~~~~~~~eA~~~~~~~l~~~~~~~~~~VRVV~ 692 (902)
T TIGR03683 639 EEEIKEIERLANRIVMENRPVSVKWMDRNEAEQKYGFRLYQGGVPPGREIRVVE 692 (902)
T ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEeCHHHHHhcCchhhhccCCCCCCeEEEEE
Confidence 9999999999999999999999999999999999888888 789999999996
No 7
>PRK13902 alaS alanyl-tRNA synthetase; Provisional
Probab=100.00 E-value=2.4e-186 Score=1637.60 Aligned_cols=611 Identities=31% Similarity=0.508 Sum_probs=561.1
Q ss_pred CCcccccceeeeccCCcccccCccccc----CCCchhhcccCCCCCCChHHHHHHHHHHHhhCCCeeecCccCcC-CCCc
Q 004997 6 PSILPCGHFLFKGATGVPSARSTSASV----QPLTEEVEDKSQDFPSSGDSIRKRFLDFYASRGHKVLPSASLVP-EDPT 80 (720)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp-~Dpt 80 (720)
+.|-.||.+||+.+.-|+.|.+.+-+. +.|+. .++||++|||++||+||++|||++|||||||| .+++
T Consensus 20 ~~c~~cg~~fwt~~~~r~~cgd~pc~~y~fi~~~~~-------~~~~~~~eiR~~Fl~FF~~~gH~~v~s~pvvprw~dD 92 (900)
T PRK13902 20 KQCKKCGSYFWTLDPDRETCGDAPCDEYSFIGNPIF-------SKKYTLKEMREKFLSFFEKHGHTRIERYPVVARWRDD 92 (900)
T ss_pred eECCccCCceecCCCCcCCCCCCCCccceecCCCCc-------CCCCCHHHHHHHHHHHHHhCCCEEcCCcCcCCCCCCC
Confidence 579999999999999999999976664 33332 34799999999999999999999999999999 3667
Q ss_pred cceecccccCcccccc-cCCCCCCCCcccccCcccCCCccccCCCCCcccccccccCCccC-----cccHHHHHHHHHHH
Q 004997 81 VLLTIAGMLQFKPIFL-GKVPRQVPRAATSQRCIRTNDVENVGRTSRHHTFFEMLGNFSFG-----DYFKKEAIQWAWEF 154 (720)
Q Consensus 81 llFtnAGM~qFkp~fl-G~~~p~~~r~~~~QkCiR~nDld~VG~t~rHhTfFEMLGn~SFg-----dYfK~eai~~awe~ 154 (720)
||||||||+||||||+ |.++||++|+|+||||||+|||||||+|+||||||||||||||| ||||+|||+|||||
T Consensus 93 llft~Agm~~Fkp~f~~G~~~pp~~~~~~sQ~CiR~nDldnVG~t~rH~T~FEMlGn~sFg~~~~~~YfK~eaI~~a~e~ 172 (900)
T PRK13902 93 VYLTIASIYDFQPWVTSGLVPPPANPLVISQPCIRLNDIDNVGRTGRHLTSFEMMAHHAFNYPDKEVYWKDETVEYCFEF 172 (900)
T ss_pred eeeeecchhhhhHHhcCCCCCCCCCCceecccccchhhhhhccccCCchhhhhhccceeeCCCCcccccHHHHHHHHHHH
Confidence 9999999999999998 99999999999999999999999999999999999999999999 99999999999999
Q ss_pred hhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccCCCCCCCCCCceEEEeecCCCCCCCCCCCCCC
Q 004997 155 STVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSGATGPCGPCSEIYYDFHPDRGCSDVDLGDD 234 (720)
Q Consensus 155 Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~~G~~GpcGPcsEI~yd~g~~~~~~~~~~~~~ 234 (720)
||++|||||+||+ .+||||+|| ||||||||||| +
T Consensus 173 lt~~lgi~~~~I~-----------------------------~~enfW~~G--GpcGPcsEi~~-~-------------- 206 (900)
T PRK13902 173 FTKELGIDPEEIT-----------------------------FKESWWEGG--GNAGPCFEVLV-R-------------- 206 (900)
T ss_pred HHhhcCCCHHHee-----------------------------ecccccCCC--CCCCCceeeee-C--------------
Confidence 9999999998753 168999999 99999999999 3
Q ss_pred CceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcCCCcccccccHHHHHHHHHHhCCCccC--------
Q 004997 235 TRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNNYETDLIFPIIKKASELANVSYAQ-------- 306 (720)
Q Consensus 235 ~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s~ydtD~F~p~i~~i~~~~g~~y~~-------- 306 (720)
.|||||||||||+++ +|+|+|||+||||||||||||+||+||+|||||| +|.|||+.|++++|++|+.
T Consensus 207 --glEiwnlVFmqy~~~-~g~~~~Lp~k~VDTG~GLER~~~v~qg~~t~ydt-~f~~ii~~i~~~~g~~~~~~~~~~~~~ 282 (900)
T PRK13902 207 --GLELATLVFMQYKKD-GNRYVEMPLKIVDTGYGLERIAWASQGTPTAYDA-IFGELVDKLKENAGVEEPDEEILAEAA 282 (900)
T ss_pred --CEEeeeeeeeEEEcC-CCeeeeCCCCeeeCCcCHHHHHHHHcCCCchHHH-HHHHHHHHHHHHhCCCcccchhhhhhh
Confidence 299999999999998 9999999999999999999999999999999999 9999999999999999853
Q ss_pred ------C--c-c------------------------ccccceEEeehhhhhHHHhhhCCCccCCCCCchHHHHHHHHHHH
Q 004997 307 ------S--N-D------------------------RTNLNLKIIGDHLRAIVYLLSDGVFPSNIGRGYVVRRLIRRAVR 353 (720)
Q Consensus 307 ------~--~-~------------------------~~~~~~rviaDH~R~~~~~i~DGv~Psn~grGYvlRrilRRA~r 353 (720)
+ . . .+..++|+||||+||++|||+||++|||+|||||||||||||+|
T Consensus 283 ~~~g~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~vIaDH~R~~~f~i~DGv~PsN~grGYvlRrilRRa~r 362 (900)
T PRK13902 283 RLAGLMDIEEIEDLRSLRQKVAKKLGIDVEELEELLEPLEAIYAIADHTRTLAFMLGDGIVPSNVGEGYLARLVIRRTLR 362 (900)
T ss_pred hhcccCCcccchhHHHHHHHHHhhcccchhhhhhhccccceEEEEecHHHHHHHHHhCCCcCCCCCcchHHHHHHHHHHH
Confidence 1 1 0 01269999999999999999999999999999999999999999
Q ss_pred HHHHhCCCCCCCCCccccchHHHHHHHHHHhccCChhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 004997 354 TGRLLGIKGDGRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQMLADALSRTRE 433 (720)
Q Consensus 354 ~~~~lg~~~~~~~~~~~~fl~~Lv~~vi~~m~~~YPeL~~~~~~I~~vi~~EE~~F~~tL~~G~~~l~~~i~~~~~~~~~ 433 (720)
++++||++.| |++||+.|++.|++.||||.++++.|++||+.||++|.+||++|.++|+++++ ++
T Consensus 363 ~~~~lg~~~~---------l~~lv~~~~~~~~~~ypel~~~~~~I~~ii~~Ee~~f~~tl~~G~~~~~~~~~----~~-- 427 (900)
T PRK13902 363 LLDELGLDVP---------LSELVDMQIDELKEDYPELKENRDYILDIVDLEEEKYRETLERGKRIVERLAK----KK-- 427 (900)
T ss_pred HHHHhCCCcc---------HHHHHHHHHHHHhhhChhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----hc--
Confidence 9999999988 99999999999999999999999999999999999999999999999999997 32
Q ss_pred CCCCCCCChHHHHHHHhhcCCChhhHHHHHHHcCCccCh-hhHHHHHHHHHHHHHHhhcccccccCChhHHhhhCCCCcc
Q 004997 434 SGSVPRLSGQDAFLLYDTFGFPVEITKEVAEEHGVSVDM-KGFDIEMENQRRQSQAAHNAVKLSVDDSADLAEKIPDTEF 512 (720)
Q Consensus 434 ~g~~~~l~g~~af~LyDTyGfP~dlt~~ia~e~gl~vD~-~~F~~~m~~qk~~sr~~~~~~~~~~~~~~~l~~~~~~T~f 512 (720)
++|||++||+||||||||+|||++||+++|++||+ ++|+++|++|+++|+++... ... .......+++|++
T Consensus 428 ----~~l~g~~~f~LYDt~G~P~dl~~eia~e~g~~vd~p~~F~~~~~~~~~~~~~~~~~-~~~---~~~~~~~~~~T~~ 499 (900)
T PRK13902 428 ----EEIPLDDLIELYDSHGIPPEIVKEIAKKKGVEVEVPDNFYSLVAERHEKAEEEEEE-PVV---EEERLKDLPETEK 499 (900)
T ss_pred ----CCCCHHHHhhhhhcCCCCHHHHHHHHHHcCCccCchhhHHHHHHHHHHHHhhcccc-ccc---hhhHhhcCCCceE
Confidence 26999999999999999999999999999999999 89999999999999874211 011 1111234688999
Q ss_pred ccccc---cccceEEEEEEeCCeeeeeecCCCeEEEEecCcceecCCCCCCCCeEEEEeCCCcccccceEEEEEEEEecC
Q 004997 513 LGYDT---LSAKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLG 589 (720)
Q Consensus 513 ~gY~~---~~~~akVl~i~~~~~~v~~~~~g~~~~VvLD~T~FYpEgGGQ~~D~G~I~~~~~~~~~~~~~~V~dV~k~~~ 589 (720)
+||++ .+++|+|+++.. .+|+||+|+|||||||||+|+|+|..++. .++|.+|++. +
T Consensus 500 l~y~~~~~~~~~a~Vl~i~~-------------~~vvLD~T~FYpEgGGQ~~D~G~I~~~~~------~~~V~dv~k~-~ 559 (900)
T PRK13902 500 LFYEDPYMREFEAKVLGVID-------------NYVVLDQTAFYPEGGGQPADTGVLIVDGK------GYKVVDVQKV-G 559 (900)
T ss_pred eccccCccceEEEEEEEEEc-------------CEEEEeCCCCCCCCCCCCCCEEEEEeCCc------EEEEEEEEEE-C
Confidence 99999 678999999973 27999999999999999999999987766 7999999997 8
Q ss_pred CEEEEEEEeeccccCCCCEEEEEEchhhhhhHhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHH
Q 004997 590 SVFVHKGTIREGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTE 669 (720)
Q Consensus 590 g~ivH~~~~~~g~l~~Gd~V~~~VD~~rR~~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~ee 669 (720)
|.++|.+.. +.+.+|++|.++|||+||+.+|+||||||||++||+++||.|++|+||+++++++||||+|++++|+++
T Consensus 560 g~i~H~~~~--~~~~~G~~V~~~VD~~rR~~~mr~HTAtHLL~~al~~vlG~~v~q~Gs~v~~d~~r~Df~~~~~lt~ee 637 (900)
T PRK13902 560 GVIVHVLEG--EPPKKGDEVRGEIDWERRYRLMRHHTATHIILAAARKVLGDHVWQAGAQKTVDKARLDITHYKRITREE 637 (900)
T ss_pred CEEEEEeCC--CCCCCCCEEEEEECHHHHHHHHHHHHHHHHHHHHHHHHhCCceeecCccccCCCEEEEEeCCCCCCHHH
Confidence 999999852 445669999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCCCEEEEEcCHHHHHhcCccccc--CCcCCCceEEEe
Q 004997 670 LEEIERLINGWIGDANLLQTKVMALDDAKRAGAIAMF--GEKYGEQVKISS 718 (720)
Q Consensus 670 l~~IE~~vNe~I~~~~pV~~~~~~~eeA~~~g~~alf--~eky~d~VRVV~ 718 (720)
+++||+.||++|++|+||++.+++++||++.+++++| +++|++.||||+
T Consensus 638 l~~IE~~vN~~I~~n~pV~~~~~~~~eA~~~~~~~l~~~g~~~~~~VRVV~ 688 (900)
T PRK13902 638 VKEIERLANEIVMENRPVKVEWMDRNEAEQKYGFRLYQGGVPPGKTIRVVE 688 (900)
T ss_pred HHHHHHHHHHHHHcCCCEEEEecCHHHHHhccchhhhccCCCCCCeEEEEE
Confidence 9999999999999999999999999999999888888 789999999997
No 8
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=100.00 E-value=4.8e-186 Score=1562.98 Aligned_cols=536 Identities=39% Similarity=0.737 Sum_probs=505.0
Q ss_pred CChHHHHHHHHHHHhhCCCeeecCccCcC-CCCccceecccccCcccccccCCCCCCCCcccccCcccCCCccccCCCCC
Q 004997 48 SSGDSIRKRFLDFYASRGHKVLPSASLVP-EDPTVLLTIAGMLQFKPIFLGKVPRQVPRAATSQRCIRTNDVENVGRTSR 126 (720)
Q Consensus 48 ~~~~eiR~~Fl~fF~~~gH~~v~ssslvp-~DptllFtnAGM~qFkp~flG~~~p~~~r~~~~QkCiR~nDld~VG~t~r 126 (720)
||++|||++||+||++|||+++||||||| +|||||||||||+||||||+|.++||++|+||||||||+||||||| |+|
T Consensus 1 ~~~~eiR~~fl~FF~~kgH~~~~s~slvp~~d~tllftnAGm~~fk~~f~G~~~p~~~r~~~~QkCiR~~Dle~VG-~~r 79 (594)
T PRK01584 1 MTLDELRKKYIDFFKSKGHVEIAGKSLIPENDPTVLFTTAGMHPLVPYLLGEPHPSGTRLVDVQKCLRTGDIDEVG-DLS 79 (594)
T ss_pred CCHHHHHHHHHHHHHhCCCEEcCCCCcCCCCCCCeeeeccchhhhhHHhcCCCCCCCCCccccccccccccccccC-CCc
Confidence 78999999999999999999999999999 7999999999999999999999999999999999999999999999 899
Q ss_pred cccccccccCCccCcccHHHHHHHHHHHhhcc--cCCCCCceEEEEeCC------hHHHHHHHHHhcCCCCCceeccCCC
Q 004997 127 HHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVE--FGLPANRLWISVYED------DDEAFEIWNKEVGVPVEHIKRMGAD 198 (720)
Q Consensus 127 HhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~--l~i~~~rL~vTv~~~------D~e~~~iW~~~~g~~~~rI~~~~~~ 198 (720)
||||||||||||||||||+|||+|||||||++ |||||+|||||||++ |+||++||++ +|||++||++++.+
T Consensus 80 HhTfFEMlGnfSfgdYfK~eai~~awe~lt~~~~l~l~~~rl~vTv~~~~~~~~~D~Ea~~iW~~-~g~~~~rI~~~~~~ 158 (594)
T PRK01584 80 HLTFFEMLGNWSLGAYFKEESIKYSFEFLTSPDYLNIPKDKLYVTVFEGDEEIPRDEETASVWES-LGIPKDRIFYLSRE 158 (594)
T ss_pred chhHHHhhccccHhhhhHHHHHHHHHHHhccchhcCCCHHHeEEEEeCCCCCCCCCHHHHHHHHH-cCCCHHHeeeCCCC
Confidence 99999999999999999999999999999998 999999999999998 9999999999 99999999999999
Q ss_pred CCcc-CCCCCCCCCCceEEEeecCCCCCCCCC--CCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHH
Q 004997 199 DNFW-NSGATGPCGPCSEIYYDFHPDRGCSDV--DLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIAR 275 (720)
Q Consensus 199 dNfW-~~G~~GpcGPcsEI~yd~g~~~~~~~~--~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~ 275 (720)
|||| +||++||||||||||||+|+. ++... +.++|+|||||||||||||||++||+|+|||+||||||||||||+|
T Consensus 159 dNfW~~~G~~GPCGPcsEI~~d~g~~-~~~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~Lp~k~IDTGmGLERl~~ 237 (594)
T PRK01584 159 HNWWGPVGETGPCGPDTEIFVDTGKP-KCSVNCRPTCSCGKYFEIWNNVFMQYNKDEDGNYEELKRKCVDTGMGIERTIA 237 (594)
T ss_pred CCcccccCCCcCCCCceEEEEecCCc-ccccccCCCCCCCceEEEeeeeeeeeeecCCCccccCCCCceeCCcCHHHHHH
Confidence 9999 899999999999999999977 44322 1247899999999999999999999999999999999999999999
Q ss_pred HHhcCCCcccccccHHHHHHHHHHhCCCccCCccccccceEEeehhhhhHHHhhhC--CCccCCCCCchHHHHHHHHHHH
Q 004997 276 ILQKVPNNYETDLIFPIIKKASELANVSYAQSNDRTNLNLKIIGDHLRAIVYLLSD--GVFPSNIGRGYVVRRLIRRAVR 353 (720)
Q Consensus 276 vlqg~~s~ydtD~F~p~i~~i~~~~g~~y~~~~~~~~~~~rviaDH~R~~~~~i~D--Gv~Psn~grGYvlRrilRRA~r 353 (720)
||||++||||||+|.|||++|++++|++|+.+. ..++|+||||||+||++|||+| |++|||+|||||||||||||+|
T Consensus 238 vlqg~~s~ydtdlf~pii~~i~~~~~~~y~~~~-~~~~a~rvIaDH~R~~~f~i~D~~Gv~PsN~grGYvlRrilRRa~r 316 (594)
T PRK01584 238 FLQGKSSVYDTEAFTPIIKRIEKISGKIYGQNE-EDDRSIRIIADHIRAACFILGDPFVVLPSNVGQGYVLRRLIRRSIR 316 (594)
T ss_pred HHcCCCCccchhhhHHHHHHHHHHhCCCcCCCC-CCceeEEEEecHHHHHHHHhhcccCCCCCCCCCchHHHHHHHHHHH
Confidence 999999999999999999999999999997543 5678999999999999999999 9999999999999999999999
Q ss_pred HHHHhCCCCCCCCCccccchHHHHHHHHHHhccCChhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 004997 354 TGRLLGIKGDGRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQMLADALSRTRE 433 (720)
Q Consensus 354 ~~~~lg~~~~~~~~~~~~fl~~Lv~~vi~~m~~~YPeL~~~~~~I~~vi~~EE~~F~~tL~~G~~~l~~~i~~~~~~~~~ 433 (720)
++++||++.+ ||++||+.|++.|+++||||.++++.|++||+.||++|.+||++|+++|+++|+ ++++
T Consensus 317 ~~~~lg~~~~--------fl~~lv~~v~~~~~~~ypel~~~~~~I~~ii~~EE~~F~~tl~~G~~~l~~~i~----~~~~ 384 (594)
T PRK01584 317 HAKKLGIESH--------FLADLVDSVEEIYGSFYPELTEKKDFIKEELNKEEEKFFKTLRKGEQEFIKLIP----NLGS 384 (594)
T ss_pred HHHHhCCCch--------hHHHHHHHHHHHHhhhChHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----Hhcc
Confidence 9999999999 999999999999999999999999999999999999999999999999999998 5542
Q ss_pred CCCCCCCChHHHHHHHhhcCCChhhHHHHHHHcCCccChhhHHHHHHHHHHHHHHhhcccccccCChhHHhhhCCCCccc
Q 004997 434 SGSVPRLSGQDAFLLYDTFGFPVEITKEVAEEHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVDDSADLAEKIPDTEFL 513 (720)
Q Consensus 434 ~g~~~~l~g~~af~LyDTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~qk~~sr~~~~~~~~~~~~~~~l~~~~~~T~f~ 513 (720)
+ ++|||++||+||||||||+|||++||+|+|++||+++|+++|++||++||++. . .+|.
T Consensus 385 -~--~~~~g~~af~LydTyGfP~dlt~~~a~e~g~~vd~~~f~~~~~~~~~~~~~~~--------------~----~~f~ 443 (594)
T PRK01584 385 -S--KIIPGDIAFKLYDTYGFPYEITEELASEYGFTVDREGFDEHFKKHQKVSKKGA--------------D----KVFK 443 (594)
T ss_pred -C--CccCHHHHHhhhccCCCCHHHHHHHHHHcCCeecHHHHHHHHHHHHHHHhhcc--------------c----cccc
Confidence 3 57999999999999999999999999999999999999999999998887520 0 0110
Q ss_pred cccccccceEEEEEEeCCeeeeeecCCCeEEEEecCcceecCCCCCCCCeEEEEeCCCcccccceEEEEEEEEecCCEEE
Q 004997 514 GYDTLSAKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLGSVFV 593 (720)
Q Consensus 514 gY~~~~~~akVl~i~~~~~~v~~~~~g~~~~VvLD~T~FYpEgGGQ~~D~G~I~~~~~~~~~~~~~~V~dV~k~~~g~iv 593 (720)
||++|+|.
T Consensus 444 --------------------------------------------g~~~d~g~---------------------------- 451 (594)
T PRK01584 444 --------------------------------------------GGLADHSY---------------------------- 451 (594)
T ss_pred --------------------------------------------CCcCcccc----------------------------
Confidence 35666542
Q ss_pred EEEEeeccccCCCCEEEEEEchhhhhhHhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHH
Q 004997 594 HKGTIREGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEI 673 (720)
Q Consensus 594 H~~~~~~g~l~~Gd~V~~~VD~~rR~~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~I 673 (720)
.+|++|||+|||++||+++||.++.|+||++.++++||||++++++|++++++|
T Consensus 452 --------------------------~~~r~HTAtHLL~~ALr~vlG~~v~q~Gs~v~~d~~r~DF~~~~~it~edL~~I 505 (594)
T PRK01584 452 --------------------------ETTKLHTATHLLHKALRLVLGDHVRQKGSNITAERLRFDFSHPEKMTDDEIKKV 505 (594)
T ss_pred --------------------------cHHHHHHHHHHHHHHHHHHcCccceeecCCcCCCcEEEEEeCCCCCCHHHHHHH
Confidence 489999999999999999999999999999999999999999989999999999
Q ss_pred HHHHHHHHhcCCCEEEEEcCHHHHHhcCcccccCCcCCCceEEEe
Q 004997 674 ERLINGWIGDANLLQTKVMALDDAKRAGAIAMFGEKYGEQVKISS 718 (720)
Q Consensus 674 E~~vNe~I~~~~pV~~~~~~~eeA~~~g~~alf~eky~d~VRVV~ 718 (720)
|+.||++|++++||++.+++++||++.+++++|+++|++.||||+
T Consensus 506 E~~vNeiI~~n~pV~~~~~s~eEA~~~~~~~lf~e~y~~~VRVV~ 550 (594)
T PRK01584 506 EDIVNLQIKNDLSVKKEVMSLEEAREKGAMALFGEKYEDIVKVYE 550 (594)
T ss_pred HHHHHHHHHhCCCeEEEEcCHHHHHhcchhhhccccCCCcEEEEE
Confidence 999999999999999999999999999999999999999999986
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=6.2e-178 Score=1505.63 Aligned_cols=543 Identities=53% Similarity=0.901 Sum_probs=453.9
Q ss_pred HHHHHHHHHHhhCCCeeecCccCcC-CCCccceecccccCcccccccCC-CCCCCCcccccCcccCC----CccccCCCC
Q 004997 52 SIRKRFLDFYASRGHKVLPSASLVP-EDPTVLLTIAGMLQFKPIFLGKV-PRQVPRAATSQRCIRTN----DVENVGRTS 125 (720)
Q Consensus 52 eiR~~Fl~fF~~~gH~~v~ssslvp-~DptllFtnAGM~qFkp~flG~~-~p~~~r~~~~QkCiR~n----Dld~VG~t~ 125 (720)
|||++||+||++|||++|||||||| +|||||||||||+||||||+|.+ +||++|+|+||||||+| ||||||+|+
T Consensus 1 eiR~~fl~fF~~~gH~~v~s~~lvp~~d~~llf~~Agm~~fkp~f~g~~~~p~~~r~~~~Q~CiR~~GkhnDld~VG~t~ 80 (552)
T PF01411_consen 1 EIREKFLDFFEKKGHTIVPSSSLVPRWDPTLLFTNAGMNQFKPYFLGGEVPPPANRLVSSQKCIRTGGKHNDLDNVGRTG 80 (552)
T ss_dssp HHHHHHHHHHHTTT-EEE----SS-TT-TTBSS--SGGGGGCCCCTTSSS--SSSCEEEEEEEE-EETTEECGGGTTTSS
T ss_pred CHHHHHHHHHHHCCCEEeccCCcccCCCCCceeeHhhHHHHHHHhcCCCCCCCCCcccccceeeccCCCcchhhhcCCCc
Confidence 7999999999999999999999999 89999999999999999999998 99999999999999997 999999999
Q ss_pred CcccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccCCC
Q 004997 126 RHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSG 205 (720)
Q Consensus 126 rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~~G 205 (720)
|||||||||||||||||||+|||+|||||||++|||||+|||||||.+|+||++||++..|+|++||++++.++|||+||
T Consensus 81 rH~T~FEMlGn~sfgdYfK~eai~~awe~lt~~l~i~~~~l~vt~~~~d~ea~~~w~~~~g~~~~~i~~~~~~~nfw~~g 160 (552)
T PF01411_consen 81 RHHTFFEMLGNFSFGDYFKEEAIEYAWEFLTEVLGIPPDRLYVTVFEWDGEAGEIWEKIVGGPEERILVFGKKDNFWEMG 160 (552)
T ss_dssp S--SEEEEEEEEEECSS-HHHHHHHHHHHHHCTTT--GGGEEEEEECCECCCCCCCCECCTTECCCEEEE-CCEEEEESS
T ss_pred eEeeehhhccccccccccHHHHHHHHHHHHHhhcCCChHhEEEEEeCCchhHHHHHHHhcCCCHHHeEecCCCCceEECC
Confidence 99999999999999999999999999999999999999999999999999999999998899999999999999999999
Q ss_pred CCCCCCCceEEEeecCCCCCCCC---CCCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcCCC
Q 004997 206 ATGPCGPCSEIYYDFHPDRGCSD---VDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPN 282 (720)
Q Consensus 206 ~~GpcGPcsEI~yd~g~~~~~~~---~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s 282 (720)
++||||||||||||+|+.+++.. ...++++||+||||+|||||++++||++.|||+++|||||||||++++|||++|
T Consensus 161 ~~gpcgpcseI~~d~G~e~~~~~~~~~~~~~~~~~~eiwn~vf~q~~~~~~g~~~~L~~~~idtGmgler~~~~lq~~~s 240 (552)
T PF01411_consen 161 DTGPCGPCSEIFYDRGEERGCWDSQGTPTCDDDRFLEIWNLVFMQYNRDEDGSLEPLPKKNIDTGMGLERLAAVLQGVRS 240 (552)
T ss_dssp TSEEEEEEEEEEEEEECCCHHHHHHSTSSHHHHHECCCCCCCCCEEEETTTSHCCCCCCCCCCCCEEHHHHCHHHCCHCC
T ss_pred CCCCCCCCEEEEECCCcccCccccccccccccccHHHHHHHHHHHhccccccccccccchhhhcCCCcHHHHHHHhhhhh
Confidence 99999999999999999987532 233678999999999999999999999999999999999999999999999999
Q ss_pred cccccccHHHHHHHHHHhCCCccCCccccccceEEeehhhhhHHHhhhCCCccCCCCCchHHHHHHHHHHHHHHHhCCCC
Q 004997 283 NYETDLIFPIIKKASELANVSYAQSNDRTNLNLKIIGDHLRAIVYLLSDGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKG 362 (720)
Q Consensus 283 ~ydtD~F~p~i~~i~~~~g~~y~~~~~~~~~~~rviaDH~R~~~~~i~DGv~Psn~grGYvlRrilRRA~r~~~~lg~~~ 362 (720)
||+||+|.|+++.++++++++|+... ..++++||||||+||++|||+||++|||+|||||||||||||+|++++||++.
T Consensus 241 ~~~tdlf~~i~~~i~~~~~~~y~~~~-~~~~a~rvIaDH~Ra~~f~i~DGv~PsN~GrGYvlRriiRRa~r~~~~lg~~~ 319 (552)
T PF01411_consen 241 NYDTDLFMPIIEAIEELSGVPYKDEE-EIDVALRVIADHIRALTFAIADGVLPSNEGRGYVLRRIIRRAVRFGRKLGIEE 319 (552)
T ss_dssp HHHCHHTCHHHHHHHHHHC--TTSSC-CCHHHHHHHHHHHHHHHHHHHTT--SSSSHHHHHHHHHHHHHHHHHHHTT-SS
T ss_pred hhchhhhhhHHHHHHHHcCCCccccc-ccccEEEEEcchhhceeeEecCCeeecccCCcchHHHHHHHHHHHHHHhCCCc
Confidence 99999999999999999999996554 77899999999999999999999999999999999999999999999999999
Q ss_pred CCCCCccccchHHHHHHHHHHhccCChhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCh
Q 004997 363 DGRGNLEGAFLPSIAEKAIELSTHIDSDVKAREQRILEELKREELRFVQTLERGEKLLDQMLADALSRTRESGSVPRLSG 442 (720)
Q Consensus 363 ~~~~~~~~~fl~~Lv~~vi~~m~~~YPeL~~~~~~I~~vi~~EE~~F~~tL~~G~~~l~~~i~~~~~~~~~~g~~~~l~g 442 (720)
+ ||++||+.|++.|++.||||.++++.|++||+.||++|.+||++|+++|+++|+ ++++ + ++|||
T Consensus 320 ~--------fl~~lv~~vi~~~~~~ypel~~~~~~I~~ii~~EE~~F~~TL~~G~~~l~~~i~----~~~~-~--~~lsg 384 (552)
T PF01411_consen 320 P--------FLYELVPVVIESMGDFYPELKENKDYIKDIIKEEEERFLKTLERGLKLLEKLIK----KLKK-K--KELSG 384 (552)
T ss_dssp ----------HHHHHHHHHHHHTTTGTHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHC-C--SEE-H
T ss_pred c--------chHHHHHHHHHHhhccChhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----hhcc-c--cCCCh
Confidence 9 999999999999999999999999999999999999999999999999999998 6654 3 68999
Q ss_pred HHHHHHHhhcCCChhhHHHHHHHcCCccChhhHHHHHHHHHHHHHHhhcccccccCChhHHhhhCCCCccccccccccce
Q 004997 443 QDAFLLYDTFGFPVEITKEVAEEHGVSVDMKGFDIEMENQRRQSQAAHNAVKLSVDDSADLAEKIPDTEFLGYDTLSAKA 522 (720)
Q Consensus 443 ~~af~LyDTyGfP~dlt~~ia~e~gl~vD~~~F~~~m~~qk~~sr~~~~~~~~~~~~~~~l~~~~~~T~f~gY~~~~~~a 522 (720)
++||+||||||||+|||++||+++|++||+++|+++|++||++||++++.......+...+.+....|+|+||+.++++|
T Consensus 385 e~aF~LYDTyGfP~Dlt~eia~e~gl~vD~~~f~~~m~~qr~~sr~~~~~~~~~~~~~~~~~~l~~~teF~gYe~~~~~a 464 (552)
T PF01411_consen 385 EDAFKLYDTYGFPLDLTEEIAEEKGLSVDEEGFEYAMEEQRERSRAAKKKKSSIEEDVSALAELPKTTEFVGYEYLECEA 464 (552)
T ss_dssp HHHHHHHHHH---HHHHHHHHHTTT-EE-HHCCHHHHHHHCHHHCCHH--------SSSTTTTCHHHEETCCCC------
T ss_pred HHheeehhccCCCHHHHHHHHHHhceeecHHHHHHHHHHHHHHhhhccccccchhhhHHHHhhhhcccccceeecccccc
Confidence 99999999999999999999999999999999999999999999987654321110111121111237899999999999
Q ss_pred EEEEEEeCCeeeeeecCCCeEEEEecCcceecCCCCCCCCeEEEEeCCCcccccceEEEEEEEEecCCEEEEEEEeeccc
Q 004997 523 IVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLGSVFVHKGTIREGV 602 (720)
Q Consensus 523 kVl~i~~~~~~v~~~~~g~~~~VvLD~T~FYpEgGGQ~~D~G~I~~~~~~~~~~~~~~V~dV~k~~~g~ivH~~~~~~g~ 602 (720)
+|+++..+++.+.++.+++..+||||+|||||||||||+|+|+|..++. .+.|.+|++. +|+++|.++...+.
T Consensus 465 kVlal~~~~~~~~~v~~~~~~~VVLD~T~FYpegGGQ~~D~G~I~~~~~------~~~V~dv~k~-~g~i~H~~~~~~g~ 537 (552)
T PF01411_consen 465 KVLALFKDGEFVAKVEEGEEGYVVLDKTPFYPEGGGQPGDTGTIIGDGG------EFEVTDVQKV-GGVILHIGEVESGS 537 (552)
T ss_dssp TT---TT--EEEEEEEEEETTEEEESEE-S--SBTTB----EEECCTTE------EEEEEEEEEE-TTEEEEEESSG-GG
T ss_pred eEEEEEeCCEEEeeecCCceEEEEECCccccCCCCCCCCCeEEEeecce------EEEEEEEEEE-CCEEEEEEeccCCC
Confidence 9999999988888888888899999999999999999999999998776 8999999999 69999999987788
Q ss_pred cCCCCEEEEEEchhh
Q 004997 603 LEVGREVEAIVDPKL 617 (720)
Q Consensus 603 l~~Gd~V~~~VD~~r 617 (720)
+++|+.|.++|||+|
T Consensus 538 l~~G~~V~~~VD~eR 552 (552)
T PF01411_consen 538 LKVGDEVTAEVDWER 552 (552)
T ss_dssp --TTSEEEEEE-HHH
T ss_pred CCCCCEEEEEecCCC
Confidence 999999999999997
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=4.3e-112 Score=856.06 Aligned_cols=231 Identities=55% Similarity=1.051 Sum_probs=225.3
Q ss_pred hHHHHHHHHHHHhhCCCeeecCccCcC-CCCccceecccccCcccccccCCCCCCCCcccccCcccCCCccccCCCCCcc
Q 004997 50 GDSIRKRFLDFYASRGHKVLPSASLVP-EDPTVLLTIAGMLQFKPIFLGKVPRQVPRAATSQRCIRTNDVENVGRTSRHH 128 (720)
Q Consensus 50 ~~eiR~~Fl~fF~~~gH~~v~ssslvp-~DptllFtnAGM~qFkp~flG~~~p~~~r~~~~QkCiR~nDld~VG~t~rHh 128 (720)
++|||++||+||++|||+++||||||| +|||||||||||+||||||+|+++||++|+|++|||||+|||||||+|+|||
T Consensus 1 ~~eiR~~fl~FF~~kgH~~v~s~slvp~dDptllFtnAGM~~Fkp~f~G~~~p~~~r~~~~QkCiR~~DienVG~t~rHh 80 (232)
T cd00673 1 ASEIRETFLSFFEKKGHTRVPSSPVVPRDDPTLLFTNAGMNQFKPIFLGEVPPPANRLVNSQKCIRAGDIDNVGKTGRHH 80 (232)
T ss_pred ChHHHHHHHHHHHhCCCEEeCCCCcCCCCCCchheeccchhhhhHHhcCCCCCCCCceeeeeeceecCChhhccccccch
Confidence 479999999999999999999999999 7999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccCCCCCC
Q 004997 129 TFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSGATG 208 (720)
Q Consensus 129 TfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~~G~~G 208 (720)
||||||||||||||||+|||+|||||||++|||||+|||||||++|+||++||.+.+|||++||++++.+||||+||++|
T Consensus 81 TfFEMLGNfSFgdYFK~eaI~~awe~LT~~l~l~~~rl~vTv~~~dde~~~~w~~~~g~~~~~i~~~~~~dNfW~~G~~G 160 (232)
T cd00673 81 TFFEMLGNFSFGDYFKEEAIAFAWELLTEVLGLPKDRLYVSVFEGDDEEEAIWWWKIGLPGIRIERIGFKDNFWEMGGNG 160 (232)
T ss_pred hhhhhhcccchhhhhHHHHHHHHHHHHHhhcCCCccceEEEEeCCCHHHHHHHHHhhCCCHHHeeeCCccCCCCCCCCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcC
Q 004997 209 PCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKV 280 (720)
Q Consensus 209 pcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~ 280 (720)
|||||||||||+|+++++....+++|+|||||||||||||+|+++|+|.|||+|+||||||||||||||||+
T Consensus 161 PCGPcsEI~yd~g~~~~~~~~~~~~~~r~lEIWNlVFmqy~r~~~g~l~pLp~k~IDTGmGlERla~vlQg~ 232 (232)
T cd00673 161 PCGPCSEIFYDRGEERDAASLPNEDDDRYLEIWNLVFMQYNRDADGTYRPLPKKIVDTGMGLERLVWVLQGV 232 (232)
T ss_pred CCCCCEEEEEccCCCcCccccccCCCCCEEEEeeeeeeeeeccCCCCCccCCCCeeeCCcCHHHHHHHHcCC
Confidence 999999999999999887655558899999999999999999999999999999999999999999999996
No 11
>PLN02961 alanine-tRNA ligase
Probab=100.00 E-value=9.6e-36 Score=305.24 Aligned_cols=167 Identities=26% Similarity=0.388 Sum_probs=141.1
Q ss_pred EEEEecCcceecCCCCCCCCeEEEEeCCCcccccceEEEEEEEEecCCEEEEEEEeec------cccCCCCEEEEEEchh
Q 004997 543 VEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLGSVFVHKGTIRE------GVLEVGREVEAIVDPK 616 (720)
Q Consensus 543 ~~VvLD~T~FYpEgGGQ~~D~G~I~~~~~~~~~~~~~~V~dV~k~~~g~ivH~~~~~~------g~l~~Gd~V~~~VD~~ 616 (720)
+.|+||+|+|||||||||+|+|+|...++ ...+.|.+|++. +|.++|++.... +.|++|++|.++|||+
T Consensus 3 ~~viLd~T~FYpegGGQp~D~G~i~~~~~----~~~~~V~~v~~~-~g~i~H~~~~~~~~~~~~~~l~~G~~V~~~ID~~ 77 (223)
T PLN02961 3 IALVLDRTIFHPQGGGQPSDTGRIVISGG----DTKFSVQDVRRK-DGVVYHYGVFEGSNPESASPFEAGDEVTVTVDES 77 (223)
T ss_pred eEEEeCCceEcCCCCCCCCcEEEEEecCC----CcEEEEEEEEEE-CCEEEEEEEecCcccccCCCCCCCCEEEEEECHH
Confidence 58999999999999999999999987432 126899999998 899999986532 4688999999999999
Q ss_pred hhhhHhhhCcHHHHHHHHHHhH-hCCceeeeeeeccCCceEEEEecCCCCCHHHH----HHHHHHHHHHHhcCCCEEEEE
Q 004997 617 LRQRAKVHHTATHLLQAALKKV-IGQETSQAGSLVAFDRLRFDFNFHRPLLDTEL----EEIERLINGWIGDANLLQTKV 691 (720)
Q Consensus 617 rR~~~mr~HTAtHLL~aaLr~v-lG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel----~~IE~~vNe~I~~~~pV~~~~ 691 (720)
||+.+|++|||+|||++||+++ +|.++.|+|+++ ++.+++||. ..++.+++ .+||+++|++|++++||++.+
T Consensus 78 rR~~~m~~HTa~HLL~~al~~~~~~~~~~~~g~~~-~~~~~v~~~--~~i~~~~~~~~~~~iE~~~N~~I~~~~~V~~~~ 154 (223)
T PLN02961 78 RRKLHSRLHSAGHLLDVCMARVGLGPLEPGKGYHF-PDGPFVEYK--GKIPQGELDSKQDELEAEANELIAEGGKVSAAV 154 (223)
T ss_pred HHhhhhccCcHHHHHHHHHHHcCCCcccccccccc-CCccceeec--ccCCHHHHHhHHHHHHHHHHHHHHcCCceeEEE
Confidence 9999999999999999999998 887777888885 567889886 46776554 799999999999999999999
Q ss_pred cCHHHHHhcCcc--cccCCcCCCceEEEe
Q 004997 692 MALDDAKRAGAI--AMFGEKYGEQVKISS 718 (720)
Q Consensus 692 ~~~eeA~~~g~~--alf~eky~d~VRVV~ 718 (720)
++++||++.... ..|.++ ++.||||+
T Consensus 155 ~~~~ea~~~~~~~~~~~~~~-~~~vRiV~ 182 (223)
T PLN02961 155 LPYDEAAELCGGSLPDYIAK-DSTPRIVK 182 (223)
T ss_pred eCHHHHHHhcCCcCCCcCCC-CCceEEEE
Confidence 999999987333 333333 57899986
No 12
>COG2872 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]
Probab=100.00 E-value=5.9e-35 Score=299.95 Aligned_cols=185 Identities=33% Similarity=0.406 Sum_probs=162.9
Q ss_pred CCccccccc---cccceEEEEEEeCCeeeeeecCCCeEEEEecCcceecCCCCCCCCeEEEEeCCCcccccceEEEEEEE
Q 004997 509 DTEFLGYDT---LSAKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVK 585 (720)
Q Consensus 509 ~T~f~gY~~---~~~~akVl~i~~~~~~v~~~~~g~~~~VvLD~T~FYpEgGGQ~~D~G~I~~~~~~~~~~~~~~V~dV~ 585 (720)
+|+.+||++ .+++|+|+++..+ .|+||+|+|||+|||||+|+|+|.+.++ ...|.++.
T Consensus 1 ~T~~ly~~D~y~~e~~~~v~~v~~~-------------~i~ld~T~Fyp~~GGQp~D~G~l~~~~~------~~~~~~~~ 61 (241)
T COG2872 1 MTEKLYYDDSYLKEFEATVVDVEDN-------------EIVLDRTIFYPTGGGQPGDTGTLIWAGG------EYVVEDVT 61 (241)
T ss_pred CccceeccccccccceEEEEEEeCC-------------eEEEEeccccCCCCCCcCCceEEEeCCc------eEEEEEEE
Confidence 467788887 4789999999754 6999999999999999999999999988 88899999
Q ss_pred EecCCEEEEEEEeeccccCCCCEEEEEEchhhhhhHhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCC
Q 004997 586 KSLGSVFVHKGTIREGVLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPL 665 (720)
Q Consensus 586 k~~~g~ivH~~~~~~g~l~~Gd~V~~~VD~~rR~~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~l 665 (720)
+. +..|+|++... ..+++|++|.++|||+||+.+||+|||+|||++++.+.++ ++..|.++.++++|+||+.+.
T Consensus 62 ~~-~~~I~H~~~~~-~~~~vG~~V~~~IDW~rRy~~mr~HTa~Hlls~~~~~~~~--~~~~g~~i~~d~~~iD~~~e~-- 135 (241)
T COG2872 62 KD-GEEIVHVLAEH-AKLKVGDKVKLKIDWERRYRHMRMHTALHLLSAVLYKVYG--ALTTGFEIGEDYARIDFDGED-- 135 (241)
T ss_pred ec-ceEEEEEecCc-ccCCCCCEEEEEECcHHHHHHHhhhHHHHHHHHHhhcccc--ceeecceeccccccccccccc--
Confidence 88 67899999854 5689999999999999999999999999999999999999 456899999999999999764
Q ss_pred CHHHHHHHHHHHHHHHhcCCCEEEEEcCHHHHHhc-CcccccCCcCC---CceEEEe
Q 004997 666 LDTELEEIERLINGWIGDANLLQTKVMALDDAKRA-GAIAMFGEKYG---EQVKISS 718 (720)
Q Consensus 666 t~eel~~IE~~vNe~I~~~~pV~~~~~~~eeA~~~-g~~alf~eky~---d~VRVV~ 718 (720)
+++.+.++++++|++|.+|+||.+.+++.+||.+. +..++-.+.+| ..||+|.
T Consensus 136 ~~~~~~~v~~~~ne~v~~~~~v~~~~i~~EE~~~~p~~~~~~~~~~~~~~g~iRiV~ 192 (241)
T COG2872 136 TEDEIEEVEALANELVKENLPVIIYFIPREEAEKLPGLVKLKNKVPPDVEGKIRIVE 192 (241)
T ss_pred chhhHHHHHHHHHHHHHcCCeeeeeecCHHHHhhCcChhhhcccCCccccceEEEEE
Confidence 88999999999999999999999999999999998 45554443333 2688885
No 13
>KOG2105 consensus Predicted metal-dependent hydrolase, contains AlaS domain [General function prediction only]
Probab=99.81 E-value=7.8e-20 Score=188.14 Aligned_cols=159 Identities=24% Similarity=0.344 Sum_probs=126.7
Q ss_pred eEEEEecCcceecCCCCCCCCeEEEEeCCCcccccceEEEEEEEEecCCEEEEEEEeeccccCCCCEEEEEEchhhhhhH
Q 004997 542 DVEVLLNRTPFYAESGGQIGDYGFLYVTQGTNQQTAVVEVKDVKKSLGSVFVHKGTIREGVLEVGREVEAIVDPKLRQRA 621 (720)
Q Consensus 542 ~~~VvLD~T~FYpEgGGQ~~D~G~I~~~~~~~~~~~~~~V~dV~k~~~g~ivH~~~~~~g~l~~Gd~V~~~VD~~rR~~~ 621 (720)
.+.+.|..|+.||||||||+|.|++. .+.|..|.+. |...-|.+. ..+.+|.+|.+.|||+||.++
T Consensus 43 g~~i~lqdtiLfpegggqp~d~gf~~----------~v~V~~VsR~-G~~A~H~~~---~~iePGt~V~V~VD~qkR~D~ 108 (415)
T KOG2105|consen 43 GYEIELQDTILFPEGGGQPSDSGFLK----------IVEVSHVSRF-GLHAKHHVN---DYIEPGTTVEVAVDEQKRMDY 108 (415)
T ss_pred cceeeeeeeEeccCCCCCCCcccccc----------ceeEEEeecc-ccchhhccC---CCCCCCCeEEEEecHHHHhHH
Confidence 46899999999999999999999997 4678899887 555667665 469999999999999999999
Q ss_pred hhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHHHHHHHHHHhcCCCEEEEEcCHHH--HHh
Q 004997 622 KVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDD--AKR 699 (720)
Q Consensus 622 mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~IE~~vNe~I~~~~pV~~~~~~~ee--A~~ 699 (720)
|++||++|||.|++.+.|...+ ....++.=+..+....+ ++|.||+..||+.||+.|+..+||.+.++++++ ..+
T Consensus 109 MQQHsGQHLitAvad~~fKlkT--tSWelG~~~sa~e~~~~-~mTaeqvaaieqsvNe~I~d~~~~~v~E~sl~d~eVeq 185 (415)
T KOG2105|consen 109 MQQHSGQHLITAVADHLFKLKT--TSWELGRFRSAIELDTP-SMTAEQVAAIEQSVNEKIRDRLPVNVRELSLDDPEVEQ 185 (415)
T ss_pred HHHhcchhHHHHHHHhhhccce--eeeeccceeeccccCCC-CccHHHHHHHHHHHHHHHHhccchheeecccCCcchhh
Confidence 9999999999999999876543 22333333334555554 799999999999999999999999999988765 444
Q ss_pred cCcccccCCcCCCceEEEe
Q 004997 700 AGAIAMFGEKYGEQVKISS 718 (720)
Q Consensus 700 ~g~~alf~eky~d~VRVV~ 718 (720)
...+.++ +...+++|||.
T Consensus 186 VS~~~~~-D~haG~iRvvn 203 (415)
T KOG2105|consen 186 VSGRGLP-DDHAGPIRVVN 203 (415)
T ss_pred ccCCCCc-ccccCceEEEe
Confidence 4444443 33445899983
No 14
>PLN02837 threonine-tRNA ligase
Probab=99.07 E-value=6.4e-10 Score=130.14 Aligned_cols=93 Identities=19% Similarity=0.363 Sum_probs=83.6
Q ss_pred CCEEEEEEchhhhhhHhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHHHHHHHHHHhcCC
Q 004997 606 GREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDAN 685 (720)
Q Consensus 606 Gd~V~~~VD~~rR~~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~IE~~vNe~I~~~~ 685 (720)
-..|.+.+|...|...+.+|||+|||++|+++++|....+.|..+ ++.+++||.. +++|++++++||+.||++|.+|+
T Consensus 29 ~~~~~~~~~~~~~~~~~~~HSa~HLL~~Av~~l~~~~~~~ig~~~-~~g~y~D~~~-~~lt~edl~~IEk~m~~iI~~n~ 106 (614)
T PLN02837 29 PERVVLPTNESSEKLLKIRHTCAHVMAMAVQKLFPDAKVTIGPWI-ENGFYYDFDM-EPLTDKDLKRIKKEMDRIISRNL 106 (614)
T ss_pred CceEEEEeccChhhHHHHHHHHHHHHHHHHHHHcCCcEEEECCcc-CCCEEEEecC-CCCCHHHHHHHHHHHHHHHHcCC
Confidence 358999999999999999999999999999999986444556555 5789999997 58999999999999999999999
Q ss_pred CEEEEEcCHHHHHhc
Q 004997 686 LLQTKVMALDDAKRA 700 (720)
Q Consensus 686 pV~~~~~~~eeA~~~ 700 (720)
||+..+++++||.+.
T Consensus 107 pI~~~~v~~eEA~~~ 121 (614)
T PLN02837 107 PLVREEVSREEAQKR 121 (614)
T ss_pred CEEEEEecHHHHHHH
Confidence 999999999999875
No 15
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=98.96 E-value=2.3e-09 Score=124.55 Aligned_cols=97 Identities=18% Similarity=0.302 Sum_probs=80.7
Q ss_pred HhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHHHHHHHHHHhcCCCEEEEEcCHHHHHhc
Q 004997 621 AKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKRA 700 (720)
Q Consensus 621 ~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~IE~~vNe~I~~~~pV~~~~~~~eeA~~~ 700 (720)
.+.+|||+|||++|+++++|.. ...+++..++.+++||+..+++|++++.+||+.+|++|.+++||+...++++||.++
T Consensus 7 ~~~~hS~~hlL~~A~~~~~~~~-~~~~~~~~~~g~~~d~~~~~~it~e~l~~Ie~~m~~lI~~~~pi~~~~v~~eeA~~~ 85 (575)
T PRK12305 7 EVIRHSAAHVLAQAVQELFPDA-KLGIGPPIEDGFYYDFDVPEPFTPEDLKKIEKKMKKIIKRGLPFEREEVSREEAREE 85 (575)
T ss_pred HHHHHHHHHHHHHHHHHHcCCc-eEEeCCCcCCeEEEEeeCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEEecHHHHHHh
Confidence 3679999999999999999853 456667778999999998778999999999999999999999999999999999986
Q ss_pred Cc-----ccccCCcCCCceEEEe
Q 004997 701 GA-----IAMFGEKYGEQVKISS 718 (720)
Q Consensus 701 g~-----~alf~eky~d~VRVV~ 718 (720)
.. ..++...+++.||||.
T Consensus 86 f~~~~~k~~l~~~~~~~~vri~~ 108 (575)
T PRK12305 86 FANEPYKLELIDDIPEEGITIYD 108 (575)
T ss_pred CCcChhHHHhhhhcCCCeEEEEE
Confidence 32 1233334455799985
No 16
>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=98.84 E-value=7.8e-09 Score=119.90 Aligned_cols=94 Identities=23% Similarity=0.344 Sum_probs=78.4
Q ss_pred hCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHHHHHHHHHHhcCCCEEEEEcCHHHHHhcCc-
Q 004997 624 HHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKRAGA- 702 (720)
Q Consensus 624 ~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~IE~~vNe~I~~~~pV~~~~~~~eeA~~~g~- 702 (720)
+|||+|||++|++++++....+.|+.+ ++.+++||+...++|++++.+||+.||++|.+++||....++++||.+...
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 599999999999999987666778777 556999999877899999999999999999999999999999999998533
Q ss_pred -----ccccCCc-CCCceEEEe
Q 004997 703 -----IAMFGEK-YGEQVKISS 718 (720)
Q Consensus 703 -----~alf~ek-y~d~VRVV~ 718 (720)
..++.+. +.+.|||+.
T Consensus 80 ~~~~k~~Ll~~~~~~~~v~vy~ 101 (563)
T TIGR00418 80 LEPYKLELLDEIPNGVKRTPYG 101 (563)
T ss_pred cChhHHHHHhcCCCCCeEEEEE
Confidence 1222222 446788875
No 17
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=98.84 E-value=1.8e-08 Score=118.52 Aligned_cols=98 Identities=22% Similarity=0.333 Sum_probs=85.8
Q ss_pred ccCCCCEEEEEEchhhhhhHhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHHHHHHHHHH
Q 004997 602 VLEVGREVEAIVDPKLRQRAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWI 681 (720)
Q Consensus 602 ~l~~Gd~V~~~VD~~rR~~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~IE~~vNe~I 681 (720)
.+..+..|+..-....+-..+.+|||+|||++|+++++|. ....+++..++.+++||+..+++|++++.+||+.+|++|
T Consensus 50 ~l~~d~~Vefi~~~~~~g~~~y~hS~~hll~~A~~~~~~~-~~~~~~~~~~~g~y~d~~~~~~lt~e~l~~Ie~~m~~iI 128 (638)
T PRK00413 50 PIEEDASLEIITAKDEEGLEIIRHSAAHLLAQAVKRLYPD-AKLTIGPVIENGFYYDFDRERPFTPEDLEAIEKEMKEII 128 (638)
T ss_pred cccCCCceeeeeccchhhHHHHhhhHHHHHHHHHHHHcCC-ceEEECCccCCeEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence 4566778887777777788889999999999999999985 345566666899999999877899999999999999999
Q ss_pred hcCCCEEEEEcCHHHHHhc
Q 004997 682 GDANLLQTKVMALDDAKRA 700 (720)
Q Consensus 682 ~~~~pV~~~~~~~eeA~~~ 700 (720)
.+|+||+...++++||.++
T Consensus 129 ~~~~pi~~~~v~~~eA~~~ 147 (638)
T PRK00413 129 KENYPIEREVVSREEAIEL 147 (638)
T ss_pred hcCCCEEEEEecHHHHHHH
Confidence 9999999999999999985
No 18
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=98.58 E-value=1.6e-07 Score=110.75 Aligned_cols=79 Identities=18% Similarity=0.302 Sum_probs=69.8
Q ss_pred HhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHHHHHHHHHHhcCCCEEEEEcCHHHHHhc
Q 004997 621 AKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKRA 700 (720)
Q Consensus 621 ~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~IE~~vNe~I~~~~pV~~~~~~~eeA~~~ 700 (720)
..-.|||+|||.+|+++++|... ....+..++.+++||+...++|++++.+||+.||++|.+++||+..+++++||.+.
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 46789999999999999999743 33344458899999998878999999999999999999999999999999999985
No 19
>PLN02908 threonyl-tRNA synthetase
Probab=97.86 E-value=7.2e-05 Score=89.24 Aligned_cols=80 Identities=18% Similarity=0.275 Sum_probs=68.4
Q ss_pred hHhhhCcHHHHHHHHHHhHhCCceeeeeeeccC-CceEEEEecC-CCCCHHHHHHHHHHHHHHHhcCCCEEEEEcCHHHH
Q 004997 620 RAKVHHTATHLLQAALKKVIGQETSQAGSLVAF-DRLRFDFNFH-RPLLDTELEEIERLINGWIGDANLLQTKVMALDDA 697 (720)
Q Consensus 620 ~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~-d~~R~DF~~~-~~lt~eel~~IE~~vNe~I~~~~pV~~~~~~~eeA 697 (720)
.-+.+||++|||.+|+++++|.++. .|..+++ +.+++||... .++|++++.+||+.+|++|.+++|++...++++||
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 RDTFWHSSAHILGEALELEYGCKLC-IGPCTTRGEGFYYDAFYGDRTLNEEDFKPIEARAEKAVKEKQPFERIEVTREEA 197 (686)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCeEE-ecCccccCCcEEEEeecCCCCCCHHHHHHHHHHHHHHHhcCCCeEEEEEcHHHH
Confidence 3578999999999999999986553 4555554 6779998754 47999999999999999999999999999999999
Q ss_pred Hhc
Q 004997 698 KRA 700 (720)
Q Consensus 698 ~~~ 700 (720)
.++
T Consensus 198 ~e~ 200 (686)
T PLN02908 198 LEM 200 (686)
T ss_pred HHH
Confidence 974
No 20
>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=97.40 E-value=0.0004 Score=80.96 Aligned_cols=78 Identities=19% Similarity=0.388 Sum_probs=69.5
Q ss_pred hHhhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHHHHHHHHHHhcCCCEEEEEcCHHHHHh
Q 004997 620 RAKVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIERLINGWIGDANLLQTKVMALDDAKR 699 (720)
Q Consensus 620 ~~mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~IE~~vNe~I~~~~pV~~~~~~~eeA~~ 699 (720)
.-.-.||++|||..|+.++++. + .-| .+-++.+++||....++|++++.+||..++++|.+++++....+++++|++
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 3456799999999999999887 3 456 677889999999988899999999999999999999999999999999987
Q ss_pred c
Q 004997 700 A 700 (720)
Q Consensus 700 ~ 700 (720)
.
T Consensus 103 ~ 103 (589)
T COG0441 103 P 103 (589)
T ss_pred H
Confidence 5
No 21
>PRK09348 glyQ glycyl-tRNA synthetase subunit alpha; Validated
Probab=96.84 E-value=0.016 Score=60.63 Aligned_cols=175 Identities=26% Similarity=0.300 Sum_probs=113.2
Q ss_pred CCCChHHHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCcccc-cccCCCCCCCCcccccCcccCCCc---ccc
Q 004997 46 FPSSGDSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQFKPI-FLGKVPRQVPRAATSQRCIRTNDV---ENV 121 (720)
Q Consensus 46 ~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qFkp~-flG~~~p~~~r~~~~QkCiR~nDl---d~V 121 (720)
++|+-.+|-.+--+|..++|..++.++.+= -|--.|-|. |+..-.|.--+++-+|+|.|-.|= +|=
T Consensus 2 ~~~~fQ~iI~~Lq~fWa~~GC~i~qPyD~E----------vGAGT~~P~Tflr~Lgpepw~vaYvqPsRRP~DGRYGeNP 71 (283)
T PRK09348 2 KKMTFQDIILTLQDYWADQGCVILQPYDME----------VGAGTFHPATFLRALGPEPWNAAYVQPSRRPTDGRYGENP 71 (283)
T ss_pred CCCcHHHHHHHHHHHHHHCCCEEECCcccc----------cccccCCHHHHHHhcCCCccccccccCCCCCCCCCcCCCc
Confidence 468999999999999999999999877653 233467773 444444544579999999999662 222
Q ss_pred CCCCCcccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCc
Q 004997 122 GRTSRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNF 201 (720)
Q Consensus 122 G~t~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNf 201 (720)
- --.||.=|..+=--|-.+- .+.=.+-| +.+||||.. |=++|- +||
T Consensus 72 N-RLq~y~QfQVilKPsP~ni-----QelYL~SL-~~lGid~~~-------------------------hDIRFV-EDn- 117 (283)
T PRK09348 72 N-RLQHYYQFQVILKPSPDNI-----QELYLGSL-EALGIDPLE-------------------------HDIRFV-EDN- 117 (283)
T ss_pred h-hhhhheeeEEEEcCCCccH-----HHHHHHHH-HHhCCCccc-------------------------cceeEe-ecC-
Confidence 2 2356666666666666541 11112222 356777764 224443 344
Q ss_pred cCCCCCCCCCCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcCC
Q 004997 202 WNSGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVP 281 (720)
Q Consensus 202 W~~G~~GpcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~ 281 (720)
||-=.-|--|===|+-.| .+||=-.-+.| + -.| .++..-.+.-=+||||||+.|||+.
T Consensus 118 WEsPTLGAwGlGWEVWld-----------------GMEITQFTYFQ--Q-vGG--i~~~pv~~EITYGLERiamylQ~vd 175 (283)
T PRK09348 118 WESPTLGAWGLGWEVWLD-----------------GMEVTQFTYFQ--Q-VGG--IECKPVTGEITYGLERLAMYLQGVD 175 (283)
T ss_pred CCCCcccccccceEEEEC-----------------Ceeeeeeeeee--e-eCC--eeccccceeeehhHHHHHHHHhCCC
Confidence 652222666766777765 37876433322 2 233 3355566777899999999999999
Q ss_pred Ccccc
Q 004997 282 NNYET 286 (720)
Q Consensus 282 s~ydt 286 (720)
|+||.
T Consensus 176 ~v~dl 180 (283)
T PRK09348 176 NVYDL 180 (283)
T ss_pred ceeee
Confidence 99997
No 22
>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=96.32 E-value=0.046 Score=57.52 Aligned_cols=173 Identities=22% Similarity=0.344 Sum_probs=109.6
Q ss_pred CChHHHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCcccc-cccCCCCCCCCcccccCcccCCCc---cccCC
Q 004997 48 SSGDSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQFKPI-FLGKVPRQVPRAATSQRCIRTNDV---ENVGR 123 (720)
Q Consensus 48 ~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qFkp~-flG~~~p~~~r~~~~QkCiR~nDl---d~VG~ 123 (720)
|+-.+|-.+--+|..++|..++.++.+= -|--.|-|. |+..--|.--+++-+|+|.|-.|= +|=-+
T Consensus 1 m~fQ~iI~~Lq~fWa~~GC~i~QPyD~E----------vGAGT~hPaTflralgpepw~vAYVqPsRRP~DGRYGeNPNR 70 (293)
T TIGR00388 1 QTFQGLILKLQEYWANQGCLIVQPYDME----------KGAGTMHPMTFLRSLGPEPWAVAYVEPSRRPTDGRYGENPNR 70 (293)
T ss_pred CCHHHHHHHHHHHHHHCCCEEEcCcccc----------cccccCCHHHHHHhcCCCcceeccccCCCCCCCCCCCCCchh
Confidence 5678888999999999999999877653 233467773 454444544579999999999663 33332
Q ss_pred CCCcccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccC
Q 004997 124 TSRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWN 203 (720)
Q Consensus 124 t~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~ 203 (720)
-.||.=|..+=--|-.+- .+.=.+-| +.+||||.. |=++|- +|| ||
T Consensus 71 -Lq~yyQfQVilKPsP~ni-----QelYL~SL-~~lGid~~~-------------------------hDIRFV-EDn-WE 116 (293)
T TIGR00388 71 -LQHYYQFQVVIKPSPDNI-----QELYLDSL-RALGIDPTE-------------------------HDIRFV-EDN-WE 116 (293)
T ss_pred -hhheeeeEEEECCCCccH-----HHHHHHHH-HHhCCCccc-------------------------cCeeEe-ecC-CC
Confidence 346666666666666541 11111212 346777764 224443 444 65
Q ss_pred CCCCCCCCCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcCCCc
Q 004997 204 SGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNN 283 (720)
Q Consensus 204 ~G~~GpcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s~ 283 (720)
-=.-|--|===|+-.| .+||=-.-+ |.+ -.| + ++..-.+.-=+||||||+.|||+.|+
T Consensus 117 sPTLGAwGlGWEVWld-----------------GMEITQFTY--FQQ-vGG-i-~~~pv~~EITYGLERiaMylQ~vd~v 174 (293)
T TIGR00388 117 NPTLGAWGLGWEVWLD-----------------GMEVTQFTY--FQQ-VGG-L-ECKPVSVEITYGLERLAMYIQGVENV 174 (293)
T ss_pred CCcccccccccEEEEC-----------------Ceeeeeeee--eee-eCC-e-eccccceeeehhHHHHHHHHhCCCee
Confidence 2222666766777765 377764332 222 233 2 34445567789999999999999999
Q ss_pred ccc
Q 004997 284 YET 286 (720)
Q Consensus 284 ydt 286 (720)
||.
T Consensus 175 ~dl 177 (293)
T TIGR00388 175 YDL 177 (293)
T ss_pred eee
Confidence 997
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=96.03 E-value=0.025 Score=56.25 Aligned_cols=175 Identities=23% Similarity=0.254 Sum_probs=102.2
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcCC-CC--c------cceecc---cccCcccccc-cCC-------CCCCCCccccc
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVPE-DP--T------VLLTIA---GMLQFKPIFL-GKV-------PRQVPRAATSQ 110 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp~-Dp--t------llFtnA---GM~qFkp~fl-G~~-------~p~~~r~~~~Q 110 (720)
+.+.+.+-++|.++|+..+-++++++. +- . +.+.|. .+..++|-.+ +.. ....-|+.-.+
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 467888899999999999999998872 11 0 111110 1111222111 000 00113677888
Q ss_pred CcccCCCccccCCCCCcccccccccCCccCccc-----HHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhc
Q 004997 111 RCIRTNDVENVGRTSRHHTFFEMLGNFSFGDYF-----KKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEV 185 (720)
Q Consensus 111 kCiR~nDld~VG~t~rHhTfFEMLGn~SFgdYf-----K~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~ 185 (720)
+|.|..+- ..+ .+|..-|.|+|-..+|... -.+++..++++|. .+|++.+-.+
T Consensus 83 ~vfr~e~~-~~~--~~~~~ef~~l~~~~~g~~~~~~~~~~~~~~~~~~~l~-~lg~~~~~~~------------------ 140 (211)
T cd00768 83 PAFRNEGG-RRG--LRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLR-ALGIKLDIVF------------------ 140 (211)
T ss_pred ceeecCCC-ccc--cccceeEEEcCEEEEcCCchhHHHHHHHHHHHHHHHH-HcCCCcceEE------------------
Confidence 99988542 111 3677899999999998644 3678888888884 6676322111
Q ss_pred CCCCCceeccCCCCCccCCCCCCCCCCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccc---------cCCCcc
Q 004997 186 GVPVEHIKRMGADDNFWNSGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNK---------KDDGSL 256 (720)
Q Consensus 186 g~~~~rI~~~~~~dNfW~~G~~GpcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r---------~~dG~l 256 (720)
.. .....||. +.+|+|.+|+++... .|..||+++-....+. +++++.
T Consensus 141 -------~~-~~~~~~~~----~~~g~~~~i~~~~~~------------~~~~eig~~g~~~~~~~~~~~l~~~~~~~~~ 196 (211)
T cd00768 141 -------VE-KTPGEFSP----GGAGPGFEIEVDHPE------------GRGLEIGSGGYRQDEQARAADLYFLDEALEY 196 (211)
T ss_pred -------Ee-cCchhhcc----ccCCceEEEEEEccC------------CCeEEEeeceeecCchhHhhhhheecccccc
Confidence 10 11223443 468999999997432 2456777665543332 233433
Q ss_pred ccCccCcccccchHHHH
Q 004997 257 EPLKQKNIDTGLGLERI 273 (720)
Q Consensus 257 ~~Lp~k~IDTGmGLERl 273 (720)
. .| .+|=.|+|+||+
T Consensus 197 ~-~p-~~~~~~~~~~R~ 211 (211)
T cd00768 197 R-YP-PTIGFGLGLERL 211 (211)
T ss_pred c-Cc-eeecCccCccCC
Confidence 3 45 666677999995
No 24
>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=95.86 E-value=0.11 Score=54.50 Aligned_cols=171 Identities=26% Similarity=0.352 Sum_probs=107.1
Q ss_pred hHHHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCcccc-cccCCCCCCCCcccccCcccCCCc---cccCCCC
Q 004997 50 GDSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQFKPI-FLGKVPRQVPRAATSQRCIRTNDV---ENVGRTS 125 (720)
Q Consensus 50 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qFkp~-flG~~~p~~~r~~~~QkCiR~nDl---d~VG~t~ 125 (720)
-.+|-.+--+|..++|..++.++.+= .|--.|-|. |+..-.|.--+++-+|+|.|-.|= +|=- --
T Consensus 2 fQ~iI~~Lq~fW~~~GC~i~qPyD~E----------vGAGT~hPaTflr~Lgpepw~vAYVqPsrRP~DGRYGeNPN-RL 70 (279)
T cd00733 2 FQDLILKLQKFWASQGCLIIQPYDME----------VGAGTFHPATFLRALGPEPWNVAYVEPSRRPTDGRYGENPN-RL 70 (279)
T ss_pred HHHHHHHHHHHHHHCCCEEEcCcccc----------cccccCCHHHHHHhcCCCcceeccccCCCCCCCCCcCCCch-hh
Confidence 35677778899999999998877653 233467773 454444555579999999999662 2222 23
Q ss_pred CcccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccCCC
Q 004997 126 RHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSG 205 (720)
Q Consensus 126 rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~~G 205 (720)
.||.=|..+=--|-.+- .+.=.+-| +.+||||.. |=++|- +|| |+-=
T Consensus 71 q~y~QfQViiKPsP~ni-----QelYL~SL-~~lGid~~~-------------------------hDIRFV-EDn-WEsP 117 (279)
T cd00733 71 QHYYQFQVIIKPSPDNI-----QELYLESL-EALGINPKE-------------------------HDIRFV-EDN-WESP 117 (279)
T ss_pred hhheeeEEEECCCCccH-----HHHHHHHH-HHhCCCccc-------------------------cCeeEe-ecC-CCCC
Confidence 46666666666666541 11112222 356777664 224442 344 6622
Q ss_pred CCCCCCCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcCCCccc
Q 004997 206 ATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNNYE 285 (720)
Q Consensus 206 ~~GpcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s~yd 285 (720)
.-|--|===|+-.| .+||=-.-+. .+ -.| .++..-.+.-=+||||||+.|||+.++||
T Consensus 118 TLGAwGLGWEVWld-----------------GMEITQFTYF--QQ-vGG--i~~~pv~~EiTYGLERiamylQ~vd~v~d 175 (279)
T cd00733 118 TLGAWGLGWEVWLD-----------------GMEVTQFTYF--QQ-VGG--IPCKPISVEITYGLERIAMYLQGVDNVYD 175 (279)
T ss_pred cccccccccEEEEC-----------------Ceeeeeeeee--ee-eCC--eeccccceeeehhHHHHHHHHhCCCceec
Confidence 22666766777765 3787643332 22 233 33555667778999999999999999999
Q ss_pred c
Q 004997 286 T 286 (720)
Q Consensus 286 t 286 (720)
.
T Consensus 176 l 176 (279)
T cd00733 176 I 176 (279)
T ss_pred c
Confidence 7
No 25
>PRK14908 glycyl-tRNA synthetase; Provisional
Probab=95.75 E-value=0.081 Score=65.23 Aligned_cols=175 Identities=23% Similarity=0.320 Sum_probs=114.4
Q ss_pred CCCChHHHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCcccc-cccCCCCCCCCcccccCcccCCCc---ccc
Q 004997 46 FPSSGDSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQFKPI-FLGKVPRQVPRAATSQRCIRTNDV---ENV 121 (720)
Q Consensus 46 ~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qFkp~-flG~~~p~~~r~~~~QkCiR~nDl---d~V 121 (720)
.+||-++|-.+--+|+.++|..++.++.+= -|--.|-|. |+..-.|.--+++-+|+|.|-.|= +|=
T Consensus 3 ~~~~~q~~i~~l~~~w~~~gc~~~qp~~~e----------~gagt~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~np 72 (1000)
T PRK14908 3 QPLTMQDMLLALLRYWSEQGCIIHQGYDLE----------VGAGTFNPATFLRVLGPEPWRVAYVEPSRRPDDGRYGQNP 72 (1000)
T ss_pred CcccHHHHHHHHHHHHHHCCCEEECCcccc----------cccCcCCHHHHHhhcCCCCCcccccCCCCCCCCCCcCCCc
Confidence 358999999999999999999999877653 233467773 444444544579999999999662 332
Q ss_pred CCCCCcccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCc
Q 004997 122 GRTSRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNF 201 (720)
Q Consensus 122 G~t~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNf 201 (720)
- --.||+=|..+=--|-++- .+.=.+-| +.+|||+.. |=++|- +||
T Consensus 73 n-rl~~~~q~qvi~kp~p~~~-----q~~yl~sl-~~~gi~~~~-------------------------~dirfv-ed~- 118 (1000)
T PRK14908 73 N-RLQTYTQFQVILKPVPGNP-----QELYLESL-KAIGIDLRD-------------------------HDIRFV-HDD- 118 (1000)
T ss_pred h-hhhhheeeEEEECCCCccH-----HHHHHHHH-HHcCCCccc-------------------------cceeEe-ecC-
Confidence 2 2457777777777777651 11111112 356777764 224442 444
Q ss_pred cCCCCCCCCCCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcCC
Q 004997 202 WNSGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVP 281 (720)
Q Consensus 202 W~~G~~GpcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~ 281 (720)
|+-=.-|--|===|+..| ++||=-.-|.| .-.| .++..-.+.-=+|||||++.|||+.
T Consensus 119 we~p~lga~glgwevw~~-----------------gmeitqftyfq---q~gg--~~~~~~~~eitygler~~m~~q~~~ 176 (1000)
T PRK14908 119 WENPTIGAWGLGWEVWLD-----------------GMEITQFTYFQ---QAGG--KPLDPISGEITYGIERIAMYLQKVN 176 (1000)
T ss_pred CCCCcccccccccEEEEC-----------------Ceeeeeeeeeh---hcCC--eeccccceeeeccHHHHHHHHhCCC
Confidence 652222666766777765 37776433332 2333 3455566778899999999999999
Q ss_pred Ccccc
Q 004997 282 NNYET 286 (720)
Q Consensus 282 s~ydt 286 (720)
++||.
T Consensus 177 ~~~~~ 181 (1000)
T PRK14908 177 HFKDI 181 (1000)
T ss_pred eeeee
Confidence 99986
No 26
>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=94.49 E-value=0.009 Score=69.84 Aligned_cols=92 Identities=21% Similarity=0.134 Sum_probs=69.8
Q ss_pred HHHHHHhcCCCCCceeccCCCCCccCCCCCCCCCCceEEEeecCCCCCCCCCCCCCCCceEEEeeeec---ccccccCCC
Q 004997 178 FEIWNKEVGVPVEHIKRMGADDNFWNSGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVF---MQYNKKDDG 254 (720)
Q Consensus 178 ~~iW~~~~g~~~~rI~~~~~~dNfW~~G~~GpcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVF---mq~~r~~dG 254 (720)
.+.-.+.+|||++||.- ....|. |.||+|-|.++. ..|.-+++| |+|....++
T Consensus 107 we~lt~~l~i~~~~l~v---t~~~~d----~ea~~~w~~~~g-----------------~~~~~i~~~~~~~nfw~~g~~ 162 (552)
T PF01411_consen 107 WEFLTEVLGIPPDRLYV---TVFEWD----GEAGEIWEKIVG-----------------GPEERILVFGKKDNFWEMGDT 162 (552)
T ss_dssp HHHHHCTTT--GGGEEE---EEECCE----CCCCCCCCECCT-----------------TECCCEEEE-CCEEEEESSTS
T ss_pred HHHHHhhcCCChHhEEE---EEeCCc----hhHHHHHHHhcC-----------------CCHHHeEecCCCCceEECCCC
Confidence 44556688999999964 333443 589999997752 378889999 999965553
Q ss_pred ccccCccCcccccchHHHHHHHHhcCCCcccccccHHHHHH
Q 004997 255 SLEPLKQKNIDTGLGLERIARILQKVPNNYETDLIFPIIKK 295 (720)
Q Consensus 255 ~l~~Lp~k~IDTGmGLERl~~vlqg~~s~ydtD~F~p~i~~ 295 (720)
....|..-||+|+|+||..|..++.++.|+. .|..|.+.
T Consensus 163 -gpcgpcseI~~d~G~e~~~~~~~~~~~~~~~-~~~eiwn~ 201 (552)
T PF01411_consen 163 -GPCGPCSEIFYDRGEERGCWDSQGTPTCDDD-RFLEIWNL 201 (552)
T ss_dssp -EEEEEEEEEEEEEECCCHHHHHHSTSSHHHH-HECCCCCC
T ss_pred -CCCCCCEEEEECCCcccCccccccccccccc-cHHHHHHH
Confidence 6889999999999999999999999998875 66555443
No 27
>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=93.51 E-value=0.14 Score=53.95 Aligned_cols=170 Identities=28% Similarity=0.361 Sum_probs=92.4
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCccc-ccccCCCCCCCCcccccCcccCCCc---cccCCCCC
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQFKP-IFLGKVPRQVPRAATSQRCIRTNDV---ENVGRTSR 126 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qFkp-~flG~~~p~~~r~~~~QkCiR~nDl---d~VG~t~r 126 (720)
.+|-.+--+|..++|..++.++.+= -|--.|-| -|+..-.|..-+++=+|+|.|-.|= +|=-+ -.
T Consensus 2 Q~iI~~Lq~fW~~~GC~i~qPyD~e----------vGAGT~~P~Tflr~Lgpepw~vaYVqPsrRP~DGRYGeNPNR-Lq 70 (284)
T PF02091_consen 2 QDIILTLQKFWADQGCIILQPYDIE----------VGAGTFHPATFLRALGPEPWNVAYVQPSRRPTDGRYGENPNR-LQ 70 (284)
T ss_dssp HHHHHHHHHHHHCTT-EE----SS------------SSGGGSHHHHTTTSSSS-EEEEEEEEEE-GGG--TTTSSS---S
T ss_pred HHHHHHHHHHHHHCCCEEECCcccc----------cccccCCHHHHHHhcCCCCccccccccCCCCCCCccCCCchH-hh
Confidence 3566677789999999999877653 23446777 3455555655689999999999652 34333 34
Q ss_pred cccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccCCCC
Q 004997 127 HHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSGA 206 (720)
Q Consensus 127 HhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~~G~ 206 (720)
||.=|..+=--|-++ ..+.=.+-| +.+||++.. |=++|- +|| |+-=.
T Consensus 71 ~y~QfQVilKPsP~n-----iq~lYL~SL-~~lGId~~~-------------------------hDIRFV-EDn-WEsPt 117 (284)
T PF02091_consen 71 HYYQFQVILKPSPDN-----IQELYLESL-EALGIDPKE-------------------------HDIRFV-EDN-WESPT 117 (284)
T ss_dssp EEEEEEEEEES--TT-----HHHHHHHHH-HHCT--CCC-------------------------S-EEEE-EE--EEETT
T ss_pred hhheeEEEEcCCCcc-----HHHHHHHHH-HHhCCCccc-------------------------cceeEe-ecC-CCCCc
Confidence 555566665555554 111112222 356777664 224442 444 65221
Q ss_pred CCCCCCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcCCCcccc
Q 004997 207 TGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNNYET 286 (720)
Q Consensus 207 ~GpcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s~ydt 286 (720)
-|--|===|+-.| ++||=-.-++| + -.| .++..-.+.-=+||||||+.|||+.++||.
T Consensus 118 LGAwGlGWEVWld-----------------GMEITQfTYFQ--Q-vGG--i~~~pv~~EITYGLERiamylQ~vdnv~dl 175 (284)
T PF02091_consen 118 LGAWGLGWEVWLD-----------------GMEITQFTYFQ--Q-VGG--IDCKPVSVEITYGLERIAMYLQGVDNVYDL 175 (284)
T ss_dssp TTEEEEEEEEEET-----------------TCEEEEEEEEE--E-ETT--EE-SS--EEEEEEHHHHHHHHCT-SSGGGS
T ss_pred ccccccccEEEEC-----------------CEEEEEeeeee--e-eCC--ccccccceehhhhHHHHHHHHhCCCeeEee
Confidence 2555655676664 37776443333 2 233 345566778889999999999999999997
No 28
>COG0752 GlyQ Glycyl-tRNA synthetase, alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=92.53 E-value=1.4 Score=46.23 Aligned_cols=175 Identities=25% Similarity=0.340 Sum_probs=102.1
Q ss_pred CCCCChHHHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCcccc-cccCCCCCCCCcccccCcccCCCc---cc
Q 004997 45 DFPSSGDSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQFKPI-FLGKVPRQVPRAATSQRCIRTNDV---EN 120 (720)
Q Consensus 45 ~~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qFkp~-flG~~~p~~~r~~~~QkCiR~nDl---d~ 120 (720)
.++|+-.+|--+--+|..++|..++-++-+- .|--.|-|+ ||..--|.-=.++-+|+|-|-.|= +|
T Consensus 2 ~~~~~fQ~~IltLq~yW~~qGC~i~QpyD~e----------vGAGT~hPaTfLralGpePw~aAYVqPSRRP~DGRYGen 71 (298)
T COG0752 2 NKKLTFQGLILTLQNYWAEQGCTILQPYDME----------VGAGTFHPATFLRALGPEPWNAAYVQPSRRPTDGRYGEN 71 (298)
T ss_pred CccccHHHHHHHHHHHHHHcCCEEecccccc----------cccCcCChHHHHHhcCCCccceeeeccCCCCCCCCCCCC
Confidence 3578999999999999999999998766442 334478885 454444443458899999998662 22
Q ss_pred cCCCCCcccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEEeCChHHHHHHHHHhcCCCC-CceeccCCCC
Q 004997 121 VGRTSRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISVYEDDDEAFEIWNKEVGVPV-EHIKRMGADD 199 (720)
Q Consensus 121 VG~t~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv~~~D~e~~~iW~~~~g~~~-~rI~~~~~~d 199 (720)
--+=.+||- |..+ ++=+|+++- |-|=-=++.+||++ +|=+||- +|
T Consensus 72 PNRlq~yyQ-fQVi------------------------lKPsP~NiQ--------eLYL~SL~~lGid~~~HDIRFV-ED 117 (298)
T COG0752 72 PNRLQHYYQ-FQVI------------------------IKPSPDNIQ--------ELYLGSLEALGIDPLEHDIRFV-ED 117 (298)
T ss_pred chhhhhhee-EEEE------------------------ecCCCccHH--------HHHHHHHHHcCCChhhcceeee-cc
Confidence 222122233 2221 222232210 00000011234332 2345553 34
Q ss_pred CccCCCCCCCCCCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhc
Q 004997 200 NFWNSGATGPCGPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQK 279 (720)
Q Consensus 200 NfW~~G~~GpcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg 279 (720)
=|+-=.-|--|-==|+..| ++||=-.-++| + -.| +. +..-.+.--+||||||+.+||
T Consensus 118 -nWE~PTlGawGlGWEVWld-----------------GMEvTQFTYFQ--Q-vGG-ie-c~pV~~EITYGlERlAmYiQ~ 174 (298)
T COG0752 118 -NWENPTLGAWGLGWEVWLD-----------------GMEVTQFTYFQ--Q-VGG-LE-CKPVSGEITYGLERLAMYIQG 174 (298)
T ss_pred -CCCCCcccccccceeEEEc-----------------Ceeeeeeehhh--h-hCC-ee-ccceeeeeehhHHHHHHHHhC
Confidence 4763333777777787765 37775433322 2 233 22 333455667999999999999
Q ss_pred CCCcccc
Q 004997 280 VPNNYET 286 (720)
Q Consensus 280 ~~s~ydt 286 (720)
+.++||-
T Consensus 175 vdnVydl 181 (298)
T COG0752 175 VDNVYDL 181 (298)
T ss_pred ccceeEE
Confidence 9999996
No 29
>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=91.49 E-value=1.2 Score=48.85 Aligned_cols=94 Identities=24% Similarity=0.409 Sum_probs=60.0
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCc------ccccccCCCC--------CCCCcccccCcccCC
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQF------KPIFLGKVPR--------QVPRAATSQRCIRTN 116 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qF------kp~flG~~~p--------~~~r~~~~QkCiR~n 116 (720)
+.|.+.+-+||.++|...|..-.+.+.+.. ++..+| +|.+|-+.+- ...|+-...+|.|..
T Consensus 28 s~i~~~ir~~f~~~gf~eV~TP~l~~~~~e-----~~~~~f~~~~~~~~~yL~~Spql~lk~l~~~~~~vf~i~~~FR~E 102 (322)
T cd00776 28 SEVLRAFREFLRENGFTEVHTPKITSTDTE-----GGAELFKVSYFGKPAYLAQSPQLYKEMLIAALERVYEIGPVFRAE 102 (322)
T ss_pred HHHHHHHHHHHHHCCCEEeeCCceecCCCC-----ccCCccccccCCCcceecCCHHHHHHHHHHhhhhhEEeccccccC
Confidence 578888999999999999976666652111 333444 4455543211 247888889999995
Q ss_pred CccccCCCCCcccccccccCC-ccC-cccHHHHHHHHHHHh
Q 004997 117 DVENVGRTSRHHTFFEMLGNF-SFG-DYFKKEAIQWAWEFS 155 (720)
Q Consensus 117 Dld~VG~t~rHhTfFEMLGn~-SFg-dYfK~eai~~awe~L 155 (720)
+. .+.||+.=|-||.-. +|. || ++.++.+=++|
T Consensus 103 ~~----~~~rHl~EFtmlE~e~~~~~~~--~dlm~~~e~ll 137 (322)
T cd00776 103 KS----NTRRHLSEFWMLEAEMAFIEDY--NEVMDLIEELI 137 (322)
T ss_pred CC----CcCCCcceeeccceeeeccCCH--HHHHHHHHHHH
Confidence 42 257999999998754 444 44 34444444444
No 30
>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=90.96 E-value=2.7 Score=47.99 Aligned_cols=97 Identities=21% Similarity=0.302 Sum_probs=58.2
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcC-C-CCcc-ceecccccCc-ccccccCCCC---------CCCCcccccCcccCCC
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVP-E-DPTV-LLTIAGMLQF-KPIFLGKVPR---------QVPRAATSQRCIRTND 117 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp-~-Dptl-lFtnAGM~qF-kp~flG~~~p---------~~~r~~~~QkCiR~nD 117 (720)
+.|-+.+-+||.++|...|..--|++ . ++.. +|.- .-| ++.+|-+.+- ...|+=...+|.|+-+
T Consensus 137 s~i~~~iR~ff~~~gf~EV~TP~L~~~~~eg~~~~f~v---~~~~~~~yL~~Spql~~q~li~~g~~rVf~i~~~FR~E~ 213 (428)
T TIGR00458 137 SGVLESVREFLAEEGFIEVHTPKLVASATEGGTELFPI---TYFEREAFLGQSPQLYKQQLMAAGFERVYEIGPIFRAEE 213 (428)
T ss_pred HHHHHHHHHHHHHCCCEEEeCCceecCCCCCCcceeee---EecCCcEEECcCHHHHHHHHHhcccCcEEEEecccccCC
Confidence 35556777899999999886544543 1 1111 1210 001 3334433211 2467888899999954
Q ss_pred ccccCCCCCcccccccccCC-ccCcccHHHHHHHHHHHhh
Q 004997 118 VENVGRTSRHHTFFEMLGNF-SFGDYFKKEAIQWAWEFST 156 (720)
Q Consensus 118 ld~VG~t~rHhTfFEMLGn~-SFgdYfK~eai~~awe~Lt 156 (720)
. + |.||.+=|-||--. +|.|| ++.++.+=+++.
T Consensus 214 ~---~-t~rHl~EFt~lE~e~a~~~~--~dlm~~~e~li~ 247 (428)
T TIGR00458 214 H---N-THRHLNEATSIDIEMAFEDH--HDVMDILEELVV 247 (428)
T ss_pred C---C-CccchheeeEeeeeeccCCH--HHHHHHHHHHHH
Confidence 3 3 57999999998654 77787 666666655543
No 31
>PRK09350 poxB regulator PoxA; Provisional
Probab=88.48 E-value=2.9 Score=45.56 Aligned_cols=108 Identities=15% Similarity=0.140 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCccc-c-----------cccCC---------CCCCCCcccc
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQFKP-I-----------FLGKV---------PRQVPRAATS 109 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qFkp-~-----------flG~~---------~p~~~r~~~~ 109 (720)
++|.+.+-+||.++|...|..--+.+-+. .+|.+.+|+. | +|-+. .....|+...
T Consensus 9 ~~i~~~ir~~f~~~gf~EV~TP~l~~~~~----~~~~~~~f~~~y~~~~~~~~~~~~L~~SPe~~~kr~la~~~~rvf~i 84 (306)
T PRK09350 9 AKIIAEIRRFFADRGVLEVETPILSQATV----TDIHLVPFETRFVGPGASQGKTLWLMTSPEYHMKRLLAAGSGPIFQI 84 (306)
T ss_pred HHHHHHHHHHHHHCCCEEEECCeEecccC----CCccCCceeeeeccccccCCcceEEecCHHHHHHHHhhccccceEEe
Confidence 57889999999999999885544433110 1233333432 2 22111 0124588888
Q ss_pred cCcccCCCccccCCCCCcccccccccCC-ccCcccHHHHHHHHHHHhhcccCCCCCceEEEE
Q 004997 110 QRCIRTNDVENVGRTSRHHTFFEMLGNF-SFGDYFKKEAIQWAWEFSTVEFGLPANRLWISV 170 (720)
Q Consensus 110 QkCiR~nDld~VG~t~rHhTfFEMLGn~-SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv 170 (720)
.+|.|+... |.||.+=|-||=-. +|.|| ++.+...=+++...++..+-+ .+||
T Consensus 85 ~~~FR~e~~-----~~~H~~EFt~lE~y~~~~d~--~dlm~~~E~li~~i~~~~~~~-~i~~ 138 (306)
T PRK09350 85 CKSFRNEEA-----GRYHNPEFTMLEWYRPHYDM--YRLMNEVDDLLQQVLDCEPAE-SLSY 138 (306)
T ss_pred cceeecCCC-----CCCCCcHHHhhhhhhhCCCH--HHHHHHHHHHHHHHHhcCCce-EEEH
Confidence 899999664 57999988887553 45564 677888888877777664432 3554
No 32
>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=88.05 E-value=1.1 Score=47.81 Aligned_cols=96 Identities=21% Similarity=0.296 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcC---CCCccceec-ccccCc-ccccccCCC---------CCCCCcccccCcccCC
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVP---EDPTVLLTI-AGMLQF-KPIFLGKVP---------RQVPRAATSQRCIRTN 116 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp---~DptllFtn-AGM~qF-kp~flG~~~---------p~~~r~~~~QkCiR~n 116 (720)
++|-+.+-+||.++|-..|..--+.+ +...-.|.- .- .+ ++++|-+.+ ....|+-...+|.|.-
T Consensus 5 s~i~~~ir~~f~~~gf~ev~tP~l~~~~~~~~~~~f~~~~~--~~g~~~~L~~Spql~~~~~~~~~~~~vf~i~~~fR~e 82 (269)
T cd00669 5 SKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVKYN--ALGLDYYLRISPQLFKKRLMVGGLDRVFEINRNFRNE 82 (269)
T ss_pred HHHHHHHHHHHHHCCCEEEECCEEeccCCccccceEEeeec--CCCCcEEeecCHHHHHHHHHhcCCCcEEEEecceeCC
Confidence 57888999999999999885544432 111112211 00 00 222232110 1245777888999983
Q ss_pred CccccCCCCCcccccccccCC-ccCcccHHHHHHHHHHHh
Q 004997 117 DVENVGRTSRHHTFFEMLGNF-SFGDYFKKEAIQWAWEFS 155 (720)
Q Consensus 117 Dld~VG~t~rHhTfFEMLGn~-SFgdYfK~eai~~awe~L 155 (720)
+.|.||+.=|-||--- +|.|| ++.+..+=+++
T Consensus 83 -----~~~~~hl~EF~~le~e~~~~~~--~dvm~~~e~lv 115 (269)
T cd00669 83 -----DLRARHQPEFTMMDLEMAFADY--EDVIELTERLV 115 (269)
T ss_pred -----CCCCCcccceeEEEEEEecCCH--HHHHHHHHHHH
Confidence 3478999999998653 66665 44555554444
No 33
>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=84.89 E-value=11 Score=41.54 Aligned_cols=99 Identities=16% Similarity=0.238 Sum_probs=59.2
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcC-CCCcc--ceecccccCcccccccCCCC---------CCCCcccccCcccCCCc
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVP-EDPTV--LLTIAGMLQFKPIFLGKVPR---------QVPRAATSQRCIRTNDV 118 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp-~Dptl--lFtnAGM~qFkp~flG~~~p---------~~~r~~~~QkCiR~nDl 118 (720)
++|-+.+-+||.++|-.-|..--+++ ..+.- .|..-.-..-++.+|-+.+. ...|+=...+|.|+-+.
T Consensus 12 s~i~~~iR~ff~~~gf~EV~TP~L~~~~~~~~~~~f~~~~~~~~~~~yL~~Spql~~k~ll~~g~~~vf~i~~~FR~E~~ 91 (329)
T cd00775 12 SKIISYIRKFLDDRGFLEVETPMLQPIAGGAAARPFITHHNALDMDLYLRIAPELYLKRLIVGGFERVYEIGRNFRNEGI 91 (329)
T ss_pred HHHHHHHHHHHHHCCCEEEECCccccCCCCccceeEEeccCCCCcceeeccCHHHHHHHHHhcCCCcEEEEeccccCCCC
Confidence 46778888999999999886555555 22211 12110001123344433211 25688888999998654
Q ss_pred cccCCCCCcccccccccC-CccCcccHHHHHHHHHHHhh
Q 004997 119 ENVGRTSRHHTFFEMLGN-FSFGDYFKKEAIQWAWEFST 156 (720)
Q Consensus 119 d~VG~t~rHhTfFEMLGn-~SFgdYfK~eai~~awe~Lt 156 (720)
+ .||++=|-||=- .+|.+| +|.+..+=+++.
T Consensus 92 ---~--~rHl~EFt~le~e~~~~~~--~~~m~~~e~li~ 123 (329)
T cd00775 92 ---D--LTHNPEFTMIEFYEAYADY--NDMMDLTEDLFS 123 (329)
T ss_pred ---C--CCCCCceEEEEEeeecCCH--HHHHHHHHHHHH
Confidence 3 699999999844 466665 455555555544
No 34
>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=84.15 E-value=6.8 Score=45.61 Aligned_cols=98 Identities=16% Similarity=0.217 Sum_probs=56.9
Q ss_pred HHHHHHHHHHhhCCCeeecCccCcCC--CCcc-ceecccccCc-ccccccCCCC---------CCCCcccccCcccCCCc
Q 004997 52 SIRKRFLDFYASRGHKVLPSASLVPE--DPTV-LLTIAGMLQF-KPIFLGKVPR---------QVPRAATSQRCIRTNDV 118 (720)
Q Consensus 52 eiR~~Fl~fF~~~gH~~v~ssslvp~--Dptl-lFtnAGM~qF-kp~flG~~~p---------~~~r~~~~QkCiR~nDl 118 (720)
.|-+.+-+||.++|-..|..--|.+. ...+ .|+.- .+.| ++.+|-+++- ...|+=..-||.|.-++
T Consensus 177 ~i~~~iR~fl~~~gF~EVeTP~L~~~~gga~a~pF~t~-~~~~~~~~yLriSpELylKrlivgG~~rVfeIg~~FRnE~~ 255 (496)
T TIGR00499 177 KIIKAIRRFLDDRGFIEVETPMLQVIPGGANARPFITH-HNALDMDLYLRIAPELYLKRLIVGGFEKVYEIGRNFRNEGV 255 (496)
T ss_pred HHHHHHHHHHHHCcCEEEeCCeeecCCCCccceeEEee-cccCCCceEEecCHHHHHHHHHhCCCCceEEEecceecCCC
Confidence 45566778999999988855444341 1111 12110 0112 3344443311 24677788899998655
Q ss_pred cccCCCCCcccccccccC-CccCccc-----HHHHHHHHHHHh
Q 004997 119 ENVGRTSRHHTFFEMLGN-FSFGDYF-----KKEAIQWAWEFS 155 (720)
Q Consensus 119 d~VG~t~rHhTfFEMLGn-~SFgdYf-----K~eai~~awe~L 155 (720)
+.||..=|-||-- ++|.||- -++-|..++.-|
T Consensus 256 -----~~rH~pEFTmlE~y~a~~d~~dlm~~~E~li~~i~~~l 293 (496)
T TIGR00499 256 -----DTTHNPEFTMIEFYQAYADYEDLMDLTENLFKFLAQEL 293 (496)
T ss_pred -----CCcccchhheeehhhhcCCHHHHHHHHHHHHHHHHHHH
Confidence 3499999999976 5777873 334444444434
No 35
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=82.76 E-value=1.5 Score=48.47 Aligned_cols=27 Identities=11% Similarity=0.167 Sum_probs=19.9
Q ss_pred hHHHHHHHHHHHhhCCCeeecCccCcC
Q 004997 50 GDSIRKRFLDFYASRGHKVLPSASLVP 76 (720)
Q Consensus 50 ~~eiR~~Fl~fF~~~gH~~v~ssslvp 76 (720)
..++++.-.++|...|...+.+..|..
T Consensus 110 l~~~~~~Ir~if~~mGF~ev~gpeIes 136 (339)
T PRK00488 110 ITQTIEEIEDIFVGMGFEVAEGPEIET 136 (339)
T ss_pred HHHHHHHHHHHHHhCCCEEEeCCcccc
Confidence 456677777777788999988777654
No 36
>PLN02502 lysyl-tRNA synthetase
Probab=75.94 E-value=17 Score=43.06 Aligned_cols=81 Identities=20% Similarity=0.239 Sum_probs=49.0
Q ss_pred HHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCc--------ccccccCCCC---------CCCCcccccCccc
Q 004997 52 SIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQF--------KPIFLGKVPR---------QVPRAATSQRCIR 114 (720)
Q Consensus 52 eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qF--------kp~flG~~~p---------~~~r~~~~QkCiR 114 (720)
.|-+.+-+||.++|-..|..=-+.+.. ..|+--+| ++.+|-+.+- ...|+=..-+|.|
T Consensus 234 ~i~~~iR~fl~~~gF~EVeTPiL~~~~-----gGA~a~pF~t~~n~~~~~~yL~~Spel~lK~L~v~g~~rVfeIg~~FR 308 (553)
T PLN02502 234 KIISYIRRFLDDRGFLEVETPMLNMIA-----GGAAARPFVTHHNDLNMDLYLRIATELHLKRLVVGGFERVYEIGRQFR 308 (553)
T ss_pred HHHHHHHHHHHHCCCEEEECCeeeccC-----CCccccceeeecccCCcceeeecCHHHHHHHHHHhccCCEEEEcCeee
Confidence 344677789999998877443332310 11222222 2233322211 2567778889999
Q ss_pred CCCccccCCCCCcccccccccC-CccCcc
Q 004997 115 TNDVENVGRTSRHHTFFEMLGN-FSFGDY 142 (720)
Q Consensus 115 ~nDld~VG~t~rHhTfFEMLGn-~SFgdY 142 (720)
.-+++ .||..=|-||-- ++|.||
T Consensus 309 nE~~~-----~rH~pEFtmlE~y~a~~d~ 332 (553)
T PLN02502 309 NEGIS-----TRHNPEFTTCEFYQAYADY 332 (553)
T ss_pred CCCCC-----CccccceeehhhhhhcCCH
Confidence 85542 499999999977 588887
No 37
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=71.06 E-value=4.5 Score=37.88 Aligned_cols=24 Identities=29% Similarity=0.441 Sum_probs=20.5
Q ss_pred HHHHHHHhhcccCCCCCceEEEEe
Q 004997 148 IQWAWEFSTVEFGLPANRLWISVY 171 (720)
Q Consensus 148 i~~awe~Lt~~l~i~~~rL~vTv~ 171 (720)
-.---++|.++||||++|+||.++
T Consensus 78 s~~i~~~l~~~LgIp~dRiYI~f~ 101 (113)
T PTZ00450 78 TPRITAAITKECGIPAERIYVFYY 101 (113)
T ss_pred HHHHHHHHHHHcCCCcccEEEEEE
Confidence 344568899999999999999987
No 38
>KOG1501 consensus Arginine N-methyltransferase [General function prediction only]
Probab=68.62 E-value=7.2 Score=44.47 Aligned_cols=84 Identities=18% Similarity=0.278 Sum_probs=59.1
Q ss_pred CCccccCccCcccccchHHHHHHHHhcCCCcccccccHHHHHHHHHHhCCC-ccCCcc---ccccceEEe----ehhhhh
Q 004997 253 DGSLEPLKQKNIDTGLGLERIARILQKVPNNYETDLIFPIIKKASELANVS-YAQSND---RTNLNLKII----GDHLRA 324 (720)
Q Consensus 253 dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s~ydtD~F~p~i~~i~~~~g~~-y~~~~~---~~~~~~rvi----aDH~R~ 324 (720)
+|+.--| .|+||-||=-+-++-.|..+.|-..+|.|+.+...+++-++ +.+... +..+.+.++ ||-+-+
T Consensus 65 ~gkv~vL---digtGTGLLSmMAvragaD~vtA~EvfkPM~d~arkI~~kng~SdkI~vInkrStev~vg~~~RadI~v~ 141 (636)
T KOG1501|consen 65 IGKVFVL---DIGTGTGLLSMMAVRAGADSVTACEVFKPMVDLARKIMHKNGMSDKINVINKRSTEVKVGGSSRADIAVR 141 (636)
T ss_pred CceEEEE---EccCCccHHHHHHHHhcCCeEEeehhhchHHHHHHHHHhcCCCccceeeeccccceeeecCcchhhhhhH
Confidence 4554444 48999999999999999999999999999999998886543 211100 223345555 555544
Q ss_pred HHH---hhhCCCccCCCC
Q 004997 325 IVY---LLSDGVFPSNIG 339 (720)
Q Consensus 325 ~~~---~i~DGv~Psn~g 339 (720)
-.| +|..|++||=+-
T Consensus 142 e~fdtEligeGalps~qh 159 (636)
T KOG1501|consen 142 EDFDTELIGEGALPSLQH 159 (636)
T ss_pred hhhhhhhhccccchhHHH
Confidence 444 689999998543
No 39
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=64.74 E-value=6.9 Score=43.30 Aligned_cols=60 Identities=22% Similarity=0.344 Sum_probs=34.6
Q ss_pred CceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcCCC
Q 004997 212 PCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPN 282 (720)
Q Consensus 212 PcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s 282 (720)
|+-|+.+... .|..||||.+.=-..-+--..--+.|-+....==||||||||++.-|.+.
T Consensus 262 PS~Evdv~~~-----------~~~~WlEi~G~Gmv~P~VL~~~G~~~~~~~GfAfGlGlERlAMLkygI~D 321 (335)
T COG0016 262 PSAEVDVYCP-----------GCGGWLEILGCGMVHPNVLEAVGIDPEEYSGFAFGLGLERLAMLKYGIPD 321 (335)
T ss_pred CeEEEEEEEc-----------CCCCEEEEecccccCHHHHHhcCCCCCcceEEEEeecHHHHHHHHhCCcH
Confidence 5888887532 12468999864322222211111222222223679999999999988764
No 40
>PF03002 Somatostatin: Somatostatin/Cortistatin family; InterPro: IPR018142 Somatostatin inhibits the release of the pituitary growth hormone, somatotropin and inhibits the release of glucagon and insulin from the pancreas of fasted animals. Cortistatin is a cortical neuropeptide with neuronal depressant and sleep-modulating properties [].; GO: 0005179 hormone activity, 0005576 extracellular region
Probab=63.47 E-value=3.4 Score=26.27 Aligned_cols=12 Identities=33% Similarity=0.658 Sum_probs=10.2
Q ss_pred ccccceeeeccC
Q 004997 9 LPCGHFLFKGAT 20 (720)
Q Consensus 9 ~~~~~~~~~~~~ 20 (720)
-+|+.||||+-|
T Consensus 5 ~~CknffWK~~t 16 (18)
T PF03002_consen 5 AGCKNFFWKTFT 16 (18)
T ss_pred ccccceeecccc
Confidence 489999999765
No 41
>KOG1759 consensus Macrophage migration inhibitory factor [Defense mechanisms]
Probab=61.12 E-value=8.9 Score=36.05 Aligned_cols=26 Identities=23% Similarity=0.303 Sum_probs=21.7
Q ss_pred HHHHHHHhhcccCCCCCceEEEEeCC
Q 004997 148 IQWAWEFSTVEFGLPANRLWISVYED 173 (720)
Q Consensus 148 i~~awe~Lt~~l~i~~~rL~vTv~~~ 173 (720)
..--.|+|.++|+|||+|+|+++|.-
T Consensus 77 sa~l~~il~~~L~l~~~rv~I~f~dl 102 (115)
T KOG1759|consen 77 SAALTEILEKELSLDPDRVYIKFYDL 102 (115)
T ss_pred HHHHHHHHHHHhCCCCCeEEEEEecC
Confidence 33456899999999999999999854
No 42
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=59.48 E-value=10 Score=35.15 Aligned_cols=30 Identities=7% Similarity=0.091 Sum_probs=24.4
Q ss_pred cHHHHHHHHHHHhhcccCCCCCceEEEEeC
Q 004997 143 FKKEAIQWAWEFSTVEFGLPANRLWISVYE 172 (720)
Q Consensus 143 fK~eai~~awe~Lt~~l~i~~~rL~vTv~~ 172 (720)
-|++-.+---++|.+.||+||+|+||.++.
T Consensus 73 ~k~~l~~~i~~~l~~~lgi~~~rv~I~f~~ 102 (116)
T PTZ00397 73 NNSSIAAAITKILASHLKVKSERVYIEFKD 102 (116)
T ss_pred HHHHHHHHHHHHHHHHhCcCcccEEEEEEE
Confidence 356666667788999999999999998763
No 43
>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=57.37 E-value=43 Score=36.44 Aligned_cols=107 Identities=20% Similarity=0.222 Sum_probs=68.1
Q ss_pred hHHHHHHHHHHHhhCCCeeecCccCcCCCCccc-----eecccccCcccccccCC-------CCC--------------C
Q 004997 50 GDSIRKRFLDFYASRGHKVLPSASLVPEDPTVL-----LTIAGMLQFKPIFLGKV-------PRQ--------------V 103 (720)
Q Consensus 50 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~Dptll-----FtnAGM~qFkp~flG~~-------~p~--------------~ 103 (720)
-.+|++.+.+.|+++|...|.+..+-|-+ ++ ..+..|..|..- .|.. ++| .
T Consensus 11 ~~~i~~~l~~~~~~~Gy~~i~tP~le~~~--~~~~~~~~~~~~~~~~~d~-~g~~l~LRpD~T~~iaR~~~~~~~~~~~p 87 (314)
T TIGR00443 11 KEEIERQLQDVFRSWGYQEIITPTLEYLD--TLSAGGGILNEDLFKLFDS-LGRVLGLRPDMTTPIARAVSTRLRDRPLP 87 (314)
T ss_pred HHHHHHHHHHHHHHcCCeeccCcchhhHH--HhcccCCcchhceEEEECC-CCCEEeecCcCcHHHHHHHHHhcccCCCC
Confidence 57899999999999999999665554511 21 234445555432 0210 111 1
Q ss_pred CCcccccCcccCCCccccCCCCCcccccccccCCccCcccHHHHHHHHHHHhhcccCCC
Q 004997 104 PRAATSQRCIRTNDVENVGRTSRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLP 162 (720)
Q Consensus 104 ~r~~~~QkCiR~nDld~VG~t~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~ 162 (720)
.|.+-+.+|.|.+.-..-.....+.+-||.+|.=|.- =-.|.|.+|++.|. .+|+.
T Consensus 88 ~r~~y~g~VfR~~~~~~gr~re~~Q~g~Eiig~~~~~--adaEvi~l~~~~l~-~lg~~ 143 (314)
T TIGR00443 88 LRLCYAGNVFRTNESGAGRSREFTQAGVELIGAGGPA--ADAEVIALLIEALK-ALGLK 143 (314)
T ss_pred eEEEEeceEeecCCCcCCCcccccccceEEeCCCCch--hHHHHHHHHHHHHH-HcCCC
Confidence 2566777788864422222234567889999987763 34799999999996 57875
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=55.06 E-value=5.2 Score=26.31 Aligned_cols=9 Identities=56% Similarity=1.678 Sum_probs=7.4
Q ss_pred CCCCCCceE
Q 004997 207 TGPCGPCSE 215 (720)
Q Consensus 207 ~GpcGPcsE 215 (720)
.|||+||++
T Consensus 12 ~G~C~pC~~ 20 (20)
T PF01422_consen 12 PGPCPPCPQ 20 (20)
T ss_pred CCcCCCCCC
Confidence 499999974
No 45
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=52.96 E-value=12 Score=43.48 Aligned_cols=59 Identities=25% Similarity=0.230 Sum_probs=37.8
Q ss_pred CceEEEeecCCCCCCCCCCCCCCCceEEEeeeeccccccc-CCCccccCccCcccccchHHHHHHHHhcCCCc
Q 004997 212 PCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKK-DDGSLEPLKQKNIDTGLGLERIARILQKVPNN 283 (720)
Q Consensus 212 PcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~-~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s~ 283 (720)
|+.||+..+.. +.+||||.|.=.++-+-- +-| + |=+..++==||||||+|++.-|.+..
T Consensus 425 PS~Ev~v~~~~-----------~gkWIEIgg~Gm~rpevL~~~G-i-~~~~~~~A~GlGleRlaMi~ygi~DI 484 (494)
T PTZ00326 425 PSMEIFGYHPG-----------LKKWVEVGNSGIFRPEMLRPMG-F-PEDVTVIAWGLSLERPTMIKYGIKNI 484 (494)
T ss_pred CeeEEEEEecC-----------CCcEEEEeCcCccCHHHHHhcC-C-CCcceEEEEEecHHHHHHHHhCCcHH
Confidence 57888875421 236999998765553321 223 1 11223677799999999999887543
No 46
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=51.36 E-value=57 Score=36.66 Aligned_cols=110 Identities=15% Similarity=0.120 Sum_probs=67.7
Q ss_pred CCCChHHHHHHHHHHHhhCCCeeecCccCcCCCCccce------ecccccCcc----------cccc--------cCCCC
Q 004997 46 FPSSGDSIRKRFLDFYASRGHKVLPSASLVPEDPTVLL------TIAGMLQFK----------PIFL--------GKVPR 101 (720)
Q Consensus 46 ~~~~~~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllF------tnAGM~qFk----------p~fl--------G~~~p 101 (720)
+-+...+|++++.+-|+++|...|....+-+-| ++. +..-|..|. |=++ -...+
T Consensus 3 ~~~~~~~i~~~i~~~f~~~Gy~~I~tP~lE~~e--~~~~~~g~~~~~~~~~f~D~~G~~l~LRpD~T~piaR~~~~~~~~ 80 (373)
T PRK12295 3 PLSASAAAAEALLASFEAAGAVRVDPPILQPAE--PFLDLSGEDIRRRIFVTSDENGEELCLRPDFTIPVCRRHIATAGG 80 (373)
T ss_pred cchhHHHHHHHHHHHHHHcCCEEeeCCccccHH--HhhhccCchhhcceEEEECCCCCEEeeCCCCcHHHHHHHHHcCCC
Confidence 445678999999999999999999665554522 111 112233332 2111 00011
Q ss_pred CCCCcccccCcccCCCccccCCCCCcccccccccCCccCcccHHHHHHHHHHHhhcccCCC
Q 004997 102 QVPRAATSQRCIRTNDVENVGRTSRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLP 162 (720)
Q Consensus 102 ~~~r~~~~QkCiR~nDld~VG~t~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~ 162 (720)
...|.+-+++|.|.+ .-...--|..-||.+|.-+-- +--.|.|..|++.|. .+|+.
T Consensus 81 ~p~R~~Y~g~VfR~~---~gr~rEf~Q~GvEiiG~~~~~-~aDaEvi~l~~~~L~-~lgl~ 136 (373)
T PRK12295 81 EPARYAYLGEVFRQR---RDRASEFLQAGIESFGRADPA-AADAEVLALALEALA-ALGPG 136 (373)
T ss_pred CCeEEEEEccEEECC---CCCCCcceEeeEEeeCCCCCc-cchHHHHHHHHHHHH-HcCCC
Confidence 223677778888876 222334557889999965411 236899999999884 67876
No 47
>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=51.13 E-value=22 Score=36.23 Aligned_cols=106 Identities=25% Similarity=0.360 Sum_probs=64.2
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcCCCCccceeccc--------ccCcc----------------------cccccCCC
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAG--------MLQFK----------------------PIFLGKVP 100 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAG--------M~qFk----------------------p~flG~~~ 100 (720)
..|.+.+.+.|+++|...|....+.|-+ ++ ...| |..|. .++.....
T Consensus 6 ~~l~~~~~~~~~~~G~~ei~~P~l~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LrP~~~~~i~~~~~~~~~ 82 (235)
T cd00670 6 RALERFLDDRMAEYGYQEILFPFLAPTV--LF-FKGGHLDGYRKEMYTFEDKGRELRDTDLVLRPAACEPIYQIFSGEIL 82 (235)
T ss_pred HHHHHHHHHHHHHcCCEEEECCeEcCHH--HH-hhcCCcccchhhcCeeccCcccccCCeEEEecCCCHHHHHHHhccCc
Confidence 4688889999999999988777777622 11 1111 22221 11111111
Q ss_pred C--C-CCCcccccCcccCCCccccCCCCCcccccccccCCccCc-----ccHHHHHHHHHHHhhcccCCC
Q 004997 101 R--Q-VPRAATSQRCIRTNDVENVGRTSRHHTFFEMLGNFSFGD-----YFKKEAIQWAWEFSTVEFGLP 162 (720)
Q Consensus 101 p--~-~~r~~~~QkCiR~nDld~VG~t~rHhTfFEMLGn~SFgd-----YfK~eai~~awe~Lt~~l~i~ 162 (720)
+ + --|++.+.+|.|..--..-|. .|-+- |.|.|-..||+ ..-.|.+++++++|. .||++
T Consensus 83 ~~~~lP~r~~~~g~~fR~E~~~~~gl-~R~re-F~q~e~~~~~~~~~~~~~~~e~~~~~~~~l~-~lgl~ 149 (235)
T cd00670 83 SYRALPLRLDQIGPCFRHEPSGRRGL-MRVRE-FRQVEYVVFGEPEEAEEERREWLELAEEIAR-ELGLP 149 (235)
T ss_pred cchhcCeeeeeecccccCCCCCCCCC-hhhee-eeeceEEEEcCHHHHHHHHHHHHHHHHHHHH-HcCCc
Confidence 1 1 126778888999742222333 24333 89999999984 345678899999984 56874
No 48
>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=47.17 E-value=10 Score=40.25 Aligned_cols=27 Identities=7% Similarity=0.178 Sum_probs=21.6
Q ss_pred hHHHHHHHHHHHhhCCCeeecCccCcC
Q 004997 50 GDSIRKRFLDFYASRGHKVLPSASLVP 76 (720)
Q Consensus 50 ~~eiR~~Fl~fF~~~gH~~v~ssslvp 76 (720)
..++++.-.++|.+.|...+..++|..
T Consensus 19 ~~~~~~~i~~~~~~~Gf~e~~~~~v~s 45 (247)
T PF01409_consen 19 ITKFIREIRDIFVGMGFQEVEGPEVES 45 (247)
T ss_dssp HHHHHHHHHHHHHCTTSEEESTTSEEE
T ss_pred HHHHHHHHHHHHHHCCCeEeeCCeEEe
Confidence 467777888899999999999877743
No 49
>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=46.14 E-value=17 Score=33.63 Aligned_cols=23 Identities=30% Similarity=0.550 Sum_probs=17.2
Q ss_pred HHHHHHhhcccCCCCCceEEEEe
Q 004997 149 QWAWEFSTVEFGLPANRLWISVY 171 (720)
Q Consensus 149 ~~awe~Lt~~l~i~~~rL~vTv~ 171 (720)
.---+||.+.||||++|+||.++
T Consensus 77 ~~i~~~l~~~LgIp~~Riyi~f~ 99 (114)
T PF01187_consen 77 AAITEFLEEELGIPPDRIYINFH 99 (114)
T ss_dssp HHHHHHHHHHHT--GGGEEEEEE
T ss_pred HHHHHHHHHHhCCCcCceEEEEE
Confidence 33457899999999999999876
No 50
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=45.20 E-value=36 Score=40.32 Aligned_cols=94 Identities=21% Similarity=0.344 Sum_probs=58.8
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCc------ccccccCCCC---------CCCCcccccCcccC
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQF------KPIFLGKVPR---------QVPRAATSQRCIRT 115 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qF------kp~flG~~~p---------~~~r~~~~QkCiR~ 115 (720)
+.|-+.|-+||.++|...|..-.|+... +..|-+.| ++++|-+.+- ...|+=...+|.|+
T Consensus 217 s~i~~~~R~fl~~~gFiEV~TP~L~~~~-----~egga~~F~v~yf~~~~~L~qSpql~kq~li~~g~~rVfeI~p~FRa 291 (550)
T PTZ00401 217 SRVCQYFRQFLIDSDFCEIHSPKIINAP-----SEGGANVFKLEYFNRFAYLAQSPQLYKQMVLQGDVPRVFEVGPVFRS 291 (550)
T ss_pred HHHHHHHHHHHHHCCCEEEeCCccccCC-----CCccccccccccCCCCeecCCCHHHHHHHHHhcCCCCEEEEeCeEeC
Confidence 3667788899999999988655444311 11122223 3445543221 35788888999999
Q ss_pred CCccccCCCCCcccccccccC-CccC-cccHHHHHHHHHHHh
Q 004997 116 NDVENVGRTSRHHTFFEMLGN-FSFG-DYFKKEAIQWAWEFS 155 (720)
Q Consensus 116 nDld~VG~t~rHhTfFEMLGn-~SFg-dYfK~eai~~awe~L 155 (720)
-+ .+ |.||++=|-||=- .+|+ +|. |.++.+=+++
T Consensus 292 E~---s~-T~RHl~EFt~Le~E~~~~~~y~--evm~~~e~l~ 327 (550)
T PTZ00401 292 EN---SN-THRHLTEFVGLDVEMRINEHYY--EVLDLAESLF 327 (550)
T ss_pred CC---CC-CCCCccchhhhhhhhHhcCCHH--HHHHHHHHHH
Confidence 54 33 7899999999977 6886 453 4444444443
No 51
>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=40.48 E-value=42 Score=35.33 Aligned_cols=109 Identities=15% Similarity=0.113 Sum_probs=66.3
Q ss_pred hHHHHHHHHHHHhhCCCeeecCccCcCCCCccce------ecccccCc----------ccccc-c-------CCC--CCC
Q 004997 50 GDSIRKRFLDFYASRGHKVLPSASLVPEDPTVLL------TIAGMLQF----------KPIFL-G-------KVP--RQV 103 (720)
Q Consensus 50 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllF------tnAGM~qF----------kp~fl-G-------~~~--p~~ 103 (720)
-..|++.+.+.|+++|...|....+.|-| ++. ...-|..| .|-++ . ... +-.
T Consensus 5 ~~~l~~~l~~~f~~~Gy~~v~tP~le~~~--~~~~~~~~~~~~~~~~~~d~~g~~l~LRpd~T~~iaR~~a~~~~~~~~p 82 (261)
T cd00773 5 RRYIEDTLREVFERYGYEEIDTPVFEYTE--LFLRKSGDEVSKEMYRFKDKGGRDLALRPDLTAPVARAVAENLLSLPLP 82 (261)
T ss_pred HHHHHHHHHHHHHHcCCEEeeccceeeHH--HhcccccccccceEEEEECCCCCEEEeCCCCcHHHHHHHHhcCccCCCC
Confidence 35789999999999999999777776622 111 11112222 22111 0 000 111
Q ss_pred CCcccccCcccCCCccccCCCCCcccccccccCCccCcccHHHHHHHHHHHhhcccCCCC
Q 004997 104 PRAATSQRCIRTNDVENVGRTSRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPA 163 (720)
Q Consensus 104 ~r~~~~QkCiR~nDld~VG~t~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~ 163 (720)
.|...+++|.|.+.-..-..-..+..-+|++|.-|.- --.|.|.++++.| +.+|++.
T Consensus 83 ~k~~y~g~vfR~e~~~~g~~re~~Q~g~Eiig~~~~~--~daE~i~l~~~~l-~~lg~~~ 139 (261)
T cd00773 83 LKLYYIGPVFRYERPQKGRYREFYQVGVEIIGSDSPL--ADAEVIALAVEIL-EALGLKD 139 (261)
T ss_pred eEEEEEcCEEecCCCCCCCccceEEeceeeeCCCChH--HHHHHHHHHHHHH-HHcCCCc
Confidence 2678888999986543322223456778899886552 2368999999998 4678654
No 52
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=39.36 E-value=28 Score=40.54 Aligned_cols=58 Identities=28% Similarity=0.296 Sum_probs=35.8
Q ss_pred CCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccc-cCCCccccCccC--cccccchHHHHHHHHhcCCCc
Q 004997 211 GPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNK-KDDGSLEPLKQK--NIDTGLGLERIARILQKVPNN 283 (720)
Q Consensus 211 GPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r-~~dG~l~~Lp~k--~IDTGmGLERl~~vlqg~~s~ 283 (720)
=|+.||+..+. . ...||||.|.=-..-+- .+-| +|.+ .+=-||||||+|++.-|.+..
T Consensus 409 EPS~Ei~v~~~-~----------~gkWiEi~g~Gm~rpevl~~~G----i~~~~~~~A~GlGleRlaMl~ygi~DI 469 (492)
T PLN02853 409 EPSMEIFSYHE-G----------LKKWVEVGNSGMFRPEMLLPMG----LPEDVNVIAWGLSLERPTMILYGIDNI 469 (492)
T ss_pred CCeEEEEEEec-C----------CCCEEEEecCcCcCHHHHHhCC----CCCcceEEEEEecHHHHHHHHhCCcHH
Confidence 36888887432 1 12489998752222111 1223 2433 678899999999999887654
No 53
>cd00830 KAS_III Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl carrier protein (ACP) with acyl-ACP. KASIII initiates this process by specifically using acetyl-CoA over acyl-CoA.
Probab=39.25 E-value=9.1 Score=40.90 Aligned_cols=81 Identities=20% Similarity=0.207 Sum_probs=53.9
Q ss_pred cccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCce-EEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccCCC
Q 004997 127 HHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRL-WISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSG 205 (720)
Q Consensus 127 HhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL-~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~~G 205 (720)
.-.+|.|.|...|-.+- +...+...++| +..|+.++.+ |+-.+.......+.+.+.+|+|++|+.. .+.
T Consensus 206 ~~~~~~~~~~~~~~~~~-~~~~~~i~~~l-~~~g~~~~di~~~~~h~~~~~~~~~~~~~lgl~~~~~~~--------~~~ 275 (320)
T cd00830 206 GDPYLVMDGREVFKFAV-RLMPESIEEAL-EKAGLTPDDIDWFVPHQANLRIIEAVAKRLGLPEEKVVV--------NLD 275 (320)
T ss_pred cCccEEEcChHHHHHHH-HhhHHHHHHHH-HHcCCCHHHCCEEEECCCCHHHHHHHHHHhCCCHHHhhh--------hHH
Confidence 34567777776554322 22223333444 4679998887 6667778888888899999999999842 234
Q ss_pred CCCCCCCceEEEe
Q 004997 206 ATGPCGPCSEIYY 218 (720)
Q Consensus 206 ~~GpcGPcsEI~y 218 (720)
..|+||+|+ +++
T Consensus 276 ~~Gn~~sas-~~~ 287 (320)
T cd00830 276 RYGNTSAAS-IPL 287 (320)
T ss_pred hhCcHHHHH-HHH
Confidence 568999988 444
No 54
>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=38.70 E-value=17 Score=39.11 Aligned_cols=98 Identities=16% Similarity=0.217 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcC-CCCcc--ceecccccCccc-ccccCCC---------CCCCCcccccCcccCCC
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVP-EDPTV--LLTIAGMLQFKP-IFLGKVP---------RQVPRAATSQRCIRTND 117 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp-~Dptl--lFtnAGM~qFkp-~flG~~~---------p~~~r~~~~QkCiR~nD 117 (720)
++|-+.+-+||.++|-..|.+=-|++ ..+.. ..+..=- ..+. +.|-+.+ ....|+-...+|.|..
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 46778888999999998885444443 22211 2222100 0011 1132211 1346888889999994
Q ss_pred ccccCCCCCcccccccccCC-ccCcccHHHHHHHHHHHhh
Q 004997 118 VENVGRTSRHHTFFEMLGNF-SFGDYFKKEAIQWAWEFST 156 (720)
Q Consensus 118 ld~VG~t~rHhTfFEMLGn~-SFgdYfK~eai~~awe~Lt 156 (720)
+.+ ++||. =|-||+-- +|.|| ++.++..=+++.
T Consensus 83 --~~~-~~r~~-Ef~~~e~e~~~~~~--~dlm~~~e~li~ 116 (280)
T cd00777 83 --DLR-ADRQP-EFTQIDIEMSFVDQ--EDIMSLIEGLLK 116 (280)
T ss_pred --CCC-CCccc-eeEEeEeeeccCCH--HHHHHHHHHHHH
Confidence 344 56665 78888653 67775 445555554443
No 55
>COG3981 Predicted acetyltransferase [General function prediction only]
Probab=38.08 E-value=25 Score=35.42 Aligned_cols=34 Identities=32% Similarity=0.546 Sum_probs=30.5
Q ss_pred hhCCCccCCCCCchHHHHHHHHHHHHHHHhCCCCC
Q 004997 329 LSDGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGD 363 (720)
Q Consensus 329 i~DGv~Psn~grGYvlRrilRRA~r~~~~lg~~~~ 363 (720)
|+=||.||-.|+|| ..-+||=|+..++.||++.-
T Consensus 101 IGY~VrPseR~KGY-A~emLkl~L~~ar~lgi~~V 134 (174)
T COG3981 101 IGYSVRPSERRKGY-AKEMLKLALEKARELGIKKV 134 (174)
T ss_pred ccceeChhhhccCH-HHHHHHHHHHHHHHcCCCeE
Confidence 66788999999999 68999999999999999863
No 56
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=37.39 E-value=1.2e+02 Score=34.11 Aligned_cols=107 Identities=21% Similarity=0.298 Sum_probs=67.9
Q ss_pred hHHHHHHHHHHHhhCCCeeecCccCcCCCCccc------eecccccCcccccccCC-------C--------------CC
Q 004997 50 GDSIRKRFLDFYASRGHKVLPSASLVPEDPTVL------LTIAGMLQFKPIFLGKV-------P--------------RQ 102 (720)
Q Consensus 50 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~Dptll------FtnAGM~qFkp~flG~~-------~--------------p~ 102 (720)
-..|++.+.+.|+++|...|....+-+-| ++ .++.-|..|..-..|.. + +.
T Consensus 20 ~~~i~~~l~~~f~~~Gy~~i~tP~lE~~e--~~~~~~g~~~~~~~~~f~d~~~g~~l~LRpD~T~~iaR~~a~~~~~~~~ 97 (391)
T PRK12292 20 IEEIRRRLLDLFRRWGYEEVITPTLEYLD--TLLAGGGAILDLRTFKLVDQLSGRTLGLRPDMTAQIARIAATRLANRPG 97 (391)
T ss_pred HHHHHHHHHHHHHHcCCceeeCcchhhHH--HHhccCCccchhhhEEEeecCCCCEEEECCCCcHHHHHHHHHhccCCCC
Confidence 56899999999999999999554443311 11 12223445543211110 0 11
Q ss_pred CCCcccccCcccCCCccccCCC-CCcccccccccCCccCcccHHHHHHHHHHHhhcccCCC
Q 004997 103 VPRAATSQRCIRTNDVENVGRT-SRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLP 162 (720)
Q Consensus 103 ~~r~~~~QkCiR~nDld~VG~t-~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~ 162 (720)
..|++-+++|.|.+. ..-|+. --|..-||.+|.-|. +--.|.|.+|++.| +.+|++
T Consensus 98 p~r~~y~g~vfR~~~-~~~gr~ref~Q~g~EiiG~~~~--~aDaEvi~l~~~~l-~~lgl~ 154 (391)
T PRK12292 98 PLRLCYAGNVFRAQE-RGLGRSREFLQSGVELIGDAGL--EADAEVILLLLEAL-KALGLP 154 (391)
T ss_pred CeEEEeeceeeecCC-CcCCCccchhccceEEeCCCCc--hHHHHHHHHHHHHH-HHcCCC
Confidence 226777888888754 344444 445788999997665 33579999999998 467886
No 57
>KOG2783 consensus Phenylalanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=36.86 E-value=16 Score=40.95 Aligned_cols=22 Identities=41% Similarity=0.650 Sum_probs=17.1
Q ss_pred cCcccccchHHHHHHHHhcCCC
Q 004997 261 QKNIDTGLGLERIARILQKVPN 282 (720)
Q Consensus 261 ~k~IDTGmGLERl~~vlqg~~s 282 (720)
+--.=-||||||||++|=+-|.
T Consensus 294 ~igwafglgLerLAMll~~IpD 315 (436)
T KOG2783|consen 294 YIGWAFGLGLERLAMLLFDIPD 315 (436)
T ss_pred eeeeeeeccHHHHHHHHhcCcc
Confidence 3445569999999999977663
No 58
>PLN02850 aspartate-tRNA ligase
Probab=36.70 E-value=59 Score=38.35 Aligned_cols=83 Identities=19% Similarity=0.261 Sum_probs=53.1
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcCC--CCc-cceecccccCc-ccccccCCCC---------CCCCcccccCcccCCC
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVPE--DPT-VLLTIAGMLQF-KPIFLGKVPR---------QVPRAATSQRCIRTND 117 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp~--Dpt-llFtnAGM~qF-kp~flG~~~p---------~~~r~~~~QkCiR~nD 117 (720)
+.|-+.|-+||.++|...|..--|++. ++. -.|.- .-| ++++|-+.+- ...|+=..-+|.|+-+
T Consensus 229 s~i~~~~R~fl~~~gF~EV~TP~L~~~~~egga~~F~v---~yf~~~~~L~qSpql~kq~li~~g~~rVfeIgp~FRaE~ 305 (530)
T PLN02850 229 SQVCNLFREFLLSKGFVEIHTPKLIAGASEGGSAVFRL---DYKGQPACLAQSPQLHKQMAICGDFRRVFEIGPVFRAED 305 (530)
T ss_pred HHHHHHHHHHHHHCCcEEEeCCccccCCCccccceeee---ccCCcceecCCCHHHHHHHHHHhcCCceEEEecccccCC
Confidence 366678889999999988865445441 221 12221 011 4455543211 2578888899999954
Q ss_pred ccccCCCCCcccccccccCC-ccC
Q 004997 118 VENVGRTSRHHTFFEMLGNF-SFG 140 (720)
Q Consensus 118 ld~VG~t~rHhTfFEMLGn~-SFg 140 (720)
. .|.||.+=|-||=-- +|+
T Consensus 306 s----~t~RHl~EFt~Le~Em~~~ 325 (530)
T PLN02850 306 S----FTHRHLCEFTGLDLEMEIK 325 (530)
T ss_pred C----CCCccchhhccchhhhhhh
Confidence 2 578999999999655 776
No 59
>KOG1637 consensus Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=35.68 E-value=15 Score=42.08 Aligned_cols=50 Identities=20% Similarity=0.404 Sum_probs=40.3
Q ss_pred hhhCcHHHHHHHHHHhHhCCceeeeeeeccCCceEEEEecCCCCCHHHHHHHHH
Q 004997 622 KVHHTATHLLQAALKKVIGQETSQAGSLVAFDRLRFDFNFHRPLLDTELEEIER 675 (720)
Q Consensus 622 mr~HTAtHLL~aaLr~vlG~~v~q~Gs~v~~d~~R~DF~~~~~lt~eel~~IE~ 675 (720)
.-.||++|+|..|+.+.+|.+.. .|-.+ ++.+..|+ + ..++.++...||.
T Consensus 68 vfwhssahvlg~a~e~~~g~~lc-~Gpp~-~~gf~yd~-~-~~i~~~d~~~~e~ 117 (560)
T KOG1637|consen 68 VFWHSSAHVLGEALEQEYGAHLC-IGPPI-EEGFYYDM-L-DEISSNDFPSIEA 117 (560)
T ss_pred eeeehhhhHhhHHHHHhcCeeEe-eCCCC-cCceehhh-h-ccccccccccccc
Confidence 46899999999999999998764 45433 56778888 5 5689999888887
No 60
>smart00438 ZnF_NFX Repressor of transcription.
Probab=35.39 E-value=17 Score=25.58 Aligned_cols=11 Identities=45% Similarity=1.331 Sum_probs=8.6
Q ss_pred CCCCCCceEEE
Q 004997 207 TGPCGPCSEIY 217 (720)
Q Consensus 207 ~GpcGPcsEI~ 217 (720)
.|||+||.+..
T Consensus 12 ~G~C~pC~~~~ 22 (26)
T smart00438 12 PGPCPPCKQXX 22 (26)
T ss_pred CCcCcCccccc
Confidence 38999999644
No 61
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=35.23 E-value=1.4e+02 Score=33.83 Aligned_cols=105 Identities=15% Similarity=0.210 Sum_probs=65.5
Q ss_pred hHHHHHHHHHHHhhCCCeeecCccCcCCCCccceec--------ccccCcccccccCC-------CCC------------
Q 004997 50 GDSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTI--------AGMLQFKPIFLGKV-------PRQ------------ 102 (720)
Q Consensus 50 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtn--------AGM~qFkp~flG~~-------~p~------------ 102 (720)
-..|++.+.+.|+++|...|....+-|-| ++... -.|..|.+- .|.. ++|
T Consensus 21 ~~~i~~~l~~~f~~~Gy~~i~tP~lE~~~--~~~~~~~~~~~~~~~~~~~~D~-~g~~l~LRpD~T~~iaR~va~~~~~~ 97 (423)
T PRK12420 21 RNKIKRALEDVFERYGCKPLETPTLNMYE--LMSSKYGGGDEILKEIYTLTDQ-GKRDLALRYDLTIPFAKVVAMNPNIR 97 (423)
T ss_pred HHHHHHHHHHHHHHcCCEeccccccchHH--HHhcccCCCcccccceEEEecC-CCceecccccccHHHHHHHHhCcCCC
Confidence 56899999999999999999665555522 22211 124455432 1220 111
Q ss_pred CC-CcccccCcccCCCccccCCCC-CcccccccccCCccCcccHHHHHHHHHHHhhcccCC
Q 004997 103 VP-RAATSQRCIRTNDVENVGRTS-RHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGL 161 (720)
Q Consensus 103 ~~-r~~~~QkCiR~nDld~VG~t~-rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i 161 (720)
.+ |...+.+|.|..-. .-|+.. .+..-||..|.=|.- --.|.|.+|++.|. .||+
T Consensus 98 ~p~r~~y~g~vfR~~~~-~~gr~rE~~Q~g~EiiG~~~~~--adaEvi~la~~~l~-~lg~ 154 (423)
T PRK12420 98 LPFKRYEIGKVFRDGPI-KQGRFREFIQCDVDIVGVESVM--AEAELMSMAFELFR-RLNL 154 (423)
T ss_pred CCeeEEEEcceECCCCC-CCCccceeEECCeeeECCCCCc--ccHHHHHHHHHHHH-HCCC
Confidence 11 56667778886332 234443 346779999966553 35899999999984 6788
No 62
>PLN02530 histidine-tRNA ligase
Probab=34.94 E-value=1.6e+02 Score=34.22 Aligned_cols=113 Identities=15% Similarity=0.190 Sum_probs=71.5
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcCCCCccceecc------cccCcccccccCC-------CCC-------------C-
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIA------GMLQFKPIFLGKV-------PRQ-------------V- 103 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnA------GM~qFkp~flG~~-------~p~-------------~- 103 (720)
..|.+.+.+-|+++|...|..-.+-+-| ++...+ -|..|.+- -|.. +|| .
T Consensus 88 ~~i~~~~~~~~~~~Gy~~I~tP~lE~~e--l~~~~~g~~~~~~~y~f~D~-~g~~l~LRpD~T~~iaR~~~~~~~~~~~P 164 (487)
T PLN02530 88 NWLFDHFREVSRLFGFEEVDAPVLESEE--LYIRKAGEEITDQLYNFEDK-GGRRVALRPELTPSLARLVLQKGKSLSLP 164 (487)
T ss_pred HHHHHHHHHHHHHcCCEeccccccchHH--HhccccCcccccceEEEECC-CCCEEecCCCCcHHHHHHHHhcccccCCC
Confidence 5788999999999999998654443322 333222 25566532 1210 111 1
Q ss_pred CCcccccCcccCCCccccCCC-CCcccccccccCCccCcccHHHHHHHHHHHhhcccCCCCCceEEEE
Q 004997 104 PRAATSQRCIRTNDVENVGRT-SRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLPANRLWISV 170 (720)
Q Consensus 104 ~r~~~~QkCiR~nDld~VG~t-~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~~~rL~vTv 170 (720)
-|+.-+++|.|..- ..-|+. -.|..-+|++|.=|. +-..|.|.+|++.| +.+||+...+.+-+
T Consensus 165 ~r~~y~g~vfR~e~-~q~gr~REf~Q~giEiiG~~~~--~aDaEvi~l~~~~l-~~lgl~~~~~~i~i 228 (487)
T PLN02530 165 LKWFAIGQCWRYER-MTRGRRREHYQWNMDIIGVPGV--EAEAELLAAIVTFF-KRVGITSSDVGIKV 228 (487)
T ss_pred eEEEEEcCEEcCcC-CCCCCccceEEcCeeEeCCCCc--chhHHHHHHHHHHH-HHcCCCCCceEEEE
Confidence 25677788888643 344543 445778999998765 34689999999988 47899755544433
No 63
>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=33.13 E-value=23 Score=38.53 Aligned_cols=99 Identities=20% Similarity=0.291 Sum_probs=62.1
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCc-----------ccccccCCCC---------CCCCccccc
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQF-----------KPIFLGKVPR---------QVPRAATSQ 110 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qF-----------kp~flG~~~p---------~~~r~~~~Q 110 (720)
+.|-+.+-+||.++|-..|..--+.+.. -+.+|..+| ++.+|-+.+- ...|+=..-
T Consensus 5 s~i~~~ir~~f~~~gF~EV~TP~l~~~~----~~e~~~~~F~~~y~~~~~~~~~~yL~~Spql~lk~ll~~g~~rVfeig 80 (304)
T TIGR00462 5 ARLLAAIRAFFAERGVLEVETPLLSPAP----VTDPHLDAFATEFLGPDGEGRPLYLQTSPEYAMKRLLAAGSGPIFQIC 80 (304)
T ss_pred HHHHHHHHHHHHHCCCEEEECCeEecCC----CCCcCCcceeeeccCCCCCCcceeeecCHHHHHHHHHhccCCCEEEEc
Confidence 4677888999999999988655555311 011222223 3444443211 357888889
Q ss_pred CcccCCCccccCCCCCcccccccccCC-ccCcccHHHHHHHHHHHhhcccC
Q 004997 111 RCIRTNDVENVGRTSRHHTFFEMLGNF-SFGDYFKKEAIQWAWEFSTVEFG 160 (720)
Q Consensus 111 kCiR~nDld~VG~t~rHhTfFEMLGn~-SFgdYfK~eai~~awe~Lt~~l~ 160 (720)
||.|+... +.||.+=|-||=-. +|.|| ++.++.+=+++..++.
T Consensus 81 p~FRaE~~-----~~rHl~EFtmLE~e~~~~d~--~d~m~~~e~li~~i~~ 124 (304)
T TIGR00462 81 KVFRNGER-----GRRHNPEFTMLEWYRPGFDY--HDLMDEVEALLQELLG 124 (304)
T ss_pred CceeCCCC-----CCCcccHHHhHHHHHHcCCH--HHHHHHHHHHHHHHHH
Confidence 99999664 36999999998432 45565 5566666666655543
No 64
>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=31.22 E-value=28 Score=38.14 Aligned_cols=99 Identities=23% Similarity=0.399 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcC-C--CCccceeccc--ccCc-ccccccCCCC---------CCCCcccccCcccC
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVP-E--DPTVLLTIAG--MLQF-KPIFLGKVPR---------QVPRAATSQRCIRT 115 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp-~--DptllFtnAG--M~qF-kp~flG~~~p---------~~~r~~~~QkCiR~ 115 (720)
+.|-+.+-+||.++|...|..--+++ . +..=.|..-. ..-| +|.+|-+.+- ...|+=...+|.|.
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 46677888999999999987655665 2 2122333321 0011 3455543221 14667777999998
Q ss_pred CCccccCCCCCcccccccccC-CccCcccHHHHHHHHHHHh
Q 004997 116 NDVENVGRTSRHHTFFEMLGN-FSFGDYFKKEAIQWAWEFS 155 (720)
Q Consensus 116 nDld~VG~t~rHhTfFEMLGn-~SFgdYfK~eai~~awe~L 155 (720)
-+. .|.||..=|-||=- .+|.||.. .++.+-+++
T Consensus 106 E~~----~~~rHl~EFtmLE~e~a~~~~~~--lm~~~e~li 140 (335)
T PF00152_consen 106 EES----RTRRHLPEFTMLEWEMAFADYDD--LMDLIEELI 140 (335)
T ss_dssp SSS----CBTTBSSEEEEEEEEEETSSHHH--HHHHHHHHH
T ss_pred cCc----ccccchhhhhhhhhccccCcHHH--hHHHHHHHH
Confidence 554 58999988888743 35666644 444444443
No 65
>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=31.18 E-value=1.1e+02 Score=32.97 Aligned_cols=100 Identities=12% Similarity=0.076 Sum_probs=64.5
Q ss_pred hHHHHHHHHHHHhhCCCeeecCccCcCCCCccceecccccCcccccccCC---------------------CCCCCCccc
Q 004997 50 GDSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLTIAGMLQFKPIFLGKV---------------------PRQVPRAAT 108 (720)
Q Consensus 50 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFtnAGM~qFkp~flG~~---------------------~p~~~r~~~ 108 (720)
-.+|++.+.+-|+++|...|..-.+=--+.-.......|..|.+- .|.. .+.-.|++-
T Consensus 22 ~~~i~~~l~~vf~~~Gy~~I~tP~lE~~e~~~~~~~~~~y~~~D~-~g~~l~LRpD~T~~iaR~~a~~~~~~~~p~r~~Y 100 (281)
T PRK12293 22 KREIENVASEILYENGFEEIVTPFFSYHQHQSIADEKELIRFSDE-KNHQISLRADSTLDVVRIVTKRLGRSTEHKKWFY 100 (281)
T ss_pred HHHHHHHHHHHHHHcCCeEeeccceeehhhhcccchhceEEEECC-CCCEEEECCcCCHHHHHHHHHhcccCCCceeEEE
Confidence 468999999999999999886544432110000122344454432 1110 011127888
Q ss_pred ccCcccCCCccccCCCCCcccccccccCCccCcccHHHHHHHHHHHhhcccCCC
Q 004997 109 SQRCIRTNDVENVGRTSRHHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLP 162 (720)
Q Consensus 109 ~QkCiR~nDld~VG~t~rHhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~ 162 (720)
+++|.|.+. .--|..-.|++|.-|. .|.|.+|++.| +.+|++
T Consensus 101 ~g~vfR~~~------rEf~Q~GvEliG~~~~-----~Evi~la~~~l-~~lgl~ 142 (281)
T PRK12293 101 IQPVFRYPS------NEIYQIGAELIGEEDL-----SEILNIAAEIF-EELELE 142 (281)
T ss_pred eccEEecCC------CcccccCeEeeCCCCH-----HHHHHHHHHHH-HHcCCC
Confidence 888998742 3456777899999886 59999999988 477885
No 66
>TIGR00747 fabH 3-oxoacyl-(acyl-carrier-protein) synthase III. Active site residues include Cys112, His244 and Asn274 of E. coli FabH. Cys-112 is the site of acyl group attachment.
Probab=30.81 E-value=19 Score=38.69 Aligned_cols=55 Identities=15% Similarity=0.190 Sum_probs=40.8
Q ss_pred hcccCCCCCce-EEEEeCChHHHHHHHHHhcCCCCCceeccCCCCCccCCCCCCCCCCceEEEee
Q 004997 156 TVEFGLPANRL-WISVYEDDDEAFEIWNKEVGVPVEHIKRMGADDNFWNSGATGPCGPCSEIYYD 219 (720)
Q Consensus 156 t~~l~i~~~rL-~vTv~~~D~e~~~iW~~~~g~~~~rI~~~~~~dNfW~~G~~GpcGPcsEI~yd 219 (720)
.+..|++++.+ |+=.+....-..+-+.+.+|+|++|+. |.+...|+||.|+ +++.
T Consensus 229 l~~~g~~~~di~~~~~h~~~~~~~~~~~~~lgi~~~k~~--------~~~~~~Gn~~sas-~~~~ 284 (318)
T TIGR00747 229 LEANGLDPEDIDWFVPHQANLRIIEALAKRLELDMSQVV--------KTVHKYGNTSAAS-IPLA 284 (318)
T ss_pred HHHcCCCHHHCCEEEECCCCHHHHHHHHHHcCCCHHHee--------ehHhhhCCHHHHH-HHHH
Confidence 34579998776 443566777888888999999999984 3456679999887 5554
No 67
>PRK06129 3-hydroxyacyl-CoA dehydrogenase; Validated
Probab=30.57 E-value=89 Score=33.76 Aligned_cols=69 Identities=12% Similarity=-0.061 Sum_probs=48.7
Q ss_pred HHHhhhCCCccCCCCCchHHHHHHHHHHHHHHHhCCCCCCCCCccccchHHHHHHHHHHh-----ccCChhhHHhHH-HH
Q 004997 325 IVYLLSDGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGDGRGNLEGAFLPSIAEKAIELS-----THIDSDVKAREQ-RI 398 (720)
Q Consensus 325 ~~~~i~DGv~Psn~grGYvlRrilRRA~r~~~~lg~~~~~~~~~~~~fl~~Lv~~vi~~m-----~~~YPeL~~~~~-~I 398 (720)
--|++.|-.-| .|.-.++++.++-+...+...+.+.| .+.+++..+++.+ +..|||+...++ .+
T Consensus 231 gp~~~~d~~~~--~g~~~~~~k~~~l~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 300 (308)
T PRK06129 231 GPFETIDLNAP--GGVADYAQRYGPMYRRMAAERGQPVP--------WDGELVARVEAERRAALPLDQLAARQAWRDRRL 300 (308)
T ss_pred CHHHHHhcccc--ccHHHHHHHHHHHHHhhccccCCCch--------hhHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 56777885334 36666777777777777777888877 7899999998887 456788887774 35
Q ss_pred HHHHH
Q 004997 399 LEELK 403 (720)
Q Consensus 399 ~~vi~ 403 (720)
.+++.
T Consensus 301 ~~~~~ 305 (308)
T PRK06129 301 MALAA 305 (308)
T ss_pred HHHHH
Confidence 55543
No 68
>COG2024 Phenylalanyl-tRNA synthetase alpha subunit (archaeal type) [Translation, ribosomal structure and biogenesis]
Probab=29.64 E-value=57 Score=36.79 Aligned_cols=67 Identities=22% Similarity=0.236 Sum_probs=39.8
Q ss_pred CCceEEEeecCCCCCCCCCCCCCCCceEEEeeeecccccccCCCccccCccCcccccchHHHHHHHHhcCCCc
Q 004997 211 GPCSEIYYDFHPDRGCSDVDLGDDTRFIEFYNLVFMQYNKKDDGSLEPLKQKNIDTGLGLERIARILQKVPNN 283 (720)
Q Consensus 211 GPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~r~~dG~l~~Lp~k~IDTGmGLERl~~vlqg~~s~ 283 (720)
|--||+|--+. ....+. ..-++.|+||.+. --|.--+=-.| -+|.++.--|.|.||||+||.|.+.+
T Consensus 279 ~TQTEVyAyHP-kL~gs~--~kysdgWiEiATF--GlYSP~ALaeY-~Id~pVMNLGlGVERlaMIl~g~~DV 345 (536)
T COG2024 279 GTQTEVYAYHP-KLVGSI--EKYSDGWIEIATF--GLYSPIALAEY-GIDYPVMNLGLGVERLAMILHGADDV 345 (536)
T ss_pred CccceEEEecc-cccccc--cccCCCcEEEEee--cccChHHHHHc-CCCCceeecchhHHHHHHHHhCchHH
Confidence 55799885432 211111 1345789999963 22221110111 25777778899999999999987543
No 69
>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=29.27 E-value=5.5e+02 Score=28.31 Aligned_cols=197 Identities=15% Similarity=0.183 Sum_probs=106.0
Q ss_pred cCccCcccccchHHHHHHHHhcCCCcccc------cccHHHHHHHHHHhCCCccCCc---cccccceEEeehhhhhHHHh
Q 004997 258 PLKQKNIDTGLGLERIARILQKVPNNYET------DLIFPIIKKASELANVSYAQSN---DRTNLNLKIIGDHLRAIVYL 328 (720)
Q Consensus 258 ~Lp~k~IDTGmGLERl~~vlqg~~s~ydt------D~F~p~i~~i~~~~g~~y~~~~---~~~~~~~rviaDH~R~~~~~ 328 (720)
..+-..+-++-+++|+..+.......+.. .-|......+.+....--+... ...+.+ .-..+|+...-
T Consensus 33 ~~d~~~~~~~~~~~~l~~l~~a~~~il~~~~~~~r~~F~~~~~~l~~~~~l~~p~~~a~~~~~d~~---~f~~ir~~i~k 109 (335)
T PF11867_consen 33 GFDYSKFFEASPFERLELLDDAVDHILSLEDEERRKRFLKLVKELSKAYALCLPDPEAEEYRDDIA---FFQAIRAAIRK 109 (335)
T ss_pred CCChHHhcCCChHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH---HHHHHHHHHHH
Confidence 34445566777899998888777766642 2344444444443221000000 011111 12345666555
Q ss_pred hhCCCc-cCCCCCchHHHHHHHHHHHHHH------HhCCCCCCCCCccccchHHHHHHHHHHhcc-CChhhHHhHHHHHH
Q 004997 329 LSDGVF-PSNIGRGYVVRRLIRRAVRTGR------LLGIKGDGRGNLEGAFLPSIAEKAIELSTH-IDSDVKAREQRILE 400 (720)
Q Consensus 329 i~DGv~-Psn~grGYvlRrilRRA~r~~~------~lg~~~~~~~~~~~~fl~~Lv~~vi~~m~~-~YPeL~~~~~~I~~ 400 (720)
+..+-- |+....+.-+|.||-.++..-. ..|.+.| -++-|-+...+.+.. -+|.++. +.|++
T Consensus 110 ~~~~~~~~~~~~~~~~i~~Lid~~I~s~~v~~i~~~~~~~~~--------disild~eFl~~v~~~~~k~~~~--e~L~~ 179 (335)
T PF11867_consen 110 LYSDDDGPDIKEVEEKIRQLIDESIASEGVVDIFEAAGLKKP--------DISILDDEFLEEVKKMKSKNLKA--ELLEK 179 (335)
T ss_pred hccCCCCCCHHHHHHHHHHHHHHHHhcccchhHHhhcCCCCC--------ChhhcCHHHHHHHHhccCchHHH--HHHHH
Confidence 544444 7888888899999999997532 1255555 234344444444433 3777664 66888
Q ss_pred HHHHHHHHHHHHHH----HHHHHHHHHHHHHHhhhhcCCCCCCCChHHHHHHHhhcCCChhhHHHHHHH------cCCcc
Q 004997 401 ELKREELRFVQTLE----RGEKLLDQMLADALSRTRESGSVPRLSGQDAFLLYDTFGFPVEITKEVAEE------HGVSV 470 (720)
Q Consensus 401 vi~~EE~~F~~tL~----~G~~~l~~~i~~~~~~~~~~g~~~~l~g~~af~LyDTyGfP~dlt~~ia~e------~gl~v 470 (720)
.|+.+-....+.=- +=.+.|+++|+ +.++ +.++-+.++.-. ++|.++|.++ .|++-
T Consensus 180 ~l~~~I~~~~~~N~~~~~~fsErLe~iI~----~Y~~----~~i~~~e~~~eL------i~la~el~~~~~r~~~~gLse 245 (335)
T PF11867_consen 180 LLRDEIKVRMKENPVRYKKFSERLEEIIE----KYNN----RSISSEEVIEEL------IKLAKELREEEERAEELGLSE 245 (335)
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHHHHHHH----HHHc----ccchHHHHHHHH------HHHHHHHHHHHhcccccCCCH
Confidence 88888776544211 12234455554 4432 347777766432 2334454433 46665
Q ss_pred ChhhHHHHHHH
Q 004997 471 DMKGFDIEMEN 481 (720)
Q Consensus 471 D~~~F~~~m~~ 481 (720)
++-.|+.++.+
T Consensus 246 eE~AFyd~L~~ 256 (335)
T PF11867_consen 246 EELAFYDALAK 256 (335)
T ss_pred HHHHHHHHHHc
Confidence 55567776643
No 70
>COG4014 Uncharacterized protein conserved in archaea [Function unknown]
Probab=28.42 E-value=72 Score=28.85 Aligned_cols=34 Identities=18% Similarity=0.272 Sum_probs=26.6
Q ss_pred ccccccccceEEEEEEeCCeeeeeecCCCeEEEEecCcceec
Q 004997 513 LGYDTLSAKAIVESLLVNGKPVIKVSKGSDVEVLLNRTPFYA 554 (720)
Q Consensus 513 ~gY~~~~~~akVl~i~~~~~~v~~~~~g~~~~VvLD~T~FYp 554 (720)
+.|..+...++|.+|.++ +++.++|+||.|-+|-
T Consensus 15 vrYvnTgTvgrV~dIkkd--------EdG~~WV~LdstdLwY 48 (97)
T COG4014 15 VRYVNTGTVGRVVDIKKD--------EDGDIWVVLDSTDLWY 48 (97)
T ss_pred EEEeecCceeeEEEEEee--------cCCceEEEEecCCcee
Confidence 458888888999999865 2456899999987764
No 71
>PLN02850 aspartate-tRNA ligase
Probab=28.32 E-value=30 Score=40.78 Aligned_cols=29 Identities=28% Similarity=0.342 Sum_probs=25.3
Q ss_pred CcccccchHHHHHHHHhcCCCcccccccH
Q 004997 262 KNIDTGLGLERIARILQKVPNNYETDLIF 290 (720)
Q Consensus 262 k~IDTGmGLERl~~vlqg~~s~ydtD~F~ 290 (720)
+|=-.|+|||||++++-|.++.=|+-+|.
T Consensus 494 PhgG~GiGlERLvM~l~g~~nIr~v~~FP 522 (530)
T PLN02850 494 PHGGFGVGLERVVMLFCGLNNIRKTSLFP 522 (530)
T ss_pred CCceEEEcHHHHHHHHcCCCchheEeecC
Confidence 56678999999999999999998887764
No 72
>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=28.11 E-value=31 Score=39.75 Aligned_cols=29 Identities=21% Similarity=0.244 Sum_probs=24.8
Q ss_pred CcccccchHHHHHHHHhcCCCcccccccH
Q 004997 262 KNIDTGLGLERIARILQKVPNNYETDLIF 290 (720)
Q Consensus 262 k~IDTGmGLERl~~vlqg~~s~ydtD~F~ 290 (720)
++=--|||+|||++.+-|.++.=|+-+|.
T Consensus 417 PhgG~GiGieRlvm~l~g~~~Irdv~~FP 445 (453)
T TIGR00457 417 PHSGFGLGFERLLAYITGLENIRDAIPFP 445 (453)
T ss_pred CCCcEeehHHHHHHHHhCCCcHhhhccCc
Confidence 56667999999999999999988886664
No 73
>PRK06462 asparagine synthetase A; Reviewed
Probab=26.99 E-value=34 Score=37.78 Aligned_cols=101 Identities=20% Similarity=0.176 Sum_probs=53.8
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcC-CCCccce-ecccccCc------ccccccCCCC--------CCCCcccccCccc
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVP-EDPTVLL-TIAGMLQF------KPIFLGKVPR--------QVPRAATSQRCIR 114 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp-~DptllF-tnAGM~qF------kp~flG~~~p--------~~~r~~~~QkCiR 114 (720)
++|-+.+-+||.++|-..|..==+++ .++-+-- .+-|...| ++.+|-+.+- ...|+=...+|.|
T Consensus 34 s~i~~~iR~ff~~~~f~EV~TP~l~~~~~~~~~~g~~~~~~~~~~~~~~~~~yL~~Spql~k~ll~~g~~rVfeI~p~FR 113 (335)
T PRK06462 34 SSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGSDLPVKQISIDFYGVEYYLADSMILHKQLALRMLGKIFYLSPNFR 113 (335)
T ss_pred HHHHHHHHHHHHHCCCEEEeCCeEecCCCCCCCccccCCccccccccCCCceeeccCHHHHHHHHHhhcCcEEEEecccc
Confidence 46677788999999988774332223 2221100 00001111 2233322110 2468888899999
Q ss_pred CCCccccCCCCCcccccccccCC-ccCcccHHHHHHHHHHHh
Q 004997 115 TNDVENVGRTSRHHTFFEMLGNF-SFGDYFKKEAIQWAWEFS 155 (720)
Q Consensus 115 ~nDld~VG~t~rHhTfFEMLGn~-SFgdYfK~eai~~awe~L 155 (720)
+-+.+.- ++||..=|-||--. .|.|| ++.++.+=+++
T Consensus 114 ~E~~~~~--~~rHl~EFtmlE~e~~~~d~--~dlm~~~e~lv 151 (335)
T PRK06462 114 LEPVDKD--TGRHLYEFTQLDIEIEGADL--DEVMDLIEDLI 151 (335)
T ss_pred CCCCCCC--CCCCCCchheeeehhhcCCH--HHHHHHHHHHH
Confidence 9554321 27999989888654 44454 34444444443
No 74
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=26.82 E-value=34 Score=39.39 Aligned_cols=23 Identities=26% Similarity=0.417 Sum_probs=0.0
Q ss_pred cchHHHHHHHHhcCCCccccccc
Q 004997 267 GLGLERIARILQKVPNNYETDLI 289 (720)
Q Consensus 267 GmGLERl~~vlqg~~s~ydtD~F 289 (720)
|||+|||++.+-|..+.=|+-+|
T Consensus 419 GiGidRL~m~l~g~~nIrdv~~F 441 (450)
T PRK03932 419 GLGFERLVAYITGLDNIRDVIPF 441 (450)
T ss_pred eehHHHHHHHHhCCCcHhhhccC
No 75
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=26.34 E-value=35 Score=40.37 Aligned_cols=29 Identities=24% Similarity=0.282 Sum_probs=25.1
Q ss_pred CcccccchHHHHHHHHhcCCCcccccccH
Q 004997 262 KNIDTGLGLERIARILQKVPNNYETDLIF 290 (720)
Q Consensus 262 k~IDTGmGLERl~~vlqg~~s~ydtD~F~ 290 (720)
+|=-.|+|||||++++-|..+.=++-+|.
T Consensus 514 PhgG~GiGlERLvM~~lg~~nIR~v~lFP 542 (550)
T PTZ00401 514 PHGGFGVGLERVVMLYLGLSNVRLASLFP 542 (550)
T ss_pred CCceEEEhHHHHHHHHhCCCcHheeecCC
Confidence 56678999999999999999998887764
No 76
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=26.29 E-value=24 Score=40.96 Aligned_cols=30 Identities=23% Similarity=0.637 Sum_probs=24.2
Q ss_pred cccccchHHHHHHHHhcCCCcccccccHHHH
Q 004997 263 NIDTGLGLERIARILQKVPNNYETDLIFPII 293 (720)
Q Consensus 263 ~IDTGmGLERl~~vlqg~~s~ydtD~F~p~i 293 (720)
.=-.|||.+||+++|.|.+|.=|+ ++.|.+
T Consensus 469 TgG~GiGIDRLvMllT~~~sIRdV-ilFP~m 498 (502)
T COG1190 469 TGGLGIGIDRLVMLLTNSPSIRDV-ILFPAM 498 (502)
T ss_pred CCCccccHHHHHHHHcCCCchhhe-eccccc
Confidence 345799999999999999999998 444543
No 77
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=25.84 E-value=36 Score=40.60 Aligned_cols=29 Identities=28% Similarity=0.311 Sum_probs=25.7
Q ss_pred CcccccchHHHHHHHHhcCCCcccccccH
Q 004997 262 KNIDTGLGLERIARILQKVPNNYETDLIF 290 (720)
Q Consensus 262 k~IDTGmGLERl~~vlqg~~s~ydtD~F~ 290 (720)
+|---|||||||++.+-|.++.=|+-+|.
T Consensus 550 PhgGfGLGiERLvm~ltGl~nIRDvi~FP 578 (586)
T PTZ00425 550 PHAGFGLGFERLIMLVTGVDNIKDTIPFP 578 (586)
T ss_pred CCceEEEcHHHHHHHHcCCCchheEEECc
Confidence 67778999999999999999998886664
No 78
>PF02092 tRNA_synt_2f: Glycyl-tRNA synthetase beta subunit; InterPro: IPR015944 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 and are mostly monomeric, while class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet formation, flanked by alpha-helices [], and are mostly dimeric or multimeric. 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 aci, 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 []. The 10 class I synthetases are considered to have in common the catalytic domain structure based on the Rossmann fold, which is totally different from the class II catalytic domain structure. The class I synthetases are further divided into three subclasses, a, b and c, according to sequence homology. No conserved structural features for tRNA recognition by class I synthetases have been established. Class-II tRNA synthetases do not share a high degree of similarity, however at least three conserved regions are present [, , ]. In most eubacteria, glycyl-tRNA synthetase (6.1.1.14 from EC) is an alpha2/beta2 tetramer composed of 2 different subunits [, , ] while in archaea, eukaryota and some eubacteria, glycyl-tRNA synthetase is an alpha2 dimer (see IPR002315 from INTERPRO). This entry represents the beta subunit of the tetrameric enzyme. 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 (see IPR002310 from INTERPRO) and beta subunits 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 beta subunit of glycyl-tRNA synthetase.; GO: 0000166 nucleotide binding, 0004820 glycine-tRNA ligase activity, 0005524 ATP binding, 0006426 glycyl-tRNA aminoacylation, 0005737 cytoplasm
Probab=25.36 E-value=4.5e+02 Score=31.41 Aligned_cols=64 Identities=25% Similarity=0.305 Sum_probs=54.0
Q ss_pred ceEEeehhhhhHHHhhhCCCccCCCCCchHHHHHHHHHHHHHHHhCCCCCCCCCccccchHHHHHHHHHHhcc
Q 004997 314 NLKIIGDHLRAIVYLLSDGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGDGRGNLEGAFLPSIAEKAIELSTH 386 (720)
Q Consensus 314 ~~rviaDH~R~~~~~i~DGv~Psn~grGYvlRrilRRA~r~~~~lg~~~~~~~~~~~~fl~~Lv~~vi~~m~~ 386 (720)
++=.|||-+-+++=+.+=|..|+...-=|=|||---=.+|.....+++-+ |.+|+...++.+..
T Consensus 445 ~ilsiADKlDtl~g~F~ig~~PtGskDPfaLRRaa~GIirIi~e~~~~l~---------L~~li~~a~~~~~~ 508 (548)
T PF02092_consen 445 AILSIADKLDTLVGFFGIGEIPTGSKDPFALRRAALGIIRIIIEKKLDLD---------LKELIEKALELYPK 508 (548)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCCCCCCcHHHHHHHHHHHHHHHhcCCCCC---------HHHHHHHHHHHhhh
Confidence 55678999999998889999999999999999987777787777777776 88888888877654
No 79
>COG0751 GlyS Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]
Probab=25.31 E-value=5.7e+02 Score=31.35 Aligned_cols=64 Identities=20% Similarity=0.272 Sum_probs=51.8
Q ss_pred ceEEeehhhhhHHHhhhCCCccCCCCCchHHHHHHHHHHHHHHHhCCCCCCCCCccccchHHHHHHHHHHhcc
Q 004997 314 NLKIIGDHLRAIVYLLSDGVFPSNIGRGYVVRRLIRRAVRTGRLLGIKGDGRGNLEGAFLPSIAEKAIELSTH 386 (720)
Q Consensus 314 ~~rviaDH~R~~~~~i~DGv~Psn~grGYvlRrilRRA~r~~~~lg~~~~~~~~~~~~fl~~Lv~~vi~~m~~ 386 (720)
+.=.|||-+-|++=+.+=|.+|+.++-=|=|||--==.+|.....+++-+ |.+|+...+..++.
T Consensus 451 ~~valADKLDTLvg~F~iG~iPtGSkDPyALRRaAlGiirIi~~~~l~l~---------l~~ll~~~~~~~~~ 514 (691)
T COG0751 451 AVVALADKLDTLVGFFGIGLIPTGSKDPYALRRAALGILRIILEKNLDLD---------LEELLDKAVASFKS 514 (691)
T ss_pred HHHHHHHHHHHHHHHHhccCCcCCCCCcHHHHHHHhHHHHHHHHhCCCCC---------HHHHHHHHHHHhhh
Confidence 56678999999998889999999999999999987777788777777776 67777766644443
No 80
>PLN02532 asparagine-tRNA synthetase
Probab=25.28 E-value=38 Score=40.71 Aligned_cols=29 Identities=17% Similarity=0.186 Sum_probs=25.6
Q ss_pred CcccccchHHHHHHHHhcCCCcccccccH
Q 004997 262 KNIDTGLGLERIARILQKVPNNYETDLIF 290 (720)
Q Consensus 262 k~IDTGmGLERl~~vlqg~~s~ydtD~F~ 290 (720)
+|=--|||||||++.+-|.+++=|+-+|.
T Consensus 597 PHgGfGLG~ERLvm~ltGl~nIRDvi~FP 625 (633)
T PLN02532 597 KHSGFSLGFELMVLFATGLPDVRDAIPFP 625 (633)
T ss_pred CCeEEEEhHHHHHHHHhCCCchheEeecC
Confidence 67778999999999999999998886664
No 81
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=24.93 E-value=43 Score=38.44 Aligned_cols=78 Identities=22% Similarity=0.338 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcC-C--CCccceecccccCccc-ccccCCCC--------CCCCcccccCcccCCCc
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVP-E--DPTVLLTIAGMLQFKP-IFLGKVPR--------QVPRAATSQRCIRTNDV 118 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp-~--DptllFtnAGM~qFkp-~flG~~~p--------~~~r~~~~QkCiR~nDl 118 (720)
+.|.+.|-+||.++|..-|.+-=+++ + --+-||-. ..|.. .||.+..- ...|+=+..+++|+-
T Consensus 138 s~i~~a~~eff~~~gF~eV~tP~i~~~~~EGg~elF~v---~yf~~~a~LtqS~QLyke~~~~al~rVf~igP~FRAE-- 212 (435)
T COG0017 138 SSILRAIREFFYENGFTEVHTPIITASATEGGGELFKV---DYFDKEAYLTQSPQLYKEALAAALERVFTIGPTFRAE-- 212 (435)
T ss_pred HHHHHHHHHHHHhCCcEEecCceEeccCCCCCceeEEE---eecCcceEEecCHHHHHHHHHHHhCceEEecCceecC--
Confidence 57788999999999999998777776 2 33344432 23332 55544321 367999999999992
Q ss_pred cccCCCCCccccccccc
Q 004997 119 ENVGRTSRHHTFFEMLG 135 (720)
Q Consensus 119 d~VG~t~rHhTfFEMLG 135 (720)
+- .|.||++=|-|+=
T Consensus 213 -~s-~T~RHL~EF~~ld 227 (435)
T COG0017 213 -KS-NTRRHLSEFWMLD 227 (435)
T ss_pred -CC-CCcchhhhHheec
Confidence 22 2899999887753
No 82
>PLN02221 asparaginyl-tRNA synthetase
Probab=24.77 E-value=38 Score=40.33 Aligned_cols=46 Identities=24% Similarity=0.341 Sum_probs=34.1
Q ss_pred CCCcccccCcccCCCccccCCCCCcccccccccC-CccCcccHHHHHHHHHHH
Q 004997 103 VPRAATSQRCIRTNDVENVGRTSRHHTFFEMLGN-FSFGDYFKKEAIQWAWEF 154 (720)
Q Consensus 103 ~~r~~~~QkCiR~nDld~VG~t~rHhTfFEMLGn-~SFgdYfK~eai~~awe~ 154 (720)
..|+=...+|.|+-.. .|.||++=|-||-- .+|.|| ++.+.++=++
T Consensus 326 l~rVfeIgP~FRAE~s----~T~RHL~EFtmlE~Emaf~d~--~dvm~l~E~l 372 (572)
T PLN02221 326 LSSVYTFGPTFRAENS----HTSRHLAEFWMVEPEIAFADL--EDDMNCAEAY 372 (572)
T ss_pred cCCeEEEccceecCCC----CCCcccccccceeeeeecCCH--HHHHHHHHHH
Confidence 5788899999999443 58899999999865 477887 5555554433
No 83
>PLN02603 asparaginyl-tRNA synthetase
Probab=24.75 E-value=39 Score=40.17 Aligned_cols=29 Identities=21% Similarity=0.281 Sum_probs=25.5
Q ss_pred CcccccchHHHHHHHHhcCCCcccccccH
Q 004997 262 KNIDTGLGLERIARILQKVPNNYETDLIF 290 (720)
Q Consensus 262 k~IDTGmGLERl~~vlqg~~s~ydtD~F~ 290 (720)
++---|||+|||++.+-|..++=|+-+|.
T Consensus 529 PhgGfGlG~ERLvm~ltg~~nIRdvi~FP 557 (565)
T PLN02603 529 PHAGFGLGFERLVQFATGIDNIRDAIPFP 557 (565)
T ss_pred CCceeEEcHHHHHHHHhCCCchhheeecc
Confidence 67778999999999999999998886664
No 84
>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=24.60 E-value=88 Score=34.11 Aligned_cols=25 Identities=12% Similarity=0.191 Sum_probs=20.3
Q ss_pred CcccccchHHHHHHHHhcCCCcccc
Q 004997 262 KNIDTGLGLERIARILQKVPNNYET 286 (720)
Q Consensus 262 k~IDTGmGLERl~~vlqg~~s~ydt 286 (720)
+|=-.|+|+|||++++-|.++.=|+
T Consensus 277 P~~G~GiGieRL~m~l~g~~~Ir~v 301 (304)
T TIGR00462 277 ECSGVALGVDRLLMLALGADSIDDV 301 (304)
T ss_pred CCCceEEcHHHHHHHHhCCCchhhc
Confidence 4555699999999999999887554
No 85
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=24.27 E-value=41 Score=39.44 Aligned_cols=85 Identities=18% Similarity=0.305 Sum_probs=48.9
Q ss_pred HHHHHHHHHHhhCCCeeecCccCcC---CCCccceecccccCc-ccccccCCCC---------CCCCcccccCcccCCCc
Q 004997 52 SIRKRFLDFYASRGHKVLPSASLVP---EDPTVLLTIAGMLQF-KPIFLGKVPR---------QVPRAATSQRCIRTNDV 118 (720)
Q Consensus 52 eiR~~Fl~fF~~~gH~~v~ssslvp---~DptllFtnAGM~qF-kp~flG~~~p---------~~~r~~~~QkCiR~nDl 118 (720)
.|-+.+-+||.++|-..|..--|.+ ....--|+.- .+.| ++.+|-+++- ...|+=..-||.|.-++
T Consensus 189 ~i~~~iR~f~~~~gFiEVeTPiL~~~~gGa~a~pF~t~-~~~~~~~~yL~~SpELylKrlivgG~~rVfeIg~~FRnE~~ 267 (505)
T PRK12445 189 KILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITH-HNALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNEGI 267 (505)
T ss_pred HHHHHHHHHHHHCCCEEeeCCeeEecCCCCcccceecc-cccCCcceeeecCHHHHHHHHHhccCCcEEEEehhccCCCC
Confidence 4555677899999988775433322 1111122110 1112 1233322211 25678888899999663
Q ss_pred cccCCCCCcccccccccC-CccCcc
Q 004997 119 ENVGRTSRHHTFFEMLGN-FSFGDY 142 (720)
Q Consensus 119 d~VG~t~rHhTfFEMLGn-~SFgdY 142 (720)
|.||..=|-||=- ++|.||
T Consensus 268 -----~~rH~pEFTmlE~y~a~~d~ 287 (505)
T PRK12445 268 -----SVRHNPEFTMMELYMAYADY 287 (505)
T ss_pred -----CCCcCcccceeeeeeecCCH
Confidence 6799999999844 466776
No 86
>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed
Probab=23.82 E-value=2.4e+02 Score=27.95 Aligned_cols=44 Identities=18% Similarity=0.362 Sum_probs=33.3
Q ss_pred CChHHHHHHHhhcCCCh------hhHHHHHHHcCCccCh-hhHHHHHHHHH
Q 004997 440 LSGQDAFLLYDTFGFPV------EITKEVAEEHGVSVDM-KGFDIEMENQR 483 (720)
Q Consensus 440 l~g~~af~LyDTyGfP~------dlt~~ia~e~gl~vD~-~~F~~~m~~qk 483 (720)
-|.+.-..|-|.||+|. .=+..|++++|+.-++ +..+.+++...
T Consensus 46 ~pSqIG~~LRD~~gip~Vk~vtG~ki~~iLk~~gl~p~iPEDL~~L~~ri~ 96 (151)
T PRK08561 46 SPSMIGIILRDQYGIPDVKLITGKKITEILEENGLAPEIPEDLRNLIKKAV 96 (151)
T ss_pred CHHHhhhhHhhccCCCceeeeccchHHHHHHHcCCCCCCcHHHHHHHHHHH
Confidence 46677789999999994 3457889999998887 46667765543
No 87
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=23.10 E-value=44 Score=38.28 Aligned_cols=84 Identities=21% Similarity=0.324 Sum_probs=50.0
Q ss_pred HHHHHHHHHHhhCCCeeecCccCcC-C-CCcc-ceecccccCc-ccccccCCCC---------CCCCcccccCcccCCCc
Q 004997 52 SIRKRFLDFYASRGHKVLPSASLVP-E-DPTV-LLTIAGMLQF-KPIFLGKVPR---------QVPRAATSQRCIRTNDV 118 (720)
Q Consensus 52 eiR~~Fl~fF~~~gH~~v~ssslvp-~-Dptl-lFtnAGM~qF-kp~flG~~~p---------~~~r~~~~QkCiR~nDl 118 (720)
.|-+.+-+||.++|-..|..--++. . +... +|.- +.| ++++|-+.+- ...|+=..-+|.|.-+.
T Consensus 141 ~i~~~iR~ff~~~gf~EV~TP~L~~~~~eg~~~~f~~---~~~~~~~~L~~Spql~~q~l~~~g~~rVf~i~~~FR~E~~ 217 (437)
T PRK05159 141 EVLRAFREFLYENGFTEIFTPKIVASGTEGGAELFPI---DYFEKEAYLAQSPQLYKQMMVGAGFERVFEIGPVFRAEEH 217 (437)
T ss_pred HHHHHHHHHHHHCCCEEEeCCcccccCCCCCcceEeE---EecCCceEecCCHHHHHHHHHhcCCCcEEEEeceeeCCCC
Confidence 4556778999999998886444432 1 1100 1110 001 3444433211 25778888899998553
Q ss_pred cccCCCCCcccccccccCC-ccCc-c
Q 004997 119 ENVGRTSRHHTFFEMLGNF-SFGD-Y 142 (720)
Q Consensus 119 d~VG~t~rHhTfFEMLGn~-SFgd-Y 142 (720)
.|.||..=|-||--. +|.| |
T Consensus 218 ----~t~rHl~EFt~lE~e~a~~~~~ 239 (437)
T PRK05159 218 ----NTSRHLNEYTSIDVEMGFIDDH 239 (437)
T ss_pred ----CCcccchhhheeeeeeeecccH
Confidence 256999888888654 6666 5
No 88
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=22.53 E-value=43 Score=39.04 Aligned_cols=85 Identities=21% Similarity=0.329 Sum_probs=49.7
Q ss_pred HHHHHHHHHHhhCCCeeecCccCcCC--CCc-cceecccccCc-ccccccCCCC---------CCCCcccccCcccCCCc
Q 004997 52 SIRKRFLDFYASRGHKVLPSASLVPE--DPT-VLLTIAGMLQF-KPIFLGKVPR---------QVPRAATSQRCIRTNDV 118 (720)
Q Consensus 52 eiR~~Fl~fF~~~gH~~v~ssslvp~--Dpt-llFtnAGM~qF-kp~flG~~~p---------~~~r~~~~QkCiR~nDl 118 (720)
.|-+.+-+||.++|-..|..--|.|. -.. -.|+.- .+-| ++.+|-+.+- ...|+=..-||.|.-+.
T Consensus 177 ~i~~~iR~f~~~~gF~EVeTPiL~~~~~Ga~a~pF~t~-~~~~~~~~yL~~Spql~lk~l~v~g~~rVfei~~~FR~E~~ 255 (491)
T PRK00484 177 KIISAIRRFLDNRGFLEVETPMLQPIAGGAAARPFITH-HNALDIDLYLRIAPELYLKRLIVGGFERVYEIGRNFRNEGI 255 (491)
T ss_pred HHHHHHHHHHHHCCCEEEECCceeccCCCccceeeeec-cccCCCceEeccCHHHHHHHHHhccCCcEEEEecceecCCC
Confidence 45566778999999988855444441 110 122100 0111 2223322111 25678888899998665
Q ss_pred cccCCCCCcccccccccC-CccCcc
Q 004997 119 ENVGRTSRHHTFFEMLGN-FSFGDY 142 (720)
Q Consensus 119 d~VG~t~rHhTfFEMLGn-~SFgdY 142 (720)
+ .||..=|-||=- ++|.||
T Consensus 256 ~-----~rH~pEFt~lE~e~a~~d~ 275 (491)
T PRK00484 256 D-----TRHNPEFTMLEFYQAYADY 275 (491)
T ss_pred C-----CCcCCceEEEEEEEecCCH
Confidence 3 499999999865 577776
No 89
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=22.53 E-value=1.1e+02 Score=24.76 Aligned_cols=30 Identities=17% Similarity=0.136 Sum_probs=24.1
Q ss_pred cHHHHHHHHHHHhhcccCCCCCceEEEEeC
Q 004997 143 FKKEAIQWAWEFSTVEFGLPANRLWISVYE 172 (720)
Q Consensus 143 fK~eai~~awe~Lt~~l~i~~~rL~vTv~~ 172 (720)
-|++-++-..+.|.+.||.|++.++|.+.+
T Consensus 16 qK~~l~~~it~~l~~~lg~~~~~v~V~i~e 45 (63)
T TIGR00013 16 QKRQLIEGVTEAMAETLGANLESIVVIIDE 45 (63)
T ss_pred HHHHHHHHHHHHHHHHhCCCcccEEEEEEE
Confidence 366667777788888999999999997753
No 90
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=21.84 E-value=47 Score=39.69 Aligned_cols=82 Identities=18% Similarity=0.367 Sum_probs=48.4
Q ss_pred HHHHHHHHHHhhCCCeeecCccCcC--C--------------CCccceecccccCcccccccCCCCCCCCcccccCcccC
Q 004997 52 SIRKRFLDFYASRGHKVLPSASLVP--E--------------DPTVLLTIAGMLQFKPIFLGKVPRQVPRAATSQRCIRT 115 (720)
Q Consensus 52 eiR~~Fl~fF~~~gH~~v~ssslvp--~--------------DptllFtnAGM~qFkp~flG~~~p~~~r~~~~QkCiR~ 115 (720)
.|-+.+-+||.++|-..|..--|.+ . |.++++..|..-..|....| ...|+=..-||.|.
T Consensus 258 ~Ii~aiR~Ff~~rGFlEVeTPiL~~~~GGA~a~PF~T~~n~~d~~lYLriSpEL~lKrLlvg----G~~rVfeIgp~FRn 333 (585)
T PTZ00417 258 KIINYLRNFLNDRGFIEVETPTMNLVAGGANARPFITHHNDLDLDLYLRIATELPLKMLIVG----GIDKVYEIGKVFRN 333 (585)
T ss_pred HHHHHHHHHHHHCCeEEEeCCeeeccCCcccceeEEecccCCCcceEEeecHHHHHHHHHHh----CCCCEEEEcccccC
Confidence 4555667899999988774433322 1 11222333333333332222 24678888999999
Q ss_pred CCccccCCCCCcccccccccCC-ccCcc
Q 004997 116 NDVENVGRTSRHHTFFEMLGNF-SFGDY 142 (720)
Q Consensus 116 nDld~VG~t~rHhTfFEMLGn~-SFgdY 142 (720)
-.++ .||..=|-||=-. +|.||
T Consensus 334 E~~~-----~rHnpEFTmlE~y~ay~dy 356 (585)
T PTZ00417 334 EGID-----NTHNPEFTSCEFYWAYADF 356 (585)
T ss_pred CCCC-----CCccceeeeeeeeeecCCH
Confidence 6654 4999777776543 66776
No 91
>TIGR00442 hisS histidyl-tRNA synthetase. This model finds a histidyl-tRNA synthetase in every completed genome. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and actually serve as regulatory subunits for an enzyme of histidine biosynthesis. They were excluded from the seed alignment and score much lower than do single copy histidyl-tRNA synthetases of other genomes not included in the seed alignment. These putative second copies of HisS score below the trusted cutoff. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation; these regulatory proteins are not orthologous and so score below the noise cutoff.
Probab=20.67 E-value=1.7e+02 Score=32.64 Aligned_cols=106 Identities=19% Similarity=0.178 Sum_probs=58.4
Q ss_pred hHHHHHHHHHHHhhCCCeeecCccCcCCCCcccee---------cccccCcccccccCC-------CCC-----------
Q 004997 50 GDSIRKRFLDFYASRGHKVLPSASLVPEDPTVLLT---------IAGMLQFKPIFLGKV-------PRQ----------- 102 (720)
Q Consensus 50 ~~eiR~~Fl~fF~~~gH~~v~ssslvp~DptllFt---------nAGM~qFkp~flG~~-------~p~----------- 102 (720)
-.+|++.+.+.|+++|...|....|-|-| ++.- +..|..|.+- .|.. ++|
T Consensus 17 ~~~i~~~i~~~f~~~Gy~~i~~P~le~~~--~~~~~~g~~~~~~~~~~~~~~d~-~g~~l~LRpD~T~~iaR~~~~~~~~ 93 (397)
T TIGR00442 17 WQYIEETIREVFELYGFKEIRTPIFEYTE--LFARKVGEETDIVEKEMYTFKDK-GGRSLTLRPEGTAPVARAVIENKLL 93 (397)
T ss_pred HHHHHHHHHHHHHHcCCeEecCcccchHH--HhhhccCccccccccceEEEECC-CCCEEeecCCCcHHHHHHHHhcccc
Confidence 56888999999999999999766664511 1111 1223333321 1110 111
Q ss_pred ---CCCcccccCcccCCCccccCCCCC-cccccccccCCccCcccHHHHHHHHHHHhhcccCCC
Q 004997 103 ---VPRAATSQRCIRTNDVENVGRTSR-HHTFFEMLGNFSFGDYFKKEAIQWAWEFSTVEFGLP 162 (720)
Q Consensus 103 ---~~r~~~~QkCiR~nDld~VG~t~r-HhTfFEMLGn~SFgdYfK~eai~~awe~Lt~~l~i~ 162 (720)
.-|+..+++|.|...-.. |+... +..-||..|.-+. .=-.|.|.+|+++| +.+|++
T Consensus 94 ~~~p~r~~y~g~vfR~e~~~~-gr~ref~Q~g~eiig~~~~--~~d~E~i~l~~e~l-~~lg~~ 153 (397)
T TIGR00442 94 LPKPFKLYYIGPMFRYERPQK-GRYRQFHQFGVEVIGSDSP--LADAEIIALAAEIL-KELGIK 153 (397)
T ss_pred cCCCeEEEEEcCeecCCCCCC-CcccceEEcCeeeeCCCCH--HHHHHHHHHHHHHH-HHcCCC
Confidence 136777888888753322 32211 1333444444432 11358999999988 466774
No 92
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=20.48 E-value=45 Score=40.30 Aligned_cols=86 Identities=14% Similarity=0.254 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHhhCCCeeecCccCcC-C-CCc-cceecccccCc-ccccccCCCC---------CCCCcccccCcccCCC
Q 004997 51 DSIRKRFLDFYASRGHKVLPSASLVP-E-DPT-VLLTIAGMLQF-KPIFLGKVPR---------QVPRAATSQRCIRTND 117 (720)
Q Consensus 51 ~eiR~~Fl~fF~~~gH~~v~ssslvp-~-Dpt-llFtnAGM~qF-kp~flG~~~p---------~~~r~~~~QkCiR~nD 117 (720)
++|-+.+-+||.++|...|..--|.+ . ... -.|..- .+.| ++.||-+.+- ...|+=..-||.|.-+
T Consensus 237 s~I~~aiR~ff~~~gFlEVeTPiL~~~~~ga~a~pF~t~-~n~~~~~~yL~~SPELylKrLivgG~erVyeIg~~FRnE~ 315 (659)
T PTZ00385 237 HVMLQALRDYFNERNFVEVETPVLHTVASGANAKSFVTH-HNANAMDLFLRVAPELHLKQCIVGGMERIYEIGKVFRNED 315 (659)
T ss_pred HHHHHHHHHHHHHCCCEEeeCCEeeccCCCCCccceEee-cccCCCCEEecCChHHHHHHHhhcccCCEEEEeceecCCC
Confidence 35556677899999988886555544 1 111 112110 0111 3344443321 2567778899999976
Q ss_pred ccccCCCCCcccccccccCC-ccCcc
Q 004997 118 VENVGRTSRHHTFFEMLGNF-SFGDY 142 (720)
Q Consensus 118 ld~VG~t~rHhTfFEMLGn~-SFgdY 142 (720)
.+ .||.+=|-||=-. +|.||
T Consensus 316 ~~-----~rH~pEFTmlE~y~a~~d~ 336 (659)
T PTZ00385 316 AD-----RSHNPEFTSCEFYAAYHTY 336 (659)
T ss_pred CC-----CCccccccceeeeeecCCH
Confidence 53 5899999998654 66676
No 93
>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=20.06 E-value=83 Score=34.47 Aligned_cols=15 Identities=27% Similarity=0.445 Sum_probs=9.0
Q ss_pred CCChHHHHHHHhhcC
Q 004997 439 RLSGQDAFLLYDTFG 453 (720)
Q Consensus 439 ~l~g~~af~LyDTyG 453 (720)
.++-++|+++|-+.+
T Consensus 166 ri~~~ea~~~~~~~~ 180 (335)
T PF00152_consen 166 RITYEEAFEIYGGDK 180 (335)
T ss_dssp EEEHHHHHHHHHHTT
T ss_pred EeeehHHHHHhhccc
Confidence 455666666666554
Done!